the community site for and by developmental biologists

October in preprints

Posted by , on 2 November 2020

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


The preprints this month are hosted on bioRxiv and arXiv – 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 & evo
Cell biology
Modelling
Tools & resources
Research practice & education

 

Developmental biology

| Patterning & signalling

The Almond plumage color pattern is associated with eye pigmentation defects in the domestic pigeon (Columba livia)
Rebecca Bruders, Max Sidesinger, Michael D. Shapiro

 

A novel juxtamembrane basolateral targeting motif regulates TGF-β receptor signaling in Drosophila
Aidan J. Peterson, Stephen J. Murphy, Melinda G. Mundt, Maryjane Shimell, Edward B. Leof, Michael B. O’Connor

 

Fly lymph glands from Spratford, et al.

 

Intermediate Progenitor cells provide a transition between hematopoietic progenitors and their differentiated descendants
Carrie M Spratford, Lauren M Goins, Fangtao Chi, Juliet R Girard, Savannah N Macias, Vivien W Ho, Utpal Banerjee

 

Fly ventral nerve cords from Daiber, et al.

 

Conserved and divergent aspects of Robo receptor signaling and regulation between Drosophila Robo1 and C. elegans SAX-3
Trent Daiber, Christine J. VanderZwan-Butler, Greg J. Bashaw, Timothy A. Evans

 

Cytonemes with complex geometries and composition extend into invaginations of target cells
Brent M. Wood, Valentina Baena, Hai Huang, Mark Terasaki, Thomas B. Kornberg

 

The Hippo pathway controls myofibril assembly and muscle fiber growth by regulating sarcomeric gene expression
Aynur Kaya-Çopur, Fabio Marchiano, Marco Y. Hein, Daniel Alpern, Julie Russeil, Nuno Miguel Luis, Matthias Mann, Bart Deplancke, Bianca H. Habermann, Frank Schnorrer

 

Ancestral dietary change alters development of Drosophila larvae through MAPK signalling
Samuel G. Towarnicki, Neil A. Youngson, Susan M. Corley, Jus C. St John, Nigel Turner, Margaret J. Morris, J. William O. Ballard

 

Non-apoptotic enteroblast-specific role of the initiator caspase Dronc for development and homeostasis of the Drosophila intestine
Jillian L Lindblad, Meghana Tare, Alla Amcheslavsky, Alicia Shields, Andreas Bergmann

 

Toll-9 interacts with Toll-1 to mediate a feedback loop during apoptosis-induced proliferation in Drosophila
Alicia Shields, Alla Amcheslavsky, Elizabeth Brown, Yingchao Nie, Takahiro Tanji, Y. Tony Ip, Andreas Bergmann

 

Rspo2 inhibits TCF3 phosphorylation to antagonize Wnt signaling during vertebrate anteroposterior axis specification
Alice H Reis, Sergei Y Sokol

 

A β-catenin-driven switch in TCF/LEF transcription factor binding to DNA target sites promotes commitment of mammalian nephron progenitor cells
Qiuyu Guo, Albert Kim, Bin Li, Andrew Ransick, Helena Bugacov, Xi Chen, Nils Lindstrom, Aaron Brown, Leif Oxburgh, Bing Ren, Andrew P. McMahon

 

CLOCK/BMAL1 interferes with segmentation clock oscillation in mouse embryonic organoids
Yasuhiro Umemura, Nobuya Koike, Yoshiki Tsuchiya, Hitomi Watanabe, Gen Kondoh, Ryoichiro Kageyama, Kazuhiro Yagita

 

Mouse dendrites from Aihara, et al.

 

BMPR-2 gates activity-dependent stabilization of dendrites during mitral cell remodeling
Shuhei Aihara, Satoshi Fujimoto, Richi Sakaguchi, Takeshi Imai

 

Enhancer of Zeste Homolog 2 (Ezh2) is essential for patterning of multiple musculoskeletal tissues but dispensable for tendon differentiation
Deepanwita Pal, Scott M Riester, Bashar Hasan, Sara F Tufa, Amel Dudakovic, Douglas R Keene, Andre van Wijnen, Ronen Schweitzer

 

A novel Golgi-associated Vangl2 translational variant required for PCP regulation in vertebrates
Alexandra Walton, Diego Revinski, Arnauld Sergé, Stéphane Audebert, Luc Camoin, Tania M Puvirajesinghe, Daniel Isnardon, Sylvie Marchetto, Laurent Kodjabachian, Eric Bailly, Jean-Paul Borg

 

Male sex hormones increase excitatory neuron production in developing human neocortex
Iva Kelava, Ilaria Chiaradia, Laura Pellegrini, Alex T Kalinka, Madeline A Lancaster

 

Sonic hedgehog signaling directs patterned cell remodeling during cranial neural tube closure
Eric R. Brooks, Mohammed T. Islam, Kathryn V. Anderson, Jennifer A. Zallen

 

Spinal cord precursors utilize neural crest cell mechanisms to generate hybrid peripheral myelinating glia
Laura Fontenas, Sarah Kucenas

 

HIFα regulates developmental myelination independent of autocrine Wnt signaling
Sheng Zhang, Yan Wang, Jie Xu, Wenbin Deng, Fuzheng Guo

 

Metabolic Plasticity drives Development during Mammalian Embryogenesis
Mark S. Sharpley, Fangtao Chi, Utpal Banerjee

 

Gastruloids in Girgin & Lutolf

 

Gastruloids generated without exogenous Wnt activation develop anterior neural tissues
Mehmet U. Girgin, Matthias P. Lutolf

 

BMP signalling facilitates transit amplification in the developing cerebellum
V Rook, P Haldipur, K Millen, RJ Wingate, T Butts

 

Zebrafish Kit ligands cooperate with erythropoietin to promote erythroid cell expansion
Jana Oltova, Ondrej Svoboda, Olga Machonova, Petra Svatonova, David Traver, Michal Kolar, Petr Bartunek

 

Self-activation of Wnt signaling in pre-granulosa cells is required for ovarian folliculogenesis
Okiko Habara, Catriona Y. Logan, Masami Kanai-Azuma, Roeland Nusse, Hinako M. Takase

 

Oleic acid triggers hippocampal neurogenesis by binding to TLX/NR2E1
Prasanna Kandel, Fatih Semerci, Aleksandar Bajic, Dodge Baluya, LiHua Ma, Kevin Chen, Austin Cao, Tipwarin Phongmekhin, Nick Matinyan, William Choi, Alba Jiménez-Panizo, Srinivas Chamakuri, Idris O. Raji, Lyra Chang, Pablo Fuentes-Prior, Kevin R. MacKenzie, Caroline L. Benn, Eva Estébanez-Perpiñá, Koen Venken, David D. Moore, Damian W. Young, Mirjana Maletic-Savatic

 

Temporal changes in plasma membrane lipid content induce endocytosis to regulate developmental epithelial-to-mesenchymal transition
Michael L. Piacentino, Erica J. Hutchins, Cecelia J. Andrews, Marianne E. Bronner

 

Onset of taste bud cell renewal starts at birth and coincides with a shift in SHH function.
Erin J. Golden, Eric D. Larson, Lauren A. Shechtman, G. Devon Trahan, Dany Gaillard, Timothy J. Fellin, Jennifer K. Scott, Kenneth L. Jones, Linda A. Barlow

 

Gpr125 identifies myoepithelial progenitors at tips of lacrimal ducts and is essential for tear film
Elena Spina, Rebecca Handlin, Julia Simundza, Angela Incassati, Muneeb Faiq, Anoop Sainulabdeen, Kevin C Chan, Pamela Cowin

 

Quantitation analysis by flow cytometry shows that Wt1 is required for development of the proepicardium and epicardium
Christine Biben, Bette Borobokas, Mary Kamala Menon, Lynne Hartley, Richard Paul Harvey, Samir Taoudi, Owen William John Prall

