the community site for and by developmental biologists

November in preprints

Posted by , on 4 December 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

Glypicans specifically regulate Hedgehog signaling through their interaction with Ihog in cytonemes
Eleanor Simon, Carlos Jimenez-Jimenez, Irene Seijo-Barandiaran, Gustavo Aguilar, David Sanchez-Hernandez, Adrian Aguirre-Tamaral, Laura Gonzalez-Mendez, Pedro Ripoll, Isabel Guerrero

 

Wing discs from Matsuda, et al.

 

Asymmetric requirement of Dpp/BMP morphogen dispersal in the Drosophila wing disc
Shinya Matsuda, Jonas V. Schaefer, Yusuke Mii, Yutaro Hori, Dimitri Bieli, Masanori Taira, Andreas Plückthun, Markus Affolter

 

Dynamic regulation of anterior-posterior patterning genes in living Drosophila embryos
Takashi Fukaya

 

Fly embryos from Yadav, et al.

 

Spatiotemporal sensitivity of embryonic heart specification to FGFR signaling in Drosophila
V. Yadav, N. Tolwinski, T. E. Saunders

 

Sticks and Stones, a conserved cell surface ligand for the Type IIa RPTP Lar, regulates neural circuit wiring in Drosophila
Namrata Bali, Hyung-Kook (Peter) Lee, Kai Zinn

 

The vascular niche controls Drosophila hematopoiesis via Fibroblast Growth Factor signaling
Manon Destalminil-Letourneau, Ismaël Morin-Poulard, Yushun Tian, Nathalie Vanzo, Michèle Crozatier

 

Dilp8 controls a time window for tissue size adjustment in Drosophila
L. Boulan, D. Blanco-Obregon, K. El Marzkioui, F. Brutscher, D.S. Andersen, J. Colombani, S. Narasimha, P. Léopold

 

Fly neuromuscular junctions from Restrepo, et al.

 

γ-secretase promotes postsynaptic maturation through the cleavage of a Wnt receptor
Lucas Restrepo, Alison DePew, Elizabeth Moese, Stephen Tymanskyj, Michael Parisi, Michael Aimino, Juan Carlos Duhart, Hong Fei, Timothy J. Mosca

 

Inferring temporal organization of postembryonic development from high-content behavioral tracking
Denis F. Faerberg, Victor Gurarie, Ilya Ruvinsky

 

Temporal scaling in C. elegans larval development
Olga Filina, Rik Haagmans, Jeroen S. van Zon

 

Axon-secreted chemokine-like Orion is a signal for astrocyte infiltration during neuronal remodeling
Ana Boulanger, Camille Thinat, Stephan Züchner, Lee G. Fradkin, Hugues Lortat-Jacob, Jean-Maurice Dura

 

Zebrafish embryos from Prummel, et al.

 

Hand2 delineates mesothelium progenitors and is reactivated in mesothelioma
Karin D. Prummel, Helena L. Crowell, Susan Nieuwenhuize, Eline C. Brombacher, Stephan Daetwyler, Charlotte Soneson, Jelena Kresoja-Rakic, Manuel Ronner, Agnese Kocere, Alexander Ernst, Zahra Labbaf, David E. Clouthier, Anthony B. Firulli, Héctor Sánchez-Iranzo, Rebecca O’Rourke, Erez Raz, Nadia Mercader, Alexa Burger, Emanuela Felley-Bosco, Jan Huisken, Mark D. Robinson, Christian Mosimann

 

FGF signaling dynamics regulates epithelial patterning and morphogenesis
Jakub Sumbal, Tereza Vranova, Zuzana Koledova

 

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

 

Mammary acini from Ender, et al.

 

Spatio-temporal Control of ERK Pulse Frequency Coordinates Fate Decisions during Mammary Acinar Morphogenesis
Pascal Ender, Paolo Armando Gagliardi, Maciej Dobrzyński, Coralie Dessauges, Thomas Höhener, Marc-Antoine Jacques, Andrew R. Cohen, Olivier Pertz

 

Dermal EZH2 simultaneously orchestrates dermal differentiation and epidermal proliferation during murine skin development
Venkata Thulabandu, Timothy Nehila, James W. Ferguson, Radhika P. Atit

 

Zebrafish pronephrons from Perens, et al.

 

osr1 couples intermediate mesoderm cell fate with temporal dynamics of vessel progenitor cell differentiation
Elliot Perens, Jessyka Diaz, Agathe Quesnel, Amjad Askary, Gage Crump, Deborah Yelon

 

A RNF12-USP26 amplification loop promotes germ cell specification and is disrupted in urogenital disorders
Anna Segarra-Fas, Francisco Bustos, Rachel Toth, Gino Nardocci, Greg M. Findlay

 

A FGF2-mediated incoherent feedforward loop induces Erk inhibition and promotes naïve pluripotency
Borzo Gharibi, Emanuel Gonçalves, Buhe Nashun, Alex Montoya, Katherine Mankalow, Stephanie Strohbuecker, Rahuman S M Sheriff, Alessandro Cicarrelli, Joana Carvalho, Emma Nye, Holger Kramer, Ian Rosewell, Petra Hajkova, Pedro Beltrao, Silvia D. M. Santos

 

WNT responsive SUMOylation of ZIC5 exerts multiple effects on transcription to promote murine neural crest cell development
Radiya G. Ali, Helen M. Bellchambers, Nicholas Warr, Jehangir N. Ahmed, Kristen S. Barratt, Kieran Neill, Koula E. M. Diamand, Ruth M. Arkell

