Welcome to our monthly trawl for developmental biology (and related) preprints.

The preprints this month are hosted on bioRxiv, arXiv and preprints.org – use these links to get to the section you want.

Developmental biology

• Patterning & signalling
• Morphogenesis & mechanics
• Genes & genomes
• Stem cells, regeneration & disease modelling
• Plant development
• Evo-devo

Cell Biology

Modelling

Reviews

Tools & Resources

Research practice & education

Developmental biology

| Patterning & signalling

Membrane architecture and adherens junctions contribute to strong Notch pathway activation
Julia Falo Sanjuan, Sarah Bray

Cell-autonomous generation of the wave pattern within the vertebrate segmentation clock
Laurel A Rohde, Arianne Bercowsky-Rama, Jose Negrete Jr., Guillaume Valentin, Sundar Ram Naganathan, Ravi A Desai, Petr Strnad, Daniele Soroldoni, Frank Julicher, Andrew C Oates

A protein-trap allele reveals roles for Drosophila ATF4 in photoreceptor degeneration, oocyte maturation and wing development
Deepika Vasudevan, Hidetaka Katow, Grace Tang, Hyung Don Ryoo

Interplay between cell proliferation and recruitment controls the duration of growth and final size of the Drosophila wing
Elizabeth Diaz-Torres, Luis Manuel Muñoz-Nava, Marcos Nahmad

Loss of imprinting of the Igf2-H19 ICR1 enhances placental endocrine capacity via sex-specific alterations in signalling pathways in the mouse
Bethany R. L. Aykroyd, Simon J. Tunster, Amanda N. Sferruzzi-Perri

The neurogenic fate of the hindbrain boundaries: a Notch-dependent behavioral switch triggers asymmetric division of boundary stem cells
Covadonga F Hevia, Carolyn Engel-Pizcueta, Frederic Udina, Cristina Pujades

A lipid-mTORC1 nutrient sensing pathway regulates animal development by peroxisome-derived hormones
Na Li, Beilei Hua, Qing Chen, Meiyu Ruan, Mengnan Zhu, Huali Shen, Li Zhang, Huanhu Zhu

TALPID3/KIAA0586 regulates multiple aspects of neuromuscular patterning during gastrointestinal development in animal models and human
Jean Marie Delalande, Nandor Nagy, Conor J. McCann, Dipa Natarajan, Julie E. Cooper, Gabriela Carreno, David Dora, Alison Campbell, Nicole Laurent, Polychronis Kemos, Sophie Thomas, Caroline Alby, Tania Attié-Bitach, Stanislas Lyonnet, Malcolm P. Logan, Allan M. Goldstein, Megan G. Davey, Robert M.W. Hofstra, Nikhil Thapar, Alan J. Burns

Development and genetics of red coloration in the zebrafish relative Danio albolineatus
Delai Huang, Victor M. Lewis, Matthew B. Toomey, Joseph C. Corbo, David M. Parichy

A single heterozygous mutation in COG4 disrupts zebrafish early development via Wnt signaling
Zhi-Jie Xia, Xin-Xin I. Zeng, Mitali Tambe, Bobby G. Ng, P. Duc S. Dong, Hudson H. Freeze

Buffered EGFR signaling regulated by spitz to argos expression ratio is critical for patterning the Drosophila eye
Nikhita Pasnuri, Manish Jaiswal, Krishanu Ray, Aprotim Mazumder

Identification of bipotent progenitors that give rise to myogenic and connective tissues in mouse
Alexandre Grimaldi, Glenda Comai, Sébastien Mella, Shahragim Tajbakhsh

Evidence of wiring development processes from the connectome of adult Drosophila
Louis K. Scheffer

Kap-β2/Transportin mediates β-catenin nuclear transport in Wnt signaling
Mustafa Khokha, Woong Y. Hwang, C Patrick Lusk, Valentyna Kostiuk, Delfina P González

The sperm protein SPACA4 is required for efficient fertilization in mice
Sarah Herberg, Yoshitaka Fujihara, Andreas Blaha, Karin Panser, Kiyonori Kobayashi, Tamara Larasati, Maria Novatchkova, H. Christian Theußl, Olga Olszanska, Masahito Ikawa, Andrea Pauli

Lyl-1 regulates primitive macrophages and microglia development
Shoutang Wang, Deshan Ren, Anna-Lila Kaushik, Gabriel Matherat, Yann Lécluse, Dominik Filipp, William Vainchenker, Hana Raslova, Isabelle Plo, Isabelle Godin

Generation and timing of graded responses to morphogen gradients
Shari Carmon, Felix Jonas, Naama Barkai, Eyal D. Schejter, Ben-Zion Shilo

EOMES is responsible for WNT memory and can substitute for WNT in mesendoderm specification
Anna Yoney, Lu Bai, Ali H. Brivanlou, Eric D. Siggia

GPI-anchored FGF directs cytoneme-mediated bidirectional signaling to self-regulate tissue-specific dispersion
Lijuan Du, Alex Sohr, Sougata Roy

Oligodendrocyte precursor cells prune axons in the mouse neocortex
JoAnn Buchanan, Leila Elabbady, Forrest Collman, Nikolas L. Jorstad, Trygve E. Bakken, Carolyn Ott, Jenna Glatzer, Adam A. Bleckert, Agnes L. Bodor, Derrick Brittan, Daniel J. Bumbarger, Gayathri Mahalingam, Sharmishtaa Seshamani, Casey Schneider-Mizell, Marc M. Takeno, Russel Torres, Wenjing Yin, Rebecca D. Hodge, Manuel Castro, Sven Dorkenwald, Dodam Ih, Chris S. Jordan, Nico Kemnitz, Kisuk Lee, Ran Lu, Thomas Macrina, Shang Mu, Sergiy Popovych, William M. Silversmith, Ignacio Tartavull, Nicholas L. Turner, Alyssa M. Wilson, William Wong, Jingpeng Wu, Aleksandar Zlateski, Jonathan Zung, Jennifer Lippincott-Schwartz, Ed S. Lein, H. Sebastian Seung, Dwight E. Bergles, R. Clay Reid, Nuno Maçarico da Costa

Network instability dynamics drive a transient bursting period in the developing hippocampus in vivo
Jürgen Graf, Vahid Rahmati, Myrtill Majoros, Otto W. Witte, Christian Geis, Stefan J. Kiebel, Knut Holthoff, Knut Kirmse

Role of Nrp1 in controlling cortical interhemispheric circuits
F Martín-Fernández, C. G. Briz, M. Nieto

Co-option of local and systemic immune responses by the hormonal signalling system triggering metamorphosis
Catarina Nunes, Takashi Koyama, Elio Sucena

YAP/TAZ Maintain the Proliferative Capacity and Structural Organization of Radial Glial Cells During Brain Development
Alfonso Lavado, Ruchika Gangwar, Joshua Paré, Shibiao Wan, Yiping Fan, Xinwei Cao

Differential regulation of developmental stages supports a linear model for C. elegans postembryonic development
Alejandro Mata-Cabana, Francisco Javier Romero-Expósito, Mirjam Geibel, Francine Amaral Piubeli, Martha Merrow, María Olmedo

Ribosome protein mutant cells rely on the GR64 cluster of gustatory receptors for survival and proteostasis in Drosophila
Michael E. Baumgartner, Iwo Kucinski, Eugenia Piddini

Symmetry breaking in the female germline cyst
D. Nashchekin, L. Busby, M. Jakobs, I. Squires, D. St Johnston

Rbfox1 is required for myofibril development and maintaining fiber-type specific isoform expression in Drosophila muscles
Elena Nikonova, Ketaki Kamble, Amartya Mukherjee, Christiane Barz, Upendra Nongthomba, Maria L. Spletter

Autocrine regulation of adult neurogenesis by the endocannabinoid 2-arachidonoylglycerol (2-AG)
Lena-Louise Schuele, Britta Schürmann, Andras Bilkei-Gorzo, Andreas Zimmer, Este Leidmaa

Size-dependent protein segregation creates a spatial switch for Notch signaling and function
Minsuk Kwak, Kaden M. Southard, Woon Ryoung Kim, Nam Hyeong Kim, Ramu Gopalappa, Minji An, Hyun Jung Lee, Min K. Kang, Seo Hyun Choi, Justin Farlow, Anastasios Georgakopoulos, Nikolaos K. Robakis, Matthew L. Kutys, Daeha Seo, Hyeong Bum Kim, Yong Ho Kim, Jinwoo Cheon, Zev J. Gartner, Young-wook Jun

A natural transdifferentiation event involving mitosis is empowered by integrating signaling inputs with conserved plasticity factors
Claudia Riva, Martina Hajduskova, Christelle Gally, Arnaud Ahier, Sophie Jarriault

Osteoblast cell death triggers a pro-osteogenic inflammatory response regulated by reactive oxygen species and glucocorticoid signaling in zebrafish
Karina Geurtzen, Ankita Duseja, Franziska Knopf

Mesothelial cells are not a source of adipocytes in mice
Gregory P. Westcott, Margo P. Emont, Jin Li, Christopher Jacobs, Linus Tsai, Evan D. Rosen

Key Promoter Region of Wnt4 response to FSH and Genetic Effect on Several Production Traits of Its Mutations in Chicken
Conghao Zhong, Yiya Wang, Cuiping Liu, Yunliang Jiang, Li Kang

PRDM proteins control Wnt/β-catenin activity to regulate craniofacial chondrocyte differentiation
Lomeli Carpio Shull, Hyun Min Kim, Ezra Lencer, James C Costello, Kenneth Jones, Kristin Artinger

Embryonic hyperglycemia perturbs the development of specific retinal cell types, including photoreceptors
Kayla F. Titialii-Torres, Ann C. Morris

Effects of gestational age at birth on perinatal structural brain development in healthy term-born babies
Oliver Gale-Grant, Sunniva Fenn-Moltu, Lucas França, Ralica Dimitrova, Daan Christaens, Lucilio Cordero-Grande, Andrew Chew, Shona Falconer, Nicholas Harper, Anthony N Price, Jana Hutter, Emer Hughes, Jonathan O’Muircheartaigh, Mary Rutherford, Serena J Counsell, Daniel Rueckert, Chiara Nosarti, Joseph V Hajnal, Grainne McAlonan, Tomoki Arichi, A David Edwards, Dafnis Batalle

Distinct interhemispheric connectivity at the level of the olfactory bulb emerges during Xenopus laevis metamorphosis
Lukas Weiss, Paola Segoviano Arias, Thomas Offner, Sara Joy Hawkins, Thomas Hassenklöver, Ivan Manzini

Agrin/Lrp4 signal constrains MuSK activity during neuromuscular synapse development in appendicular muscle
Lauren J Walker, Rebecca A Roque, Maria F Navarro, Michael Granato

Dichaete, a Sox2 homologue, prevents activation of cell death in multiple developmental contexts
Katherine Harding, Katerina Heath, Kristin White

Sperm cryopreservation impacts the early development of equine embryos by downregulating specific transcription factors
Jose Manuel Ortiz-Rodriguez, Francisco Eduardo Martin-Cano, Gemma L Gaitskell-Phillips, Alberto Alvarez Barrientos, Heriberto Rodriguez-Martínez, Cruz Gil Anaya, Cristina Ortega-Ferrusola, Fernando J Peña-Vega

A single short reprogramming early in life improves fitness and increases lifespan in old age
Quentin Alle, Enora Le Borgne, Paul Bensadoun, Camille Lemey, Nelly Béchir, Mélissa Gabanou, Fanny Estermann, Christelle Bertrand-Gaday, Laurence Pessemesse, Karine Toupet, Jérôme Vialaret, Christophe Hirtz, Danièle Noël, Christian Jorgensen, François Casas, Ollivier Milhavet, Jean-Marc Lemaitre

| Morphogenesis & mechanics

Multivalent interactions make adherens junction-cytoskeletal linkage robust during morphogenesis
Kia Z. Perez-Vale, Kristi D. Yow, Amy E. Byrnes, Tara M. Finegan, Kevin C. Slep, Mark Peifer

Oligodendrocyte precursor cells guide the migration of cortical interneurons by unidirectional contact repulsion
Fanny Lepiemme, Gabriel Mazzucchelli, Carla G. Silva, Laurent Nguyen

Morphogenesis of a complex glial niche requires an interplay between cellular growth and fusion
Maria Alexandra Rujano, David Briand, Bojana Ðelić, Pauline Spéder

Semaphorin3f as an intrinsic regulator of chamber-specific heart development
R Halabi, P.B. Cechmanek, C.L. Hehr, S. McFarlane

Frizzled3 inhibits Vangl2-Prickle3 association to establish planar cell polarity in the vertebrate neural plate
Ilya Chuykin, Keiji Itoh, Kyeongmi Kim, Sergei Y. Sokol

CD9 tetraspanins convey robustness to CXCR4b signalling during collective cell migration
KS Marsay, S Greaves, H Roehl, PN Monk, T. J. Carney, LJ Partridge

Live imaging of delamination in Drosophila shows that epithelial cell motility and invasiveness are independently regulated
Mikiko Inaki, Kenji Matsuno

LMO7-dependent apical constriction requires the binding of the Myosin heavy chain
Miho Matsuda, Chih-Wen Chu, Sergei Y. Sokol

Syntaxin-1 is necessary for UNC5/Netrin-1-dependent macropinocytosis and chemorepulsion
Ramon Martínez-Mármol, Ashraf Muhaisen, Tiziana Cotrufo, Cristina Roselló-Busquets, Marc Hernaiz-Llorens, Francesc Pérez-Branguli, Rosa Maria Andrés, Oriol Ros, Marta Pascual, Fausto Ulloa, Eduardo Soriano

Mechanical collaboration between the embryonic brain and the surrounding scalp tissues
Koichiro Tsujikawa, Kanako Saito, Arata Nagasaka, Takaki Miyata

Notch controls the cell cycle to define leader versus follower identities during collective cell migration
Zain Alhashem, Dylan Feldner-Busztin, Christopher Revell, Macarena Alvarez-Garcillan Portillo, Joanna Richardson, Manuel Rocha, Anton Gauert, Tatianna Corbeaux, Victoria E Prince, Katie Bentley, Claudia Linker

Actin-related protein 5 functions as a novel modulator of MyoD and MyoG in skeletal muscle and in rhabdomyosarcoma
Tsuyoshi Morita, Ken’ichiro Hayashi

Regulators of the secretory pathway have distinct inputs into single-celled branching morphogenesis and seamless tube formation in the Drosophila trachea
Christopher M. Bourne, Daniel C. Lai, Jodi Schottenfeld-Roames

The zebrafish meiotic cohesion complex protein Smc1b is required for key events in meiotic prophase I
Kazi Nazrul Islam, Maitri Mitesh Modi, Kellee Renee Siegfried

Giant ankyrin-B mediates transduction of axon guidance and collateral branch pruning factor Sema 3A
Blake A. Creighton, Deepa Ajit, Simone Afriyie, Julia Bay, Damaris Lorenzo

Met is required for oligodendrocyte progenitor cell migration in Danio rerio
Maria F Ali, Andrew J Latimer, Yinxue Wang, Leah Hogenmiller, Laura Fontenas, Adam J Isabella, Cecilia B Moens, Guoqiang Yu, Sarah Kucenas

The Slit-binding Ig1 domain is required for multiple axon guidance activities of Drosophila Robo2
LaFreda J. Howard, Marie C. Reichert, Timothy A. Evans

Kinesin-3 mediated delivery of presynaptic neurexin stabilizes growing dendritic spines and postsynaptic components in vivo
Devyn Oliver, Shankar Ramachandran, Alison Philbrook, Christopher M. Lambert, Ken C. Q. Nguyen, David H. Hall, Michael M. Francis

EVL and MIM/MTSS1 regulate actin cytoskeletal remodeling to promote dendritic filopodia in developing neurons
SS Parker, KT Ly, AD Grant, A Wang, JD Parker, MR Roman, M Padi, CW Wolgemuth, PR Langlais, G Mouneimne

Knocking-out the human face genes TBX15 and PAX1 in mice alters facial and other physical morphology
Yu Qian, Ziyi Xiong, Yi Li, Haibo Zhou, Manfred Kayser, Lei Liu, Fan Liu

Foregut organ progenitors and their niche display distinct viscoelastic properties in vivo during early morphogenesis stages
Aliaksandr Dzementsei, Younes F. A Barooji, Elke A Ober, Lene Broeng Oddershede

Dynein light chain-dependent dimerization of Egalitarian is essential for maintaining oocyte fate in Drosophila
Hannah Neiswender, Chandler H. Goldman, Rajalakshmi Veeranan-Karmegam, Graydon B. Gonsalvez

SKAP2 as a new regulator of oligodendroglial migration and myelin sheath formation
Julia Ghelman, Laureen Grewing, Farina Windener, Stefanie Albrecht, Alexander Zarbock, Tanja Kuhlmann

Isoform-specific roles of the Drosophila filamin-type protein Jitterbug (Jbug) during development
SeYeon Chung, Thao Phuong Le, Vishakha Vishwakarma, Yim Ling Cheng, Deborah J. Andrew

Integration of mouse ovary morphogenesis with developmental dynamics of the oviduct, ovarian ligaments, and rete ovarii.
Jennifer McKey, Dilara N Anbarci, Corey Bunce, Blanche Capel

Transient nuclear deformation primes epigenetic state and promotes cell reprogramming
Yang Song, Jennifer Soto, Binru Chen, Weikang Zhao, Tyler Hoffman, Ninghao Zhu, Qin Peng, Chau Ly, Pak Kin Wong, Yingxiao Wang, Amy C Rowat, Siavash K Kurdistani, Song Li

Mechanisms underlying microglial colonization of developing neural retina in zebrafish
Nishtha Ranawat, Ichiro Masai

| Genes & genomes

CoREST has a conserved role in facilitating SPR-5/LSD1 maternal reprogramming of histone methylation
Brandon S. Carpenter, Alyssa Scott, Robert Goldin, Sindy R. Chavez, Dexter A. Myrick, Marcus Curlee, Karen Schmeichel, David J. Katz

Epigenetic Inheritance is Gated by Naïve Pluripotency and Dppa2
Valentina Carlini, Cristina Policarpi, Jamie A. Hackett

Dynamic Runx1 chromatin boundaries affect gene expression in hematopoietic development
Dominic D.G. Owens, Giorgio Anselmi, A. Marieke Oudelaar, Damien J Downes, Alessandro Cavallo, Joe R Harman, Ron Schwessinger, Akin Bucakci, Lucas Greder, Sara De Ornellas, Danuta Jeziorska, Jelena Telenius, Jim R Hughes, Marella F.T.R. de Bruijn

Foxd3 controls heterochromatin-mediated silencing of repeat elements in mouse embryonic stem cells and represses the 2-cell transcription program
Deepika Puri, Birgit Koschorz, Bettina Engist, Megumi Onishi-Seebacher, Devon Ryan, Thomas Montavon

In situ and transcriptomic identification of synapse-associated microglia in the developing zebrafish brain
Nicholas J. Silva, Leah C. Dorman, Ilia D. Vainchtein, Nadine C. Horneck, Anna V. Molofsky

Spatiotemporal specificity of correlated DNA methylation and gene expression pairs across different human tissues and stages of brain development
Kangli Wang, Rujia Dai, Yan Xia, Jianghua Tian, Chuan Jiao, Tatiana Mikhailova, Chunling Zhang, Chao Chen, Chunyu Liu

Quantitative comparison of in vitro and in vivo embryogenesis at a single cell resolution
Yuqi Tan, Abby Spangler, Michael Farid, Da Peng, Patrick Cahan

Single-cell transcriptome analysis of the zebrafish embryonic trunk
Sanjeeva Metikala, Satish Casie Chetty, Saulius Sumanas

Single-cell RNA-sequencing reveals thoracolumbar vertebra heterogeneity and rib-genesis in pigs
Jianbo Li, Ligang Wang, Dawei Yu, Junfeng Hao, Longchao Zhang, Adeniyi C. Adeola, Bingyu Mao, Yun Gao, Shifang Wu, Chunling Zhu, Yongqing Zhang, Jilong Ren, Changgai Mu, David M. Irwin, Lixian Wang, Tang Hai, Haibing Xie, Yaping Zhang

Molecular diversity and lineage commitment of human interneuron progenitors
Dmitry Velmeshev, Manideep Chavali, Tomasz J. Nowakowski, Mohini Bhade, Simone Mayer, Nitasha Goyal, Beatriz Alvarado, Walter Mancia, Shaohui Wang, Matthew Speir, Maximilian Haeussler, David Rowitch, Arturo Alvarez-Buylla, Eric J. Huang, Mercedes Paredes, Arnold Kriegstein

Control of spinal motor neuron terminal differentiation through sustained Hoxc8 gene activity
Catarina Catela, Yifei Weng, Kailong Wen, Weidong Feng, Paschalis Kratsios

Diverse mechanisms for epigenetic imprinting in mammals
Daniel Andergassen, Zachary D. Smith, John L. Rinn, Alexander Meissner

Inferring kinetic parameters of oscillatory gene regulation from single cell time series data
Joshua Burton, Cerys S. Manning, Magnus Rattray, Nancy Papalopulu, Jochen Kursawe

Alternative somatic and germline gene-regulatory strategies during starvation-induced developmental arrest
Amy K. Webster, Rojin Chitrakar, L. Ryan Baugh

Cell trajectory modeling identifies a primitive trophoblast state defined by BCAM enrichment
Matthew Shannon, Jennet Baltayeva, Barbara Castellana, Jasmin Wächter, Samantha Yoon, Jenna Treissman, Hoa T. Le, Pascal M. Lavoie, Alexander G. Beristain

Transcriptomic profiling of tissue environments critical for post-embryonic patterning and morphogenesis of zebrafish skin
Andrew J. Aman, Lauren M. Saunders, Sanjay R. Srivatsan, Cole Trapnell, David M. Parichy

The Hox gene Antennapedia regulates wing development through 20-hydroxyecdysone in insect
Chunyan Fang, Yaqun Xin, Tao Sun, Antónia Monteiro, Zhanfeng Ye, Fangyin Dai, Cheng Lu, Xiaoling Tong

Dual origin and multiple neuropeptidergic trajectories of hypothalamic POMC progenitors revealed by developmental single-cell transcriptomics
Hui Yu, Marcelo Rubinstein, Malcolm J Low

Alternative Promoter use Governs the Expression of IgLON Cell Adhesion Molecules in Histogenetic Fields of the Embryonic Mouse Brain
Toomas Jagomäe , Katyayani Singh , Mari-Anne Philips , Mohan Jayaram , Kadri Seppa , Triin Tekko , Scott F Gilbert , Eero Vasar, Kersti Lilleväli

delilah, prospero and D-Pax2 constitute a gene regulatory network essential for the development of functional proprioceptors
Adel Avetisyan, Yael Glatt, Maya Cohen, Yael Timerman, Nitay Aspis, Atalya Nachman, Naomi Halachmi, Ella Preger-Ben Noon, Adi Salzberg

Single cell transcriptomics and developmental trajectories of murine cranial neural crest cell fate determination and cell cycle progression
Yu Ji, Shuwen Zhang, Kurt Reynolds, Ran Gu, Moira McMahon, Mohammad Islam, Yue Liu, Taylor Imai, Rebecca Donham, Huan Zhao, Ying Xu, Diana Burkart-Waco, Chengji J. Zhou