 

Cardiac Sex Differences are Established Prior to Gonad Formation
Wei Shi, Xinlei Sheng, Kerry M. Dorr, Josiah E. Hutton, Haley A. Davies, Tia D. Andrade, Todd M. Greco, Yutaka Hashimoto, Joel D. Federspiel, Zachary L. Robbe, Xuqi Chen, Arthur P. Arnold, Ileana M. Cristea, Frank L. Conlon

 

DOT1L methyltransferase regulates the calcium influx in erythroid progenitor cells in response to erythropoietin
Yi Feng, Shaon Borosha, Anamika Ratri, Sami M. Housami, V. Praveen Chakravarthi, Huizhen Wang, Jay L. Vivian, Timothy A Fields, William Kinsey, MA Karim Rumi, Patrick E. Fields

 

Trophectoderm differentiation to invasive syncytiotrophoblast is induced by endometrial epithelial cells during human embryo implantation
Peter T Ruane, Terence Garner, Lydia Parsons, Phoebe A Babbington, Susan J Kimber, Adam Stevens, Melissa Westwood, Daniel R Brison, John D Aplin

 

Retinal organoids in Kroeger, et al.

 

The Endoplasmic Reticulum Proteostasis Regulator ATF6 is Essential for Human Cone Photoreceptor Development
Heike Kroeger, Julia M. D. Grandjean, Wei-Chieh Jerry Chiang, Daphne Bindels, Rebecca Mastey, Jennifer Okalova, Amanda Nguyen, Evan T. Powers, Jeffery W. Kelly, Neil J. Grimsey, Michel Michaelides, Joseph Carroll, R. Luke Wiseman, Jonathan H. Lin

 

Eomesodermin is functionally conserved between zebrafish and mouse in spite of different mutant phenotypic severities, and controls left/right organiser formation via interlocking feedforward loops
Conor D. Talbot, Mark D. Walsh, Stephen J. Cutty, Randa Elsayed, Ashley E. E. Bruce, Fiona C. Wardle, Andrew C. Nelson

 

AIBP-CAV1-VEGFR3 axis dictates lymphatic cell fate and controls lymphangiogenesis
Xiaojie Yang, Jun-dae Kim, Qilin Gu, Qing Yan, Jonathan Astin, Philip S Crosier, Pengchun Yu, Stanley G Rockson, Longhou Fang

 

Buprenorphine exposure alters the development and migration of interneurons in the cortex
Vanesa Nieto-Estevez, Jennifer J. Donegan, Courtney McMahon, Hannah B. Elam, Teresa A. Chavera, Parul Varma, Kelly A. Berg, Daniel J. Lodge, Jenny Hsieh

 

 

 

 

 

| Morphogenesis & mechanics

 

Force-dependent remodeling of a tight junction protein ZO-1 is regulated by phase separation
Noriyuki Kinoshita, Takamasa S. Yamamoto, Naoko Yasue, Toshihiko Fujimori, Naoto Ueno

 

Girdin regulates dendrite morphogenesis and cilium position in two specialized sensory neuron types in C. elegans
Inna Nechipurenko, Sofia Lavrentyeva, Piali Sengupta

 

Mapping calcium dynamics in a developing tubular structure
Jorgen Hoyer, Morsal Saba, Daniel Dondorp, Kushal Kolar, Riccardo Esposito, Marios Chatzigeorgiou

 

Combinatorial patterns of graded RhoA activation and uniform F-actin depletion promote tissue curvature
Marlis Denk-Lobnig, Natalie C Heer, Adam C Martin

 

Wing idscs from Ramírez Moreno, et al.

 

The Adaptor Protein Complex 1 limits E-cadherin endocytosis during epithelial morphogenesis
Miguel Ramírez Moreno, Katy Boswell, Natalia A. Bulgakova

 

Fly egg chamber from Alhadyian, et al.

 

Septate junction proteins are required for egg elongation and border cell migration during oogenesis in Drosophila
Haifa Alhadyian, Dania Shoiab, Robert E. Ward IV

 

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

 

Collective nuclear behavior shapes bilateral nuclear symmetry for subsequent left-right asymmetric morphogenesis in Drosophila
Dongsun Shin, Mitsutoshi Nakamura, Yoshitaka Morishita, Mototsugu Eiraku, Tomoko Yamakawa, Takeshi Sasamura, Masakazu Akiyama, Mikiko Inaki, Kenji Matsuno

 

A Diaphanous and Enabled dependent asymmetric actin cable array repositions nuclei during Drosophila oogenesis
Gregory Logan, Brooke M. McCartney

 

Electrostatic Plasma Membrane Targeting is Essential for Dlg Function in Cell Polarity and Tumorigenesis
Juan Lu, Wei Dong, Yan Tao, Yang Hong

 

The Pebble/Rho1/Anillin pathway controls polyploidization and axonal wrapping activity in the glial cells of the Drosophila eye
Lígia Tavares, Patrícia Grácio, Raquel Ramos, Rui Traquete, João B. Relvas, Paulo S. Pereira

 

Attractive internuclear force drives the collective behavior of nuclear arrays in Drosophila embryos
Xiaoxuan Wu, Kakit Kong, Wenlei Xiao, Feng Liu

 

Statistical validation verifies that enantiomorphic states of cell chirality are determinant dictating the left- or right-handed direction of the hindgut rotation in Drosophila
Tomoki Ishibashi, Mikiko Inaki, Kenji Matsuno

 

Fly eyes from Pojer, et al.

 

Crumbs and the Apical Spectrin Cytoskeleton Regulate R8 Cell Fate in the Drosophila eye
Jonathan M. Pojer, Shu Kondo, Kieran F. Harvey

 

Numerical evaluation reveals the effect of branching morphology on vessel transport properties during angiogenesis
Fatemeh Mirzapour-shafiyi, Yukinori Kametani, Takao Hikita, Yosuke Hasegawa, Masanori Nakayama

 

Zebrafish axons in Moore, et al.

 

Actin-based protrusions lead microtubules during stereotyped axon initiation in spinal neurons in vivo
Rachel E. Moore, Sînziana Pop, Caché Alleyne, Jonathan DW Clarke

 

Worm guts from Sallee, et al.

 

Apical PAR complex proteins protect against epithelial assaults to create a continuous and functional intestinal lumen
Maria D. Sallee, Melissa A. Pickett, Jessica L. Feldman

 

Ectoderm to mesoderm transition by downregulation of actomyosin contractility
Leily Kashkooli, David Rozema, Lina Espejo-Ramirez, Paul Lasko, François Fagotto

 

The versican-hyaluronan complex provides an essential extracellular matrix niche for Flk1+ hematoendothelial progenitors
Sumeda Nandadasa, Anna O’Donnell, Ayako Murao, Yu Yamaguchi, Ronald J Midura, Lorin Olson, Suneel S Apte

 

Knockout of zebrafish desmin genes does not cause skeletal muscle degeneration but alters calcium flux
Gulsum Kayman Kurekci, Ecem Kural Mangit, Cansu Koyunlar, Seyda Unsal, Berk Saglam, Bora Ergin, Ismail Uyanik, Niloufar Boustanabadimaralan Düz, Beril Talim, Nuhan Purali, Simon M. Hughes, Pervin R. Dincer

 

Filopodia-based contact stimulated collective migration drives tissue morphogenesis
Maik C. Bischoff, Sebastian Lieb, Renate Renkawitz-Pohl, Sven Bogdan

 

 

| Genes & genomes

 

Worm embryonic divisions from Prosée, et al.