 

Chondrocytes in the resting zone of the growth plate are maintained in a Wnt-inhibitory environment
Shawn A. Hallett, Wanida Ono, Yuki Matsushita, Naoko Sakagami, Koji Mizuhashi, Nicha Tokavanich, Mizuki Nagata, Annabelle Zhou, Takao Hirai, Henry M. Kronenberg, Noriaki Ono

 

Dermal EZH2 simultaneously orchestrates Wnt/β-catenin signaling dependent dermal differentiation and retinoic acid signaling dependent epidermal proliferation during murine skin development
Venkata Thulabandu, Timothy Nehila, James W. Ferguson, Radhika P. Atit

 

Canonical Wnt signalling is activated during BEC-to-hepatocyte conversion in vivo and modulates liver epithelial cell plasticity in hepatic organoids
Eider Valle-Encinas, Niya Aleksieva, Carmen Velasco Martinez, Michael Dawes, Matthew Zverev, Miryam Müller, Anika Offergeld, Matthew J Smalley, Catherine Hogan, Stuart J Forbes, Tom G Bird, Trevor C Dale

 

Knockout of myoc reveals the role of myocilin in zebrafish sex determination associated with Wnt signalling downregulation
Raquel Atienzar-Aroca, José-Daniel Aroca-Aguilar, Susana Alexandre-Moreno, Jesús-José Ferre-Fernández, Juan-Manuel Bonet-Fernández, María-José Cabañero-Varela, Julio Escribano

 

Mouse retinas from Chen, et al.

 

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

 

B-1 lymphoid cells develop independently of Notch signaling during mouse embryonic development
Nathalia Azevedo, Elisa Bertesago, Ismail Ismailoglu, Michael Kyba, Michihiro Kobayashi, Andrea Ditadi, Momoko Yoshimoto

 

Hedgehog signalling regulates patterning of the murine and human dentitions through Gas1 co-receptor function
Maisa Seppala, Beatrice Thivichon-Prince, Guilherme M. Xavier, Nina Shaffie, Indiya Sangani, Anahid A. Birjandi, Joshua Rooney, Jane N. S. Lau, Rajveer Dhalivar, Ornella Rossi, Adeel Riaz, Daniel Stonehouse-Smith, Yiran Wang, Laurent Viriot, Martyn T. Cobourne

 

Canonical and noncanonical TGF-β signaling regulate fibrous tissue differentiation in the axial skeleton
Sade W. Clayton, Ga I Ban, Cunren Liu, Rosa Serra

 

Cell-to-cell heterogeneity in Sox2 and Brachyury expression guides progenitor destiny by controlling their movements
Michèle Romanos, Guillaume Allio, Léa Combres, Francois Médevielle, Nathalie Escalas, Cathy Soula, Ben Steventon, Ariane Trescases, Bertrand Bénazéraf

 

G1 Phase Lengthening During Neural Tissue Development Involves CDC25B Induced G1 Heterogeneity
Angie Molina, Frédéric Bonnet, V. Lobjois, Sophie Bel-Vialar, Jacques Gautrais, Fabienne Pituello, Eric Agius

 

Robo recruitment of the Wave Regulatory Complex plays an essential and conserved role in midline repulsion
Karina Chaudhari, Madhavi Gorla, Chao Chang, Artur Kania, Greg J. Bashaw

 

Myelinating Schwann cells and Netrin-1 control intra-nervous vascularization of the developing mouse sciatic nerve
Sonia Taïb, Noël Lamandé, Sabrina Martin, Piotr Topilko, Isabelle Brunet

 

The Distal Appendage Protein CEP164 Is Essential for Efferent Duct Multiciliogenesis and Male Fertility
Mohammed Hoque, Danny Chen, Rex A. Hess, Feng-Qian Li, Ken-Ichi Takemaru

 

Identification of Gli1 as a progenitor cell marker for meniscus development and injury repair
Yulong Wei, Hao Sun, Tao Gui, Lutian Yao, Leilei Zhong, Wei Yu, Su-Jin Heo, Lin Han, X. Sherry Liu, Yejia Zhang, Eiki Koyama, Fanxin Long, Miltiadis Zgonis, Robert L Mauck, Jaimo Ahn, Ling Qin

 

Ngn2 induces diverse neuronal lineages from human pluripotency
Hsiu-Chuan Lin, Zhisong He, Sebastian Ebert, Maria Schörnig, Malgorzata Santel, Anne Weigert, Wulf Hevers, Nael Nadif Kasri, Elena Taverna, J. Gray Camp, Barbara Treutlein

 

Adult Neurogenesis in Peripheral Nervous System
Yisheng Liu, Xiaosong Gu

 

Muscle Van Gogh-like 2 shapes the neuromuscular synapse by regulating MuSK signaling activity
Myriam Boëx, Julien Messéant, Steve Cottin, Marius Halliez, Stéphanie Bauché, Céline Buon, Nathalie Sans, Mireille Montcouquiol, Jordi Molgó, Muriel Amar, Arnaud Ferry, Mégane Lemaitre, Andrée Rouche, Dominique Langui, Asha Baskaran, Bertrand Fontaine, Laure Strochlic

 

Csf1rb mutation uncouples two waves of microglia development in zebrafish
Giuliano Ferrero, Magali Miserocchi, Elodie Di Ruggiero, Valérie Wittamer

 