PQN-59 antagonizes microRNA-mediated repression and functions in stress granule formation during C. elegans development
Colleen Carlston, Robin Weinmann, Natalia Stec, Simona Abbatemarco, Francoise Schwager, Jing Wang, Huiwu Ouyang, Monica Gotta, Christopher M. Hammell

BRD9-containing non-canonical BAF complexes safeguard cell identity and prevent reprogramming
Kenan Sevinç, Gülben Gürhan Sevinç, Ayşe Derya Cavga, Martin Philpott, Simge Kelekçi, Hazal Can, Adam P. Cribbs, Enes Sefa Ayar, Dilşad H. Arabacı, James E. Dunford, Ata B. Demir, Logan H. Sigua, Jun Qi, Udo Oppermann, Tamer T. Onder

Redundant enhancers in the iab-5 domain cooperatively activate Abd-B in the A5 and A6 abdominal segments of Drosophila
Nikolay Postika, Paul Schedl, Pavel Georgiev, Olga Kyrchanova

Genetic analysis of Caenorhabditis elegans pry-1/Axin suppressors identifies genes involved in reproductive structure development, stress response, and aging
Avijit Mallick, Nikita Jhaveri, Jihae Jeon, Yvonne Chang, Krupali Shah, Hannah Hosein, Bhagwati P. Gupta

Targeted DamID in C. elegans reveals a role for LIN-22 and NHR-25 in epidermal cell differentiation
Dimitris Katsanos, Michalis Barkoulas

Translation-dependent mRNA localization to Caenorhabditis elegans adherens junctions
Cristina Tocchini, Michèle Rohner, Stephen E. Von Stetina, Susan E. Mango

Three-dimensional chromatin architecture of early-stage mouse embryos reconstructed via recurrence plots
Yuki Kitanishi, Hiroki Sugishita, Yukiko Gotoh, Yoshito Hirata

| Stem cells, regeneration & disease modelling

Disabling de novo DNA methylation in embryonic stem cells allows an illegitimate fate trajectory
Masaki Kinoshita, Meng Amy Li, Michael Barber, William Mansfield, Sabine Dietmann, Austin Smith

RSL24D1 sustains steady-state ribosome biogenesis and pluripotency translational programs in embryonic stem cells
Sébastien Durand, Marion Bruelle, Fleur Bourdelais, Bigitha Bennychen, Juliana Blin-Gonthier, Caroline Isaac, Aurélia Huyghe, Antoine Seyve, Christophe Vanbelle, David Meyronet, Frédéric Catez, Jean-Jacques Diaz, Fabrice Lavial, Emiliano P. Ricci, François Ducray, Mathieu Gabut

Neural stem cells alter nucleocytoplasmic partitioning and accumulate nuclear polyadenylated transcripts during quiescence
A. Rossi, A. Coum, M. Madelenat, L. Harris, A. Miedzik, S. Strohbuecker, A. Chai, H. Fiaz, R. Chaouni, P. Faull, W. Grey, D. Bonnet, F. Hamid, E. V. Makeyev, A. P. Snijders, G. Kelly, F. Guillemot, R. Sousa-Nunes

Wnt signaling mediates acquisition of blood-brain barrier properties in naïve endothelium derived from human pluripotent stem cells
Benjamin D. Gastfriend, Hideaki Nishihara, Scott G. Canfield, Koji L. Foreman, Britta Engelhardt, Sean P. Palecek, Eric V. Shusta

Definitive Hematopoietic Stem Cells Minimally Contribute to Embryonic Hematopoiesis
Bianca A Ulloa, Samima S Habbsa, Kathryn S. Potts, Alana Lewis, Mia McKinstry, Sara G. Payne, Julio Flores, Anastasia Nizhnik, Maria Feliz Norberto, Christian Mosimann, Teresa V Bowman

Resf1 supports embryonic stem cell self-renewal and effective germline entry
Matus Vojtek, Ian Chambers

Translational specialization in pluripotency by RBPMS poises future lineage-decisions
Deniz Bartsch, Kaustubh Kalamkar, Gaurav Ahuja, Hisham Bazzi, Argyris Papantonis, Leo Kurian

Transcriptional Reprogramming of Skeletal Muscle Stem Cells by the Niche Environment
Felicia Lazure, Rick Farouni, Korin Sahinyan, Darren M. Blackburn, Aldo Hernandez-Corchado, Gabrielle Perron, Jiannis Ragoussis, Colin Crist, Theodore J. Perkins, Arezu Jahani-Asl, Hamed S Najafabadi, Vahab D. Soleimani

Craniofacial cartilage organoids from human embryonic stem cells via a neural crest cell intermediate
Lauren E. Foltz, Tyler Levy, Anthony Possemato, Mark L Grimes

Self-organized yolk sac-like organoids allow for scalable generation of multipotent hematopoietic progenitor cells from human induced pluripotent stem cells
Naritaka Tamaoki, Stefan Siebert, Takuya Maeda, Ngoc-Han Ha, Meghan L. Good, Yin Huang, Suman Kumar Vodnala, Juan J. Haro-Mora, Naoya Uchida, John F. Tisdale, Colin L. Sweeney, Uimook Choi, Julie Brault, Sherry Koontz, Harry L. Malech, Yasuhiro Yamazaki, Risa Isonaka, David S. Goldstein, Masaki Kimura, Takanori Takebe, Jizhong Zou, David F. Stroncek, Pamela G. Robey, Michael J. Kruhlak, Nicholas P. Restifo, Raul Vizcardo

Wnt- and Glutamate-receptors orchestrate stem cell dynamics and asymmetric cell division
Sergi Junyent, Joshua Reeves, James L. A. Szczerkowski, Clare L. Garcin, Tung-Jui Trieu, Matthew Wilson, Jethro Lundie-Brown, Shukry J. Habib

Soft limbal niche maintains stem cell compartmentalization and function through YAP
Swarnabh Bhattacharya, Abhishek Mukherjee, Sabrina Pisano, Anna Altshuler, Waseem Nasser, Sunanda Dey, Anna Kaganovsky, Aya Amitai-Lange, Michael Mimouni, Sergiu Socea, Peleg Hasson, Chloe Feral, Haguy Wolfenson, Ruby Shalom-Feuerstein

The RNA helicases DDX5 and DDX17 facilitate neural differentiation of human pluripotent stem cells NTERA2
Praewa Suthapot, Tiaojiang Xiao, Gary Felsenfeld, Suradej Hongeng, Patompon Wongtrakoongate

Reprogrammed iBlastoids contain amnion-like cells but not trophectoderm
Cheng Zhao, Alvaro Plaza Reyes, John Paul Schell, Jere Weltner, Nicolás Ortega, Yi Zheng, Åsa K. Björklund, Janet Rossant, Jianping Fu, Sophie Petropoulos, Fredrik Lanner

Hypertrophic Chondrocytes Serve as a Reservoir for Unique Marrow Associated Skeletal Stem and Progenitor Cells, Osteoblasts, and Adipocytes During Skeletal Development
Jason T. Long, Abigail Leinroth, Yihan Liao, Yinshi Ren, Anthony J. Mirando, Tuyet Nguyen, Wendi Guo, Deepika Sharma, Colleen Wu, Kathryn Song Eng Cheah, Courtney M. Karner, Matthew J. Hilton

Retinal organoids derived from rhesus macaque iPSCs undergo accelerated differentiation compared to human stem cells
Antonio Jacobo Lopez, Sangbae Kim, Xinye Qian, Jeffrey Rogers, J. Timothy Stout, Sara M Thomasy, Anna La Torre, Rui Chen, Ala Moshiri

Tracking long-term functional connectivity maps in human stem-cell-derived neuronal networks by holographic-optogenetic stimulation
Felix Schmieder, Rouhollah Habibey, Johannes Striebel, Lars Büttner, Jürgen Czarske, Volker Busskamp

Edaravone activates the GDNF/RET neurotrophic signaling pathway and protects mRNA-induced motor neurons from iPS cells
Qian Li, Yi Feng, Yingchao Xue, Xiping Zhan, Yi Fu, Gege Gui, Jean-Philippe Richard, Arens Taga, Xiaobo Mao, Nicholas J. Maragakis, Mingyao Ying

Extracellular vesicles from neuronal cells promote neural induction of mESCs through cyclinD1
Lu Song, Xinran Tian, Randy Schekman

A secreted proteomic footprint for stem cell pluripotency
Philip Lewis, Edina Silajzick, Helen Smith, Nicola Bates, Christopher A Smith, David Knight, Chris Denning, Daniel R Brison, Susan J Kimber

Derivation of ringed seal (Phoca hispida) induced multipotent stem cells
Violetta R. Beklemisheva, Polina S. Belokopytova, Veniamin S. Fishman, Aleksei G. Menzorov

Stem cells commit to differentiation following multiple induction events in the Drosophila testis
Alice C Yuen, Kenzo-Hugo Hillion, Marc Amoyel

Differentiation of cortical brain organoids and optic nerve-like structures from retinal confluent cultures of pluripotent stem cells
Milan Fernando, Scott Lee, Jesse R. Wark, Di Xiao, Hani J. Kim, Grady C. Smith, Ted Wong, Erdahl T. Teber, Robin R. Ali, Pengyi Yang, Mark E. Graham, Anai Gonzalez-Cordero

Novel epigenetic clock for fetal brain development predicts prenatal age for cellular stem cell models and derived neurons
Leonard C. Steg, Gemma L. Shireby, Jennifer Imm, Jonathan P. Davies, Alice Franklin, Robert Flynn, Seema C. Namboori, Akshay Bhinge, Aaron R. Jeffries, Joe Burrage, Grant W. A. Neilson, Emma M. Walker, Leo W. Perfect, Jack Price, Grainne McAlonan, Deepak P. Srivastava, Nicholas J. Bray, Emma L. Cope, Kimberly M. Jones, Nicholas D. Allen, Ehsan Pishva, Emma L. Dempster, Katie Lunnon, Jonathan Mill, Eilis Hannon

Mesenchymal stem cell subpopulations and their heterogeneity of response to inductions revealed by single-cell RNA-seq
Wenhong Hou, Li Duan, Changyuan Huang, Xingfu Li, Xiao Xu, Pengfei Qin, Ni Hong, Daping Wang, Wenfei Jin

Generation of human chambered cardiac organoids from pluripotent stem cells for improved modelling of cardiovascular diseases
Beatrice Xuan Ho, Jeremy Pang, Qian Hua Phua, Lee Chuen Liew, Boon Min Poh, Ying Chen, Yuin-Han Loh, Omer An, Henry He Yang, Veerabrahma Pratap Seshachalam, Judice LY Koh, Woon-Khiong Chan, Shi-Yan Ng, Boon-Seng Soh

β-catenin perturbations control differentiation programs in mouse embryonic stem cells
Elisa Pedone, Mario Failli, Gennaro Gambardella, Rossella De Cegli, Diego di Bernardo, Lucia Marucci

Longitudinal dynamics of clonal hematopoiesis identifies gene-specific fitness effects
Neil A. Robertson, Eric Latorre-Crespo, Maria Terradas-Terradas, Alison C. Purcell, Benjamin J Livesey, Joseph A. Marsh, Lee Murphy, Angie Fawkes, Louise MacGillivray, Mhairi Copland, Riccardo E. Marioni, Sarah E. Harris, Simon R. Cox, Ian J. Deary, Linus J. Schumacher, Kristina Kirschner, Tamir Chandra

Biomechanics and Myofibrillar Alignment Enhance Contractile Development and Reproducibility in Stem Cell Derived Cardiac Muscle
Yao-Chang Tsan, Yan-Ting Zhao, Samuel J. DePalma, Adela Capilnasiu, Yu-Wei Wu, Brynn Elder, Isabella Panse, Sabrina Friedline, Thomas S. O’Leary, Nadab Wubshet, Kenneth K. Y. Ho, Michael J. Previs, David Nordsletten, Brendon M. Baker, Lori L. Isom, Allen P. Liu, Adam S. Helms

Edaravone activates the GDNF/RET neurotrophic signaling pathway and protects mRNA-induced motor neurons from iPS cells
Qian Li, Yi Feng, Yingchao Xue, Xiping Zhan, Yi Fu, Gege Gui, Weiqiang Zhou, Jean-Philippe Richard, Arens Taga, Pan Li, Xiaobo Mao, Nicholas J. Maragakis, Mingyao Ying

ALKBH5 regulates somatic cell reprogramming in a phase specific manner
Sherif Khodeer, Arne Klungland, John Arne Dahl

Characterization of mouse Bmp5 regulatory injury element in zebrafish wound models
Ian S. Heller, Catherine A. Guenther, Ana M. Meireles, William S. Talbot, David M. Kingsley

Neuron-radial glial cell communication via BMP/Id1 signaling maintains the regenerative capacity of the adult zebrafish telencephalon
Gaoqun Zhang, Luisa Lübke, Fushun Chen, Tanja Beil, Masanari Takamiya, Nicolas Diotel, Uwe Strähle, Sepand Rastegar

Hif1α is required for Wnt regulated gene expression during Xenopus tropicalis tail regeneration
Jeet H. Patel, Preston A. Schattinger, Evan E. Takayoshi, Andrea E. Wills

Overexpression of Reticulon 3 enhances CNS axon regeneration and functional recovery after injury
Zubair Ahmed, Sharif Alhajlah, Adam Thompson

Single-cell resolution of MET and EMT programs during zebrafish fin regeneration
W. Joyce Tang, Claire J. Watson, Theresa Olmstead, Christopher H. Allan, Ronald Y. Kwon

Understanding the complexity of Epimorphic Regeneration in zebrafish: A Transcriptomic and Proteomic approach.
Sarena Banu, Namami Gaur, Sowmy Nair, Tanuja Ravikrishnan, Shahida Khan, Sandhya Mani, Swarna Bharathi, Komal Mandal, Naga Anusha Kuram, Sowmya Vuppaladadium, Ch. Lakshmi N Murthy, Mir Quoseena, Nukala Sarath Babu, Mohammed M Idris

A chemical screen based on an interruption of zebrafish gastrulation identifies the HTR2C inhibitor Pizotifen as a suppressor of EMT-mediated metastasis
Joji Nakayama, Lora Tan, Boon Cher Goh, Shu Wang, Hideki Makinoshima, Zhiyuan Gong

iPSC modeling shows uncompensated mitochondrial mediated oxidative stress underlies early heart failure in hypoplastic left heart syndrome
Xinxiu Xu, Kang Jin, Abha S. Bais, Wenjuan Zhu, Hisato Yagi, Timothy N Feinstein, Phong Nguyen, Joseph Criscione, Xiaoqin Liu, Gisela Beutner, Kalyani B. Karunakaran, Phillip Adams, Catherine K. Kuo, Dennis Kostka, Gloria S. Pryhuber, Sruti Shiva, Madhavi K. Ganapathiraju, George A. Porter Jr, Jiuann-Huey Ivy Lin, Bruce Aronow, Cecilia W. Lo

Regulation of Neural Circuit Development by Cadherin-11 Provides Implications for Autism
Jeannine A. Frei, Robert F. Niescier, Morgan S. Bridi, Madel Durens, Jonathan E. Nestor, Michaela B. C. Kilander, Xiaobing Yuan, Derek M. Dykxhoorn, Michael W. Nestor, Shiyong Huang, Gene J. Blatt, Yu-Chih Lin

mRNA-decapping associated DcpS enzyme controls critical steps of neuronal development
Iva Salamon, Geeta Palsule, Xiaobing Luo, Alfonso Roque, Shawn Tucai, Ishan Khosla, Nicole Volk, Wendy Liu, Huijuan Cui, Valentina Dal Pozzo, Petronio Zalamea, Xinfu Jiao, Gabriella D’Arcangelo, Ronald P Hart, Mladen-Roko Rasin, Megerditch Kiledjian

zmiz1a zebrafish mutants have defective erythropoiesis, altered expression of autophagy genes, and a deficient response to vitamin D
Francisco Castillo-Castellanos, Laura Ramírez, Hilda Lomelí

Correction of a pathogenic mutation in iPSCs derived from a patient with Christianson syndrome using CRISPR/Cas9 genome editing
Li Ma, Qing Wu, Michael Schmidt, Eric M. Morrow

Gains of 12p13.31 delay WNT-mediated initiation of hPSC differentiation and promote residual pluripotency in a cell cycle dependent manner
Alexander Keller, Yingnan Lei, Nuša Krivec, Edouard Couvreu De Deckersberg, Dominika Dziedzicka, Christina Markouli, Karen D Sermon, Mieke Geens, Claudia Spits

Maternal hyperglycemia impedes second heart field-derived cardiomyocyte differentiation to elevate the risk of congenital heart defects
Sathiyanarayanan Manivannan, Corrin Mansfield, Xinmin Zhang, Karthik. M. Kodigepalli, Uddalak Majumdar, Vidu Garg, Madhumita Basu

In vitro models of the human esophagus reveal ancestrally diverse response to injury
Daysha Ferrer-Torres, Joshua H. Wu, Charles J. Zhang, Max A. Hammer, Michael Dame, Angeline Wu, Emily M. Holloway, Kateryna Karpoff, Caroline L. McCarthy, Margaret S Bohm, Sha Huang, Yu-Hwai Tsai, Simon P. Hogan, Danielle Kim Turgeon, Jules Lin, Peter D.R. Higgins, Jonathan Sexton, Jason R. Spence

The Drosophila orthologue of the primary ciliary dyskinesia-associated gene, DNAAF3, is required for axonemal dynein assembly
Petra zur Lage, Zhiyan Xi, Jennifer Lennon, Iain Hunter, Wai Kit Chan, Alfonso Bolado Carrancio, Alex von Kriegsheim, Andrew P. Jarman

Forebrain Shh overexpression improves cognitive function in a Down syndrome mouse model and euploid littermates
Feng J. Gao, Donna Klinedinst, Fabian-Xosé Fernandez, Bei Cheng, Alena Savonenko, Benjamin Devenney, Yicong Li, Dan Wu, Martin G. Pomper, Roger H. Reeves

SPT6 loss Permits the Transdifferentiation of Keratinocytes into an Intestinal Fate that Recapitulates Barrett’s Metaplasia
Daniella T. Vo, MacKenzie R. Fuller, Courtney Tindle, Mahitha Anandachar, Soumita Das, Debashis Sahoo, Pradipta Ghosh

| Plant development

Genome-Wide High Resolution Expression Map and Functions of Key Cell Fate Determinants Reveal the Dynamics of Crown Root Development in Rice
Tushar Garg, Zeenu Singh, Kunchapu Chennakesavulu, Anuj K. Dwivedi, Vijina Varapparambathu, Raj Suryan Singh, Khrang Khrang Khunggur Mushahary, Manoj Yadav, Debabrata Sircar, Divya Chandran, Kalika Prasad, Mukesh Jain, Shri Ram Yadav

Tissue-specific transcriptomics reveal functional differences in maize floral development
Hailong Yang, Kate Nukunya, Queying Ding, Beth E. Thompson

Cytokinin oxidase/dehydrogenase family genes play important roles in the growth and development of rice
Chenyu Rong, Yuexin Liu, Zhongyuan Chang, Ziyu Liu, Yanfeng Ding, Chengqiang Ding

KAI2 regulates seedling development by mediating light-induced remodelling of auxin transport
Maxime Hamon-Josse, Jose Antonio Villaecija-Aguilar, Karin Ljung, Ottoline Leyser, Caroline Gutjahr, Tom Bennett

Phototropin-mediated perception of light direction in Arabidopsis leaves regulates blade flattening
Christian Fankhauser, Martina Legris, Bogna Maria Szarzynska-Erden, Martine Trevisan, Laure Allenbach Petrolati

Misregulation of MYB16 causes stomatal cluster formation by disrupting polarity in asymmetric cell division
Shao-Li Yang, Ngan Tran, Meng-Ying Tsai, Chin-Min Kimmy Ho

Deceleration of cell cycle underpins a switch from proliferative- to terminal division in plant stomatal lineage
Soon-Ki Han, Jiyuan Yang, Machiko Arakawa, Rie Iwasaki, Tomoaki Sakamoto, Seisuke Kimura, Eun-Deok Kim, Keiko U. Torii

Microtubules Promote the Non-cell Autonomy of MicroRNAs by Inhibiting their Cytoplasmic Loading into ARGONAUTE1 in Arabidopsis
Lusheng Fan, Cui Zhang, Yong Zhang, Ethan Stewart, Jakub Jez, Keiji Nakajima, Xuemei Chen

The ALOG family members OsG1L1 and OsG1L2 regulate inflorescence branching in rice
Emanuela Franchini, Veronica M. Beretta, Israr Ud Din, Elia Lacchini, Lisa Van den Broeck, Rosangela Sozzani, Gregorio Orozco-Arroyo, Hélène Adam, Stefan Jouannic, Veronica Gregis, Martin M. Kater

A DUF1068 protein acts as a pectin biosynthesis scaffold and maintains Golgi morphology and cell adhesion in Arabidopsis
Rahul S. Lathe, Heather E. McFarlane, Ghazanfar Abbas Khan, Berit Ebert, Eduardo Antonio Ramírez-Rodríguez, Niels Noord, Rishikesh Bhalerao, Staffan Persson
doi: https://doi.org/10.1101/2021.05.03.442108

DELAY OF GERMINATION 6, encoding the ANAC060 transcription factor, inhibits seed dormancy
Shuang Song, Hanzi He, Kerstin Gühl, Marieke van Bolderen-Veldkamp, Gonda Buijs, Leo A.J. Willems, Leónie Bentsink

The role of AUX1 during lateral root development in the domestication of the model C4 grass Setaria italica
Sha Tang, Mojgan Shahriari, Jishan Xiang, Taras Pasternak, Anna A Igolkina, Somayeh Aminizade, Hui Zhi, Yuanzhu Gao, Farshad Roodbarkelari, Yi Sui, Guanqing Jia, Chuanyin Wu, Xugang Li, Georgy Meshcheryakov, Maria G. Samsonova, Xianmin Diao, Klaus Palme, William Teale

Biphasic Control of Cell Expansion by Auxin Coordinates Etiolated Seedling Development
Minmin Du, Firas Bou Daher, Yuanyuan Liu, Andrew Steward, Molly Tillmann, Xiaoyue Zhang, Jeh Haur Wong, Hong Ren, Jerry D. Cohen, Chuanyou Li, William M. Gray

Functional characterization of TANGLED1 interaction with PHRAGMOPLAST ORIENTING KINESIN1 during mitosis in Arabidopsis
Alison M. Mills, Victoria H. Morris, Carolyn G Rasmussen

Actin isovariant ACT7 regulates root meristem development in Arabidopsis through modulating auxin and ethylene responses
Takahiro Numata, Kenji Sugita, Arifa Ahamed Rahman, Abidur Rahman

GIGANTEA gene expression influence leaf senescence in Populus in two different ways
Nazeer Fataftah, Pushan Bag, Domenique André, Jenna Lihavainen, Bo Zhang, Pär K Ingvarsson, Ove Nilsson, Stefan Jansson

Early flowering in oilseed-type Brassica rapa plants results from nonsense-mediated mRNA decay (NMD) of BrFLC2
Sujeong Kim, Jin A Kim, Hajeong Kang, Dong-Hwan Kim