 

Trans-generational inheritance of centromere identity requires the CENP-A N-terminal tail in the C. elegans maternal germ line
Reinier F. Prosée, Joanna M. Wenda, Caroline Gabus, Kamila Delaney, Francoise Schwager, Monica Gotta, Florian A. Steiner

 

Cryptic genetic variation in a heat shock protein shapes the expressivity of a mutation affecting stem cell behaviour in C. elegans
Sneha L. Koneru, Mark Hintze, Dimitris Katsanos, Michalis Barkoulas

 

Context dependent activation/repression by Hunchback binding sites in Drosophila embryo
Stefano Ceolin, Monika Hanf, Max Schnepf, Christophe Jung, Ulrich Unnerstall, Ulrike Gaul

 

The Drosophila histone demethylase KDM5 is required during early neurodevelopment for proper mushroom body formation and cognitive function
Hayden A. M. Hatch, Helen M. Belalcazar, Owen J. Marshall, Julie Secombe

 

The histone demethylase KDM5 is required for synaptic structure and function at the Drosophila neuromuscular junction
Julie Secombe, Helen M Belalcazar, Emily L Hendricks, Sumaira Zamurrad, Faith L.W. Liebl

 

Fly brains in Tsiarli, et al.

 

The transcription factor CLAMP is required for neurogenesis in Drosophila melanogaster
Maria A. Tsiarli, Ashley M. Conard, Lucy Xu, Erica Nguyen, Erica N. Larschan

 

Single-cell transcriptomes of developing and adult olfactory receptor neurons in Drosophila
Colleen N. McLaughlin, Maria Brbić, Qijing Xie, Tongchao Li, Felix Horns, Sai Saroja Kolluru, Justus M. Kebschull, David Vacek, Anthony Xie, Jiefu Li, Robert C. Jones, Jure Leskovec, Steven R. Quake, Liqun Luo, Hongjie Li

 

Global regulatory transitions at core promoters demarcate the mammalian germline cycle
Nevena Cvetesic, Malgorzata Borkowska, Yuki Hatanaka, Harry G Leitch, Ferenc Mueller, Changwei Yu, Stephane D Vincent, Laszlo Tora, Petra Hajkova, Boris Lenhard

 

Haploid mouse germ cell precursors from embryonic stem cells reveal Xist activation from a single X chromosome
Eishi Aizawa, Corinne Kaufmann, Sarah Sting, Remo Freimann, Anton Wutz

 

Precision of Tissue Patterning is Controlled by Dynamical Properties of Gene Regulatory Networks
Katherine Exelby, Edgar Herrera-Delgado, Lorena Garcia Perez, Ruben Perez-Carrasco, Andreas Sagner, Vicki Metzis, Peter Sollich, James Briscoe

 

System-level analyses of keystone genes required for mammalian tooth development
Outi Hallikas, Rishi Das Roy, Mona M. Christensen, Elodie Renvoisé, Ana-Marija Sulic, Jukka Jernvall

 

Implantation and Gastrulation Abnormalities Characterize Early Embryonic Lethal Mouse Lines
Yeonsoo Yoon, Joy Riley, Judith Gallant, Ping Xu, Jaime A. Rivera-Pérez

 

Chick neural crest in Hutchins, Chacon and Bronner

 

RNA-binding protein Elavl1/HuR is required for maintenance of cranial neural crest specification
Erica J. Hutchins, Jose Chacon, Marianne E. Bronner

 

Olig3 acts as a master regulator of cerebellar development
Elijah D. Lowenstein, Aleksandra Rusanova, Jonas Stelzer, Marc Hernaiz-Llorens, Adrian E. Schroer, Ekaterina Epifanova, Francesca Bladt, Eser Göksu Isik, Shiqi Jia, Victor Tarabykin, Luis R. Hernandez-Miranda

 

The transcription factor BCL11A defines a distinctive subset of dopamine neurons in the developing and adult midbrain
Marianna Tolve, Ayse Ulusoy, Khondker Ushna Sameen Islam, Gabriela O. Bodea, Ece Öztürk, Bianca Broske, Astrid Mentani, Antonia Wagener, Karen van Loo, Stefan Britsch, Pengtao Liu, Walid Khaled, Stephan Baader, Donato A. Di Monte, Sandra Blaess

 

Mouse brains from Winkler, et al.

 

Unraveling the transcriptional networks that drive oligodendrocyte fate specification in Sonic hedgehog-responsive neocortical progenitors
Caitlin C. Winkler, Luuli N. Tran, Ellyn P. Milan, Fernando García-Moreno, Santos J. Franco

 

THAP1 Modulates Oligodendrocyte Maturation by Regulating ECM Degradation in Lysosomes
Dhananjay Yellajoshyula, Samuel S. Pappas, Abigail Rogers, Biswa Choudhury, Xylena Reed, Jinhui Ding, Mark R. Cookson, Vikram Shakkottai, Roman Giger, William T. Dauer

 

Transcriptome profiling of the Olig2-expressing astrocyte subtype reveals their unique molecular signature
David Ohayon, Marion Aguirrebengoa, Nathalie Escalas, Cathy Soula

 

Fish microglia from Iyer, et al.

 

Repression of lysosomal transcription factors Tfeb and Tfe3 is essential for the development and function of microglia
Harini Iyer, Kimberle Shen, Ana M. Meireles, William S. Talbot

 

Epigenetic mechanisms mediating cell state transitions in chondrocytes.
Manuela Wuelling, Christoph Neu, Andrea M. Thiesen, Simo Kitanovski, Yingying Cao, Anja Lange, Astrid M. Westendorf, Daniel Hoffmann, Andrea Vortkamp

 

Single cell transcriptional and functional analysis of human dopamine neurons in 3D fetal ventral midbrain organoid like cultures
Marcella Birtele, Yogita Sharma, Petter Storm, Janko Kajtez, Jenny Nelander Wahlestedt, Edoardo Sozzi, Fredrik Nilsson, Simon Stott, Xiaoling L He, Bengt Mattsson, Daniella Rylander Ottosson, Roger A Barker, Alessandro Fiorenzano, Malin Parmar

 

Single cell transcriptomic analysis reveals the impact of elevating neurogenic factor expression on human retinal organoid development
Xiangmei Zhang, Igor Mandric, Kevin H. Nguyen, Thao T. T. Nguyen, Matteo Pellegrini, James C. R. Grove, Steven Barnes, Xian-Jie Yang

 

Single-Cell Transcriptomic Analysis Reveals Molecular Diversity of Human Oligodendrocyte Progenitor Cells
Xitiz Chamling, Alyssa Kallman, Cindy Berlinicke, Prajwal Devkota, Joseph L. Mertz, Calvin Chang, Aniruddha Kaushik, Liben Chen, Peter A. Calabresi, Hai-Quan Mao, Tza-Huei Wang, Donald J. Zack

 

Hmx3a has essential functions in zebrafish spinal cord, ear and lateral line development
Samantha J. England, Gustavo A. Cerda, Angelica Kowalchuk, Taylor Sorice, Ginny Grieb, Katharine E. Lewis

 

Cohesin components Stag1 and Stag2 differentially influence haematopoietic mesoderm development in zebrafish embryos
Sarada Ketharnathan, Anastasia Labudina, Julia A. Horsfield

 

The lncRNA MARS modulates the epigenetic reprogramming of the marneral cluster in response to ABA
Thomas Roulé, Federico Ariel, Caroline Hartmann, Jose Gutierrez-Marcos, Nosheen Hussain, Martin Crespi, Thomas Blein

 

Epigenetic maps in Liao, et al.