Proteomic analysis reveals Utf1 as a neurogenesis-associated new Sumo target
Juan F. Correa-Vázquez, Francisco Juárez-Vicente, Pablo García-Gutiérrez, Sina V. Barysch, Frauke Melchior, Mario García-Domínguez

 

Olfactory rod cells: a rare cell type in the larval zebrafish olfactory epithelium with an actin-rich apical projection
King Yee Cheung, Suresh J. Jesuthasan, Sarah Baxendale, Nicholas J. van Hateren, Mar Marzo, Christopher J. Hill, Tanya T. Whitfield

 

Developing mammary terminal duct lobular units have a dynamic mucosal and stromal immune microenvironment
Dorottya Nagy, Clare M. C. Gillis, Katie Davies, Abigail L. Fowden, Paul Rees, John W. Wills, Katherine Hughes

 

Developmental dynamics of voltage-gated sodium channel isoform expression in the human and mouse neocortex
Lindsay Liang, Siavash Fazel Darbandi, Sirisha Pochareddy, Forrest O. Gulden, Michael C. Gilson, Brooke K. Sheppard, Atehsa Sahagun, Joon-Yong An, Donna M. Werling, John L.R. Rubenstein, Nenad Šestan, Kevin J. Bender, Stephan J. Sanders

 

Rat skeletons from Keshvari, et al.

 

CSF1R-dependent macrophages control postnatal somatic growth and organ maturation
Sahar Keshvari, Melanie Caruso, Lena Batoon, Anuj Sehgal, Ngari Teakle, Omkar L. Patkar, 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

 

Loss of active neurogenesis in the adult shark retina
Ismael Hernández-Núñez, Diego Robledo, Hélène Mayeur, Sylvie Mazan, Laura Sánchez, Fátima Adrio, Antón Barreiro-Iglesias, Eva Candal

 

 

 

| Morphogenesis & mechanics

 

Mouse hindbroain closure from Maniou, et al.

 

Hindbrain neuropore tissue geometry determines asymmetric cell-mediated closure dynamics
Eirini Maniou, Michael F Staddon, Abigail Marshall, Nicholas DE Greene, Andrew J Copp, Shiladitya Banerjee, Gabriel L Galea

 

Mechanical heterogeneity along single cell-cell junctions is driven by lateral clustering of cadherins during vertebrate axis elongation
Robert J. Huebner, Abdul Naseer Malmi-Kakkada, Sena Sarikaya, Shinuo Weng, D. Thirumalai, John B. Wallingford

 

Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion
Jana Slováková, Mateusz Sikora, Silvia Caballero-Mancebo, S.F. Gabriel Krens, Walter A. Kaufmann, Karla Huljev, Carl-Philipp Heisenberg

 

Cilia-independent requirements for Ccdc103 promoting proliferation and migration of myeloid cells
Lauren Falkenberg, Sarah Beckman, Padmapriyadarshini Ravisankar, Tracy Dohn, Joshua Waxman

 

Transcriptional regulation of EMT by nuclear MMP28
Nadège Gouignard, Anne Bibonne, Jean-Pierre Saint-Jeannet, Eric Theveneau

 

Mouse emrbyos from Morgani, et al.

 

The transcription factor Rreb1 regulates epithelial architecture and invasiveness in gastrulating mouse embryos
Sophie M. Morgani, Jie Su, Jennifer Nichols, Joan Massagué, Anna-Katerina Hadjantonakis

 

Laminin N-terminus α31 expression during development is lethal and causes widespread tissue-specific defects in a transgenic mouse model.
Conor James Sugden, Valentina Iorio, Lee D Troughton, Ke Liu, George Bou-Gharios, Kevin J Hamill

 

ASPP2/PP1 complexes maintain the integrity of pseudostratified epithelia undergoing remodelling during morphogenesis
Christophe Royer, Elizabeth Sandham, Elizabeth Slee, Jonathan Godwin, Nisha Veits, Holly Hathrell, Felix Zhou, Karolis Leonavicius, Jemma Garratt, Tanaya Narendra, Anna Vincent, Celine Jones, Tim Child, Kevin Coward, Chris Graham, Xin Lu, Shankar Srinivas

 

Disruption of augmin-mediated microtubule nucleation in neural stem cells causes p53-dependent apoptosis and aborts brain development
Ricardo Viais, Sadanori Watanabe, Marina Villamor, Lluís Palenzuela, Cristina Lacasa, Marcos Fariña, Jens Lüders

 

Epithelial Morphogenesis Driven by Cell-Matrix vs. Cell-Cell Adhesion
Shaohe Wang, Kazue Matsumoto, Kenneth M. Yamada

 

Drosophila abdomens from Ainslie, et al.

 

ECM remodeling and spatial cell cycle coordination determine tissue growth kinetics
Anna P. Ainslie, John Robert Davis, John J. Williamson, Ana Ferreira, Alejandro Torres-Sánchez, Andreas Hoppe, Federica Mangione, Matthew B. Smith, Enrique Martin-Blanco, Guillaume Salbreux, Nicolas Tapon

 

From heterogenous morphogenetic fields to homogeneous regions as a step towards understanding complex tissue dynamics
Satoshi Yamashita, Boris Guirao, François Graner

 

Microvilli-derived Extracellular Vesicles Govern Morphogenesis in Drosophila wing epithelium
Ilse Hurbain, Anne-Sophie Macé, Maryse Romao, Lucie Sengmanivong, Laurent Ruel, Renata Basto, Pascal P. Thérond, Graça Raposo, Gisela D’Angelo

 

 

 

| Genes & genomes

Developmental Genetics of Color Pattern Establishment in Cats
Christopher B. Kaelin, Kelly A. McGowan, Gregory S. Barsh

 

Translesion DNA synthesis-driven mutagenesis in very early embryogenesis of fast cleaving embryos
Elena Lo Furno, Isabelle Busseau, Claudio Lorenzi, Cima Saghira, Stephan Zuchner, Domenico Maiorano

 

Single cell sea urchin from Massri, et al.