GA-mediated spatial control of cell division expounds the leaf size variation between cultivated and wild rice
Vikram Jathar, Kumud Saini, Ashish Chauhan, Ruchi Rani, Yasunori Ichihashi, Aashish Ranjan

AGL16 regulates genome-wide gene expression and flowering time with partial dependency on SOC1 in Arabidopsis
Xue Dong, Li-Ping Zhang, Dong-Mei Yu, Fang Cheng, Yin-Xin Dong, Xiao-Dong Jiang, Fu-Ming Qian, Franziska Turck, Jin-Yong Hu

PIF7 controls leaf cell proliferation through an AN3 substitution-repression mechanism
Ejaz Hussain, Andrés Romanowski, Karen Halliday

Dual functions of ZmGI1 in the photoperiodic flowering pathway and salt stress responses in maize
Fengkai Wu, Ling Liu, Yan Kang, Jing Li, Zhiyu Ma, Baba Salifu Yahaya, Jie Xu, Qingjun Wang, Xuanjun Feng, Jingwei Li, Erliang Hu, Yaxi Liu, Yanli Lu

OsbZIP47 an integrator for meristem regulators during rice plant growth and development
Sandhan Prakash, Rashmi Rai, Raghavaram Peesapati, Usha Vijayraghavan

Transcriptome-wide identification and expression profiling of the ERF gene family suggest roles as transcriptional activators and repressors of fruit ripening in durian
Gholamreza Khaksar, Supaart Sirikantaramas

Combined fluorescent seed selection and multiplex CRISPR/Cas9 assembly for fast generation of multiple Arabidopsis mutants
Robertas Ursache, Satoshi Fujita, Valerie Denervaud Tendon, Niko Geldner

| Evo-devo

Single cell RNA sequencing of the Strongylocentrotus purpuratus larva reveals the blueprint of major cell types and nervous system of a non-chordate deuterostome
Periklis Paganos, Danila Voronov, Jacob Musser, Detlev Arendt, Maria I. Arnone

ERK1/2 is an ancestral organising signal in spiral cleavage
Océane Seudre, Allan M. Carrillo-Baltodano, Yan Liang, José M. Martín-Durán

Species-specific deployment of Runx2 isoforms and differential regulation of target genes during avian jaw development and evolution
Spenser S Smith, Daniel B Chu, Tiange Qu, Tiffany Huang, Austen J Lucena, Goutam Krish, Richard A Schneider

BMP signaling underlies the craniofacial heterochrony in phyllostomid bats, a hyperdiverse mammal group
Jasmin Camacho, Jacky D. Lin, Michaela McCormack, Rachel Moon, Samantha K. Smith, John J. Rasweiler IV, Richard R. Behringer, Clifford J. Tabin, Arhat Abzhanov

Role of BMP signaling during early development of the annelid Capitella teleta
Nicole B. Webster, Michele Corbet, Abhinav Sur, Néva P. Meyer

Single gene initiates evolution of epithelial architecture and function
Viola Noeske, Emre Caglayan, Steffen Lemke

Pigment pattern morphospace of Danio fishes: evolutionary diversification and mutational effects
Braedan M. McCluskey, Yipeng Liang, Victor M. Lewis, Larissa B. Patterson, David M. Parichy

Revealing conserved mechanisms of neurodegeneration in a colonial chordate
C Anselmi, MA Kowarsky, F Gasparini, F Caicci, KJ Ishizuka, KJ Palmeri, R Sinhar, N Neff, SR Quake, IL Weissman, A Voskoboynik, L Manni

Species-specific developmental timing dictates expansion of the avian wing skeletal pattern
Holly Stainton, Matthew Towers

Loricarioid catfish evolved skin denticles that recapitulate teeth at the structural, developmental, and genetic levels
Carlos J. Rivera-Rivera, Nadezhda I. Guevara-Delgadillo, Ilham A. Bahechar, Claire A. Shea, Juan I. Montoya-Burgos

Distinct developmental mechanisms influence sexual dimorphisms in the milkweed bug Oncopeltus fasciatus
Josefine Just, Mara Laslo, Ye Jin Lee, Michael Yarnell, Zhuofan Zhang, David R. Angelini

A 3D molecular map of the cavefish neural plate illuminates eyefield organization and its borders in vertebrates
François Agnès, Jorge Torres-Paz, Pauline Michel, Sylvie Rétaux

Evolved Bmp6 enhancer alleles drive spatial shifts in gene expression during tooth development in sticklebacks
Mark D. Stepaniak, Tyler A. Square, Craig T. Miller

optix is involved in eyespot development via a possible positional information mechanism
Tirtha Das Banerjee, Kwi Shan Seah, Antonia Monteiro

Establishment of CRISPR/Cas9-based knock-in in a hemimetabolous insect: targeted gene tagging in the cricket Gryllus bimaculatus
Yuji Matsuoka, Taro Nakamura, Takahito Watanabe, Austen A. Barnett, Sumihare Noji, Taro Mito, Cassandra G. Extavour

The transcriptome of Schistosoma mansoni developing eggs reveals key mediators in pathogenesis and life cycle propagation
Zhigang Lu, Geetha Sankaranarayanan, Kate Rawlinson, Victoria Offord, Paul J. Brindley, Matt Berriman, Gabriel Rinaldi

Social selection within aggregative multicellular development drives morphological evolution
Marco La Fortezza, Gregory J. Velicer

Cell Biology

Polarized Dishevelled dissolution and condensation drives embryonic axis specification in oocytes
S. Zachary Swartz, Tzer Han Tan, Margherita Perillo, Nikta Fakhri, Gary M. Wessel, Athula H. Wikramanayake, Iain M. Cheeseman

Combined effect of cell geometry and polarity domains determines the orientation of unequal division
Benoit G. Godard, Rémi Dumollard, Carl-Philipp Heisenberg, Alex McDougall

Building the cytokinetic contractile ring in an early embryo: initiation as clusters of myosin II, anillin and septin, and visualization of a septin filament network
Chelsea Garno, Zoe H. Irons, Courtney M. Gamache, Xufeng Wu, Charles B. Shuster, John H. Henson

Septin function tunes lipid kinase activity and phosphatidylinositol 4,5 bisphosphate turnover during G-protein coupled PLC signaling in vivo
Aastha Kumari, Avishek Ghosh, Sourav Kolay, Padinjat Raghu

Mad1’s ability to interact with Mad2 is essential to regulate and monitor meiotic synapsis in C. elegans
Alice Devigne, Needhi Bhalla

xbx-4, a homolog of the Joubert syndrome gene FAM149B1, acts via the CCRK and MAK kinase cascade to regulate cilia morphology
Ashish K. Maurya, Piali Sengupta

Septins and a formin have distinct functions in anaphase chiral cortical rotation in the C. elegans zygote
Adhham Zaatri, Jenna A. Perry, Amy Shaub Maddox

Tmem138, a photoreceptor connecting cilium (CC) protein, is required for rhodopsin transport across the cilium and outer segment (OS) biogenesis
Dianlei Liu, Jiali Ru, Lijing Xie, Mingjuan Wu, Yingchun Su, Shiyong Zhu, Shujuan Xu, Yanhong Wei, Xialin Liu, Yizhi Liu, Chunqiao Liu

Nance-Horan Syndrome-like 1 protein negatively regulates Scar/WAVE-Arp2/3 activity and inhibits lamellipodia stability and cell migration
Ah-Lai Law, Shamsinar Jalal, Tommy Pallett, Fuad Mosis, Ahmad Guni, Simon Brayford, Lawrence Yolland, Stefania Marcotti, James A. Levitt, Simon P. Poland, Maia Rowe-Sampson, Anett Jandke, Robert Köchl, Giordano Pula, Simon M. Ameer-Beg, Brian Marc Stramer, Matthias Krause

Microtubule re-organization during female meiosis in C. elegans
Ina Lantzsch, Che-Hang Yu, Yu-Zen Chen, Vitaly Zimyanin, Hossein Yazdkhasti, Norbert Lindow, Erik Szentgyörgyi, Ariel Pani, Steffen Prohaska, Martin Srayko, Sebastian Fürthauer, Stefanie Redemann

Scaling of cellular proteome with ploidy
Galal Yahya, Paul Menges, Devi Anggraini Ngandiri, Daniel Schulz, Andreas Wallek, Nils Kulak, Matthias Mann, Patrick Cramer, Van Savage, Markus Raeschle, Zuzana Storchova

GIV/Girdin, a Non-receptor Modulator for Gαi/s, Regulates Spatiotemporal Signaling during Sperm Capacitation and is Required for Male Fertility
Sequoyah Reynoso, Vanessa Castillo, Gajanan D. Katkar, Inmaculada Lopez-Sanchez, Sahar Taheri, Celia R. Espinoza, Christina Rohena, Debashis Sahoo, Pascal Gagneux, Pradipta Ghosh

WASP integrates substrate topology and cell polarity to guide neutrophil migration
Rachel M. Brunetti, Gabriele Kockelkoren, Preethi Raghavan, George R. R. Bell, Derek Britain, Natasha Puri, Sean R. Collins, Manuel D. Leonetti, Dimitrios Stamou, Orion D. Weiner

Paternal chromosome elimination and X non-disjunction on asymmetric spindles in Sciara male meiosis
Brigitte de Saint Phalle, Rudolf Oldenbourg, Donna F. Kubai, E. D. Salmon, Susan A. Gerbi

Mechanosensitive calcium signaling in response to cell shape changes promotes epithelial tight junction remodeling by activating RhoA
Saranyaraajan Varadarajan, Rachel E. Stephenson, Eileen R. Misterovich, Jessica L. Wu, Ivan S. Erofeev, Andrew B. Goryachev, Ann L. Miller

WASP integrates substrate topology and cell polarity to guide neutrophil migration
Rachel M. Brunetti, Gabriele Kockelkoren, Preethi Raghavan, George R. R. Bell, Derek Britain, Natasha Puri, Sean R. Collins, Manuel D. Leonetti, Dimitrios Stamou, Orion D. Weiner

Modelling

A coarse-grained approach to model the dynamics of the actomyosin cortex
Miguel Hernández-del-Valle, Andrea Valencia-Expósito, Antonio López-Izquierdo, Pau Casanova-Ferrer, Pedro Tarazona, Maria D. Martín-Bermudo, David G. Míguez

A mathematical framework for evo-devo dynamics
Mauricio González-Forero, Andy Gardner

Geometry of Gene Regulatory Dynamics
David A. Rand, Archishman Raju, Meritxell Saez, Francis Corson, Eric D. Siggia

Spontaneous cell internalization of a spatially-confined proliferating blastomere: A mechanical interpretation on worm gastrulation
Jiao Miao, Guoye Guan, Chao Tang

Novel Generic Models for Differentiating Stem Cells Reveal Oscillatory Mechanisms
Saeed Farjami, Karen Camargo Sosa, Jonathan H.P. Dawes, Robert N. Kelsh, Andrea Rocco

Hybrid reaction-diffusion and clock-and-wavefront model for the arrest of oscillations in the somitogenesis segmentation clock
Jesús Pantoja-Hernández, Víctor F. Breña-Medina, Moisés Santillán

A mathematical model of endothelial progenitor cell cluster formation during the early stages of vasculogenesis
Chiara Villa, Alf Gerisch, Mark A. J. Chaplain

Improving the understanding of cytoneme-mediated morphogen gradients by in silico modeling
Adrián Aguirre-Tamaral, Isabel Guerrero

Revealing cell-fate bifurcations from transcriptomic trajectories of hematopoiesis
Simon L. Freedman, Bingxian Xu, Sidhartha Goyal, Madhav Mani

Self-organization principles of cell cycles and gene expressions in the development of cell populations
Xiaoliang Wang, Dongyun Bai

Generation of fate patterns via intercellular forces
Hayden Nunley, Xufeng Xue, Jianping Fu, David K. Lubensky

Travelling wave analysis of cellular invasion into surrounding tissues
Maud El-Hachem, Scott W McCue, Matthew J Simpson

Reviews

Then There were Plenty – Ring Meristems Giving Rise to Many Stamen Whorls
Doudou Kong and Annette Becker

Modulation of Organogenesis and Somatic Embryogenesis by Ethylene: An Overview
Mariana Neves , Sandra Correia , Carlos Cavaleiro , Jorge Canhoto

Thermogenic Fat: Development, Physiological Function, and Therapeutic Potential
Bruna Brasil Brandão , Ankita Poojari , Atefeh Rabiee

Tools & Resources

A Drosophila Toolkit for Imaging of HA-tagged Proteins Unveiled a Block in Autophagy Flux in the Last Instar Larval Fat Body
Tadayoshi Murakawa, Tsuyoshi Nakamura, Kohei Kawaguchi, Futoshi Murayama, Zhao Ning, Timothy J Stasevich, Hiroshi Kimura, Naonobu Fujita

Multiscale light-sheet organoid imaging framework
Gustavo de Medeiros, Raphael Ortiz, Petr Strnad, Andrea Boni, Francisca Maurer, Prisca Liberali

Whole-ExM: Expansion microscopy imaging of all anatomical structures of whole larval zebrafish
Jueun Sim, Chan E Park, In Cho, Kyeongbae Min, Jeong-Soo Lee, Yosep Chong, Jeewon Kim, Jeong Seuk Kang, Kiryl D. Piatkevich, Erica E. Jung, Seok-Kyu Kwon, Young-Gyu Yoon, Edward S. Boyden, Jae-Byum Chang

Learning dynamics by computational integration of single cell genomic and lineage information
Shou-Wen Wang, Allon M. Klein

Tools for efficient analysis of neurons in a 3D reference atlas of whole mouse spinal cord
Felix Fiederling, Luke A. Hammond, David Ng, Carol Mason, Jane Dodd

A Cre-dependent massively parallel reporter assay allows for cell-type specific assessment of the functional effects of genetic variants in vivo
Tomas Lagunas Jr., Stephen P. Plassmeyer, Ryan Z. Friedman, Michael A. Rieger, Anthony D. Fischer, Alessandra F. Aguilar Lucero, Joon-Yong An, Stephan J. Sanders, Barak A. Cohen, Joseph D. Dougherty

Evaluation of CRISPR gene-editing tools in zebrafish
José M. Uribe-Salazar, Aadithya Sekar, Gulhan Kaya, KaeChandra Weyenberg, Cole Ingamells, Megan Y. Dennis

Hnf1b-CreER, a model used for fate mapping pancreatic lineages, achieves efficient Cre-mediated recombination in duct and islet δ cells
Meritxell Rovira, Jorge Ferrer, Miguel Angel Maestro, Vanessa Grau

Leveraging single-cell ATAC-seq to identify disease-critical fetal and adult brain cell types
Samuel S Kim, Karthik Jagadeesh, Kushal K Dey, Amber Z Shen, Soumya Raychaudhuri, Manolis Kellis, Alkes L Price

The FusX TALE Base Editor (FusXTBE) for rapid mitochondrial DNA programming of human cells in vitro and zebrafish disease models in vivo
Ankit Sabharwal, Bibekananda Kar, Santiago Restrepo-Castillo, Shannon R. Holmberg, Benjamin Luke Kendall, Ryan P. Cotter, Zachary WareJoncas, Karl J. Clark, Stephen C. Ekker

The adenoviral E1B-55k protein present in HEK293 cells mediates abnormal accumulation of key WNT signaling proteins in large cytoplasmic aggregates
Petter Angell Olsen, Stefan Krauss

Confounds of using the unc-58 selection marker highlights the importance of genotyping co-CRISPR genes
Helena Rawsthorne-Manning, Fernando Calahorro, Patricia Gonzalez Izquierdo, Lindy Holden-Dye, Vincent O’Connor, James Dillon

High resolution, serial imaging of early mouse and human liver bud morphogenesis in three dimensions
Ogechi Ogoke, Daniel Guiggey, Tala Mon, Claire Shamul, Shatoni Ross, Saroja Rao, Natesh Parashurama

Origami: Single-cell oriented 3D shape dynamics of folding epithelia from fluorescence microscopy images
Tania Mendonca, Ana A. Jones, Jose M. Pozo, Sarah Baxendale, Tanya T. Whitfield, Alejandro F. Frangi

Multifocal imaging for precise, label-free tracking of fast biological processes in 3D
Jan N. Hansen, An Gong, Dagmar Wachten, René Pascal, Alex Turpin, Jan F. Jikeli, U. Benjamin Kaupp, Luis Alvarez

Live 3D imaging and mapping of shear stresses within tissues using incompressible elastic beads
Alexandre Souchaud, Arthur Boutillon, Gaëlle Charron, Atef Asnacios, Camille Noûs, Nicolas B. David, François Graner, François Gallet

Improved methods for protein and single-molecule RNA detection in C. elegans embryos
Dylan M. Parker, Lindsay P. Winkenbach, Annemarie Parker, Sam Boyson, Erin Osborne Nishimura

Rapid generation of conditional knockout mice using the CRISPR-CAS9 system and electroporation for neuroscience research
Hirofumi Nishizono, Yuki Hayano, Yoshihisa Nakahata, Yasuhito Ishigaki, Ryohei Yasuda

Instant three color multi-plane fluorescence microscopy
Ingo Gregor, Eugenia Butkevich, Jörg Enderlein, Soheil Mojiri

Label-free imaging flow cytometry: analysis and sorting of enzymatically dissociated tissues
Maik Herbig, Karen Tessmer, Martin Nötzel, Ahsan Ahmad Nawaz, Tiago Santos-Ferreira, Oliver Borsch, Sylvia J. Gasparini, Jochen Guck, Marius Ader

Genome-wide screening in human kidney organoids identifies novel aspects of nephrogenesis
Rosemarie Ungricht, Laure Guibbal, Marie-Christine Lasbennes, Vanessa Orsini, Martin Beibel, Annick Waldt, Rachel Cuttat, Walter Carbone, Anne Basler, Guglielmo Roma, Florian Nigsch, Jan Tchorz, Dominic Hoepfner, Philipp S. Hoppe

An optimized protocol for neuronal assay for transposase-accessible chromatin by sequencing (ATAC-seq) library preparation using Drosophila melanogaster
Collin B. Merrill, Miguel A. Pabon, Austin B. Montgomery, Aylin R. Rodan, Adrian Rothenfluh

Multi-view confocal microscopy enables multiple organ and whole organism live-imaging
Olivier Leroy, Eric van Leen, Philippe Girard, Aurélien Villedieu, Christian Hubert, Floris Bosveld, Yohanns Bellaïche, Olivier Renaud

AZBA: A 3D Adult Zebrafish Brain Atlas for the Digital Age
Justin W. Kenney, Patrick E. Steadman, Olivia Young, Meng Ting Shi, Maris Polanco, Saba Dubaishi, Thomas Mueller, Paul W. Frankland

Minian: An open-source miniscope analysis pipeline
Zhe Dong, William Mau, Yu (Susie) Feng, Zachary T. Pennington, Lingxuan Chen, Yosif Zaki, Kanaka Rajan, Tristan Shuman, Daniel Aharoni, Denise J. Cai

Crossbill: an open access single objective light-sheet microscopy platform
Manish Kumar, Sandeep Kishore, David L. McLean, Yevgenia Kozorovitskiy

A method for single molecule localization microscopy of tissues reveals nonrandom distribution of nuclear pores in Drosophila
Jinmei Cheng, Edward S Allgeyer, Jennifer H Richens, Edo Dzafic, Amandine Palandri, Bohdan Lewkow, George Sirinakis, Daniel St Johnston

Microfabricated disk technology: rapid scale up in midbrain organoid generation
Nguyen-Vi Mohamed, Paula Lepine, Maria Lacalle-Aurioles, Julien Sirois, Meghna Mathur, Wolfgang Reintsch, Lenore K. Beitel, Edward A. Fon, Thomas M. Durcan

maplet: An extensible R toolbox for modular and reproducible omics pipelines
Kelsey Chetnik, Elisa Benedetti, Daniel P. Gomari, Annalise Schweickart, Richa Batra, Mustafa Buyukozkan, Zeyu Wang, Matthias Arnold, Jonas Zierer, Karsten Suhre, Jan Krumsiek

A Universal Approach to Analyzing Transmission Electron Microscopy with ImageJ
Jacob Lam, Michelle Biete, Margaret Mungai, Salma AshShareef, Kit Neikirk, Edgar Garza Lopez, Trace A. Christensen, Jeffrey L. Salisbury, Prasanna Katti, Brian Glancy, Renata O. Pereira, E. Dale Abel, Antentor Hinton Jr.

A new pipeline to automatically segment and semi-automatically measure bone length on 3D models obtained by Computed Tomography
Santiago Beltran Diaz, Xinli Qu, Michael Doube, Chee Ho H’ng, John Tan Nguyen, Michael de Veer, Olga Panagiotopoulou, Alberto Rosello-Diez

Label-free three-dimensional analyses of live cells with deep-learning-based segmentation exploiting refractive index distributions
Jinho Choi, Hye-Jin Kim, Gyuhyeon Sim, Sumin Lee, Wei Sun Park, Jun Hyung Park, Ha-Young Kang, Moosung Lee, Won Do Heo, Jaegul Choo, Hyunseok Min, YongKeun Park

Conditional immobilization for live imaging C. elegans using auxin-dependent protein depletion
Cori K. Cahoon, Diana E. Libuda

Research practice & education

“How do we do this at a distance?!” A descriptive study of remote undergraduate research programs during COVID-19
Olivia A. Erickson, Rebecca B. Cole, Jared M. Isaacs, Silvia Alvarez-Clare, Jonathan Arnold, Allison Augustus-Wallace, Joseph C. Ayoob, Alan Berkowitz, Janet Branchaw, Kevin R. Burgio, Charles H. Cannon, Ruben Michael Ceballos, C. Sarah Cohen, Hilary Coller, Jane Disney, Van A. Doze, Margaret J. Eggers, Stacy Farina, Edwin L. Ferguson, Jeffrey J. Gray, Jean T. Greenberg, Alexander Hoffman, Danielle Jensen-Ryan, Robert M. Kao, Alex C. Keene, Johanna E. Kowalko, Steven A. Lopez, Camille Mathis, Mona Minkara, Courtney J. Murren, Mary Jo Ondrechen, Patricia Ordoñez, Anne Osano, Elizabeth Padilla-Crespo, Soubantika Palchoudhury, Hong Qin, Juan Ramírez-Lugo, Jennifer Reithel, Colin A. Shaw, Amber Smith, Rosemary Smith, Adam P. Summers, Fern Tsien, Erin L. Dolan

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We are happy to announce that the UK Chick Developmental Biology Meeting 2021 will be held online on Friday 10th September.

This one-day virtual meeting brings together researchers from Universities and Research Institutes across the United Kingdom to promote and further our in-depth strength in using the chick embryo as a model organism to study a variety of topics in developmental biology. The meeting itself is a mix of talks from junior and senior developmental biologists and aims to stimulate productive interactions between research groups and individuals from different subject areas to exchange knowledge and expertise. This meeting will also provide a platform of support for early career researchers to engage with the community during a difficult time.

We are delighted to have Prof Marianne Bronner (Caltech, USA) as our international keynote speaker to join other invited speakers from the UK such as Prof Kate Storey (Dundee), Dr Matt Towers (Sheffield), Dr Siobhan Loughna (Nottingham), Dr Mike McGrew (Roslin) and Dr Fengzhu Xiong (Cambridge).