 

scATAC-Seq reveals epigenetic heterogeneity associated with an EMT-like process in male germline stem cells and its regulation by G9a
Jinyue Liao, Hoi Ching Suen, Alfred Chun Shui Luk, Annie Wing Tung Lee, Judy Kin Wing Ng, Ting Hei Thomas Chan, Man Yee Cheung, David Yiu Leung Chan, Tin Chiu Li, Huayu Qi, Wai Yee Chan, Robin M. Hobbs, Tin-Lap Lee

 

Genomic properties of variably methylated retrotransposons in mouse
Jessica L. Elmer, Amir D. Hay, Noah J. Kessler, Tessa M. Bertozzi, Eve Ainscough, Anne C. Ferguson-Smith

 

An Eutherian-Specific microRNA Controls the Translation of Satb2 in a Model of Cortical Differentiation
Manuella Martins, Silvia Giulia Galfrè, Marco Terrigno, Luca Pandolfini, Irene Appolloni, Keagan Dunville, Andrea Marranci, Milena Rizzo, Alberto Mercatanti, Laura Poliseno, Francesco Morandin, Marco Pietrosanto, Manuela Helmer-Citterich, Paolo Malatesta, Robert Vignali, Federico Cremisi

 

LncRNA Snhg1-driven self-reinforcing regulatory network promotes cardiomyocyte cytokinesis
Mengsha Li, Hao zheng, Yijin Chen, Bing Li, Guojun Chen, Xiaoqiang Chen, Senlin Huang, Xiang He, Guoquan Wei, Tong Xu, Xiaofei Feng, Wangjun Liao, Yulin Liao, Yanmei Chen, Jianping Bin

 

Bovine embryos in Aguila, et al.

 

Dysregulated gene expression of imprinted and X-linked genes: a link to poor development of bovine haploid androgenetic embryos
Luis Aguila, Jacinthe Therrien, Joao Suzuki, Mónica García, Amanda Trindade, Lawrence C. Smith

 

X chromosome-dependent disruption of placental regulatory networks in hybrid dwarf hamsters
Thomas D. Brekke, Emily C. Moore, Shane C. Campbell-Staton, Colin M. Callahan, Zachary A. Cheviron, Jeffrey M. Good

 

Maternal transmission of a paramutant phenotype requires intact DNMT2 functions in the male germline
Tian Yu, Yeming Xie, Chong Tang, Yue Wang, Shuiqiao Yuan, Huili Zheng, Wei Yan

 

 

| Stem cells, regeneration & disease modelling

 

Time-course single-cell RNA sequencing reveals transcriptional dynamics and heterogeneity of limbal stem cells derived from human pluripotent stem cells
Changbin Sun, Hailun Wang, Qiwang Ma, Chao Chen, Jianhui Yue, Bo Li, Xi Zhang

 

Dot1L methyltransferase activity is a barrier to acquisition of pluripotency but not transdifferentiation
Coral K. Wille, Rupa Sridharan

 

Spatial Heterogeneity of Delta-like 4 Within a Multinucleated Niche Cell Maintains Muscle Stem Cell Diversity
Susan Eliazer, Xuefeng Sun, Andrew S. Brack

 

Self-Organizing 3D Human Choroid Plexus-Ventricle-Cortical Organoids
Mohammed R. Shaker, Justin Cooper-White, Ernst J. Wolvetang

 

TWIST1 controls cellular senescence and energy metabolism in mesenchymal stem cells
Chantal Voskamp, Laura A. Anderson, Wendy J. L. M. Koevoet, Sander Barnhoorn, Pier G. Mastroberardino, Gerjo J.V.M. van Osch, Roberto Narcisi

 

Selective translation of epigenetic modifiers drives the developmental clock of neural stem cells
Quan Wu, Yuichi Shichino, Takaya Abe, Taeko Suetsugu, Ayaka Omori, Hiroshi Kiyonari, Shintaro Iwasaki, Fumio Matsuzaki

 

Human Naïve Epiblast Cells Possess Unrestricted Lineage Potential
Ge Guo, Giuliano Giuseppe Stirparo, Stanley Strawbridge, Daniel Spindlow, Jian Yang, James Clarke, Anish Dattani, Ayaka Yanagida, Meng Amy Li, Sam Myers, Buse Nurten Özel, Jennifer Nichols, Austin Smith

 

p107 mediated mitochondrial function controls muscle stem cell proliferative fates
Debasmita Bhattacharya, Oreoluwa Oresajo, Anthony Scimè

 

Simulating patterning in Kaul, et al.

 

Gene regulatory network (GRN) embedded agents connect cellular decision making to human pluripotent stem cell derived germ layer-like pattern formation
Himanshu Kaul, Nicolas Werschler, Mukul Tewary, Andrew Hagner, Joel Ostblom, Daniel Aguilar-Hidalgo, Peter W. Zandstra

 

CTCF-binding element regulates ESC differentiation via orchestrating long-range chromatin interaction between enhancers and HoxA
Guangsong Su, Wenbin Wang, Jun Chen, Man Liu, Jian Zheng, Dianhao Guo, Jinfang Bi, Zhongfang Zhao, Jiandang Shi, Lei Zhang, Wange Lu

 

A Library of Induced Pluripotent Stem Cells from Clinically Well-Characterized, Diverse Healthy Human Individuals
Christoph Schaniel, Priyanka Dhanan, Bin Hu, Yuguang Xiong, Teeya Raghunandan, David M. Gonzalez, Sunita L. D’Souza, Arjun Yadaw, Jens Hansen, Gomathi Jayaraman, Bino Mathew, Moara Machado, Seth Berger, Joseph Tripodi, Vesna Najfeld, Jalaj Garg, Marc Miller, Colleen Lynch, Katherine Michelis, Neelima Tangirala, Himali Weerahandi, David C. Thomas, Robert Sebra, Milind Mahajan, Eric Schadt, Dusica Vidovic, Stephan C Schürer, Joseph Goldfarb, Evren U. Azeloglu, Marc R. Birtwistle, Eric A. Sobie, Jason C. Kovacic, Nicole C. Dubois, Ravi Iyengar

 

SIRT1 activity orchestrates ECM expression during hESC-chondrogenic differentiation
Christopher A Smith, Paul A Humphreys, Nicola Bates, Mark A Naven, Stuart A Cain, Mona Dvir-Ginzberg, Susan J Kimber

 

Metformin alleviates aging-associated cellular senescence of human adipose stem cells and derived adipocytes
Matthieu Mantecon, Laura Le Pelletier, Jennifer Gorwood, Martine Auclair, Michael Atlan, Bruno Fève, Jacqueline Capeau, Claire Lagathu, Véronique Béréziat

 

Hair follicles from Tiwari, et al.

 

A Wnt5a-Cdc42 axis controls aging and rejuvenation of hair-follicle stem cells
Rajiv L Tiwari, Pratibha Mishra, Nicola Martin, Nikhil Oommen George, Vadim Sakk, Karin Soller, Kodandaramireddy Nalapareddy, Kalpana Nattamai, Karin Scharffetter-Kochanek, Maria Carolina Florian, Hartmut Geiger

 

Using single-cell entropy to describe the dynamics of reprogramming and differentiation of induced pluripotent stem cells
Yusong Ye, Zhuoqin Yang, Meixia Zhu, Jinzhi Lei

 

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

 

Sirt1 mediated regulation of p107 mitochondrial function controls muscle stem cell proliferative fates
Debasmita Bhattacharya, Oreoluwa Oresajo, Anthony Scimè

 

Derivation of Isogenic Mesodermal and Ectomesodermal Chondrocytes from Human Induced Pluripotent Stem Cells for Articular Cartilage Regeneration
Ming-Song Lee, Matthew J. Stebbins, Hongli Jiao, Hui-Ching Huang, Brian E. Walzack, Sean P. Palecek, Eric V. Shusta, Wan-Ju Li

 

Cathepsin K maintains the number of lymphocytes in vivo
Renate Hausinger, Marianne Hackl, Ana Jardon-Alvarez, Miriam Kehr, Sandra Romero Marquez, Franziska Hettler, Christian Kehr, Sandra Grziwok, Christina Schreck, Christian Peschel, Rouzanna Istvanffy, Robert A.J. Oostendorp

 