 

Developmental Single-cell transcriptomics in the Lytechinus variegatus Sea Urchin Embryo
Abdull J. Massri, Laura Greenstreet, Anton Afanassiev, Alejandro Berrio Escobar, Gregory M. Wray, Geoffrey Schiebinger, David R. McClay

 

DNA methylation during development and regeneration of the annelid Platynereis dumerilii
Anabelle Planques, Pierre Kerner, Laure Ferry, Christoph Grunau, Eve Gazave, Michel Vervoort

 

Characterizing the Emergence of Liver and Gallbladder from the Embryonic Endoderm through Single-Cell RNA-Seq
Tianhao Mu, Liqin Xu, Yu Zhong, Xinyu Liu, Zhikun Zhao, Chaoben Huang, Xiaofeng Lan, Chengchen Lufei, Yi Zhou, Yixun Su, Luang Xu, Miaomiao Jiang, Hongpo Zhou, Xinxin Lin, Liang Wu, Siqi Peng, Shiping Liu, Susanne Brix, Michael Dean, Norris R. Dunn, Kenneth S. Zaret, Xin-Yuan Fu, Yong Hou

 

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

 

 

The BTB transcription factors ZBTB11 and ZFP131 maintain pluripotency by pausing POL II at pro-differentiation genes
Görkem Garipler, Congyi Lu, Alexis Morrissey, Lorena S. Lopez-Zepeda, Simon E. Vidal, Begüm Aydin, Matthias Stadtfeld, Uwe Ohler, Shaun Mahony, Neville E. Sanjana, Esteban O. Mazzoni

 

Satb2 acts as a gatekeeper for major developmental transitions during early vertebrate embryogenesis
Saurabh J. Pradhan, Puli Chandramouli Reddy, Michael Smutny, Ankita Sharma, Keisuke Sako, Meghana S. Oak, Rini Shah, Mrinmoy Pal, Ojas Deshpande, Yin Tang, Rakesh Mishra, Girish Deshpande, Antonio J. Giraldez, Mahendra Sonawane, Carl-Philipp Heisenberg, Sanjeev Galande

 

Mouse embryos from Abassah-Oppong, et al.

 

A gene desert required for regulatory control of pleiotropic Shox2 expression and embryonic survival
Samuel Abassah-Oppong, Brandon J. Mannion, Virginie Tissières, Eddie Rodríguez-Carballo, Anja Ljubojevic, Fabrice Darbellay, Tabitha A. Festa, Carly S. Sullivan, Guy Kelman, Riana D. Hunter, Catherine S. Novak, Ingrid Plajzer-Frick, Stella Tran, Jennifer A. Akiyama, Iros Barozzi, Guillaume Andrey, Javier Lopez-Rios, Diane E. Dickel, Axel Visel, Len A. Pennacchio, John Cobb, Marco Osterwalder

 

Highly conserved and cis-acting lncRNAs produced from paralogous regions in the center of HOXA and HOXB clusters in the endoderm lineage
Neta Degani, Elena Ainbinder, Igor Ulitsky

 

HOX13-MEDIATED DBX2 REGULATION IN LIMBS SUGGESTS INTER-TAD SHARING OF ENHANCERS
Leonardo Beccari, Gabriel Jaquier, Lucille Lopez-Delisle, Eddie Rodriguez-Carballo, Bénédicte Mascrez, Sandra Gitto, Joost Woltering, Denis Duboule

 

LncRNA H19X is required for placenta development and angiogenesis through regulating a noncoding RNA regulatory network
Li Tongtong, Yacong Cao, Yanting Zou, Ye Yang, Wang Ke, Huang Gelin, Li Xiaoliang, Zheng Rui, Tang Li, Lv Jiao, Yang Ming, He Jiabei, Zhang Xiaohu, Bai Shujun, Li Qintong, Qin Lang, Zhao Xiao Miao, Xu Wenming

 

Transcriptional Network Orchestrating Regional Patterning of Cortical Progenitors
Athéna R Ypsilanti, Kartik Pattabiraman, Rinaldo Catta-Preta, Olga Golonzhka, Susan Lindtner, Ke Tang, Ian Jones, Armen Abnousi, Ivan Juric, Ming Hu, Yin Shen, Diane E Dickel, Axel Visel, Len A Pennachio, Michael Hawrylycz, Carol Thompson, Hongkui Zeng, Iros Barozzi, Alex S Nord, John Rubenstein

 

Mouse midbrains from Sagner, et al.