In addition we will have talks from early career researchers (i.e. those just starting their labs, post docs and graduate students) – so please do let us know if you or someone in your lab has a nice story that they could present please contract and email Dr Gi Fay Mok (g.mok@uea.ac.uk) or Dr Eirini Maniou (e.maniou@ucl.ac.uk) to discuss and submit a short abstract. The deadline for abstract enquiries and submissions is Friday 15th July.

Should you wish to attend please register at the website chickdevbio21.eventbrite.co.uk

More details of the full schedule will follow soon.

Hope to see you all on the 10th September!

#ChickDevbio21

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In this episode of the Genetics Unzipped podcast we’re taking to the night skies with a closer look at the genetics of bats. Usually the stuff of horror films and Hallowe’en, these fascinating mammals have many important genetic secrets to share with us about evolution, longevity, immunity and more.

Genetics Unzipped is the podcast from The Genetics Society. Full transcript, links and references available online at GeneticsUnzipped.com.

Subscribe from Apple podcasts, Spotify, or wherever you get your podcasts.

Head over to GeneticsUnzipped.com to catch up on our extensive back catalogue.

If you enjoy the show, please do rate and review on Apple podcasts and help to spread the word on social media. And you can always send feedback and suggestions for future episodes and guests to podcast@geneticsunzipped.com Follow us on Twitter – @geneticsunzip

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Dear European Drosophilists,

This post is to let you know about an initiative to form a European Drosophila Society (EDS), which aims to represent our research community, support common initiatives and infrastructure, as well as oversee the organisation of the biennial European Drosophila Research Conference. We have set up a web site (http://europeandrosophilasociety.org/) where you can register as an EDS member (free!). You can also follow us on Twitter @Fly_EDS. You will find information about Drosophila community news and job postings, as well as the EDRC conferences.

The EDS will be overseen by the European Drosophila Board (EDB), which will reflect the geographic and thematic diversity of our community. To get the EDS under way, we have formed an initial EDB, and plan to hold elections in 2023 to renew EDB membership. Our aim is to be inclusive: we wish to represent and support the whole breadth of European Drosophila research, as well as establish strong ties with other invertebrate/vertebrate/model organism research communities. The EDS exists to promote your research and can only work with your support, therefore we urge to join the EDS by visiting the web site and signing up. You can also contact board members to propose initiatives or offer help to our working groups.

All registered members of the community can post news, events and jobs on the web site, as well as search for Drosophila researchers based on expertise or research interests using our search engine. Group leaders can add their lab to the interactive map of European Drosophila labs. We welcome suggestions of other services we could offer to the Drosophila community.

Sincerely yours,

The European Drosophila Board
Michael Boutros, Nick Brown, Virginie Courtier, Eileen Furlong, Alex Gould, Ilona Grunwald Kadow, Gabor Juhasz, Estee Kurant, Bruno Lemaitre, Marco Milan, Lisa Meadows, Ruth Palmer, Frank Schnorrer, Nic Tapon, Luis Teixeira

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On Wednesday 12 May Development welcomed three more researchers with interests in developmental neurobiology to our seventh Development presents… webinar.

Below you’ll find each of the talks, plus a Q&A chaired by Development Editor Paola Arlotta. The next #DevPres webinar will be held on 14 April 2021, and chaired by Steve Wilson – subscribe to our mailing list for updates.

Tian Tian (University of Edinburgh) – ‘Pax6 regulates the morphological and electrophysiological development of mouse prethalamic neurons’

The work Tian presented is available as a preprint on bioRxiv.

Li He (Stockholm University) – ‘Transcription factor PRDM16 promotes temporal progression of cortical neural stem cells’

The work Li presented was published in Development in March.

Karol Kaiser (Masaryk University) – ‘Meis1-Wnt5a axis – The story of two choroid plexuses’

The work Karol presented was recently accepted in Development.

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Wednesday 9 June 2021 – 15:00 BST (GMT+1)

For our ninth webinar in the Development presents… series, Development Editor Maria-Elena Torres-Padilla (Institute of Epigenetics and Stem Cells) has invited three talks on the topic of chromatin regulation and epigenetics.

   

The webinar will be held in Remo, our browser-based conferencing platform. After the talks you’ll have the chance to meet the speakers and other participants at virtual conference tables. If you can’t make it on the day, talks will be available to watch after the event on the Node. You can also sign up to our mailing list for email alerts.

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By Bernat Corominas-Murtra and Nicoletta I. Petridou

Embryo morphogenesis is a play whose outcome is the result of a complex and delicate plot, made of balances and agreements among many actors: the execution of the genetic program, biochemical communication among cells, mechanical forces, energy consumption, geometry, cell autonomous and collective behaviours… all of them interlinked in a precise way in space and time. This process is by no means always smooth, and in some developmental stages, dramatic, sudden shifts in the properties or structure of the embryo occur.

It was precisely one of these sudden shifts that started puzzling us about three years ago during a scientific retreat in the beautiful town of Sitges, in the Catalan coast, between the groups of Edouard Hannezo and Carl-Philipp (CP) Heisenberg from IST Austria. At that time, I (Nicoletta) was a postdoc in CP’s group, and one of the targets of our research was to establish how tissue material properties change in space and time within the zebrafish embryo at the onset of morphogenesis. At this stage, the embryo is composed of a few thousand cells (the blastoderm) sitting on top of a yolk cell. The blastoderm starts spreading and engulfing the yolk, defining the onset of gastrulation. By measuring blastoderm viscosity in vivo we knew that the viscosity of the embryo tissue drops by more than an order of magnitude at the exact moment when morphogenesis starts, in a highly reproducible way. That is, in a matter of minutes, the embryo jumps from a “solid” non-deformable state to a “fluid” highly-deformable one. Right after this abrupt shift, the tissue starts recovering its viscous properties by undergoing “thickening” (in rheological terms, like a honey that thickens and loses deformability). These spatiotemporal changes in tissue viscosity are essential for correct tissue spreading at the onset of morphogenesis. As a funny coincidence, exactly on the very first day of the retreat we had just found out that our manuscript on these findings was accepted for publication (Petridou et al., 2019). Besides the celebratory mood, we were still excited and puzzled by the abrupt nature of this shift, in which the intensity and speed of the changes reminded us of what in physics is called a “phase transition”.

But, what kind of phase transition? The theory of phase transitions is a broad field in physics. It is maybe true that most of the results of the theory of phase transitions lie far away from biology; but it is also true that a lot of this theory is becoming more and more relevant in understanding biological phenomena. This was an intriguing a topical problem with several theoretical models of material phase transitions emerging (Petridou and Heisenberg, 2019; Lawson-Keister and Manning, 2021), but rather disappointingly we couldn’t experimentally match these models to our in vivo system. During the poster session of the retreat, I (Bernat, who had just joined Edouard’s group as his first postdoc) was discussing these issues with Nicoletta. Soon after, we came up with the idea that this “phase transition”-like behaviour could be addressed as a network phase transition. A network phase transition is a sudden change of the network properties that is usually associated to smooth changes in the connectivity of the nodes. For example, if one removes connections of a network gradually, we will observe that the net commonly remains more or less stable until it abruptly breaks into many small fragments. In this particular example, the exact point of the connectivity that triggers the fragmentation is a critical point of a phase transition between unconnected and connected network regimes, called “percolation”.  Network phase transitions play a relevant role in understanding ecosystems, epidemic spreading or material properties, among many other systems.  In the past I had been working on several problems involving network phase transitions, and the idea of explaining phenomena in embryo development with this framework was as much exciting as unexpected, and marked the start of a beautiful collaboration between biologists and physicists. We combined approaches originating from both biology and physics to address a key problem of embryo development, in a truly two-way collaboration trying to overcome the artificial borders between fields of knowledge.

Back to IST, we started frantically analyzing embryo tissues as if they were a network made of cells (nodes) and links (the cell-cell contacts) between nodes (Fig. 1A). At a first sight, the results were not really encouraging: The networks of cell-cell contacts were not that different before and after the fluidization event. What could be reported was just a small, smooth drop in the average number of contacts per cell coinciding with the fluidization point (Fig. 1A). However, when dealing with phase transitions, one has to be careful not to neglect the relevance of small changes in some parameters of the system: close to the critical point (the point where the system changes its phase), any tiny fluctuation can result in an abrupt, macroscopic change. For example: if we leave a glass of water in the fridge at 0.1^oC, it will remain forever liquid; if we drop the temperature an almost imperceptible 0.2^oC, therefore putting the fridge at -0.1^oC, the water in the glass will sooner or later freeze, which is a radically different state than the one we had when we were at 0.1^oC. And somehow this was similar to what was happening in the embryo: the tiny decay in the number of contacts per cell was precisely crossing a critical point: the critical point of rigidity. That is, in a network with a lower number of average contacts per cell, the system as a whole remains floppy, and one can deform it with almost no effort. Beyond the rigidity threshold, no independent movements of the cells are possible without applying a force over the system. In particular, a rigid cluster of nodes (called Giant Rigid Cluster – GRC) abruptly emerges, almost spanning the whole network, and thereby opposing resistance to any deformation (Fig. 1B). The critical point in rigidity (also called the “rigidity percolation threshold” or “isostatic point”) is found when the number of average contacts per cell is 4 (which corresponds to the 2/3 of the maximum potential connectivity of a network, that is, 6, if one considers a complete packing made of a large number of hexagonal-like cells) (Fig. 1B). Strikingly, this is one of the older, if not the oldest, prediction of a critical point, as the result goes down to Maxwell (Maxwell, 1870), who solved the problem in the middle of the XIX century.

It turned out that, indeed, fluidization occurred at the moment where the average number of contacts per cell went below the critical point of 2/3 of the maximum cell connectivity of the tissue (Fig. 2). But there was more: after that, the number of average contacts per cell increased very slowly, but crossing the critical point again to start “thickening” and recovering its viscosity/rigidity (Fig. 2). The incredible correspondence of experiments to the theory of network rigidity percolation and viscosity by solely one simple criterion, cell connectivity, triggered one of these paradoxical moments in science where the excitement of the discovery is immediately followed by an uncomfortable feeling of uncertainty due to the overwhelming number of new questions that the discovery implies.

There was, first, a theoretical problem: We were measuring tissue viscosity, but the theory is about topological properties of the networks. Intuitively, they seem related, but we wanted a rigorous connection, as it is the key tie between theory —and its predictions— and experiments —with its observations. This turned out to be an interesting problem of bridging description scales: on the one side, we have a microscopic property, namely, the number of connections per cell, and on the other side, we had a macroscopic property, namely, the viscosity, hypothetically emerging from the microscopic structure. With the help of computer simulations and theoretical arguments, we could prove that, indeed, the critical point in connectivity for rigidity transitions triggers a qualitative shift in the behaviour of viscous networks. From almost negligible force response values in the region where the network is floppy, a sudden, steady increase is observed when passing the rigidity percolation point (Fig. 3A). In addition, we wanted to test the generality of our approach. How reliable is connectivity as a control parameter for predicting the different viscosity regimes of the tissues? We experimentally measured cell connectivity, tissue rigidity (GRC size) and tissue viscosity in numerous experimental conditions. For example, we examined this in embryonic tissues with differences in cell-cell adhesion, contractility, cell fate, geometry, genetic backgrounds: remarkably, using only the connectivity value, we could reproducibly predict the rigidity regime of the tissues (Fig. 3B).

Once we had established a theoretical and experimental connection between connectivity rigidity and tissue viscosity, we wanted to know if indeed what we observed in the embryos corresponded to a genuine phase transition. This was a great challenge for us, and when we started sharing our results with the scientific community, many sceptical questions followed. What class of a PT is this? How can it be a true PT in such a small living system? Such criticism is indeed necessary when merging fields especially when there are no similar examples or guidelines on the right way to do it! To prove a phase transition in physics for example, it requires to find the traces of a singularity or divergence in a macroscopic observable in terms of a control parameter that, in turn, increases smoothly. In addition, in a high order phase transition —as it is the case of rigidity percolation—, one expects to observe characteristic phenomena, like power-law statistical patterns of the diverging observable. Having a large amount of experimental data allowed us to perform reliable statistics and unambiguously detect such patterns. In particular, in rigidity phase transitions a singularity/divergence is expected to occur at the critical point of the phase transition which corresponds to the variance in the size of the rigid clusters other than the GRC. We observed a clear diverging trend in the experimental data and well-defined traces of a power-law distribution in the size of rigid clusters (Fig. 3C), with exponents compatible with the theory. These findings suggested that the embryo is operating very close to a surprisingly well-defined critical point of phase transition or, in other words, that the embryo is at criticality.

Many puzzling questions were constantly opening up: Can we engineer the system to fine-tune its material properties based on its network representation? Can we transform this simple but “static” representation of rigidity into a dynamic model taking into consideration the time-scales of cell and tissue viscoelasticity? The finding that the tissue is poised at criticality also gave a twist to our research, because we realised that we not only have a framework to predict the tissue material state but we can start exploring questions regarding robustness and stability of the system. To address this question within the proper environment, we met many times enjoying the bitter and intense taste of the expresso at Coffee Pirates —our favourite coffee shop in Vienna. And we always came to the same, fundamental question: What is the benefit of a living system being poised at criticality? A system at criticality can change its state with almost no energy investment, thus criticality could be an effective strategy in this developmental stage. However, this comes with a cost: a system at criticality is highly unstable, and this is not what we experimentally observe. For example, the rigidity phase transition occurs only once in the embryo at the onset of its morphogenesis. How is the embryo precisely operating between rigid and floppy regimes when positioned so close to the critical point? Our results so far suggest that synchrony in the cell division may play a fundamental role. Cell connectivity in the early embryo is dominantly regulated by cell division, where cell-cell contacts between neighbouring cells disassemble during mitosis and reassemble during interphase. We also found evidences of a counterintuitive but interesting relation between spatio-temporal randomness in cell division patterns and temporally precise and spatially uniform changes in tissue structural and material properties (Petridou et al., 2021).

Well, this was the moment when we knew that we could not answer all the questions –at least, not within our postdoc period! We never thought that this interdisciplinary scientific retreat could lead to such a fruitful collaboration, especially since it took us a long time to find a common communication language between physics and biology. We spent hours for example discussing what rigidity means in physics or what adhesion means in biology, going back to basic textbooks! We are very grateful to both CP and Edouard for supporting this challenging project, and, now, equipped with this full package of unanswered questions, we are both looking forward to address experimentally and theoretically how tissue rigidity and criticality orchestrate embryo development in our very recently starting groups at EMBL Heidelberg (Nicoletta) and University of Graz (Bernat), respectively.

References

Lawson-Keister, E., and Manning, M.L. (2021). Jamming and arrest of cell motion in biological tissues. arXiv. doi: arXiv:2102.11255.

Maxwell, J.C. (1870). I.—On Reciprocal Figures, Frames, and Diagrams of Forces. Transactions of the Royal Society of Edinburgh 26(1), 1-40. doi: 10.1017/S0080456800026351.

Petridou, N.I., Corominas-Murtra, B., Heisenberg, C.-P., and Hannezo, E. (2021). Rigidity percolation uncovers a structural basis for embryonic tissue phase transitions. Cell 184(7), 1914-1928.e1919. doi: https://doi.org/10.1016/j.cell.2021.02.017.

Petridou, N.I., Grigolon, S., Salbreux, G., Hannezo, E., and Heisenberg, C.P. (2019). Fluidization-mediated tissue spreading by mitotic cell rounding and non-canonical Wnt signalling. Nat Cell Biol 21(2), 169-178. doi: 10.1038/s41556-018-0247-4.

Petridou, N.I., and Heisenberg, C.P. (2019). Tissue rheology in embryonic organization. EMBO J 38(20), e102497. doi: 10.15252/embj.2019102497.

There are dozens more ‘behind the paper’ stories featuring the highs and lows and serendipities of research on our dedicated page. Does your paper have a story behind it? We’d love to hear it.

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By Alejandro Aguilera Castrejon and Jacob H. Hanna

Understanding the developmental processes leading to the formation of tissues and organs represents one of the most fundamental questions in developmental and stem cell biology. In mammals, most of this process takes place after the embryo implants inside the maternal uterus. After implantation, mammalian embryos initiate the process of gastrulation, in which stem cells differentiate into the three germ-layers, and subsequently commence organ formation, transiting from a symmetrical ball of stem cells into an advanced embryo with defined head, tail, organs and limbs. The intrauterine confinement of developing embryos has limited the study of post-implantation embryogenesis, due to the inability to observe and manipulate living embryos at these stages. Further, the very small size of the early post-implanted embryo makes it extremely difficult to observe inside the uterus using techniques applied for monitoring development of older fetuses. Thus, for over a century, scientists have attempted to devise ex utero culture systems capable of supporting mammalian post-implantation embryo growth, and had very limited success.

The motivation for our group to initiate this project was brought by the lack of methods for continuous and robust culture of early post-implanted embryos until advanced organogenesis, while at the same time, we have been able to routinely culture mouse embryos in vitro through all stages of pre-implantation development for decades. It is also not feasible to transfer explanted post-implantation embryos back to the uterus as commonly done for pre-implantation embryos. More specifically, we embarked on this project following our success to get low contribution of human derived iPSC cells into cross-species chimeric mouse embryos for the first time (Gafni et al., 2013), as we wanted to follow the integration of human iPSC derived cells in post-implantation mouse embryos, and also try to improve it (Bayerl et al., 2020). Further, devising continuous in vitro culture systems for mammalian embryos during the period from pre-gastrulation until advanced organ formation would facilitate direct experimental investigation of key processes during post-implantation embryogenesis.

To the best of our knowledge, the earliest attempts to culture post-implanted rodent embryos started in the thirties by using rat plasma combined with embryo extract (Nicholas and Rudnick, 1934). Several research groups improved this technique over the years, by modifying different culturing parameters such as supplementing the embryo environment with different types of media and rotating the cultured embryos (New and Coppola, 1970; New, Coppola and Terry, 1973; P. P. Tam and Snow, 1980; Sadler and New, 1981; Rivera-Pérez, Jones and Tam, 2010; Piliszek, Kwon and Hadjantonakis, 2011). However, normal embryonic development in previous studies was inefficient, and limited to only brief periods of time after the post-gastrulation embryos were dissected out of the uterus (24-48 hours) (Sadler, 1979). Such short-term culture techniques do not allow to study embryogenesis comprehensively, regardless the age of the embryo isolated from the uterus, because most of the organs develop and mature over several days.

As an attempt to overcome these limitations, my supervisor Jacob Hanna thought about starting a project to revisit and re-evaluate the previously established short-term culture protocols and try to understand why they failed to obtain continuous embryogenesis ex utero. We reasoned that sensitive regulation of  O₂ and CO₂ gas concentration is likely to be a critical parameter for embryogenesis. We also thought that controlling and increasing gas pressure could improve culture outcome and efficiency by increasing oxygen diffusion into the embryonic bloodstream, as routinely applied by lung ventilation machines used in hospitals (that also control gas pressure to enhance oxygen diffusion). However, there was no available system to control gas concentration and pressure precisely, so we engineered an electronic devise specially fitted for this purpose, which could be connected to the roller culture incubator (Fig. 1), and hired an external engineer to assemble it (Fig. 2a).

Once the gas regulation module was designed, and after I joined the lab as a master student, we started testing for different combinations media, oxygen concentrations, and gas pressures that allowed embryo growth with the highest survival rate and for the longest period of time. We tested different combinations of sera from different species, synthetic sera, nutrients and other supplements which have been used for culture of stem cells and embryos. By these means, we established a platform that supports growth of late gastrulating embryos at E7.5 until the hindlimb formation stage E11 by culturing the embryos in rotating bottles at hyperbaric pressure (Fig. 2b).

Our next step was to expand the ex utero culture platform one more day, aiming for starting with early gastrulating embryos at E6.5 until advanced organogenesis. However, no matter which conditions we tested, E6.5 embryos were not able to grow beyond two days using rotating bottle settings, possibly because E6.5 seemed very fragile when placed in rotating bottle conditions. At this stage we turned to devise cultures in static plates for early-gastrulation stage embryos, as we realized that there was not a well-established protocol for static culture of embryos at E6.5, since the culture conditions used per lab were variable, together with a disparity on efficiency and quality of embryo survival (P. P. L. Tam and Snow, 1980). We then decided to seek for conditions allowing robust development of embryos in static cultures from E6.5 until E8.5, since static culture does not support development beyond the early somite stage at E8.5. After testing diverse oxygen concentrations, gas pressures, types of sera, extracellular matrices and supplements we generated a protocol that allowed proper development of most explanted embryos. Remarkably, transfer of embryos cultured using our established static protocol to the roller culture allowed continuous growth from E6.5 to E11 (Fig. 3). Later, we realized that this static protocol is also suitable for growing embryos dissected at the earliest day of post-implantation development E5.5, and combined with the rotating bottles culture we were able to reach up to 6 days of mouse development ex utero.

Notwithstanding, a limitation of the protocol was the dependence on freshly isolated  human umbilical cord blood serum, which availability can be limiting. Thereby, we intended to find another type of sera which could replace it. We tested first using commercial human blood sera, but the results were not encouraging, possibly because often commercial serum productions is not done rapidly after blood collection, which leads to increased hemolysis by-products that can be toxic to embryos. Thus, we turned to isolating serum from fresh human adult blood in-house, which is relatively easier to obtain. Indeed, we were very happy to find that freshly isolated adult human serum was able to support mouse embryo growth, which makes the protocol much more available to the community.

A fundamental step was to perform a thorough examination of the embryos in order to verify that those developing ex utero mimic their counterparts growing inside the uterus. By means of morphological, histological, immunofluorescence, and single cell transcriptomic analyses, we validated that the embryosdeveloping ex utero are comparable to embryos growing inside the maternal uterus at the level of tissue architecture and cell composition. In particular, for the single cell RNA-seq analysis we chose to examine embryos cultured in the extended static and roller culture protocol, since embryos cultured from E7.5 in rotating bottles are cultured for a shorter time than those starting at E6.5. It was very important for us to conduct single cell RNA-seq based comparisons, since the latter can be viewed as a very stringent and unbiased way of comparing embryos and their organs.

Furthermore, one of the key advantages of our ex utero culture is the amenability of the embryos to physical, chemical and genetic manipulations, that can be followed for over up to six days of development. For this purpose, we looked at all those experimental techniques that have been available widely for pre-implantation embryos, and that we have always fantasized to apply for studying post-implantation development, for instance, gene targeting, high resolution imaging, or generation of chimeric embryos by cell transplantation.  First, we wanted to demonstrate the ability to introduce genetic perturbations in the developing embryos, for which we employed two strategies: on the one hand we used whole-embryo electroporation, which is usually transient and localized to a specific region; on the other hand, we carried out lentiviral transduction to introduce DNA in a stable and widespread manner all over the embryonic and extraembryonic tissues.  For live cell imaging, we aimed to show the ability to image in high resolution using confocal microscopy. We chose to image two of the most intricate processes of embryonic development: gastrulation and neural tube closure. The first process is perfectly suitable for imaging in static culture, and for the second one we wanted to show the possibility to image embryos that were initially grown using the roller culture system and then moved to static conditions for imaging under the microscope while they continue developing. Finally, we have always been fascinated by the ability of cells to integrate into developing embryos to  generate chimeric animals; procedure frequently done in our lab by grafting mouse or human pluripotent stem cells into mouse blastocysts, which can further develop by transfer to a surrogate mother. Nevertheless, such an assay was not available to evaluate the integration of cells into post-implanted mammalian embryos. In this regard, by analyzing the integration of mouse and human cells into gastrulating embryos, we demonstrated that our platform offers a novel opportunity to assay long-term integration of cells into mouse embryos at post-implantation stages. Overall, we proved that we can perform a variety of embryo manipulations without affecting embryo development or culture efficiency.