Derivation of human extended pluripotent stem cells in feeder-free condition
Ran Zheng, Ting Geng, Dan-Ya Wu, Tianzhe Zhang, Hai-Nan He, Liyan Wang, Haining Du, Donghui Zhang, Yi-Liang Miao, Wei Jiang

 

Early Stem Cell Aging in the Mature Brain
Albina Ibrayeva, Maxwell Bay, Elbert Pu, David Jörg, Lei Peng, Heechul Jun, Naibo Zhang, Daniel Aaron, Congrui Lin, Galen Resler, Axel Hidalgo, Mi-Hyeon Jang, Benjamin D. Simons, Michael A. Bonaguidi

 

Cell size is a determinant of stem cell potential during aging
Jette Lengefeld, Chia-Wei Cheng, Pema Maretich, Melanie R. McReynolds, Marguerite Blair, Hannah Hagen, Emily J Sullivan, Kyra Majors, Christina Roberts, Joon Ho Kang, Joachim Steiner, Teemu P Miettinen, Scott Manalis, Adam Antebi, Jacqueline Lees, Laurie Boyer, Omer H. Yilmaz, Angelika Amon

 

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

 

Otx2 stimulates adult retinal ganglion cell regeneration
Raoul Torero-Ibad, Nicole Quenech’du, Alain Prochiantz, Kenneth L. Moya

 

Regulation of retinal amacrine cell generation by miR-216b and Foxn3
Huanqing Zhang, Pei Zhuang, Ryan M. Welchko, Manhong Dai, Fan Meng, David L. Turner

 

Müller Glia regenerative potential is maintained throughout life despite neurodegeneration and gliosis in the ageing zebrafish retina
Raquel R. Martins, Mazen Zamzam, Mariya Moosajee, Ryan Thummel, Catarina M. Henriques, Ryan B. MacDonald

 

Fish hearts from

 

Morphine alleviates pain after heart cryoinjury in zebrafish without impeding regeneration
Sara Lelek, Mariana Guedes Simões, Bo Hu, Ahmed M.A. Alameldeen, Maciej T. Czajkowski, Alexander M. Meyer, Fabienne Ferrara, Jan Philipp Junker, Daniela Panáková

 

Endogenous Galectin-3 is Required for Skeletal Muscle Repair
Daniel Giuliano Cerri, Lilian Cataldi Rodrigues, Vani Maria Alves, Juliano Machado, Víctor Alexandre Félix Bastos, Isis do Carmo Kettelhut, Luciane Carla Alberici, Sean R. Stowell, Maria Cristina R. Costa, Richard D. Cummings, Marcelo Dias-Baruffi

 

The transcriptome of regenerating zebrafish scales identifies genes involved in human bone disease
Dylan J.M. Bergen, Qiao Tong, Ankit Shukla, Elis Newman, Jan Zethof, Mischa Lundberg, Rebecca Ryan, Scott E. Youlten, Eleftheria Zeggini, Peter I. Croucher, Gert Flik, Rebecca J. Richardson, John P. Kemp, Chrissy L. Hammond, Juriaan R. Metz

 

Prednisolone rescues Duchenne Muscular Dystrophy phenotypes in human pluripotent stem cells-derived skeletal muscle in vitro
Ziad Al Tanoury, John F. Zimmermann, Jyoti Rao, Daniel Siero, Harry McNamara, Thomas Cherrier, Aurore Hick, Fanny Bousson, Charlotte Fugier, Fabio Marchiano, Bianca Habermann, Jérome Chal, Alexander P. Nesmith, Svetlana Gapon, Erica Wagner, Rhonda Bassel-Duby, Eric Olson, Adam E. Cohen, Kevin Kit Parker, Olivier Pourquié

 

Abnormal craniofacial and spinal bone development with col2a1a depletion in a zebrafish model of CHARGE syndrome
Maximilian Breuer, Maximilian Rummler, Charlotte Zaouter, Bettina M. Willie, Shunmoogum A. Patten

 

Morphological study of embryonic Chd8+/- mouse brains using light-sheet microscopy
Harold F. Gómez, Leonie Hodel, Odyssé Michos, Dagmar Iber

 

Mouse guts from Das, et al.

 

Aberrant Epithelial Differentiation Contributes to Pathogenesis in a Murine Model of Congenital Tufting Enteropathy
Barun Das, Kevin Okamoto, John Rabalais, Jocelyn Young, Kim E. Barrett, Mamata Sivagnanam

 

Lis1 mutation prevents basal radial glia-like cell production in the mouse
Maxime Penisson, Shinji Hirotsune, Fiona Francis, Richard Belvindrah

 

Cortical Organoids Model Early Brain Development Disrupted by 16p11.2 Copy Number Variants in Autism
Jorge Urresti, Pan Zhang, Patricia Moran-Losada, Nam-Kyung Yu, Priscilla D. Negraes, Cleber A. Trujillo, Danny Antaki, Megha Amar, Kevin Chau, Akula Bala Pramod, Jolene Diedrich, Leon Tejwani, Sarah Romero, Jonathan Sebat, John R. Yates III, Alysson R. Muotri, Lilia M. Iakoucheva

 

A CRISPR-Cas9–engineered mouse model for GPI-anchor deficiency mirrors human phenotypes and exhibits hippocampal synaptic dysfunctions
Miguel Rodríguez de los Santos, Marion Rivalan, Friederike S. David, Alexander Stumpf, Julika Pitsch, Despina Tsortouktzidis, Laura Moreno Velasquez, Anne Voigt, Karl Schilling, Daniele Mattei, Melissa Long, Guido Vogt, Alexej Knaus, Björn Fischer-Zirnsak, Lars Wittler, Bernd Timmermann, Peter N. Robinson, Denise Horn, Stefan Mundlos, Uwe Kornak, Albert J. Becker, Dietmar Schmitz, York Winter, Peter M. Krawitz

 

Patient iPSC-astrocytes show transcriptional and functional dysregulation in schizophrenia
Marja Koskuvi, Šárka Lehtonen, Kalevi Trontti, Meike Keuters, Ying Chieh Wu, Hennariikka Koivisto, Anastasia Ludwig, Lidiia Plotnikova, Pekka L. J. Virtanen, Noora Räsänen, Satu Kaipainen, Ida Hyötyläinen, Hiramani Dhungana, Raisa Giniatullina, Ilkka Ojansuu, Olli Vaurio, Tyrone D. Cannon, Jouko Lönnqvist, Sebastian Therman, Jaana Suvisaari, Jaakko Kaprio, Markku Lähteenvuo, Jussi Tohka, Rashid Giniatullin, Claudio Rivera, Iiris Hovatta, Heikki Tanila, Jari Tiihonen, Jari Koistinaho

 

A Rat Model of a Focal Mosaic Expression of PCDH19 Replicates Human Brain Developmental Abnormalities and Behaviors
Andrzej W Cwetsch, Roberto Narducci, Maria Bolla, Bruno Pinto, Laura Perlini, Silvia Bassani, Maria Passafaro, Laura Cancedda

 

Regulation of intracellular signaling and neuron function by Bardet-Biedl Syndrome proteins in patient-specific iPSC-derived neurons
Liheng Wang, Yang Liu, George Stratigopoulos, Sunil Panigrahi, Lina Sui, Charles A. Leduc, Hannah J. Glover, Maria Caterina De Rosa, Lisa C. Burnett, Damian J. Williams, Linshan Shang, Robin Goland, Stephen H. Tsang, Sharon Wardlaw, Dieter Egli, Deyou Zheng, Claudia A. Doege, Rudolph L. Leibel

 

 

 

| Plant development

 

Leaf veins from Krishna, et al.

 

Control of Vein-Forming, Striped Gene-Expression by Auxin Signaling
Anmol Krishna, Jason Gardiner, Tyler J. Donner, Enrico Scarpella

 

A gall from Korgaonkar, et al.