 

Temporal patterning of the central nervous system by a shared transcription factor code
Andreas Sagner, Isabel Zhang, Thomas Watson, Jorge Lazaro, Manuela Melchionda, James Briscoe

 

Control of neurogenic competence in mammalian hypothalamic tanycytes
Sooyeon Yoo, Juhyun Kim, Pin Lyu, Thanh V. Hoang, Alex Ma, Vickie Trinh, Weina Dai, Lizhi Jiang, Patrick Leavey, Jae-Kyung Won, Sung-Hye Park, Jiang Qian, Solange P. Brown, Seth Blackshaw

 

A dominant-negative SOX18 mutant disrupts multiple regulatory layers essential to transcription factor activity
Alex McCann, Jieqiong Lou, Mehdi Moustaqil, Ailisa Blum, Frank Fontaine, Hui Liu, Winnie Luu, Peter Koopman, Emma Sierecki, Yann Gambin, Frédéric A. Meunier, Zhe Liu, Elizabeth Hinde, Mathias Francois

 

The molecular logic of synaptic wiring at the single cell level
Jessica Velten, Rashi Agarwal, Patrick van Nierop y Sanchez, Lena Bognar, Malte Paulsen, Lars Velten, Ingrid Lohman

 

Integrative Single-cell RNA-Seq and ATAC-Seq Analysis of Human Developmental Haematopoiesis
Anna Maria Ranzoni, Andrea Tangherloni, Ivan Berest, Simone Giovanni Riva, Brynelle Myers, Paulina M. Strzelecka, Jiarui Xu, Elisa Panada, Irina Mohorianu, Judith B. Zaugg, Ana Cvejic

 

Single cell transcriptomics reveal temporal dynamics of critical regulators of germ cell fate during mouse sex determination
Chloé Mayère, Yasmine Neirijnck, Pauline Sararols, Chris M Rands, Isabelle Stévant, Françoise Kühne, Anne-Amandine Chassot, Marie-Christine Chaboissier, Emmanouil T. Dermitzakis, Serge Nef

 

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

 

Transcriptional changes in the mammary gland during lactation revealed by single cell sequencing of cells from human milk
Alecia-Jane Twigger, Lisa K. Engelbrecht, Karsten Bach, Isabel Schultz-Pernice, Stefania Petricca, Christina H. Scheel, Walid Khaled

 

Mouse brains from Moreau, et al.

 

Single-cell transcriptomics of the early developing mouse cerebral cortex disentangles the spatial and temporal components of neuronal fate acquisition
Matthieu X. Moreau, Yoann Saillour, Andrzej W. Cwetsch, Alessandra Pierani, Frédéric Causeret

 

Tracking H3K27me3 and H4K20me1 during XCI reveals similarities in enrichment dynamics
Sjoerd J. D. Tjalsma, Mayako Hori, Yuko Sato, Aurelie Bousard, Akito Ohi, Ana Cláudia Raposo, Julia Roensch, Agnes Le Saux, Jumpei Nogami, Kazumitsu Maehara, Tomoya Kujirai, Tetsuya Handa, Sandra Bagés-Arnal, Yasuyuki Ohkawa, Hitoshi Kurumizaka, Simão Teixeira da Rocha, Jan J. Żylicz, Hiroshi Kimura, Edith Heard

 

Xist-seeded nucleation sites form local concentration gradients of silencing proteins to inactivate the X-chromosome
Yolanda Markaki, Johnny Gan Chong, Christy Luong, Shawn Y.X. Tan, Yuying Wang, Elsie C. Jacobson, Davide Maestrini, Iris Dror, Bhaven A. Mistry, Johannes Schöneberg, Abhik Banerjee, Mitchell Guttman, Tom Chou, Kathrin Plath

 

A developmentally programmed splicing failure attenuates the DNA damage response during mammalian zygotic genome activation
Christopher D. R. Wyatt, Barbara Pernaute, André Gohr, Marta Miret-Cuesta, Lucia Goyeneche, Quirze Rovira, Ozren Bogdanovic, Sophie Bonnal, Manuel Irimia

 

Castration delays epigenetic aging and feminises DNA methylation at androgen-regulated loci
VJ Sugrue, JA Zoller, P Narayan, AT Lu, OJ Ortega-Recalde, MJ Grant, CS Bawden, SR Rudiger, A Haghani, DM Bond, M Garratt, KE Sears, N Wang, XW Yang, RG Snell, TA Hore, S Horvath

 

Evidence for enhancer noncoding RNAs (enhancer-ncRNAs) with gene regulatory functions relevant to neurodevelopmental disorders
Yazdan Asgari, Julian I.T. Heng, Nigel Lovell, Alistair R. R. Forrest, Hamid Alinejad-Rokny

 

Loss of Cnot6l impairs inosine RNA modifications in mouse oocytes
Pavla Brachova, Nehemiah S. Alvarez, Lane K. Christenson

 

A cohort of Caenorhabditis species lacking the highly conserved let-7 microRNA
Charles Nelson, Victor Ambros

 

The Establishment of Transgenerational Epigenetic Inheritance in the C. elegans Germline is Mediated by Lipid Metabolism
Dan Peng, Chen Wang, Kai-Le Li, Zhi-Xue Gan, Yong-Hao Li, Hao-Wei Wang, Qiu-Yu Li, Xi-Wei Liu, He-Yuan Sun, Yuan-Ya Jing, Qiang Fang, Qian Zhao, Lei Zhang, Huan-Huan Chen, Hui-Min Wei, Jin Sun, Huan-Yin Tang, Xiao-Mei Yang, Jiang-Feng Chang, Feng Sun, Ci-Zhong Jiang, Hong-Bin Yuan, Wei Li, Fang-Lin Sun

 

Downstream of identity genes: dCryAB and Gelsolin control discrete growth-related properties of muscle subsets in Drosophila
Benjamin Bertin, Yoan Renaud, Teresa Jagla, Guillaume Lavergne, Cristiana Dondi, Jean-Philippe Da Ponte, Guillaume Junion, Krzysztof Jagla

 

The Nab2 RNA binding protein promotes sex-specific splicing of Sex lethal in Drosophila neuronal tissue
Binta Jalloh, John C Rounds, Brianna Brown, Isaac Kremsky, Ayan Banerjee, Derrick J Morton, Rick Bienkowski, Milo B Fasken, Anita H. Corbett, Kenneth H Moberg

 

 

 

| Stem cells, regeneration & disease modelling

 

Chick embryos from Solovieva, et al.