In summary, by establishing platforms for continuously growing pre-gastrulation mouse embryos outside of the uterus from the embryonic day 5 to 11, our recently published study (Aguilera-Castrejon et al., 2021) provides a proof-of-concept for the ability to continuously capture mammalian gastrulation and advanced organogenesis in an artificial environment, and underscores the self-organizing ability of the embryo. This culture system may help uncover mechanisms of cell fate specification and organ formation in a mammalian model, as it alleviates the uterine barrier to allow dynamic experimentation in living mouse embryos. We hope that our ex utero culture will be adopted by many labs around the world, and that culturing mouse embryos in a tube for extended periods of time will become a commonly used technique as culturing cells or embryos from non-mammalian species. Another interesting possibility for this system would be to use it in combination with synthetic stem cell-derived embryo models (Harrison et al., 2017), for which this platform could provide an ultimate test to evaluate their resemblance to natural embryos.

Leaving aside the ethical implications that the ex utero culture may have for human embryos, by creating these platforms for culturing mouse embryos we intend to investigate the intricate processes shaping mammalian organs during embryogenesis, which in the future, may have a broad range of implications for human health, from understanding congenital disorders and cancer, to stem cell biology and tissue engineering.

Aguilera-Castrejon, A., Oldak, B., Shani, T. et al. Ex utero mouse embryogenesis from pre-gastrulation to late organogenesis. Nature (2021). https://doi.org/10.1038/s41586-021-03416-3

References

Aguilera-Castrejon, A. et al. (2021) ‘Ex utero mouse embryogenesis from pre-gastrulation to late organogenesis’, Nature. pp. 1–6. doi: 10.1038/s41586-021-03416-3.

Bayerl, J. et al. (2020) ‘Tripartite inhibition of SRC-WNT-PKC signalling consolidates human naïve pluripotency’, bioRxiv. 2020.05.23.112433. doi: 10.1101/2020.05.23.112433.

Gafni, O. et al. (2013) ‘Derivation of novel human ground state naive pluripotent stem cells’, Nature. 504(7479), pp. 282–286. doi: 10.1038/nature12745.

Harrison, S. E. et al. (2017) ‘Assembly of embryonic and extraembryonic stem cells to mimic embryogenesis in vitro.’, Science. 356(6334), p. eaal1810. doi: 10.1126/science.aal1810.

New, D. A. and Coppola, P. T. (1970) ‘Effects of different oxygen concentrations on the development of rat embryos in culture.’, Journal of reproduction and fertility, 21(1), pp. 109–18.

New, D. A., Coppola, P. T. and Terry, S. (1973) ‘Culture of explanted rat embryos in rotating tubes.’, Journal of reproduction and fertility, 35(1), pp. 135–8.

Nicholas, J. S. and Rudnick, D. (1934) ‘The Development of Rat Embryos in Tissue Culture.’, Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences, 20(12), pp. 656–8.

Piliszek, A., Kwon, G. S. and Hadjantonakis, A.-K. (2011) ‘Ex Utero Culture and Live Imaging of Mouse Embryos’, in Methods in molecular biology (Clifton, N.J.), pp. 243–257. doi: 10.1007/978-1-61779-210-6_9.

Rivera-Pérez, J. A., Jones, V. and Tam, P. P. L. (2010) ‘Culture of Whole Mouse Embryos at Early Postimplantation to Organogenesis Stages: Developmental Staging and Methods’, Methods in Enzymology. Academic Press, 476, pp. 185–203. doi: 10.1016/S0076-6879(10)76011-0.

Sadler, T. W. (1979) ‘Culture of early somite mouse embryos during organogenesis.’, Journal of embryology and experimental morphology, 49, pp. 17–25.

Sadler, T. W. and New, D. A. (1981) ‘Culture of mouse embryos during neurulation.’, Journal of embryology and experimental morphology, 66, pp. 109–16.

Tam, P. P. and Snow, M. H. (1980) ‘The in vitro culture of primitive-streak-stage mouse embryos.’, Journal of embryology and experimental morphology, 59, pp. 131–43.

There are dozens more ‘behind the paper’ stories featuring the highs and lows and serendipities of research on our dedicated page. Does your paper have a story behind it? We’d love to hear it.

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In the latest episode of Genetics Unzipped, Kat Arney takes a look at the genetics of giants and the science of small. Why do some species grow so large? What’s the genetic legacy behind Charles Byrne and the Giants of Ireland? And what was it about life on a Mediterranean island that miniaturised a mammoth?

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Welcome to our monthly trawl for developmental biology (and related) preprints.

The preprints this month are hosted on bioRxiv, arXiv and preprints.org – use these links to get to the section you want.

Developmental biology

• Patterning & signalling
• Morphogenesis & mechanics
• Genes & genomes
• Stem cells, regeneration & disease modelling
• Plant development
• Evo-devo

Cell Biology

Modelling

Reviews

Tools & Resources

Research practice & education

Developmental biology

| Patterning & signalling

Sox8 is sufficient to reprogram ectoderm into ear vesicles and associated neurons
Ailin Leticia Buzzi, Jingchen Chen, Alexandre Thiery, Julien Delile, Andrea Streit

Nodal is a short-range morphogen with activity that spreads through a relay mechanism in human gastruloids
Lizhong Liu, Anastasiia Nemashkalo, Ji Yoon Jung, Sapna Chhabra, M. Cecilia Guerra, Idse Heemserk, Aryeh Warmflash

“Neighborhood watch” model: embryonic epiblast cells assess positional information in relation to their neighbors
Hyung Chul Lee, Cato Hastings, Nidia M.M. Oliveira, Rubén Pérez-Carrasco, Karen M. Page, Lewis Wolpert, Claudio D. Stern

Local signaling specifies tissue-resident fibroblasts from multipotent sclerotome progenitors in zebrafish
Roger C. Ma, Katrinka M. Kocha, Peng Huang

P5A-ATPase controls the ER translocation of Wnt in neuronal migration
Tingting Li, Xiaoyan Yang, Zhigang Feng, Wang Nie, Yan Zou

Temporal regulation of green and red cone specification in human retinas and retinal organoids
Sarah E. Hadyniak, Kiara C. Eldred, Boris Brenerman, Katarzyna A. Hussey, Rajiv C. McCoy, Michael E. G. Sauria, James A. Kuchenbecker, Maureen Neitz, Jay Neitz, James Taylor, Robert J. Johnston Jr.

Notch signaling represses cone photoreceptor formation through the regulation of retinal progenitor cell states
Xueqing Chen, Mark M. Emerson

The dorsal blastopore lip is a source of signals inducing PCP in the Xenopus neural plate
Pamela Mancini, Olga Ossipova, Sergei Y. Sokol

DDX21 is a p38-MAPK sensitive nucleolar protein necessary for mouse preimplantation embryo development and cell-fate specification
Pablo Bora, Lenka Gahurova, Andrea Hauserova, Martina Stiborova, Rebecca Collier, David Potěšil, Zbyněk Zdráhal, Alexander W. Bruce

Generation of specialized blood vessels through transdifferentiation of lymphatic endothelial cells
Rudra Nayan Das, Ivan Bassi, Yanchao Han, Giuseppina Lambiase, Yaara Tevet, Noga Moshe, Stav Refael Safriel, Julian Nicenboim, Matthias Brueckner, Dana Hirsch, Raya Eilam-Altstadter, Wiebke Herzog, Kenneth D. Poss, Karina Yaniv

Biphasic roles of hedgehog signaling in the production and self-renewal of outer radial glia in the ferret cerebral cortex
Shirui Hou, Wan-Ling Ho, Lei Wang, Bryan Kuo, Jun Young Park, Young-Goo Han

Decoding the porcine developing spatial processing system and production of human entorhinal stellate cell-like cells by a direct programming approach
Tobias Bergmann, Yong Liu, Leo Mogus, Julie Lee, Ulrich Pfisterer, Louis-Francois Handfield, Andrea Asenjo-Martinez, Irene Lisa-Vargas, Stefan E Seemann, Jimmy Tsz Hang Lee, Nikolaos Patikas, Birgitte Rahbek Kornum, Mark Denham, Poul Hyttel, Menno P Witter, Jan Gorodkin, Tune H Pers, Martin Hemberg, Konstantin Khodosevich, Vanessa Jane Hall

ATXN10 is required for embryonic heart development and maintenance of epithelial cell phenotypes in the adult kidney and pancreas
Melissa R. Bentley-Ford, Reagan S. Andersen, Mandy J. Croyle, Courtney J. Haycraft, Kelsey R. Clearman, Jeremy B. Foote, Jeremy F. Reiter, Bradley K. Yoder

ERK3-MK5 signaling regulates myogenic differentiation and muscle regeneration by promoting FoxO3 degradation
Mathilde Soulez, Pierre-Luc Tanguay, Florence Dô, Colin Crist, Junio Dort, Alexey Kotlyarov, Matthias Gaestel, Nicolas A. Dumont, Sylvain Meloche

Wnt-dependent activation of ERK mediates repression of chondrocyte fate during calvarial development
Beatriz Ibarra, Cody Machen, Radhika P. Atit

Per1/Per2-Igf2 axis-mediated circadian regulation of myogenic differentiation
Nobuko Katoku-Kikyo, Ellen Paatela, Daniel L. Houtz, Britney Lee, Dane Munson, Xuerui Wang, Mohammed Hussein, Jasmeet Bhatia, Seunghyun Lim, Ce Yuan, Yoko Asakura, Atsushi Asakura, Nobuaki Kikyo

Extensive structural remodeling of the axonal arbors of parvalbumin basket cells during development
Kristina D. Micheva, Marianna Kiraly, Marc M. Perez, Daniel V. Madison

Dopamine desynchronizes the retinal clock through a melanopsin-dependent regulation of acetylcholine retinal waves during development
Chaimaa Kinane, Hugo Calligaro, Antonin Jandot, Christine Coutanson, Nasser Haddjeri, Mohamed Bennis, Ouria Dkhissi-Benyahya

Hedgehog pathway members Patched and Costal-2 exhibit differences in overgrowth autonomy in Drosophila melanogaster
Shannon L. Moore, Frank C. Adamini, Erik S. Coopes, Dustin Godoy, Shyra J. Northington, Jordan M. Stewart, Richard L. Tillet, Kayla L. Bieser, Jacob D. Kagey

Role of PARP1 in oligodendrocyte differentiation during developmental myelination and remyelination after myelin damage
Yan Wang, Sheng Zhang, Bokyung Kim, Vanessa L. Hull, Jie Xu, Preeti Prabhu, Maria Gregory, Veronica Martinez-Cerdeno, Xinhua Zhan, Wenbin Deng, Fuzheng Guo

Sperm membrane proteins DCST1 and DCST2 are required for the sperm-egg fusion process in mice and fish
Taichi Noda, Andreas Blaha, Yoshitaka Fujihara, Krista R. Gert, Chihiro Emori, Victoria E. Deneke, Seiya Oura, Sara Berent, Mayo Kodani, Karin Panser, Luis Enrique Cabrera-Quio, Andrea Pauli, Masahito Ikawa

Regulation of Vg1 biogenesis during mesendoderm induction
P. C. Dave P. Dingal, Adam N. Carte, Tessa G. Montague, Alexander F. Schier

Phenotypic diversity and sensitivity to injury of the pulmonary endothelium during a period of rapid postnatal growth
Fabio Zanini, Xibing Che, Carsten Knutsen, Min Liu, Nina Suresh, Racquel Domingo-Gonzalez, Steve H. Dou, Robert C. Jones, David N. Cornfield, Stephen R. Quake, Cristina M. Alvira

Dynamics and heterogeneity of Erk-induced immediate-early gene expression
Siddhartha G. Jena, Catherine Yu, Jared E. Toettcher

Single cell response landscape of graded Nodal signaling in zebrafish explants
Tao Cheng, Yan-Yi Xing, Yun-Fei Li, Cong Liu, Ying Huang, Ying-Jie Zhang, Sean G. Megason, Peng-Fei Xu

Arf6 is necessary for high level Wingless signalling during Drosophila wing development
Julien Marcetteau, Tamàs Matusek, Frédéric Luton, Pascal P. Thérond

Developmental Circadian Disruption Alters Placental Signaling in Mice
Danielle A. Clarkson-Townsend, Katie L. Bales, Karen E. Hermetz, Amber A. Burt, Machelle T. Pardue, Carmen J. Marsit

Activity-dependent alteration of early myelin ensheathment in a developing sensory circuit
Zahraa Chorghay, David MacFarquhar, Vanessa J. Li, Sarah Aufmkolk, Anne Schohl, Paul W. Wiseman, Ragnhildur Thora Káradóttir, Edward S. Ruthazer

RANKL from Bone Marrow Adipose Lineage Cells Promotes Osteoclast Formation and Bone Loss
Yan Hu, Xiaoqun Li, Xin Zhi, Wei Cong, Biaotong Huang, Huiwen Chen, Yajun Wang, Yinghua Li, Lipeng Wang, Chao Fang, Jiawei Guo, Ying Liu, Jin Cui, Liehu Cao, Weizong Weng, Qirong Zhou, Sicheng Wang, Xiao Chen, Jiacan Su

Lhx2 is a progenitor-intrinsic modulator of Sonic Hedgehog signaling during early retinal neurogenesis
Xiaodong Li, Patrick J. Gordon, John A. Gaynes, Alexandra W. Fuller, Randy Ringuette, Clayton P. Santiago, Valerie A. Wallace, Seth Blackshaw, Pulin Li, Edward M. Levine

Perivascular cells support folliculogenesis in the developing ovary
Shuyun Li, Bidur Bhandary, Tony DeFalco

Cdc42 activity in Sertoli cells is essential for maintenance of spermatogenesis
Bidur Bhandary, Anna Heinrich, Sarah J. Potter, Nancy Ratner, Tony DeFalco

Loss of Mafb and Maf distorts myeloid cell ratios and disrupts fetal mouse testis vascularization and organogenesis
Shu-Yun Li, Xiaowei Gu, Anna Heinrich, Emily G. Hurley, Blanche Capel, Tony DeFalco

Uncoupling of ribosome biogenesis and Tor activation by TRIM-NHL proteins promotes terminal differentiation
Jinghua Gui, Felipe Karam Teixeira

Neuronal Dystroglycan regulates postnatal development of CCK/cannabinoid receptor-1 interneurons
Daniel S. Miller, Kevin M. Wright

Rab11 negatively regulates Wingless preventing JNK mediated apoptosis in Drosophila epithelium during embryonic dorsal closure
Nabarun Nandy, Jagat Kumar Roy

Relish plays a dynamic role in the niche to modulate Drosophila blood progenitor homeostasis in development and infection
Parvathy Ramesh, Nidhi Sharma Dey, Aditya Kanwal, Sudip Mandal, Lolitika Mandal

CSF1R-dependent macrophages control postnatal somatic growth and organ maturation
Sahar Keshvari, Melanie Caruso, Ngari Teakle, Lena Batoon, Anuj Sehgal, Omkar L. Patkar, Michelle Ferrari-Cestari, Cameron E. Snell, Chen Chen, Alex Stevenson, Felicity M. Davis, Stephen J. Bush, Clare Pridans, Kim M. Summers, Allison R. Pettit, Katharine M. Irvine, David A. Hume

Regulation of neurogenesis and gliogenesis by the matricellular protein CCN2 in the mouse retina
Golam Mohiuddin, Genesis Lopez, Jose Sinon, M. Elizabeth Hartnett, Anastasiia Bulakhova, Brahim Chúaqour

Anatomy and Development of the Pectoral Fin Vascular Network in the Zebrafish
Scott Paulissen, Daniel Castranova, Shlomo Krispin, Margaret Burns, Brant M. Weinstein

longfin causes cis-ectopic expression of the kcnh2a ether-a-go-go K+ channel to autonomously prolong fin outgrowth
Scott Stewart, Heather K. Le Bleu, Gabriel A. Yette, Astra L. Henner, Amy E. Robbins, Joshua A. Braunstein, Kryn Stankunas

The UBAP2L ortholog PQN-59 contributes to stress granule assembly and development in C. elegans
Simona Abbatemarco, Alexandra Bondaz, Francoise Schwager, Jing Wang, Christopher M Hammell, Monica Gotta

FGF8-mediated signaling regulates tooth developmental pace during odontogenesis
Chensheng Lin, Ningsheng Ruan, Linjun Li, Yibin Chen, Xiaoxiao Hu, YiPing Chen, Xuefeng Hu, Yanding Zhang

Pinhead antagonizes Admp to promote notochord formation
Keiji Itoh, Olga Ossipova, Sergei Y. Sokol

R-SPONDIN2+ Mesenchymal Cells Form the Bud Tip Progenitor Niche During Human Lung Development
Renee F.C. Hein, Joshua H. Wu, Yu-Hwai Tsai, Angeline Wu, Alyssa J. Miller, Emily M. Holloway, Tristan Frum, Ansley S. Conchola, Emmanuelle Szenker-Ravi, Bruno Reversade, Kelley S. Yan, Calvin J. Kuo, Jason R. Spence

Early low-level developmental arsenic exposure impacts mouse hippocampal synaptic function
Karl F.W. Foley, Daniel Barnett, Deborah A. Cory-Slechta, Houhui Xia

Functional connectivity of the developing mouse cortex
Rachel M. Rahn, Lindsey M. Brier, Annie R. Bice, Matthew D. Reisman, Joseph D. Dougherty, Joseph P. Culver

A Positive Regulatory Feedback Loop Between EKLF/ KLF1 and TAL1/SCL Sustaining the Erythropoiesis
Chun-Hao Hung, Yu-Szu Huang, Tung-Liang Lee, Kang-Chung Yang, Yu-Chiau Shyu, Shau-Ching Wen, Mu-Jie Lu, Shinsheng Yuan, Che-Kun James Shen

P5A-ATPases control the ER translocation of Wnt for neuronal migration
Tingting Li, Xiaoyan Yang, Zhigang Feng, Wang Nie, Yan Zou

Drp1 SUMO/deSUMOylation by Senp5 isoforms influences ER tubulation and mitochondrial dynamics to regulate brain development
Seiya Yamada, Ayaka Sato, Hiroki Akiyama, Shin-ichi Sakakibara

Foxq2 determines blue cone identity in zebrafish
Yohey Ogawa, Tomoya Shiraki, Yoshitaka Fukada, Daisuke Kojima

Activation of innate immune signalling during development predisposes to inflammatory intestine and shortened lifespan
Kyoko Yamashita, Ayano Oi, Hina Kosakamoto, Toshitaka Yamauchi, Hibiki Kadoguchi, Takayuki Kuraishi, Masayuki Miura, Fumiaki Obata

Colony stimulating factor 1 signaling regulates myeloid fates in zebrafish via distinct action of its receptors and ligands
Martina Hason, Tereza Mikulasova, Olga Machonova, Antonio Pombinho, Tjakko J van Ham, Uwe Irion, Christiane Nüsslein-Volhard, Petr Bartunek, Ondrej Svoboda

Early construction of the thalamocortical axon pathway requires JNK signaling within the ventral forebrain
Jessica G. Cunningham, James D. Scripter, Stephany A. Nti, Eric S. Tucker

The TNF Egr participates in signaling during cell competition in the absence of a requirement for JNK
Albana Kodra, Claire de la Cova, Aditi Sharma Singh, Laura A. Johnston

R7 photoreceptor axon targeting depends on the relative levels of lost and found expression in R7 and its synaptic partners
Jessica Douthit, Ariel Hairston, Gina Lee, Carolyn A. Morrison, Isabel Holguera, Jessica E. Treisman

The Akt-mTOR pathway drives myelin sheath growth by regulating cap-dependent translation
Karlie N. Fedder-Semmes, Bruce Appel

Local autocrine signaling of IGF1 synthesized and released by CA1 pyramidal neurons regulates plasticity of dendritic spines
Xun Tu, Anant Jain, Helena Decker, Ryohei Yasuda

| Morphogenesis & mechanics

Optogenetic control of apical constriction induces synthetic morphogenesis in mammalian tissues
Guillermo Martínez-Ara, Núria Taberner, Mami Takayama, Elissavet Sandaltzopoulou, Casandra E. Villava, Nozomu Takata, Mototsugu Eiraku, Miki Ebisuya

Adhesion dynamics regulate cell intercalation behaviour in an active tissue
Alexander Nestor-Bergmann, Guy B. Blanchard, Nathan Hervieux, Alexander G. Fletcher, Jocelyn Étienne, Bénédicte Sanson

Tubulin Acetylation Promotes Penetrative Capacity of Cells Undergoing Radial Intercalation
Caitlin Collins, Sun K. Kim, Rosa Ventrella, Jen W. Mitchell, Brian Mitchell

Guidance by followers ensures long-range coordination of cell migration through α-Catenin mechanoperception
Arthur Boutillon, Diego Jahn, Sebastian Gonzalez-Tirado, Joern Starruss, Lutz Brusch, Nicolas B David

What basal membranes can tell us about viscous forces in Drosophila ventral furrow formation
Amanda Nicole Goldner, Konstantin Doubrovinski

Local density determines nuclear movements during syncytial blastoderm formation in a cricket
Seth Donoughe, Jordan Hoffmann, Taro Nakamura, Chris H. Rycroft, Cassandra G. Extavour

Caenorhabditis elegans LET-413 Scribble is essential in the epidermis for growth, viability, and directional outgrowth of epithelial seam cells
Amalia Riga, Janine Cravo, Ruben Schmidt, Helena R. Pires, Victoria G. Castiglioni, Sander van den Heuvel, Mike Boxem

Keratin dynamics govern the establishment of the maternal-fetal interface
Wallis Nahaboo, Sema Elif Eski, Marjorie Vermeersch, Bechara Saykali, Daniel Monteyne, Thomas M. Magin, Nicole Schwarz, An Zwijsen, David Perez-Morga, Sumeet Pal Singh, Isabelle Migeotte

Calcium waves facilitate and coordinate the contraction of endfeet actin stress fibers in Drosophila interommatidial cells
Donald F. Ready, Henry C. Chang

Pericyte-derived vitronectin regulates blood-CNS barrier function via integrin signaling
Swathi Ayloo, Christopher Gallego Lazo, Shenghuan Sun, Wei Zhang, Bianxiao Cui, Chenghua Gu

Fascin limits Myosin activity within Drosophila border cells to control substrate stiffness and promote migration
Maureen C. Lamb, Chathuri P. Kaluarachchi, Thiranjeewa I. Lansakara, Yiling Lan, Alexei V. Tivanski, Tina L. Tootle

SKAP2 as a new regulator of oligodendroglial migration and myelin sheath formation
J Ghelman, L Grewing, F Windener, S Albrecht, A Zarbock, T. Kuhlmann

Thyroid hormone regulates abrupt skin morphogenesis during zebrafish postembryonic development
Andrew J. Aman, Margaret Kim, Lauren M. Saunders, David M. Parichy