 

A novel family of secreted proteins linked to plant gall development
Aishwarya Korgaonkar, Clair Han, Andrew L. Lemire, Igor Siwanowicz, Djawed Bennouna, Rachel Kopec, Peter Andolfatto, Shuji Shigenobu, David L. Stern

 

Arabidopsis embryos from Samakovli, et al.

 

The interplay of HSP90s with YDA regulates main body axis formation during early embryogenesis in Arabidopsis
Despina Samakovli, Tereza Tichá, Tereza Vavrdová, Natálie Závorková, Ales Pecinka, Miroslav Ovečka, Jozef Šamaj

 

Local auxin biosynthesis promotes shoot patterning and stem cell differentiation in Arabidopsis shoot apex
Shalini Yadav, Harish Kumar, Ram Kishor Yadav

 

nMAT3 is an essential maturase splicing factor required for holo-complex I biogenesis and embryo-development in Arabidopsis thaliana plants
Sofia Shevtsov-Tal, Corinne Best, Roei Matan, Sam Aldrin Chandran, Gregory G. Brown, Oren Ostersetzer-Biran
doi: https://doi.org/10.1101/20

 

A single cell view of the transcriptome during lateral root initiation in Arabidopsis thaliana
Hardik P. Gala, Amy Lanctot, Ken Jean-Baptiste, Sarah Guiziou, Jonah C. Chu, Joseph E. Zemke, Wesley George, Christine Queitsch, Josh T. Cuperus, Jennifer L. Nemhauser

 

Auxin guides germ cell specification in Arabidopsis anthers
Yafeng Zheng, Donghui Wang, Sida Ye, Wenqian Chen, Guilan Li, Zhihong Xu, Shunong Bai, Feng Zhao

 

Arabidopsis roots from Mielke, et al.

 

Jasmonate biosynthesis arising from altered cell walls is prompted by turgor-driven mechanical compression and guides root hydrotropism
Stefan Mielke, Marlene Zimmer, Mukesh Kumar Meena, René Dreos, Hagen Stellmach, Bettina Hause, Cătălin Voiniciuc, Debora Gasperini

 

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

 

DET1-mediated COP1 regulation avoids HY5 activity over second-site targets to tune plant photomorphogenesis
Esther Cañibano, Clara Bourbousse, Marta Garcia-Leon, Lea Wolff, Camila Garcia-Baudino, Fredy Barneche, Vicente Rubio, Sandra Fonseca

 

HEXOKINASE1 interferes with cytokinin synthesis and strigolactone perception during sugar-induced shoot branching
Francois F. Barbier, Da Cao, Franziska Fichtner, Christoph Weiste, Maria-Dolores Perez-Garcia, Mathieu Caradeuc, José Le gourrierec, Soulaiman Sakr, Christine A. Beveridge

 

Momilactone B inhibits Arabidopsis growth and development via disruption of ABA and auxin signaling
Jianxin Wu, Jun Long, Xianhui Lin, Zhenyi Chang, Scott R. Baerson, Chaohui Ding, Xiaoyan Wu, Zhiqiang Pan, Yuanyuan Song, Rensen Zeng

 

The Polycomb group protein MEDEA controls cell proliferation and embryonic patterning in Arabidopsis
Sara Simonini, Marian Bemer, Stefano Bencivenga, Valeria Gagliardini, Nuno D. Pires, Bénédicte Desvoyes, Eric van der Graaff, Crisanto Gutierrez, Ueli Grossniklaus

 

The auxin transporter PIN1 and the cytokinin transporter AZG1 interact to regulate the root stress response
TM Tessi, M Shahriari, VG Maurino, E Meissner, O Novak, T Pasternak, BS Schumacher, NS Flubacher, M Nautscher, A Williams, Z Kazimierczak, M Strnad, JO Thumfart, K Palme, M Desimone, WD Teale

 

Life cycle of arabidopsis in the international space station – Growth direction of the inflorescence stems in the presence of light under microgravity
Umi Yashiro, Ichirou Karahara, Sachiko Yano, Daisuke Tamaoki, Fumiaki Tanigaki, Toru Shimazu, Daisuke Masuda, Haruo Kasahara, Seiichiro Kamisaka

 

Changes in the plasmodesma structure and permeability at the bundle sheath and mesophyll interface during the maize C4 leaf development
Peng Gao, Baijuan Du, Pinghua Li, Byung-Ho Kang

 

WHIRLY1 of barley and maize share a PRAPP motif conferring nucleoid compaction
Svenja Oetke, Axel J. Scheidig, Karin Krupinska

 

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

 

Temporal changes in metabolism late in seed development affect biomass composition in soybean
Shrikaar Kambhampati, Jose A. Aznar-Moreno, Sally R. Bailey, Jennifer J. Arp, Kevin L. Chu, Kristin D. Bilyeu, Timothy P. Durrett, Doug K Allen

 

Expression of TaTAR2.3-1B, TaYUC9-1 and TaYUC10 correlates with auxin and starch content of developing wheat grains
Muhammed Rezwan Kabir, Heather M Nonhebel, David Backhouse, Gal Winter

 

Reinvestigation of grain weight genes TaTGW6 and OsTGW6 casts doubt on their role in auxin regulation in developing grains
Muhammed Rezwan Kabir, Heather M. Nonhebel

 

Transcriptomic Analyses Throughout Chili Pepper Fruit Development Reveal Novel Insights into Domestication Process
Octavio Martínez, Magda L. Arce-Rodríguez, Fernando Hernández-Godínez, Christian Escoto-Sandoval, Felipe Cervantes-Hernández, Corina Hayano-Kanashiro, José J. Ordaz-Ortiz, M. Humberto Reyes-Valdés, Fernando G. Razo-Mendivil, Ana Garcés-Claver, Neftalí Ochoa-Alejo

 

RNA-Seq Time Series of Vitis vinifera Bud Development Reveals Correlation of Expression Patterns with the Local Temperature Profile
Boas Pucker, Anna Schwandner, Sarah Becker, Ludger Hausmann, Prisca Viehöver, Reinhard Töpfer, Bernd Weisshaar, Daniela Holtgräwe

 

Spike development inhibition in the ftin mutant is associated with multiple phenotypes and regulated by multiple biological pathways
Yongsheng Zheng, Jinpeng Zhang, Cheng Liu, Han Zhang, Xiajie Ji, Mumu Wang, Hui wang, Rongzhi Zhang, Ruyu Li, Weihua Liu

 

LACCASE is Necessary for Root Development in Salvia miltiorrhiza
Zheng Zhou, Qing Li, Yun Wang, Liang Xiao, Qitao Bu, Kai Hao, Meili Guo, Wansheng Chen, Lei Zhang

 

3D-Construction of Vasculature of Anaxagorea and its Implications in the Integrated Axial-Foliar Origin of the Angiosperm Carpel
Ya Li, Wei Du, Shuai Wang, Xiao-Fan Wang, Ye Chen

 

PHYTOCHROMES B1/B2 ARE KEY REGULATORS OF EPIGENOME REPROGRAMMING DURING TOMATO FRUIT DEVELOPMENT
Ricardo Bianchetti, Nicolas Bellora, Luis de Haro, Rafael Zuccarelli, Daniele Rosado, Luciano Freschi, Magdalena Rossi, Luisa F Bermudez

 

 

Evo-devo & evo

 

 

Post-metamorphic skeletal growth in the sea urchin Paracentrotus lividus and implications for body plan evolution
Jeffrey R. Thompson, Periklis Paganos, Giovanna Benvenuto, Maria Ina Arnone, Paola Oliveri

 

Single-cell analysis of cell fate bifurcation in the chordate Ciona
Konner M. Winkley, Wendy M. Reeves, Michael T. Veeman

 

Resolving transcriptional states and predicting lineages in the annelid Capitella teleta using single-cell RNAseq
Abhinav Sur, Néva P. Meyer

 

A cricket embryo from Pechmann, et al.