 

The embryonic node functions as an instructive stem cell niche
Tatiana Solovieva, Hui-Chun Lu, Adam Moverley, Nicolas Plachta, Claudio D. Stern

 

Basal neural stem cells in the subventricular zone drive postnatal neurogenesis with apical stem cells acting as proliferation gate-keepers
Katja Baur, Yomn Abdullah, Claudia Mandl, Gabriele Hölzl-Wenig, Yan Shi, Udo Edelkraut, Priti Khatri, Francesca Ciccolini

 

MLL1 is required for maintenance of intestinal stem cells and the expression of the cell adhesion molecule JAML
Neha Goveas, Claudia Waskow, Kathrin Arndt, Julian Heuberger, Qinyu Zhang, Dimitra Alexopoulou, Andreas Dahl, Walter Birchmeier, Konstantinos Anastassiadis, A. Francis Stewart, Andrea Kranz

 

Cell cycle lengths of stem cells and their lineage from cellular demography
Purna Gadre, Nitin Nitsure, Debasmita Mazumdar, Samir Gupta, Krishanu Ray

 

Basal neural stem cells in the subventricular zone drive postnatal neurogenesis with apical stem cells acting as proliferation gate-keepers
Katja Baur, Yomn Abdullah, Claudia Mandl, Gabriele Hölzl-Wenig, Yan Shi, Udo Edelkraut, Priti Khatri, Francesca Ciccolini

 

Stem cell aggregates from Libby, et al.

 

Silencing of E-cadherin in induced human pluripotent stem cells promotes extraembryonic fates accompanying multilineage differentiation
Ashley RG Libby, Ivana Vasic, David A Joy, Martina Z Krakora, Fredrico N Mendoza-Camacho, Bruce R Conklin, Todd C McDevitt

 

CENP-C regulates centromere assembly, asymmetry and epigenetic age in Drosophila germline stem cells
Ben L Carty, Anna A Dattoli, Elaine M Dunleavy

 

Fly gut cells from

 

Neuroglian regulates Drosophila intestinal stem cell proliferation through enhanced signaling via the Epidermal Growth Factor Receptor
Martin Resnik-Docampo, Kathleen M. Cunningham, S. Mateo Ruvalcaba, Charles Choi, Vivien Sauer, D. Leanne Jones

 

Chromatin Accessibility Maps Provide Evidence of Multilineage Gene Priming in Hematopoietic Stem Cells
Eric Martin, Jana Krietsch, Roman Reggiardo, Rebekah Sousae, Daniel Kim, Camilla Forsberg

 

The pluripotent stem cell-specific transcript ESRG is dispensable for human pluripotency
Kazutoshi Takahashi, Michiko Nakamura, Megumi Narita, Akira Watanabe, Mai Ueda, Yasuhiro Takashima, Shinya Yamanaka

 

The spatial self-organization within pluripotent stem cell colonies is continued in detaching aggregates
Mohamed H. Elsafi Mabrouk, Roman Goetzke, Giulio Abagnale, Burcu Yesilyurt, Lucia Salz, Kira Zeevaert, Zhiyao Ma, Marcelo A. S. Toledo, Ronghui Li, Ivan G. Costa, Vivek Pachauri, Uwe Schnakenberg, Martin Zenke, Wolfgang Wagner

 

In Vivo Study of Key Transcription Factors in Muscle Satellite Cells by CRISPR/Cas9/AAV9-sgRNA Mediated Genome Editing
Liangqiang He, Yingzhe Ding, Yu Zhao, Karl K. So, Xianlu L. Peng, Yuying Li, Jie Yuan, Hao Sun, Huating Wang

 

Defining the ultrastructure of the hematopoietic stem cell niche by correlative light and electron microscopy
Sobhika Agarwala, Keun-Young Kim, Sebastien Phan, Saeyeon Ju, Ye Eun Kong, Guillaume A. Castillon, Eric A. Bushong, Mark H. Ellisman, Owen J. Tamplin

 

Interactions between axon-like projections extended by Drosophila Follicle Stem Cells dictate cell fate decisions
Eric H. Lee, Daniel Zinshteyn, Melissa Wang, Jessica Reinach, Cindy Chau, Kelly Costa, Alberto Vargas, Aminah Johnson, Jennifer I. Alexander, Alana M. O’Reilly

 

A novel membrane protein Hoka regulates septate junction organization and stem cell homeostasis in the Drosophila gut
Yasushi Izumi, Kyoko Furuse, Mikio Furuse

 

Epidermal stem cell compartment remains unaffected through aging in naked mole-rats.
Aleksandra Savina, Thierry Jaffredo, Frederic Saldmann, Chris G Faulkes, Philippe Moguelet, Christine Leroy, Delphine Del Marmol, Patrice Codogno, Lucy Foucher, Melanie Viltard, Gerard Friedlander, Selim Aractingi, Romain H Fontaine