Light-mediated planar polarization of cone photoreceptor cilia contributes to visual acuity in mammals
Michael Housset, Dominic Filion, Nelson Cortes, Hojatollah Vali, Craig Mandato, Christian Casanova, Michel Cayouette

The Drosophila anterior-posterior axis is polarized by asymmetric myosin activation
Hélène Doerflinger, Vitaly Zimyanin, Daniel St Johnston

A neural progenitor mitotic wave is required for asynchronous axon outgrowth and morphology
Jérôme Lacoste, Hédi Soula, Angélique Burg, Agnès Audibert, Pénélope Darnat, Michel Gho, Sophie Louvet-Vallée

Patterned endogenous activity controls migration, morphogenesis and survival of adult-born neurons in the mouse olfactory bulb
Kaizhen Li, Katherine Figarella, Xin Su, Yury Kovalchuk, Jessika Gorzolka, Jonas J. Neher, Nima Mojtahedi, Nicolas Casadei, Ulrike Hedrich-Klimosch, Olga Garaschuk

Septins are essential for protrusion and detachment in collective border cell migration
Allison M. Gabbert, James A. Mondo, Joseph P. Campanale, Denise J. Montell

Collective border cell migration requires the zinc transporter Catsup to limit endoplasmic reticulum stress
Xiaoran Guo, Wei Dai, Denise Montell

Prostacyclin as a Negative Regulator of Angiogenesis in the Neurovasculature
Tasha Womack, Jiabing Li, Pavel Govyadinov, David Mayerich, Jason Eriksen

Cell division in tissues enables macrophage infiltration
Maria Akhmanova, Attila Gyoergy, Mikhail Vlasov, Fedor Vlasov, Daniel Krueger, Andrei Akopian, Shamsi Emtenani, Aparna Ratheesh, Stefano De Renzis, Daria E. Siekhaus

Zebrafish heme oxygenase 1a is necessary for normal development and macrophage migration
Kaiming Luo, Masahito Ogawa, Anita Ayer, Warwick J Britton, Roland Stocker, Kazu Kikuchi, Stefan H Oehlers

Optogenetic control of receptors reveals distinct roles for actin- and Cdc42-dependent negative signals in chemotactic signal processing
George R. R. Bell, Esther Rincón, Emel Akdoğan, Sean R. Collins

Somite morphogenesis is required for axial blood vessel formation
Eric Paulissen, Joshua S. Waxman, Benjamin L. Martin

Modulation of endometrial E-Cadherin and N-Cadherin by ovarian steroids and embryonic stimuli
Abhishek Tiwari, Nancy Ashray, Neha Singh, Shipra Sharma, Deepak Modi

Evidence for a Nuclear Role for Drosophila Dlg as a Regulator of the NURF Complex
Katherine A. Sharp, Mark J. Khoury, Frederick Wirtz-Peitz, David Bilder

Visualizing the organization and differentiation of the male-specific nervous system of C. elegans
Tessa Tekieli, Eviatar Yemini, Amin Nejatbakhsh, Erdem Varol, Robert W. Fernandez, Neda Masoudi, Liam Paninski, Oliver Hobert

The extracellular matrix controls stem cell specification and tissue morphology in the developing and adult gut
R. Ramadan, S. van Neerven, VM. Wouters, T. Martins Garcia, V. Muncan, OD. Franklin, M. Battle, KS. Carlson, J. Leach, OJ. Sansom, L. Vermeulen, JP. Medema, DJ. Huels

What basal membranes can tell us about viscous forces in Drosophila ventral furrow formation
Amanda N. Goldner, Konstantin Doubrovinski

On the mechanical regulation of epithelial tissue homeostasis
Sara Kaliman, Maxime Hubert, Carina Wollnik, Lovro Nuić, Damir Vurnek, Simone Gehrer, Jakov Lovrić, Diana Dudziak, Florian Rehfeldt, Ana-Sunčana Smith

Self-organization of Tissue Growth by Interfacial Mechanical Interactions in Multi-layered Systems
Tailin Chen, Yan Zhao, Xinbin Zhao, Shukai Li, Jialing Cao, Jing Du, Yanping Cao, Yubo Fan

Pkd1 and Wnt5a genetically interact to control lymphatic vascular morphogenesis in mice
Tevin CY. Chau, Sungmin Baek, Baptiste Coxam, Renae Skoczylas, Maria Rondon-Galeano, Neil I. Bower, Elanor N. Wainwright, Steven SA. Stacker, Helen M. Cooper, Anne K. Lagendijk, Natasha L. Harvey, Mathias François, Benjamin M. Hogan

Physical constraints on growth dynamics guide C. elegans developmental trajectories and animal shape
Joy Nyaanga, Christina Goss, Gaotian Zhang, Hannah N. Ahmed, Elliot J. Andersen, Isabella R. Miller, Justine K. Rozenich, Iris L. Swarthout, Jordan A. Vaughn, Erik C. Andersen, Niall M. Mangan, Sasha Shirman

| Genes & genomes

Developmental stage- and site-specific transitions in lineage specification and gene regulatory networks in human hematopoietic stem and progenitor cells
Anindita Roy, Guanlin Wang, Deena Iskander, Sorcha O’Byrne, Natalina Elliott, Jennifer O’Sullivan, Gemma Buck, Elisabeth F. Heuston, Wei Xiong Wen, Alba Rodriguez Meira, Peng Hua, Anastasios Karadimitiris, Adam J Mead, David Bodine, Irene Roberts, Bethan Psaila, Supat Thongjuea

In vivo dissection of a clustered-CTCF domain boundary reveals developmental principles of regulatory insulation
Chiara Anania, Rafael D. Acemel, Johanna Jedamzick, Adriano Bolondi, Giulia Cova, Norbert Brieske, Ralf Kühn, Lars Wittler, Francisca M. Real, Darío G. Lupiáñez

Maternal and zygotic factors sequentially shape the tissue regionalization of chromatin landscapes in early vertebrate embryos
Kitt D. Paraiso, Ira L. Blitz, Ken W.Y. Cho

Redundant mechanisms driven independently by RUNX1 and GATA2 for hematopoietic development
Erica Bresciani, Blake Carrington, Kai Yu, Erika M. Kim, Tao Zhen, Victoria Sanchez Guzman, Elizabeth Broadbridge, Kevin Bishop, Martha Kirby, Ursula Harper, Stephen Wincovitch, Stefania Dell’Orso, Vittorio Sartorelli, Raman Sood, Paul Liu

Cells of the human intestinal tract mapped across space and time
R Elmentaite, N Kumasaka, HW King, K Roberts, M Dabrowska, S Pritchard, L Bolt, SF Vieira, L Mamanova, N Huang, I Goh Kai’En, E Stephenson, J Engelbert, RA Botting, A Fleming, E Dann, SN Lisgo, M Katan, S Leonard, TRW Oliver, CE Hook, K Nayak, F Perrone, LS Campos, C Dominguez-Conde, K Polanski, S Van Dongen, M Patel, MD Morgan, JC Marioni, OA Bayraktar, KB Meyer, M Zilbauer, H Uhlig, MR Clatworthy, KT Mahbubani, K Saeb Parsy, M Haniffa, KR James, SA Teichmann

Temporal single-cell transcriptomes of zebrafish spinal cord pMN progenitors reveal distinct neuronal and glial progenitor populations
Kayt Scott, Rebecca O’Rourke, Caitlin Winkler, Christina A Kearns, Bruce Appel

Dynamics of a hepatocyte-cholangiocyte decision-making gene regulatory network during liver development and regeneration
Sarthak Sahoo, Ashutosh Mishra, Anna Mae Diehl, Mohit Kumar Jolly

Spatiotemporal patterns of neuronal subtype genesis suggest hierarchical development of retinal diversity
Emma R. West, Sylvain W. Lapan, ChangHee Lee, Kathrin M. Kajderowicz, Xihao Li, Connie L. Cepko

A somatic piRNA pathway regulates epithelial-to-mesenchymal transition of chick neural crest cells
Riley Galton, Katalin Fejes-Toth, Marianne E. Bronner

Hnrnpul1 controls transcription, splicing, and modulates skeletal and limb development in vivo
Danielle L Blackwell, Sherri D Fraser, Oana Caluseriu, Claudia Vivori, Amanda V Tyndall, Ryan E Lamont, Jillian S Parboosingh, A Micheil Innes, François P Bernier, Sarah J Childs

Embryo-to-embryo variability in RNAi knockdown efficiency of dKDM5/lid in Drosophila melanogaster
Ashley Albright, Michael Eisen

Maternal Piwi Regulates Primordial Germ Cell Development to Ensure the Fertility of Female Progeny in Drosophila
Lauren E Gonzalez, Xiongzhuo Tang, Haifan Lin

Hematopoietic differentiation is characterized by a transient peak of cell-to-cell gene expression variability in normal and pathological conditions
Charles Dussiau, Agathe Boussaroque, Mathilde Gaillard, Clotilde Bravetti, Laila Zaroili, Camille Knosp, Chloé Friedrich, Philippe Asquier, Lise Willems, Laurent Quint, Didier Bouscary, Michaela Fontenay, Thibault Espinasse, Adriana Plesa, Pierre Sujobert, Olivier Gandrillon, Olivier Kosmider

Blood vessels regulate primary motor neuronal pathfinding in zebrafish via exosome contained microRNA-22
Jiajing Sheng, Jie Gong, Yunwei Shi, Xin Wang, Dong Liu

Illuminati, a novel form of gene expression plasticity in Drosophila neural stem cells
Alix Goupil, Jan Peter Heinen, Fabrizio Rossi, Riham Salame, Carole Pennetier, Anthony Simon, Patricia Skorski, Anxela Lauzao Lauzao, Allison Bardin, Renata Basto, Cayetano Gonzalez

rDNA nascent transcripts promote a unique spatial organization during mouse early development
Martine Chebrout, Maimouna Coura Kone, Habib U. Jan, Marie Cournut, Martine Letheule, Renaud Fleurot, Tiphaine Aguirre-Lavin, Nathalie Peynot, Alice Jouneau, Nathalie Beaujean, Amélie Bonnet-Garnier

Distinct gene expression dynamics in germ line and somatic tissue during ovariole morphogenesis in Drosophila melanogaster
Shreeharsha G Tarikere, Guillem Ylla, Cassandra G. Extavour

delilah, prospero and D-Pax2 constitute a gene regulatory network essential for the development of functional proprioceptors
Adel Avetisyan, Yael Glatt, Maya Cohen, Yael Timerman, Nitay Aspis, Atalya Nachman, Naomi Halachmi, Ella Preger-Ben Noon, Adi Salzberg

Integrative multi-omics analysis reveals conserved hierarchical mechanisms of FOXO3 pioneer-factor activity
Abigail K. Brown, Sun Y. Maybury-Lewis, Ashley E. Webb

The testis-specific transcription factor TCFL5 responds to A-MYB to elaborate the male meiotic program in placental mammals
Deniz M. Özata, Tianxiong Yu, Katharine Cecchini, Haiwei Mou, Amena Arif, Cansu Colpan, Adriano Biasini, Ildar Gaitendinov, Dirk G. de Rooij, Zhiping Weng, Phillip D. Zamore

PRMT5 regulates ovarian follicle development by facilitating Wt1 translation
Min Chen, Fangfang Dong, Min Chen, Zhiming Shen, Haowei Wu, Changhuo Cen, Xiuhong Cui, Shilai Bao, Fei Gao

OTX2 homeoprotein functions in adult choroid plexus
Anabelle Planques, Vanessa Oliveira Moreira, David Benacom, Clémence Bernard, Laurent Jourdren, Corinne Blugeon, Florent Dingli, Vanessa Masson, Damarys Loew, Alain Prochiantz, Ariel A Di Nardo

mTOR driven gene transcription is required for cholesterol production in neurons of the developing cerebral cortex
Martin Schüle, Tamer Butto, Sri Dewi, Laura Schlichtholz, Susanne Strand, Susanne Gerber, Kristina Endres, Susann Schweiger, Jennifer Winter

Sobp modulates Six1 transcriptional activation and is required during craniofacial development
Andre L. P. Tavares, Karyn Jourdeuil, Karen M. Neilson, Himani D. Majumdar, Sally A. Moody

CA1 pyramidal cell diversity is rooted in the time of neurogenesis
Davide Cavalieri, Alexandra Angelova, Anas Islah, Catherine Lopez, Marco Bocchio, Agnès Baude, Rosa Cossart

The piRNA pathway sustains adult neurogenesis by reducing protein synthesis and cellular senescence
C. Gasperini, K. Tuntevski, R. Pelizzoli, A. Lo Van, D. Mangoni, R.M. Cossu, G. Pascarella, P. Bianchini, P. Bielefeld, M. Scarpato, M. Pons-Espinal, R. Sanges, A. Diaspro, C.P. Fitzsimons, P. Carninci, S. Gustincich, D De Pietri Tonelli

The SWI/SNF chromatin remodeling assemblies BAF and PBAF differentially regulate cell cycle exit and cellular invasion in vivo
Jayson J. Smith, Yutong Xiao, Nithin Parsan, Michael A. Q. Martinez, Frances E. Q. Moore, Nicholas J. Palmisano, Abraham Q. Kohrman, Mana Chandhok Delos Reyes, Rebecca C. Adikes, Taylor N. Medwig-Kinney, Simeiyun Liu, Sydney A. Bracht, Wan Zhang, Kailong Wen, Paschalis Kratsios, David Q. Matus

Spatial expression programs of the intestinal follicle-associated epithelium
Noam Cohen, Hassan Massalha, Shani Ben-Moshe, Adi Egozi, Milena Rozenberg, Keren Bahar Halpern, Shalev Itzkovitz

Joint actions of diverse transcription factor families ensure enhancer selectivity and robust neuron terminal differentiation
Angela Jimeno-Martín, Noemi Daroqui, Erick Sousa, Rebeca Brocal-Ruiz, Miren Maicas, Nuria Flames

Coronary blood vessels from distinct origins converge to equivalent states during mouse and human development
Ragini Phansalkar, Josephine Krieger, Mingming Zhao, Sai Saroja Kolluru, Robert C. Jones, Stephen R Quake, Irving Weissman, Daniel Bernstein, Virginia D. Winn, Gaetano D’Amato, Kristy Red-Horse

Single cell transcriptome profiling of the human developing spinal cord reveals a conserved genetic programme with human specific features
Teresa Rayon, Rory J. Maizels, Christopher Barrington, James Briscoe

Single-cell analysis of early chick hypothalamic development reveals that hypothalamic cells are induced from prethalamic-like progenitors
Dong Won Kim, Elsie Place, Kavitha Chinnaiya, Elizabeth Manning, Changyu Sun, Weina Dai, Kyoji Ohyama, Sarah Burbridge, Marysia Placzek, Seth Blackshaw

Progressive domain segregation in early embryonic development and underlying correlation to genetic and epigenetic changes
Hui Quan, Hao Tian, Sirui Liu, Yue Xue, Yu Zhang, Wei Xie, Yi Qin Gao

Drosophila primary microRNA-8 encodes a microRNA encoded peptide acting in parallel of miR-8
Audrey Montigny, Patrizia Tavormina, Carine Duboe, Hélène San Clémente, Marielle Aguilar, Philippe Valenti, Dominique Lauressergues, Jean-Philippe Combier, Serge Plaza

Parallel functional testing identifies enhancers active in early postnatal mouse brain
Jason T. Lambert, Linda Su-Feher, Karol Cichewicz, Tracy L. Warren, Iva Zdilar, Yurong Wang, Kenneth J. Lim, Jessica Haigh, Sarah J. Morse, Cesar P. Canales, Tyler W. Stradleigh, Erika Castillo, Viktoria Haghani, Spencer Moss, Hannah Parolini, Diana Quintero, Diwash Shrestha, Daniel Vogt, Leah C. Byrne, Alex S. Nord

Neurodevelopment vs. the immune system: complementary contributions of maternally-inherited gene transcripts and proteins to successful egg development in fish
Daniel Żarski, Aurelie Le Cam, Thomas Frohlich, Miwako Kösters, Christophe Klopp, Joanna Nynca, Sławomir Ciesielski, Beata Sarosiek, Katarzyna Dryl, Jerome Montfort, Jarosław Król, Pascal Fontaine, Andrzej Ciereszko, Julien Bobe

A single cell atlas reveals unanticipated cell type complexity in Drosophila ovaries
Maija Slaidina, Selena Gupta, Torsten Banisch, Ruth Lehmann

Chromatin remodeler Arid1a regulates subplate neuron identity and wiring of cortical connectivity
Daniel Z. Doyle, Mandy M. Lam, Adel Qalieh, Yaman Qalieh, Alice Sorel, Owen H. Funk, Kenneth Y. Kwan

The DNA-to-cytoplasm ratio broadly activates zygotic gene expression in Xenopus
David Jukam, Rishabh R Kapoor, Aaron F Straight, Jan M. Skotheim

A translation control module coordinates germline stem cell differentiation with ribosome biogenesis during Drosophila oogenesis
Elliot T. Martin, Patrick Blatt, Elaine Ngyuen, Roni Lahr, Sangeetha Selvam, Hyun Ah M. Yoon, Tyler Pocchiari, Shamsi Emtenani, Daria E. Siekhaus, Andrea Berman, Gabriele Fuchs, Prashanth Rangan

DNMT3A-dependent DNA methylation is required for spermatogonial stem cells to commit to spermatogenesis
Mathilde Dura, Aurélie Teissandier, Mélanie Armand, Joan Barau, Lorraine Bonneville, Michael Weber, Laura G. Baudrin, Sonia Lameiras, Deborah Bourc’his

A fast Myh super enhancer dictates adult muscle fiber phenotype through competitive interactions with the fast Myh genes
Matthieu Dos Santos, Stéphanie Backer, Frédéric Auradé, Matthew Wong, Maud Wurmser, Rémi Pierre, Francina Langa, Marcio Do Cruzeiro, Alain Schmitt, Jean-Paul Concordet, Athanassia Sotiropoulos, Jeffrey Dilworth, Daan Noordermeer, Frédéric Relaix, Iori Sakakibara, Pascal Maire

Topaz1, an essential gene for murine spermatogenesis, down-regulates the expression of numerous testis-specific long non-coding RNAs
Manon Chadourne, Elodie Poumerol, Luc Jouneau, Bruno Passet, Johan Castille, Eli Sellem, Eric Pailhoux, Béatrice Mandon-Pépin

The genetic architecture underlying body-size traits plasticity over different temperatures and developmental stages in Caenorhabditis elegans
Muhammad I. Maulana, Joost A.G. Riksen, Basten L. Snoek, Jan E. Kammenga, Mark G. Sterken

OCT4 interprets and enhances nucleosome flexibility
Caitlin M. MacCarthy, Jan Huertas, Claudia Ortmeier, Hermann vom Bruch, Deike Reinke, Astrid Sander, Tim Bergbrede, Hans R. Schöler, Vlad Cojocaru

Developmental regulation of neuronal gene expression by Elongator complex protein 1 dosage
Elisabetta Morini, Dadi Gao, Emily M. Logan, Monica Salani, Aram J. Krauson, Anil Chekuri, Yei-Tsung Chen, Ashok Ragavendran, Probir Chakravarty, Serkan Erdin, Alexei Stortchevoi, Jesper Q. Svejstrup, Michael E. Talkowski, Susan A. Slaugenhaupt

Drosophila fabp is a retinoid-inducible gene required for Rhodopsin-1 homeostasis and photoreceptor survival
Huai-Wei Huang, Hyung Don Ryoo

A complex CTCF binding code defines TAD boundary structure and function
Li-Hsin Chang, Sourav Ghosh, Andrea Papale, Mélanie Miranda, Vincent Piras, Jéril Degrouard, Mallory Poncelet, Nathan Lecouvreur, Sébastien Bloyer, Amélie Leforestier, David Holcman, Daan Noordermeer

TBX5 drives Aldh1a2 expression to regulate a RA-Hedgehog-Wnt gene regulatory network coordinating cardiopulmonary development
Scott A. Rankin, Jeffrey D. Steimle, Xinan H. Yang, Ariel B. Rydeen, Kunal Agarwal, Praneet Chaturvedi, Kohta Ikegami, Michael J. Herriges, Ivan P. Moskowitz, Aaron M. Zorn

Genomic organization of the autonomous regulatory domain of eyeless locus in Drosophila melanogaster
Shreekant Verma, Rashmi U Pathak, Rakesh K Mishra

| Stem cells, regeneration & disease modelling

Measurement of activity of developmental signal transduction pathways to quantify stem cell pluripotency and phenotypically characterize differentiated cells
Yvonne Wesseling-Rozendaal, Laurent Holtzer, Wim Verhaegh, Anja van de Stolpe

Translational specialization in pluripotency by RBPMS poises future lineage-decisions
Deniz Bartsch, Kaustubh Kalamkar, Gaurav Ahuja, Hisham Bazzi, Argyris Papantonis, Leo Kurian

Multipotent progenitors and hematopoietic stem cells arise independently during the endothelial to hematopoietic transition in the early mouse embryo
Tessa Dignum, Barbara Varnum-Finney, Sanjay Srivatsan, Stacey Dozono, Olivia Waltner, Adam Heck, Cynthia Nourigat-McKay, Dana L. Jackson, Shahin Rafii, Cole Trapnell, Irwin D. Bernstein, Brandon Hadland

Germline Sex Determination regulates sex-specific signaling between germline stem cells and their niche
Pradeep Kumar Bhaskar, Sheryl Southard, Kelly Baxter, Mark Van Doren

Adult Stem Cells and Niche Cells segregate gradually from common precursors that build the adult Drosophila ovary during pupal development
Amy Reilein, Helen V. Kogan, Rachel Misner, Karen Sophia Park, Daniel Kalderon

Clonal inactivation of telomerase promotes accelerated stem cell differentiation
Kazuteru Hasegawa, Yang Zhao, Alina Garbuzov, M. Ryan Corces, Lu Chen, Peggie Cheung, Yuning Wei, Howard Y. Chang, Steven E. Artandi

Comparative analyses of gene expression in common marmoset and human pluripotent stem cells (PSCs) identify factors enhancing homologous recombination efficiency in the HPRT locus of human PSCs
Sho Yoshimatsu, Mayutaka Nakajima, Tsukasa Sanosaka, Tsukika Sato, Hideyuki Okano

Mapping the biogenesis of forward programmed megakaryocytes from induced pluripotent stem cells
Moyra Lawrence, Arash Shahsavari, Susanne Bornelöv, Thomas Moreau, Katarzyna Kania, Maike Paramor, Rebecca McDonald, James Baye, Marion Perrin, Maike Steindel, Paula Jimenez-Gomez, Christopher Penfold, Irina Mohorianu, Cedric Ghevaert

me31B regulates stem cell homeostasis by preventing excess dedifferentiation in the Drosophila male germline
Lindy Jensen, Zsolt G. Venkei, George J. Watase, Bitarka Bisai, Scott Pletcher, Cheng-Yu Lee, Yukiko M. Yamashita

Cardiac Differentiation of Human Pluripotent Stem Cells Using Defined Extracellular Matrix Proteins Reveals Essential Role of Fibronectin
Jianhua Zhang, Ran Tao, Pratik A. Lalit, Juliana L. Carvalho, Yogananda Markandeya, Sean P. Palecek, Timothy J. Kamp