 

Striking parallels between dorsoventral patterning in Drosophila and Gryllus reveal a complex evolutionary history behind a model gene regulatory network
Matthias Pechmann, Nathan James Kenny, Laura Pott, Peter Heger, Yen-Ta Chen, Thomas Buchta, Orhan Özüak, Jeremy Lynch, Siegfried Roth

 

Comparative transcriptomics reveal distinct patterns of gene expression conservation through vertebrate embryogenesis
Megan E Chan, Pranav S. Bhamidipati, Heather J Goldsby, Arend Hintze, Hans A Hofmann, Rebecca L Young

 

Embryological manipulation to probe early evo-devo in the fish Astyanax mexicanus
Jorge Torres-Paz, Sylvie Rétaux

 

Human-specific ARHGAP11B is necessary and sufficient for human-type basal progenitor levels in primate brain organoids
Jan Fischer, Jula Peters, Takashi Namba, Wieland B. Huttner, Michael Heide

 

Selection for increased tibia length in mice alters skull shape through parallel changes in developmental mechanisms
Colton M. Unger, Jay Devine, Benedikt Hallgrímsson, Campbell Rolian

 

New Genes in Drosophila Quickly Evolved Essential Functions in Viability During Development
Shengqian Xia, Nicholas W VanKuren, Chunyan Chen, Li Zhang, Clause Kemkemer, Yi Shao, Hangxing Jia, UnJin Lee, Alexander S Advani, Andrea Gschwend, Maria Vibranovski, Sidi Chen, Yong E Zhang, Manyuan Long

 

A 180 My-old female-specific genome region in sturgeon reveals the oldest known vertebrate sex determining system with undifferentiated sex chromosomes
Heiner Kuhl, Yann Guiguen, Christin Höhne, Eva Kreuz, Kang Du, Christophe Klopp, Céline Lopez-Roques, Elena Santidrian Yebra-Pimentel, Mitica Ciorpac, Jörn Gessner, Daniela Holostenco, Wibke Kleiner, Klaus Kohlmann, Dunja K. Lamatsch, Dmitry Prokopov, Anastasia Bestin, Emmanuel Bonpunt, Bastien Debeuf, Pierrick Haffray, Romain Morvezen, Pierre Patrice, Radu Suciu, Ron Dirks, Sven Wuertz, Werner Kloas, Manfred Schartl, Matthias Stöck

 

 

Cell biology

 

Microridges in the zebrafish skin

 

Cortical myosin minifilaments orchestrate the arrangement of microridge protrusions on epithelial cell surfaces
Aaron P. van Loon, Ivan S. Erofeev, Andrew B. Goryachev, Alvaro Sagasti

 

RhoA- and Ran-induced antagonistic forces underlie symmetry breaking and spindle rotation in mouse oocytes
Benoit Dehapiot, Raphaël Clément, Anne Bourdais, Sébastien Huet, Guillaume Halet

 

Nuclear actin from Scheffler, et al.

 

The prophase oocyte nucleus is a homeostatic G-actin buffer
Kathleen Scheffler, Federica Giannini, Binyam Mogessie

 

Non-rodent mammalian zygotes assemble dual spindles despite the presence of paternal centrosomes
Isabell Schneider, Marta de Ruijter-Villani, M. Julius Hossain, Tom A. E. Stout, Jan Ellenberg

 

Phospho-regulated auto-inhibition of Cnn controls microtubule nucleation during cell division
Corinne A. Tovey, Chisato Tsuji, Alice Egerton, Fred Bernard, Antoine Guichet, Marc de la Roche, Paul T. Conduit

 

Native cyclase-associated protein and actin from Xenopus laevis oocytes form a 4:4 complex with a tripartite structure
Noriyuki Kodera, Hiroshi Abe, Shoichiro Ono

 

Dynein-dynactin segregate meiotic chromosomes in C. elegans spermatocytes
Daniel J. Barbosa, Vanessa Teixeira, Joana Duro, Ana X. Carvalho, Reto Gassmann

 

 

 

Modelling

 

 

 

Modelling polarity from Bajpai, et al.

 

Role of cell polarity dynamics and motility in pattern formation due to contact dependent signalling
Supriya Bajpai, Ranganathan Prabhakar, Raghunath Chelakkot, Mandar M. Inamdar

 

A model of developmental canalization, applied to human cranial form
Philipp Mitteroecker, Ekaterina Stansfield

 

Effective mechanical potential of cell–cell interaction explains basic structures of three-dimensional morphogenesis
Hiroshi Koyama, Hisashi Okumura, Atsushi M. Ito, Tetsuhisa Otani, Kazuyuki Nakamura, Kagayaki Kato, Toshihiko Fujimori

 

Understanding the Human Brain using Brain Organoids and a Structure-Function Theory
Gabriel A. Silva, Alysson R. Muotri, Christopher White

 

Stochastic stem cell models with mutation: A comparison of asymmetric and symmetric divisions
Zhijie Wu, Yuman Wang, Kun Wang, Da Zhou

 

An introduction to the mathematical modelling of iPSCs
Laura E Wadkin, Sirio Orozco-Fuentes, Irina Neganova, Majlinda Lako, Nicholas G Parker, Anvar Shukurov

 

 

Tools & resources

 

 

Mouse brains from Yoshinaga, et al.

 

Comprehensive characterization of migration profiles of murine cerebral cortical neurons during development using FlashTag labeling
Satoshi Yoshinaga, Minkyung Shin, Ayako Kitazawa, Kazuhiro Ishii, Masato Tanuma, Atsushi Kasai, Hitoshi Hashimoto, Ken-ichiro Kubo, Kazunori Nakajima

 

Deep Collection of Quantitative Nuclear Division Dynamics Data in RNAi-treated Caenorhabditis elegans Embryos
Koji Kyoda, Hatsumi Okada, Hiroya Itoga, Shuichi Onami

 

Evaluation of CRISPR gene-editing tools in zebrafish identifies spurious mutations in ‘mock’ control embryos
José M. Uribe-Salazar, Aadithya Sekar, Gulhan Kaya, KaeChandra Weyenberg, Cole Ingamells, Megan Y. Dennis

 

Tissue-specific transcription footprinting using RNA PoI DamID (RAPID) in C. elegans
Georgina Gómez-Saldivar, Jaime Osuna-Luque, Jennifer I. Semple, Dominique A. Glauser, Sophie Jarriault, Peter Meister

 

High-throughput phenotypic characterization of zebrafish CRISPR mutants of DNA repair genes
Unbeom Shin, Khriezhanuo Nakhro, Chang-Kyu Oh, Blake Carrington, Hayne Song, Gaurav Varshney, Youngjae Kim, Hyemin Song, Sangeun Jeon, Gabrielle Robbins, Sangin Kim, Suhyeon Yoon, Yongjun Choi, Suhyung Park, Yoo Jung Kim, Shawn Burgess, Sukhyun Kang, Raman Sood, Yoonsung Lee, Kyungjae Myung

 

Evaluating CRISPR-based Prime Editing for cancer modeling and CFTR repair in intestinal organoids
Maarten H. Geurts, Eyleen de Poel, Cayetano Pleguezuelos-Manzano, Léo Carrillo, Amanda Andersson-Rolf, Matteo Boretto, Jeffrey M. Beekman,

 

Frequent loss-of-heterozygosity in CRISPR-Cas9-edited early human embryos
Gregorio Alanis-Lobato, Jasmin Zohren, Afshan McCarthy, Norah M. E. Fogarty, Nada Kubikova, Emily Hardman, Maria Greco, Dagan Wells, James M.A. Turner, Kathy Niakan

 