 

Multi-Modal Profiling of Human Fetal Liver-Derived Hematopoietic Stem Cells Reveals the Molecular Signature of Engraftment Potential
Kim Vanuytsel, Carlos Villacorta-Martin, Jonathan Lindstrom-Vautrin, Zhe Wang, Wilfredo F. Garcia-Beltran, Vladimir Vrbanac, Taylor M. Matte, Todd W. Dowrey, Sara S. Kumar, Mengze Li, Ruben Dries, Joshua D. Campbell, Anna C. Belkina, Alejandro B. Balazs, George J. Murphy

 

Airway tissue stem cells reutilize the embryonic proliferation regulator, Tgfβ-Id2 axis, for tissue regeneration
Hirofumi Kiyokawa, Akira Yamaoka, Chisa Matsuoka, Tomoko Tokuhara, Takaya Abe, Mitsuru Morimoto

 

Apoptosis, G1 phase stall and premature differentiation account for low chimeric competence of Human and rhesus monkey naïve pluripotent stem cells
Irène Aksoy, Cloé Rognard, Anaïs Moulin, Guillaume Marcy, Etienne Masfaraud, Florence Wianny, Véronique Cortay, Angèle Bellemin-Ménard, Nathalie Doerflinger, Manon Dirheimer, Chloé Mayère, Pierre-Yves Bourillot, Cian Lynch, Olivier Raineteau, Thierry Joly, Colette Dehay, Manuel Serrano, Marielle Afanassieff, Pierre Savatier

 

Aurelia ephyra from abrams, et al.

 

A conserved strategy for inducing appendage regeneration
Michael J. Abrams, Fayth Tan, Ty Basinger, Martin Heithe, Yutian Li, Misha Raffiee, Patrick Leahy, John O. Dabiri, David A. Gold, Lea Goentoro

 

The mechanotransduction protein STOML3 is required for functional plasticity following peripheral nerve regeneration
Julia Haseleu, Jan Walcher, Gary R. Lewin

 

MicroRNA-24-3p promotes skeletal muscle differentiation and regeneration by regulating high mobility group AT-hook 1
Paromita Dey, Bijan K. Dey

 

Identification of novel disease relevant genetic modifiers affecting the SHH pathway in the developing brain
Nora Mecklenburg, Izabela Kowalczyk, Franziska Witte, Jessica Görne, Alena Laier, Hannes Gonschior, Martin Lehmann, Matthias Richter, Anje Sporbert, Bettina Purfürst, Norbert Hübner, Annette Hammes

 

Molecular and electrophysiological features of spinocerebellar ataxia type seven in induced pluripotent stem cells
RJ Burman, LM Watson, DC Smith, JV Raimondo, R Ballo, J Scholefield, SA Cowley, MJA Wood, SH Kidson, LJ Greenberg

 

Cerebral organoids in Villa, et al.

 

CHD8 haploinsufficiency alters the developmental trajectories of human excitatory and inhibitory neurons linking autism phenotypes with transient cellular defects
Carlo Emanuele Villa, Cristina Cheroni, Alejandro López-Tóbon, Christoph P. Dotter, Bárbara Oliveira, Roberto Sacco, Aysan Cerag Yahya, Jasmin Morandell, Michele Gabriele, Christoph Sommer, Mariano Gabitto, Giuseppe Testa, Gaia Novarino

 

Aberrant gliogenesis and excitation in MEF2C autism patient hiPSC-neurons and cerebral organoids
Dorit Trudler, Swagata Ghatak, James Parker, Maria Talantova, Titas Grabauskas, Sarah Moore Noveral, Mayu Teranaka, Melissa Luevanos, Nima Dolatabadi, Clare Bakker, Kevin Lopez, Abdullah Sultan, Agnes Chan, Yongwook Choi, Riki Kawaguchi, Nicholas Schork, Pawel Stankiewicz, Ivan Garcia-Bassets, Piotr Kozbial, Michael G. Rosenfeld, Nobuki Nakanishi, Daniel H. Geschwind, Shing Fai Chan, Rajesh Ambasudhan, Stuart A. Lipton

 

Human brain organoids reveal accelerated development of cortical neuron classes as a shared feature of autism risk genes
Bruna Paulsen, Silvia Velasco, Amanda J. Kedaigle, Martina Pigoni, Giorgia Quadrato, Anthony Deo, Xian Adiconis, Ana Uzquiano, Kwanho Kim, Sean K. Simmons, Kalliopi Tsafou, Alex Albanese, Rafaela Sartore, Catherine Abbate, Ashley Tucewicz, Samantha Smith, Kwanghun Chung, Kasper Lage, Aviv Regev, Joshua Z. Levin, Paola Arlotta

 

Novel fragile X syndrome 2D and 3D brain models based on human isogenic FMRP-KO iPSCs
Carlo Brighi, Federico Salaris, Alessandro Soloperto, Federica Cordella, Silvia Ghirga, Valeria de Turris, Maria Rosito, Pier Francesca Porceddu, Angelo Reggiani, Alessandro Rosa, Silvia Di Angelantonio

 

Identification of Fibronectin 1 as a candidate genetic modifier in a Col4a1 mutant mouse model of Gould syndrome
Mao Mao, Tanav Popli, Marion Jeanne, Kendall Hoff, Saunak Sen, Douglas B. Gould

 

Efficient GNE myopathy disease modeling with mutation specific phenotypes in human pluripotent stem cells by base editors
Ju-Chan Park, Jumee Kim, Hyun-Ki Jang, Seung-Yeon Lee, Keun-Tae Kim, Seokwoo Park, Hyun Sik Lee, Hee-Jung Choi, Soon-Jung Park, Sung-Hwan Moon, Sangsu Bae, Hyuk-Jin Cha

 

Xenopus and their limbs in Getwan, et al.