Surrogate production of genome edited sperm from a different subfamily by spermatogonial stem cell transplantation
Fenghua Zhang, Xianmei Li, Yongkang Hao, Yi Li, Ding Ye, Mudan He, Houpeng Wang, Zuoyan Zhu, Yonghua Sun

Single-Cell Multiomics Reveals Distinct Cell States at the Top of the Human Hematopoietic Hierarchy
Mikael N.E. Sommarin, Parashar Dhapola, Fatemeh Safi, Rebecca Warfvinge, Linda Geironson Ulfsson, Eva Erlandsson, Anna Konturek-Ciesla, Ram Krishna Thakur, Charlotta Böiers, David Bryder, Göran Karlsson

Myeloid and endothelial cells cooperate to promote hematopoietic stem cells expansion in the fetal niche
Pietro Cacialli, Marie-Pierre Mailhe, Rachel Golub, Julien Y. Bertrand

A secreted proteomic footprint for stem cell pluripotency
Philip Lewis, Edina Silajzick, Helen Smith, Nicola Bates, Christopher A Smith, David Knight, Chris Denning, Daniel R Brison, Susan J Kimber

Integrity of the short arm of nuclear pore Y-complex is required for mouse embryonic stem cell growth and differentiation
Alba Gonzalez-Estevez, Annalisa Verrico, Clarisse Orniacki, Bernardo Reina-San-Martin, Valérie Doye

tiRNA signaling via stress-regulated vesicle transfer in the hematopoietic niche
Youmna S. Kfoury, Fei Ji, Michael Mazzola, David B. Sykes, Allison K. Scherer, Anthony Anselmo, Yasutoshi Akiyama, Francois Mercier, Nicolas Severe, Konstantinos D. Kokkaliaris, Thomas Brouse, Borja Saez, Jefferson Seidl, Ani Papazian, Pavel Ivanov, Michael K. Mansour, Ruslan I. Sadreyev, David T. Scadden

Isolation of the side population from adult neurogenic niches enriches for endothelial cells
Alena Kalinina, Catherine Gnyra, Yingben Xue, Diane Lagace

The Expression of Angiopoietin-1 and −2 in the Osteogenesis of Mesenchymal Stem Cells
Jinwen Chen, Guangchan Yang, Jie Guo, Yuqin Liu, Jinchen Guo, Jiatao Suo, Hongyou Yu

PLURIPOTENT STEM CELL-DERIVED CARDIOVASCULAR PROGENITORS DIFFFERENTIATED ON LAMININ 221 REGENERATE AND IMPROVE FUNCTION OF INFARCTED SWINE HEARTS
Lynn Yap, Li Yen Chong, Clarissa Tan, Swarnaseetha Adusumalli, Millie Seow, Jing Guo, Zuhua Cai, Sze Jie Loo, Eric Lim, Narayan Lath, Lei Ye, Enrico G. Petretto, Karl Tryggvason

TAZ/TEAD complex regulates TGF-β1-mediated fibrosis in iPSC-derived renal organoids
Xiaoping Yang, Marco Delsante, Parnaz Daneshpajouhnejad, Paride Fenaroli, Kira Perzel Mandell, Xiaoxin Wang, Shogo Takahashi, Marc K. Halushka, Jeffrey B. Kopp, Moshe Levi, Avi Z. Rosenberg

A comprehensive transcriptome signature of murine hematopoietic stem cell aging
Arthur Flohr Svendsen, Daozheng Yang, KyungMok Kim, Seka Lazare, Natalia Skinder, Erik Zwart, Anna Mura-Meszaros, Albertina Ausema, Björn von Eyss, Gerald de Haan, Leonid Bystrykh

Epigenomic profiling of stem cells within the pilosebaceous unit identifies PRDM16 as a regulator of sebaceous gland homeostasis
Rizwan Rehimi, Giuliano Crispatzu, Carlos Andrés Chacón-Martínez, Tore Bleckwehl, Giada Mantellato, Gökcen Gözüm, Mathieu Clément-Ziza, Sara A. Wickström, Catherin Niemann, Carien Niessen, Alvaro Rada-Iglesias

Functional, metabolic and transcriptional maturation of stem cell derived beta cells
Diego Balboa, Tom Barsby, Väinö Lithovius, Jonna Saarimäki-Vire, Muhmmad Omar-Hmeadi, Oleg Dyachok, Hossam Montaser, Per-Eric Lund, Mingyu Yang, Hazem Ibrahim, Anna Näätänen, Vikash Chandra, Helena Vihinen, Eija Jokitalo, Jouni Kvist, Jarkko Ustinov, Anni I. Nieminen, Emilia Kuuluvainen, Ville Hietakangas, Pekka Katajisto, Joey Lau, Per-Ola Carlsson, Sebastian Barg, Anders Tengholm, Timo Otonkoski

Self-organized yolk sac-like organoids allow for scalable generation of multipotent hematopoietic progenitor cells from human induced pluripotent stem cells
Naritaka Tamaoki, Stefan Siebert, Takuya Maeda, Ngoc-Han Ha, Meghan L. Good, Yin Huang, Suman Kumar Vodnala, Juan J. Haro-Mora, Naoya Uchida, John F. Tisdale, Colin L. Sweeney, Uimook Choi, Julie Brault, Sherry Koontz, Harry L. Malech, Yasuhiro Yamazaki, Risa Isonaka, David S. Goldstein, Masaki Kimura, Takanori Takebe, Jizhong Zou, David F. Stroncek, Pamela G. Robey, Michael J. Kruhlak, Nicholas P. Restifo, Raul Vizcardo

A Single Cell Atlas of Spared Tissue Below a Spinal Cord Injury Reveals Cellular Mechanisms of Repair
Kaya JE Matson, Daniel E Russ, Claudia Kathe, Dragan Maric, Isabelle Hua, Jonathan Krynitsky, Randall Pursley, Anupama Sathyamurthy, Jordan W Squair, Gregoire Courtine, Ariel J Levine

Aerobic glycolysis is important for zebrafish larval wound closure and tail regeneration
Claire A. Scott, Tom J. Carney, Enrique Amaya

Single-cell resolution of MET and EMT programs during zebrafish fin regeneration
Weishene Joyce Tang, Claire Watson, Theresa A Olmstead, Christopher H Allan, Ronald Y Kwon

Plagl1 is part of the mammalian retinal injury response and a critical regulator of Müller glial cell quiescence
Yacine Touahri, Luke Ajay David, Yaroslav Ilnytskyy, Edwin van Oosten, Joseph Hanna, Nobuhiko Tachibana, Lata Adnani, Jiayi Zhao, Mary Hoffman, Rajiv Dixit, Laurent Journot, Yves Sauve, Igor Kovalchuk, Isabelle Aubert, Jeffrey Biernaskie, Carol Schuurmans

Co-targeting myelin inhibitors and CSPGs markedly enhances regeneration of GDNF-stimulated, but not conditioning-lesioned, sensory axons into the spinal cord
Jinbin Zhai, Hyukmin Kim, Seung Baek Han, Meredith Manire, Rachel Yoo, Shuhuan Pang, George M. Smith, Young-Jin Son

Regeneration in the adult Drosophila brain
Kassi L. Crocker, Khailee Marischuk, Stacey A. Rimkus, Hong Zhou, Jerry C.P. Yin, Grace Boekhoff-Falk

Necrosis-induced apoptosis promotes regeneration in Drosophila wing imaginal discs
Jacob Klemm, Michael J. Stinchfield, Robin E. Harris

Heterogeneous pdgfrβ+ cells regulate coronary vessel development and revascularization during heart regeneration
Subir Kapuria, Haipeng Bai, Juancarlos Fierros, Ying Huang, Feiyang Ma, Tyler Yoshida, Antonio Aguayo, Fatma Kok, Katie M. Wiens, Joycelyn K. Yip, Megan L. McCain, Matteo Pellegrini, Mikiko Nagashima, Peter F. Hitchcock, Nathan D. Lawson, Michael MR Harrison, Ching-Ling Lien

The microRNA miR-18a links proliferation and inflammation during photoreceptor regeneration in the injured zebrafish retina
Evin Magner, Pamela Sandoval-Sanchez, Peter F. Hitchcock, Scott M. Taylor

Neurotrophic control of size regulation during axolotl limb regeneration
Kaylee M. Wells-Enright, Kristina Kelley, Mary Baumel, Warren A. Vieira, Catherine D. McCusker

Urgent Brain Vascular Regeneration Occurs via Lymphatic Transdifferentiation
Jingying Chen, Xiuhua Li, Rui Ni, Qi Chen, Qifen Yang, Jianbo He, Lingfei Luo

Retinal ganglion cell survival after severe optic nerve injury is modulated by crosstalk between JAK/STAT signaling and innate immune responses in the zebrafish retina
Si Chen, Kira L. Lathrop, Takaaki Kuwajima, Jeffrey M. Gross

Alzheimer’s disease-associated TM2D genes regulate Notch signaling and neuronal function in Drosophila
Jose L. Salazar, Sheng-An Yang, Yong Qi Lin, David Li-Kroeger, Paul C. Marcogliese, Samantha L. Deal, G. Gregory Neely, Shinya Yamamoto

AAV-delivery of diacylglycerol kinase kappa achieves long-term rescue of Fmr1-KO mouse model deficits of fragile X syndrome
Karima Habbas, Oktay Cakil, Boglarka Zambo, Ricardos Tabet, Fabrice Riet, Doulaye Dembele, Jean-Louis Mandel, Michaël Hocquemiller, Ralph Laufer, Françoise Piguet, Hervé Moine

Sequential defects in cardiac lineage commitment and maturation cause hypoplastic left heart syndrome
Markus Krane, Martina Dreßen, Gianluca Santamaria, Ilaria My, Christine M. Schneider, Tatjana Dorn, Svenja Laue, Elisa Mastantuono, Riccardo Berutti, Hilansi Rawat, Ralf Gilsbach, Pedro Schneider, Harald Lahm, Sascha Schwarz, Stefanie A. Doppler, Sharon Paige, Nazan Puluca, Sophia Doll, Irina Neb, Thomas Brade, Zhong Zhang, Claudia Abou-Ajram, Bernd Northoff, Lesca M. Holdt, Stefanie Sudhop, Makoto Sahara, Alexander Goedel, Andreas Dendorfer, Fleur V.Y. Tjong, Maria E. Rijlaarsdam, Julie Cleuziou, Nora Lang, Christian Kupatt, Connie Bezzina, Rüdiger Lange, Neil E. Bowles, Matthias Mann, Bruce Gelb, Lia Crotti, Lutz Hein, Thomas Meitinger, Sean Wu, Daniel Sinnecker, Peter J. Gruber, Karl-Ludwig Laugwitz, Alessandra Moretti

Developmental Alcohol Exposure in Drosophila: Effects on Adult Phenotypes and Gene Expression in the Brain
Sneha S. Mokashi, Vijay Shankar, Rebecca A. MacPherson, Rachel C. Hannah, Trudy F. C. Mackay, Robert R. H. Anholt

Developmental HCN channelopathy results in decreased neural progenitor proliferation and microcephaly in mice
Anna Katharina Schlusche, Sabine Ulrike Vay, Niklas Kleinenkuhnen, Steffi Sandke, Rafael Campos-Martin, Marta Florio, Wieland Huttner, Achim Tresch, Jochen Roeper, Maria Adele Rueger, Igor Jakovcevski, Malte Stockebrand, Dirk Isbrandt

fmr1 mutation interacts with sensory experience to alter the early development of behavior and sensory coding in zebrafish
Shuyu Zhu, Michael McCullough, Zac Pujic, Jordan Sibberas, Biao Sun, Bianca Bucknall, Lilach Avitan, Geoffrey J Goodhill

Using Human Induced Pluripotent Stem Cell Derived Organoids to Identify New Pathologies in Patients with PDX1 Mutations
Mansa Krishnamurthy, Daniel O Kechele, Taylor Broda, Xinghao Zhang, Jacob R Enriquez, Heather A McCauley, J Guillermo Sanchez, Joseph Palermo, Margaret Collins, Inas H Thomas, Haley C Neef, Amer Heider, Andrew Dauber, James M Wells

Neonatal neuronal WWOX gene therapy rescues Wwox null phenotypes
Srinivasarao Repudi, Irina Kustanovich, Sara Abu-Swai, Shani Stern, Rami I. Aqeilan

The role of Kabuki Syndrome genes KMT2D and KDM6A in development: Analysis in Human sequencing data and compared to mice and zebrafish
Rwik Sen, Ezra Lencer, Elizabeth A. Geiger, Kenneth Jones, Tamim H. Shaikh, Kristin Bruk Artinger

Mutations affecting the N-terminal domains of SHANK3 point to different pathomechanisms in neurodevelopmental disorders
Daniel Woike, Emily Wang, Debora Tibbe, Fatemeh Hassani Nia, Maria Kibæk, Martin J. Larsen, Christina R. Fagerberg, Igor Barsukov, Hans-Jürgen Kreienkamp

Autism risk gene POGZ promotes chromatin accessibility and expression of clustered synaptic genes
Eirene Markenscoff-Papadimitriou, Fadya Binyameen, Sean Whalen, James Price, Kenneth Lim, Rinaldo Catta-Preta, Emily Ling-Lin Pai, Xin Mu, Duan Xu, Katherine S. Pollard, Alex Nord, Matthew W. State, John L. Rubenstein

Novel zebrafish mutants reveal new roles for Apolipoprotein B during embryonic development and pathological conditions
Hanoch Templehof, Noga Moshe, Inbal Avraham-Davidi, Karina Yaniv

| Plant development

Nuclear retention of pre-mRNA involving Cajal bodies during meiotic prophase in plants
Magda Rudzka, Malwina Hyjek-Składanowska, Patrycja Wróblewska-Ankiewicz, Karolina Majewska, Marcin Gołębiewski, Marcin Sikora, Dariusz Jan Smoliński, Agnieszka Kołowerzo-Lubnau

Rapid auxin-mediated phosphorylation of Myosin regulates trafficking and polarity in Arabidopsis
Huibin Han, Inge Verstraeten, Mark Roosjen, Ewa Mazur, Nikola Rýdza, Jakub Hajný, Krisztina Ötvös, Dolf Weijers, Jiří Friml

CRISPR-Cas12a genome editing at the whole-plant level using two compatible RNA virus vectors
Mireia Uranga, Marta Vazquez-Vilar, Diego Orzáez, José-Antonio Daròs

The hexose transporter SWEET5 confers galactose sensitivity to Arabidopsis pollen via the galactokinase GALK
Jiang Wang, Ya-Chi Yu, Ye Li, Li-Qing Chen

NAC transcription factor RD26 is a regulator of root hair morphogenic plasticity
Iman Kamranfar, Salma Balazadeh, Bernd Mueller-Roeber

Locally restricted glucose availability in the embryonic hypocotyl determines seed germination under ABA treatment
Xueyi Xue, Ya-Chi Yu, Yue Wu, Huiling Xue, Li-Qing Chen

The ORGAN SIZE (ORG) locus contributes to isometric gigantism in domesticated tomato
Mateus Henrique Vicente, Kyle MacLeod, Cassia Regina Fernandes Figueiredo, Antonio Vargas de Oliveira Figueira, Fady Mohareb, Zoltán Kevei, Andrew J. Thompson, Agustin Zsögön, Lázaro Eustáquio Pereira Peres

Spatiotemporal cytokinin signaling imaging reveals IPT3 function in nodule development in Medicago truncatula
Paolo M. Triozzi, Thomas B. Irving, Henry W. Schmidt, Zachary P. Keyser, Sanhita Chakraborty, Kelly M. Balmant, Wendell J. Pereira, Christopher Dervinis, Kirankumar S. Mysore, Jiangqi Wen, Jean-Michel Ané, Matias Kirst, Daniel Conde

PSK signaling controls ABA homeostasis and signaling genes and maintains shoot growth under osmotic stress
Komathy Rajamanickam, Martina D. Schönhof, Bettina Hause, Margret Sauter

Abscisic acid modulates auxin-responsive hypocotyl elongation
Ryan J. Emenecker, Joseph Cammarata, Irene Yuan, Lucia C. Strader

The F-box protein AFF1 regulates ARF protein accumulation to regulate auxin response
Hongwei Jing, David A. Korasick, Ryan J. Emenecker, Nicholas Morffy, Edward G. Wilkinson, Samantha K. Powers, Lucia C. Strader

Transcriptional condensates formed by phase-separated ALOG family proteins control shoot meristem maturation for flowering
Xiaozhen Huang, Nan Xiao, Yue Xie, Lingli Tang, Yueqin Zhang, Yuan Yu, Cao Xu

Torsions-Driven Root Helical Growth, Waving And Skewing In Arabidopsis
Ke Zhou

Cyclic Nucleotide-Gated Ion Channel 2 modulates auxin homeostasis and signaling
Sonhita Chakraborty, Masatsugu Toyota, Wolfgang Moeder, Kimberley Chin, Alex Fortuna, Marc Champigny, Steffen Vanneste, Simon Gilroy, Tom Beeckman, Eiji Nambara, Keiko Yoshioka

Maize RAMOSA3 accumulates in nuclear condensates enriched in RNA POLYMERASE II isoforms during the establishment of axillary meristem determinacy
Edgar Demesa-Arevalo, Maria Jazmin Abraham-Juarez, Xiaosa Xu, Madelaine Bartlett, David Jackson

Class II LBD genes ZmLBD5 and ZmLBD33 regulate gibberellin and abscisic acid biosynthesis
Jing Xiong, Xuanjun Feng, Weixiao Zhang, Xianqiu Wang, Yue Hu, Xuemei Zhang, Fengkai Wu, Wei Guo, Wubing Xie, Qingjun Wang, Jie Xu, Yanli Lu

FRUITFULL-like genes regulate flowering time and inflorescence architecture in tomato
Xiaobing Jiang, Greice Lubini, José Hernandes-Lopes, Kim Rijnsburger, Vera Veltkamp, Ruud A. de Maagd, Gerco C. Angenent, Marian Bemer

SAMBA controls the rate of cell division in maize development through APC/C interaction
Pan Gong, Michiel Bontinck, Kirin Demuynck, Jolien De Block, Kris Gevaert, Dominique Eeckhout, Geert Persiau, Stijn Aesaert, Griet Coussens, Mieke Van Lijsebettens, Laurens Pauwels, Geert De Jaeger, Dirk Inzé, Hilde Nelissen

H2A ubiquitination is essential for Polycomb Repressive Complex 1-mediated gene regulation in Marchantia polymorpha
Shujing Liu, Minerva S. Trejo-Arellano, Yichun Qiu, D. Magnus Eklund, Claudia Köhler, Lars Hennig

Sugar Signaling Induces Dynamic Changes during Meristem Development in Arabidopsis
Magdalena Musialak-Lange, Katharina Fiddeke, Annika Franke, Friedrich Kragler, Christin Abel, Vanessa Wahl

A heterochromatic knob reducing the flowering time in maize
Renata Flávia Carvalho, Margarida Lopes Rodrigues Aguiar-Perecin, Wellington Ronildo Clarindo, Roberto Fristche-Neto, Mateus Mondin

The barley mutant multiflorus2.b reveals quantitative genetic variation for new spikelet architecture
Ravi Koppolu, Guojing Jiang, Sara G Milner, Quddoos H Muqaddasi, Twan Rutten, Axel Himmelbach, Nils Stein, Martin Mascher, Thorsten Schnurbusch

A CENH3 mutation promotes meiotic exit and restores fertility in SMG7-deficient Arabidopsis
Claudio Capitao, Sorin Tanasa, Jaroslav Fulnecek, Vivek K. Raxwal, Svetlana Akimcheva, Petra Bulankova, Pavlina Mikulkova, Inna Lermontova, Ortrun Mittelsten Scheid, Karel Riha

Root meristem shaping via brassinosteroid-controlled cell geometry
Y. Fridman, S. Strauss, G. Horev, M. Ackerman-Lavert, A Reiner Benaim, B Lane, R.S. Smith, S. Savaldi-Goldstein

Altered metal distribution in the sr45-1 Arabidopsis mutant causes developmental defects
Steven Fanara, Marie Schloesser, Marc Hanikenne, Patrick Motte

Tissue-specific metabolic reprogramming during wound induced de novo organ formation in tomato hypocotyl explants
Eduardo Larriba, Ana Belen Sanchez-Garcia, Cristina Martinez-Andujar, Alfonso Albacete, Jose Manuel Perez-Perez Sr.