Evaluating spiny mice (Acomys) as a model for cardiac research
Kazuhiro Shindo, Hsuan Peng, Renée R. Donahue, Brooke M. Ahern, Bryana M. Levitan, Jonathan Satin, Ashley W. Seifert, Ahmed Abdel-Latif

 

Dehydrated Caenorhabditis elegans stocks are resistant to multiple freeze-thaw cycles
Patrick D. McClanahan, Richard J. McCloskey, Melanie Ng Tung Hing, David M. Raizen, Christopher Fang-Yen

 

Developing Human Pluripotent Stem Cell-Based Cerebral Organoids with a Controllable Microglia Ratio for Modeling Brain Development and Pathology
Ranjie Xu, Andrew J. Boreland, Xiaoxi Li, Caroline Erickson, Mengmeng Jin, Colm Atkins, Zhiping Pang, Brian P. Daniels, Peng Jiang

 

POLArIS, a versatile probe for molecular orientation, revealed actin filaments associated with microtubule asters in early embryos
Ayana Sugizaki, Keisuke Sato, Kazuyoshi Chiba, Kenta Saito, Masahiko Kawagishi, Yuri Tomabechi, Shalin B. Mehta, Hirokazu Ishii, Naoki Sakai, Mikako Shirouzu, Tomomi Tani, Sumio Terada

 

3D test sample for the calibration and quality control of super-resolution and confocal microscopes
Ernest B. van der Wee, Jantina Fokkema, Chris L. Kennedy, Marc del Pozo, D.A. Matthijs de Winter, Peter N.A. Speets, Hans C. Gerritsen, Alfons van Blaaderen

 

The ubiquitylome of developing cortical neurons
Shalini Menon, Dennis Goldfarb, Emily M. Cousins, M. Ben Major, Stephanie L. Gupton

 

Robust Optical Flow Algorithm for General, Label-free Cell Segmentation
Michael C Robitaille, Jeff M Byers, Joseph A Christodoulides, Marc P Raphael

 

Three-fluorophore FRET enables the analysis of ternary protein association in living plant cells
Nina Gloeckner, Sven zur Oven-Krockhaus, Leander Rohr, Frank Wackenhut, Moritz Burmeister, Friederike Wanke, Eleonore Holzwart, Alfred J. Meixner, Sebastian Wolf, Klaus Harter

 

A Transgenic System for Targeted Ablation of Reproductive and Maternal-Effect genes
Sylvain Bertho, Odelya Kaufman, KathyAnn Lee, Adrian Santos-Ledo, Daniel Dellal, Florence L. Marlow

 

Haplotype-phased common marmoset embryonic stem cells for genome editing using CRISPR/Cas9
Bo Zhou, Steve S. Ho, Louis C. Leung, Thomas R. Ward, Marcus Ho, Melanie J. Plastini, Scott C. Vermilyea, Marina E. Emborg, Thaddeus G. Golos, Megan A. Albertelli, Philippe Mourrain, Dimitri Perrin, Karen J. Parker, Alexander E. Urban

 

ESCO: single cell expression simulation incorporating gene co-expression
Jinjin Tian, Jiebiao Wang, Kathryn Roeder

 

Mouse brains from Foxley, et al.

 

Multi-modal imaging of a single postmortem mouse brain over five orders of magnitude of resolution
Sean Foxley, Vandana Sampathkumar, Vincent De Andrade, Scott Trinkle, Anastasia Sorokina, Katrina Norwood, Patrick La Riviere, Narayanan Kasthuri

 

A comprehensive overview of computational tools for RNA-seq analysis
Dhrithi Deshpande, Karishma Chhugani, Yutong Chang, Aaron Karlsberg, Caitlin Loeffler, Jinyang Zhang, Agata Muszynska, Jeremy Rotman, Laura Tao, Lana S. Martin, Brunilda Balliu, Elizabeth Tseng, Eleazar Eskin, Fangqing Zhao, Pejman Mohammadi, Pawel P Labaj, Serghei Mangul

 

CellCycleGAN: Spatiotemporal Microscopy Image Synthesis of Cell Populations using Statistical Shape Models and Conditional GANs
Dennis Bähr, Dennis Eschweiler, Anuk Bhattacharyya, Daniel Moreno-Andrés, Wolfram Antonin, Johannes Stegmaier

 

Split-HaloTag® Imaging Assay for Sophisticated Microscopy of Protein-Protein Interactions in planta
Rieke Minner-Meinen, Jan Niklas Weber, Andreas Albrecht, Rainer Matis, Maria Behnecke, Cindy Tietge, Stefan Frank, Jutta Schulze, Henrik Buschmann, Peter Jomo Walla, Ralf Rainer Mendel, Robert Haensch, David Kaufholdt

 

 

 

Research practice & education

 

Gender stereotype and the scientific career of women: Evidence from biomedical research centers
Jose G. Montalvo, Daniele Alimonti, Sonja Reiland, Isabelle Vernos

 

A laboratory module that explores RNA interference and codon optimization through fluorescence microscopy using Caenorhabditis elegans
Maryam A. Azmi, Nicholas J. Palmisano, Taylor N. Medwig-Kinney, Frances E. Moore, Rumana Rahman, Wan Zhang, Rebecca C. Adikes, David Q. Matus

 

A Structured Professional Development Curriculum for Postdoctoral Fellows Leads to Recognized Knowledge Growth
Kaylee Steen, Jay Vornhagen, Zara Y. Weinberg, Julie Boulanger-Bertolus, Arvind Rao, Margery Evans Gardner, Shoba Subramanian

 

Current practices in scientific poster preparation – survey results
Helena Jambor

 

Comparing quality of reporting between preprints and peer-reviewed articles in the biomedical literature
Clarissa F. D. Carneiro, Victor G. S. Queiroz, Thiago C. Moulin, Carlos A. M. Carvalho, Clarissa B. Haas, Danielle Rayêe, David E. Henshall, Evandro A. De-Souza, Felippe E. Amorim, Flávia Z. Boos, Gerson D. Guercio, Igor R. Costa, Karina L. Hajdu, Lieve van Egmond, Martin Modrák, Pedro B. Tan, Richard J. Abdill, Steven J. Burgess, Sylvia F. S. Guerra, Vanessa T. Bortoluzzi, Olavo B. Amaral

 

From amazing work to I beg to differ – analysis of bioRxiv preprints that received one public comment till September 2019
Mario Malički, Joseph Costello, Juan Pablo Alperin, Lauren A. Maggio

 

The Influence of bioRχiv on PLOS ONE’s Peer-Review and Acceptance Time
Hiroyuki Tsunoda, Yuan Sun, Masaki Nishizawa, Xiaomin Liu, Kou Amano

 

The impact of preprint servers in the formation of novel ideas
Swarup Satish, Zonghai Yao, Andrew Drozdov, Boris Veytsman

 

Racial and ethnic imbalance in neuroscience reference lists and intersections with gender
Maxwell A Bertolero, Jordan D Dworkin, Sophia U David, Claudia López Lloreda, Pragya Srivastava, Jennifer Stiso, Dale Zhou, Kafui Dzirasa, Damien A Fair, Antonia N Kaczkurkin, Bianca Jones Marlin, Daphna Shohamy, Lucina Q Uddin, Perry Zurn, Danielle S Bassett

 

Advancing science or advancing careers? Researchers’ opinions on success indicators
Noémie Aubert Bonn, Wim Pinxten

 

Positive outcomes of COVID-19 research-related gender policy changes
Holly O Witteman, Jenna Haverfield, Cara Tannenbaum

 

The data-index: an author-level metric that values impactful data and incentivises data sharing
Amelia S C Hood, William J Sutherland

 

Assessment of transparency indicators across the biomedical literature: how open is open?
Stylianos Serghiou, Despina G Contopoulos-Ioannidis, Kevin W Boyack, Nico Riedel, Joshua David Wallach, John P. A. Ioannidis




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