Jasmonate inhibits adventitious root initiation through transcriptional repression of CKX1 and activation of RAP2.6L transcription factor in Arabidopsis
Asma Dob, Abdellah Lakehal, Ondrej Novak, Catherine Bellini

Generation of guard cell RNA-seq transcriptomes during progressive drought and recovery using an adapted INTACT protocol for Arabidopsis thaliana shoot tissue
Anna van Weringh, Asher Pasha, Eddi Esteban, Paul J. Gamueda, Nicholas J. Provart

Transcriptomic analysis of temporal shifts in berry development between two grapevine cultivars of the Pinot family reveals potential ripening-regulative genes
Jens Theine, Daniela Holtgräwe, Katja Herzog, Florian Schwander, Anna Kicherer, Ludger Hausmann, Prisca Viehöver, Reinhard Töpfer, Bernd Weisshaar

DNA methylation affects pre-mRNA transcriptional initiation and processing in Arabidopsis
Qiuhui Li, Shengjie Chen, Amy Wing-Sze Leung, Yaqin Liu, Yan Xin, Li Zhang, Hon-Ming Lam, Ruibang Luo, Shoudong Zhang

Light-triggered and phosphorylation-dependent 14-3-3 association with NONPHOTOTROPIC HYPOCOTYL 3 is required for hypocotyl phototropism
Lea Reuter, Tanja Schmidt, Prabha Manishankar, Christian Throm, Jutta Keicher, Andrea Bock, Claudia Oecking

Metaphloem development in the Arabidopsis root tip
Moritz Graeff, Christian S. Hardtke

Integration of embryo-endosperm interaction into a holistic and dynamic picture of seed development using a rice mutant with notched-belly grains
Yang Tao, Lu An, Feng Xiao, Ganghua Li, Yanfeng Ding, Matthew J. Paul, Zhenghui Liu

Cell layer-specific expression of the B-class MADS-box gene PhDEF drives petal tube or limb development in petunia flowers
M. Chopy, Q. Cavallini-Speisser, P. Chambrier, P. Morel, J. Just, V. Hugouvieux, S. Rodrigues Bento, C. Zubieta, M. Vandenbussche, M. Monniaux

Repression of CHROMOMETHYLASE 3 Prevents Epigenetic Collateral Damage in Arabidopsis
Ranjith K. Papareddy, Katalin Páldi, Anna D. Smolka, Patrick Hüther, Claude Becker, Michael D. Nodine

Integration of computational modeling and quantitative cell physiology reveals central parameters for the brassinosteroid-regulated elongation growth along the axis of the Arabidopsis root tip
Ruth Großeholz, Friederike Wanke, Nina Glöckner, Leander Rohr, Stefan Scholl, Karin Schumacher, Ursula Kummer, Klaus Harter

The Boundary-Expressed EPIDERMAL PATTERNING FACTOR-LIKE2 Gene Encoding a Signaling Peptide Promotes Cotyledon Growth during Arabidopsis thaliana Embryogenesis
Rina Fujihara, Naoyuki Uchida, Toshiaki Tameshige, Nozomi Kawamoto, Yugo Hotokezaka, Takumi Higaki, Ruediger Simon, Keiko U Torii, Masao Tasaka, Mitsuhiro Aida

O-glycosylation regulates plant developmental transitions downstream of miR156
Krishna Vasant Mutanwad, Alexandra Baekelandt, Nicole Neumayer, Claudia Freitag, Isabella Zangl, Dirk Inzé, Doris Lucyshyn

A cis-regulatory atlas in maize at single-cell resolution
Alexandre P. Marand, Zongliang Chen, Andrea Gallavotti, Robert J. Schmitz

| Evo-devo

Axis formation in annual killifish: Nodal coordinates morphogenesis in absence of Huluwa prepatterning
Philip B. Abitua, Deniz C. Aksel, Alexander F. Schier

Insm1-expressing neurons and secretory cells develop from a common pool of progenitors in the sea anemone Nematostella vectensis
Océane Tournière, Henriette Busengdal, James M. Gahan, Fabian Rentzsch

The neuroblast timer gene nubbin exhibits functional redundancy with gap genes to regulate segment identity in Tribolium
Olivia RA Tidswell, Matthew A Benton, Michael E Akam

Eye morphogenesis in the blind Mexican cavefish
Lucie Devos, François Agnès, Joanne Edouard, Victor Simon, Laurent Legendre, Naima El Khallouki, Sosthène Barbachou, Frédéric Sohm, Sylvie Rétaux

Co-option of the Limb Patterning Program in Cephalopod Lens Development
Stephanie Neal, Kyle J. McCulloch, Francesca Napoli, Christina M. Daly, James H. Coleman, Kristen M. Koenig

Molluscan dorsal-ventral patterning relying on bmp2/4 and chordin provides insights into spiralian development and bilaterian evolution
Sujian Tan, Pin Huan, Baozhong Liu

Evolution of a cytoplasmic determinant: evidence for the biochemical basis of functional evolution of a novel germ line regulator
Leo Blondel, Savandara Besse, Cassandra G. Extavour

Evolutionary dynamics of sex-biased genes expressed in cricket brains and gonads
Carrie A. Whittle, Arpita Kulkarni, Cassandra G. Extavour

Segment number threshold determines juvenile onset of germline cluster proliferation in Platynereis dumerilii
Emily Kuehn, David S. Clausen, Ryan W. Null, Bria M. Metzger, Amy D. Willis, B. Duygu Özpolat

Resolving Between Novelty and Homology in the Rapidly Evolving Phallus of Drosophila
Gavin R. Rice, Jean R. David, Nicolas Gompel, Amir Yassin, Mark Rebeiz

Activation of EGFR signaling by Tc-Vein and Tc-Spitz regulates the metamorphic transition in the red flour beetle Tribolium castaneum
Sílvia Chafino, David Martín, Xavier Franch-Marro

The unique neuronal structure and neuropeptide repertoire in the ctenophore Mnemiopsis leidyi shed light on the evolution of animal nervous systems
Maria Y Sachkova, Eva-Lena Nordmann, Joan J Soto-Àngel, Yasmin Meeda, Bartłomiej Górski, Benjamin Naumann, Daniel Dondorp, Marios Chatzigeorgiou, Maike Kittelmann, Pawel Burkhardt

Developmental series of gene expression clarifies maternal mRNA provisioning and maternal-to-zygotic transition in the reef-building coral Montipora capitata
E Chille, E Strand, M Neder, V Schmidt, M Sherman, T Mass, HM Putnam

Tempo and mode of gene expression evolution in the brain across Primates
Amy L. Bauernfeind, Trisha M. Zintel, Jason Pizzollo, John J. Ely, Mary Ann Raghanti, William D. Hopkins, Patrick R. Hof, Chet C. Sherwood, Courtney C. Babbitt

A muscle-related contractile tissue specified by MRTF-activity in Porifera
J. Colgren, S.A. Nichols

Novel neuroanatomical integration and scaling define avian brain shape evolution and development
Akinobu Watanabe, Amy M. Balanoff, Paul M. Gignac, M. Eugenia Gold, Mark A. Norell

Rapid mosaic brain evolution under artificial selection for relative telencephalon size in the guppy (Poecilia reticulata)
Stephanie Fong, Björn Rogell, Mirjam Amcoff, Alexander Kotrschal, Wouter van der Bijl, Séverine D. Buechel, Niclas Kolm

Sexual Reproduction in Bdelloid Rotifers
Veronika N. Laine, Timothy Sackton, Matthew Meselson

Evolution of multicellularity and unicellularity in yeast S. cerevisiae to study reversibility of evolutionary trajectories
Phaniendra Alugoju, Anjali Mahilkar, Supreet Saini

Human-derived alleles in SOST and RUNX2 3′UTRs cause differential regulation in a bone cell-line model
Juan Moriano, Núria Martínez-Gil, Alejandro Andirkó, Susana Balcells, Daniel Grinberg, Cedric Boeckx

Functional characterization of a “plant-like” HYL1 homolog in the cnidarian Nematostella vectensis indicates a conserved involvement in microRNA biogenesis
Abhinandan Mani Tripathi, Arie Fridrich, Magda Lewandowska, Yehu Moran

Lower promoter activity of the ST8SIA2 gene has been favored in evolving human collective brains
Toshiyuki Hayakawa, Masahiro Terahara, Naoko T. Fujito, Takumi Matsunaga, Kosuke Teshima, Masaya Hane, Ken Kitajima, Chihiro Sato, Naoyuki Takahata, Yoko Satta

Widespread retention of ohnologs in key developmental gene families following whole genome duplication in arachnopulmonates
Amber Harper, Luis Baudouin Gonzalez, Anna Schönauer, Ralf Janssen, Michael Seiter, Michaela Holzem, Saad Arif, Alistair P. McGregor, Lauren Sumner-Rooney

Development of larvae of the Australian blowfly, Calliphora augur (Diptera: Calliphoridae), at constant temperatures
Donnah M. Day, Nathan J. Butterworth, Anirudh Tagat, Gregory Markowsky, James F. Wallman

Phylotranscriptomics points to multiple independent origins of multicellularity and cellular differentiation in the volvocine algae
Charles Ross Lindsey, Frank Rosenzweig, Matthew D Herron

Why is the expression of so many genes rhythmic? Energetic cost explains protein rhythmicity and expression noise control explains mRNA rhythmicity
David Laloum, Marc Robinson-Rechavi

The hourglass model of evolutionary conservation during embryogenesis extends to developmental enhancers with signatures of positive selection
Jialin Liu, Rebecca R. Viales, Pierre Khoueiry, James P. Reddington, Charles Girardot, Eileen E. M. Furlong, Marc Robinson-Rechavi

Cell Biology

Glycogen-dependent demixing of frog egg cytoplasm at increased crowding
James F. Pelletier, Christine M. Field, Margaret Coughlin, Lillia Ryazanova, Matthew Sonnett, Martin Wühr, Timothy J. Mitchison

Tau, XMAP215/Msps and Eb1 co-operate interdependently to regulate microtubule polymerisation and bundle formation in axons
Ines Hahn, Andre Voelzmann, Jill Parkin, Judith Fuelle, Paula G Slater, Laura A Lowery, Natalia Sanchez-Soriano, Andreas Prokop

Liquid-to-solid phase transition of oskar RNP granules is essential for their function in the Drosophila germline
Mainak Bose, Julia Mahamid, Anne Ephrussi

Actin polymerization and crosslinking drive left-right asymmetry in single cell and cell collectives
Y. H. Tee, W. J. Goh, X. Yong, H. T. Ong, J. Hu, I. Y. Y. Tay, S. Shi, S. Jalal, S. F. H. Barnett, P. Kanchanawong, W. Huang, J. Yan, V. Thiagarajan, A. D. Bershadsky

Enhanced RhoA signaling stabilizes E-cadherin in migrating epithelial monolayers
Shafali Gupta, Kinga Duszyc, Suzie Verma, Srikanth Budnar, Xuan Liang, Guillermo A. Gomez, Philippe Marcq, Ivar Noordstra, Alpha S. Yap

Nuclei are mobile processors enabling specialization in a gigantic single-celled syncytium
Tobias Gerber, Cristina Loureiro, Nico Schramma, Siyu Chen, Akanksha Jain, Anne Weber, Anne Weigert, Malgorzata Santel, Karen Alim, Barbara Treutlein, J. Gray Camp

Alternative splicing of pericentrin contributes to cell cycle control in cardiomyocytes
Jakob Steinfeldt, Robert Becker, Silvia Vergarajauregui, Felix B. Engel

The Hippo pathway regulates density-dependent proliferation of iPSC-derived cardiac myocytes
Abigail C. Neininger, Xiaozhaun Dai, Qi Liu, Dylan T. Burnette

Phosphoproteomics of ATR Signaling in Prophase I of Mouse Meiosis
Jennie R. Sims, Vitor M. Faça, Catalina Pereira, Gerardo A. Arroyo-Martinez, Raimundo Freire, Paula E. Cohen, Robert S. Weiss, Marcus B. Smolka

Egalitarian feeds forward to Staufen to inhibit Dynein during mRNP transport
Imre Gáspár, Ly Jane Phea, Anne Ephrussi

Cytoskeletal vimentin regulates cell size and autophagy through mTORC1 signaling
Ponnuswamy Mohanasundaram, Leila S Coelho Rato, Mayank Modi, Marta Urbanska, Franziska Lautenschläger, Fang Cheng, John E Eriksson

A Scribble-E-cadherin complex controls daughter cell patterning by multiple mechanisms
Anchi S. Chann, Ye Chen, Tanja Kinwel, Patrick O. Humbert, Sarah M. Russell

A gene duplication of a septin provides a developmentally-regulated filament length control mechanism
Kevin S. Cannon, Jose M. Vargas-Muniz, Neil Billington, Ian Seim, Joanne Ekena, James Sellers, Peter Philippsen, Amy. S. Gladfelter

Cytoplasmic pressure maintains epithelial integrity and inhibits cell motility
Pragati Chengappa, Tia M. Jones, James M. Cowan, Devneet Kainth, Ryan J. Petrie

Temporal resolution of melanogenesis determine fatty acid metabolism as key skin pigment regulator
Farina Sultan, Reelina Basu, Divya Murthy, Manisha Kochar, Kuldeep S. Attri, Ayush Aggrawal, Pooja Kumari, Pooja Dnyane, Archana Singh, Chetan Gadgil, Neel S. Bhavesh, Pankaj K. Singh, Vivek T. Natarajan, Rajesh S. Gokhale

Endothelial metastasis-associated protein 1 (MTA1) is an essential molecule for angiogenesis
Mizuho Ishikawa, Mitsuhiko Osaki, Narumi Uno, Takahito Ohira, Hiroyuki Kugoh, Futoshi Okada

Rho and F-actin self-organize within an artificial cell cortex
Jennifer Landino, Marcin Leda, Ani Michaud, Zachary T. Swider, Mariah Prom, Christine M. Field, William M. Bement, Anthony G. Vecchiarelli, Andrew B. Goryachev, Ann L. Miller

aPC/PAR1 confers endothelial anti-apoptotic activity via a discrete β-arrestin-2 mediated SphK1-S1PR1-Akt signaling axis
Olivia Molinar-Inglis, Cierra A. Birch, Dequina Nicholas, Metztli Cisneros-Aguirre, Anand Patwardhan, Buxin Chen, Neil J. Grimsey, Patrick K. Gomez Menzies, Huilan Lin, Luisa J. Coronel, Mark A. Lawson, Hemal. H. Patel, JoAnn Trejo

Multiple 9-1-1 complexes promote homolog synapsis, DSB repair, and ATR signaling during mammalian meiosis
Catalina Pereira, Gerardo A. Arroyo-Martinez, Matthew Z. Guo, Michael S. Downey, Emma R. Kelly, Kathryn J. Grive, Shantha K. Mahadevaiah, Jennie Sims, Vitor Marcel Faça, Charlton Tsai, Carl J. Schiltz, Niek Wit, Heinz Jacobs, Nathan L. Clark, Raimundo Freire, James M. A. Turner, Amy M. Lyndaker, Miguel A. Brieño-Enríquez, Paula E. Cohen, Marcus B. Smolka, Robert S. Weiss

Rab40/Cullin5 complex regulates EPLIN and actin cytoskeleton dynamics during cell migration and invasion
Erik S Linklater, Emily D Duncan, Ke-Jun Han, Algirdas Kaupinis, Mindaugas Valius, Traci R Lyons, Rytis Prekeris

Modelling

Cellular tango: How extracellular matrix adhesion choreographs Rac-Rho signaling and cell movement
Elisabeth G. Rens, Leah Edelstein-Keshet

Cost-precision trade-off relation determines the optimal morphogen gradient for accurate biological pattern formation
Yonghyun Song, Changbong Hyeon

Improving the understanding of cytoneme-mediated morphogen gradients by in silico modeling
Adrián Aguirre-Tamaral, Isabel Guerrero

Effect of cellular rearrangement time delays on the rheology of vertex models for confluent tissues
Gonca Erdemci-Tandogan, M. Lisa Manning

Multiple morphogens and rapid elongation promote segmental patterning during development
Yuchi Qiu, Lianna Fung, Thomas F. Schilling, Qing Nie

The need for high-quality oocyte mitochondria at extreme ploidy dictates germline development
Marco Colnaghi, Andrew Pomiankowski, Nick Lane

HYBRID REACTION-DIFFUSION AND CLOCK-AND-WAVEFRONT MODEL FOR THE ARREST OF OSCILLATIONS IN THE SOMITOGENESIS SEGMENTATION CLOCK
Jesús Pantoja-Hernández, Víctor F. Breña-Medina, Moisés Santillán

Oscillations and Bifurcation Structure of Reaction-Diffusion Model for Cell Polarity Formation
Masataka Kuwamura, Hirofumi Izuhara, Shin-ichiro Ei

Polarized interfacial tension induces collective migration of cells, as a cluster, in a three-dimensional tissue
Satoru Okuda, Katsuhiko Sato

Reviews

Tissue hydraulics: physics of lumen formation and interaction
Alejandro Torres-Sánchez, Max Kerr Winter, Guillaume Salbreux

Tools & Resources

Optogenetic relaxation of actomyosin contractility uncovers mechanistic roles of cortical tension during cytokinesis
Kei Yamamoto, Haruko Miura, Motohiko Ishida, Satoshi Sawai, Yohei Kondo, Kazuhiro Aoki

High-Resolution, Large Imaging Volume, and Multi-View Single Objective Light-Sheet Microscopy
Bin Yang, Merlin Lange, Alfred Millett-Sikking, Ahmet Can Solak, Shruthi Vijay Kumar, Wanpeng Wang, Hirofumi Kobayashi, Matthew N. McCarroll, Lachlan W. Whitehead, Reto P. Fiolka, Thomas B. Kornberg, Andrew G. York, Loic A. Royer

ZAF — An Open Source Fully Automated Feeder for Aquatic Facilities
Merlin Lange, Ahmet Can Solak, Shruthi VijayKumar, Hirofumi Kobayashi, Bin Yang, Loic Alain Royer

Capturing Membrane Trafficking Events During 3D Angiogenic Development in Vitro
Caitlin R. Francis, Erich J. Kushner

Development of a 3D atlas of the embryonic pancreas for topological and quantitative analysis of heterologous cell interactions
Laura Glorieux, Aleksandra Sapala, David Willnow, Manon Moulis, Shlomit Edri, Jean-Francois Darrigrand, Anat Schonblum, Lina Sakhneny, Laura Schaumann, Harold F Gomez, Christine Lang, Lisa Conrad, Fabien Guillemot, Shulamit Levenberg, Limor Landsman, Dagmar Iber, Christophe Pierreux, Francesca M Spagnoli

A Cre-dependent CRISPR/dCas9 system for gene expression regulation in neurons
Nancy V. N. Carullo, Jenna E. Hinds, Jasmin S. Revanna, Jennifer J. Tuscher, Allison J. Bauman, Jeremy J. Day

Computational anatomy and geometric shape analysis enables analysis of complex craniofacial phenotypes in zebrafish
Kelly M. Diamond, Sara M. Rolfe, Ronald Y. Kwon, A. Murat Maga

Multiview tiling light sheet microscopy for 3D high resolution live imaging
Mostafa Aakhte, H.-Arno J. Müller

Single-Molecule Tracking of Chromatin-Associated Proteins in the C. elegans Gonad
Lexy von Diezmann, Ofer Rog

Microfluidic-based imaging of complete C. elegans larval development
Simon Berger, Silvan Spiri, Andrew deMello, Alex Hajnal

CRISPR Knock-in Designer: automatic oligonucleotide design software to introduce point mutations using CRISPR/Cas9
Sergey V. Prykhozhij, Vinothkumar Rajan, Kevin Ban, Jason N. Berman

Measuring nonapoptotic caspase activity with a transgenic reporter in mice
P. J. Nicholls, Thomas F. Pack, Nikhil M. Urs, Sunil Kumar, Yang Zhou, Gabor Turu, Evan Calabrese, Wendy L. Roberts, Ping Fan, Valeriy G. Ostapchenko, Monica S. Guzman, Flavio Beraldo, Vania F. Prado, Marco A. M. Prado, Ivan Spasojevic, Joshua C. Snyder, Kafui Dzirasa, G. Allan Johnson, Marc G. Caron

Multiphoton imaging of neural structure and activity in Drosophila through the intact cuticle
Max Jameson Aragon, Mengran Wang, Aaron T. Mok, Jamien Shea, Haein Kim, Nathan Barkdull, Chris Xu, Nilay Yapici

Protein visualization and manipulation in Drosophila through the use of epitope tags recognized by nanobodies
Jun Xu, Ah-Ram Kim, Ross W. Cheloha, Fabian A. Fischer, Joshua Shing Shun Li, Yuan Feng, Emily Stoneburner, Richard Binari, Stephanie E. Mohr, Jonathan Zirin, Hidde Ploegh, Norbert Perrimon

Technical advances in the development of zonation liver in vitro systems that incorporate localized Wnt activating signals
Eider Valle-Encinas, Michael Dawes, Carmen Velasco Martinez, Kate McSweeney, Miryam Müller, Tom Bird, Trevor Dale

Photoswitchable epothilone-based microtubule stabilisers allow GFP-imaging-compatible, optical control over the microtubule cytoskeleton
Li Gao, Joyce C. M. Meiring, Constanze Heise, Ankit Rai, Adrian Müller-Deku, Anna Akhmanova, Julia Thorn-Seshold, Oliver Thorn-Seshold

Rapid generation of pigment free, immobile zebrafish embryos and larvae in any genetic background using CRISPR-Cas9 dgRNPs
Andrew E. Davis, Daniel Castranova, Brant M. Weinstein

A comprehensive analysis of gene expression changes in a high replicate and open-source dataset of differentiating hiPSC-derived cardiomyocytes
Tanya Grancharova, Kaytlyn A. Gerbin, Alexander B. Rosenberg, Charles M. Roco, Joy Arakaki, Colette DeLizzo, Stephanie Q. Dinh, Rory Donovan-Maiye, Matthew Hirano, Angelique Nelson, Joyce Tang, Julie A. Theriot, Calysta Yan, Vilas Menon, Sean P. Palecek, Georg Seelig, Ruwanthi N. Gunawardane

Oligopaint DNA FISH as a tool for investigating meiotic chromosome dynamics in the silkworm, Bombyx mori
Leah F. Rosin, Jose Gil Jr., Ines A. Drinnenberg, Elissa P. Lei

A Focal Adhesion Filament Cross-correlation Kit for fast, automated segmentation and correlation of focal adhesions and actin stress fibers in cells
Lara Hauke, Shwetha Narasimhan, Andreas Primeßnig, Irina Kaverina, Florian Rehfeldt

tdLanYFP, a yellow, bright, photostable and pH insensitive fluorescent protein for live cell imaging and FRET-based sensing strategies
Y. Bousmah, H. Valenta, G. Bertolin, U. Singh, V. Nicolas, H. Pasquier, M. Tramier, F. Merola, M. Erard

A new method for obtaining bankable and expandable adult-like microglial cells
Min-Jung You, Chan Rim, Youn-Jung Kang, Min-Soo Kwon

Standardized quality control workflow to evaluate the reproducibility and differentiation potential of human iPSCs into neurons
Carol X.-Q. Chen, Narges Abdian, Gilles Maussion, Rhalena A. Thomas, Iveta Demirova, Eddie Cai, Mahdieh Tabatabaei, Lenore K. Beitel, Jason Karamchandani, Edward A. Fon, Thomas M. Durcan

Marker-assisted mapping enables effective forward genetic analysis in the arboviral vector Aedes aegypti, a species with vast recombination deserts
Chujia Chen, Austin Compton, Katerina Nikolouli, Aihua Wang, Azadeh Aryan, Atashi Sharma, Yumin Qi, Camden Delinger, Melanie Hempel, Antonios Augustinos, David W. Severson, Kostas Bourtzis, Zhijian Tu

Single-shot phase contrast microscopy using polarisation-resolved differential phase contrast
R. Kalita, W. Flanagan, J. Lightley, S. Kumar, Y. Alexandrov, E. Garcia, M. Hintze, M Barkoulas, C. Dunsby, P.M.W. French

A Dual-Color Tyr-FISH Method for Visualizing Genes/Markers on Plant Chromosomes to Create Integrated Genetic and Cytogenetic Maps
Natalya Kudryavtseva, Aleksey Ermolaev , Gennady Karlov , Ilya Kirov , Masayoshi Shigyo, Shusei Sato , Ludmila Khrustaleva

An ELISA-based method for rapid genetic screens in Drosophila
Taylor R Jay, Yunsik Kang, Amanda Jefferson, Marc R Freeman

Evidence provided by high-impact cell culture studies does not support authors’ claims
Ali Burak Özkaya, Caner Geyik

Multi-color fluorescence fluctuation spectroscopy in living cells via spectral detection
Valentin Dunsing, Annett Petrich, Salvatore Chiantia

Research practice & education

A field guide to cultivating computational biology
Anne E Carpenter, Casey S Greene, Piero Carnici, Benilton S Carvalho, Michiel de Hoon, Stacey Finley, Kim-Anh Le Cao, Jerry SH Lee, Luigi Marchionni, Suzanne Sindi, Fabian J Theis, Gregory P Way, Jean YH Yang, Elana J Fertig

A tool for assessing alignment of biomedical data repositories with open, FAIR, citation and trustworthy principles
Fiona Murphy, Michael Bar-Sinai, Maryann E. Martone

How faculty define quality, prestige, and impact in research
Esteban Morales, Erin McKiernan, Meredith T. Niles, Lesley Schimanski, Juan Pablo Alperin

Preprints in motion: tracking changes between posting and journal publication
Jessica K Polka, Gautam Dey, Máté Pálfy, Federico Nanni, Liam Brierley, Nicholas Fraser, Jonathon Alexis Coates

Using Stakeholder Insights to Enhance Engagement in PhD Professional Development
Deepti Ramadoss, Amanda F. Bolgioni, Rebekah L. Layton, Janet L. Alder, Natalie Lundsteen, C. Abigail Stayart, Jodi B. Yellin, Conrad L. Smart, Susi S. Varvayanis

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