 

CRISPR/Cas9 targeting Ttc30a mimics ciliary chondrodysplasia with polycystic kidney disease
Maike Getwan, Anselm Hoppmann, Pascal Schlosser, Kelli Grand, Weiting Song, Rebecca Diehl, Sophie Schroda, Florian Heeg, Konstantin Deutsch, Friedhelm Hildebrandt, Ekkehart Lausch, Anna Köttgen, Soeren S. Lienkamp

 

All-trans Retinoic Acid Regulates miR-106a-5p Inhibition of Autophagic in Developing Cleft Palates
Lungang Shi, Yan Liang, Lijing Yang, Binchen Li, Binna Zhang, Congyuan Zhen, Jufeng Fan, Shijie Tang

 

BRAF controls the effects of metformin on neuroblast cell divisions in C. elegans
Zhi Qu, Shaoping Ji, Shanqing Zheng

 

A human iPSC-astroglia neurodevelopmental model reveals divergent transcriptomic patterns in schizophrenia
Attila Szabo, Ibrahim A. Akkouh, Matthieu Vandenberghe, Jordi Requena Osete, Timothy Hughes, Vivi Heine, Olav B. Smeland, Joel C. Glover, Ole A. Andreassen, Srdjan Djurovic

 

Transposable Element activation promotes neurodegeneration in a Drosophila model of Huntington’s disease
Assunta Maria Casale, Francesco Liguori, Federico Ansaloni, Ugo Cappucci, Sara Finaurini, Giovanni Spirito, Francesca Persichetti, Remo Sanges, Stefano Gustincich, Lucia Piacentini

 

Microfluidic Device Facilitates Novel In Vitro Modeling of Human Neonatal Necrotizing Enterocolitis-on-a-Chip
Wyatt E. Lanik, Cliff J. Luke, Lila S. Nolan, Qingqing Gong, Jamie M. Rimer, Sarah E. Gale, Raymond Luc, Shay S. Bidani, Carrie A. Sibbald, Angela N. Lewis, Belgacem Mihi, Pranjal Agrawal, Martin Goree, Marlie Maestas, Elise Hu, David G. Peters, Misty Good

 

 

 

| Plant development

 

Comparative transcriptomic analysis reveals conserved transcriptional programs underpinning organogenesis and reproduction in land plants
Irene Julca, Camilla Ferrari, María Flores-Tornero, Sebastian Proost, Ann-Cathrin Lindner, Dieter Hackenberg, Lenka Steinbachová, Christos Michaelidis, Sónia Gomes Pereira, Chandra Shekhar Misra, Tomokazu Kawashima, Michael Borg, Frédéric Berger, Jacob Goldberg, Mark Johnson, David Honys, David Twell, Stefanie Sprunck, Thomas Dresselhaus, Jörg D. Becker, Marek Mutwil

 

Glowing Marchantia from Frangedakis, et al.

 

Comparative analysis of early divergent land plants and construction of DNA tools for hyper-expression in Marchantia chloroplasts
Eftychios Frangedakis, Fernando Guzman-Chavez, Marius Rebmann, Kasey Markel, Ying Yu, Artemis Perraki, Sze Wai Tse, Yang Liu, Jenna Rever, Susanna Sauret-Gueto, Bernard Goffinet, Harald Schneider, Jim Haseloff

 

SABRE populates ER domains essential for cell plate maturation and cell expansion influencing cell and tissue patterning
Xiaohang Cheng, Magdalena Bezanilla

 

A maize male gametophyte-specific gene encodes ZmLARP6c1, a potential RNA-binding protein required for competitive pollen tube growth
Lian Zhou, Zuzana Vejlupkova, Cedar Warman, John E. Fowler

 

Plant-specific histone deacetylases are essential for early as well as late stages of Medicago nodule development
Huchen Li, Stefan Schilderink, Qingqin Cao, Olga Kulikova, Ton Bisseling

 

Nitrate inhibits nodule organogenesis through inhibition of cytokinin biosynthesis in Lotus japonicus
Jieshun Lin, Yuda Purwana Roswanjaya, Wouter Kohlen, Jens Stougaard, Dugald Reid

 

Major components in the KARRIKIN INSENSITIVE2-ligand signaling pathway are conserved in the liverwort, Marchantia polymorpha
Yohei Mizuno, Aino Komatsu, Shota Shimazaki, Xiaonan Xie, Kimitsune Ishizaki, Satoshi Naramoto, Junko Kyozuka

 

The APETALA2 transcription factor LsAP2 regulates seed shape in lettuce
Chen Luo, Shenglin Wang, Kang Ning, Zijing Chen, Yixin Wang, Jingjing Yang, Meixia Qi, Qian Wang

 

SlSWEET15 exports sucrose from phloem and seed coat in tomato to supply carbon for fruit and seed development
Han-Yu Ko, Li-Hsuan Ho, H. Ekkehard Neuhaus, Woei-Jiun Guo

 

Divergence in a stress-associated gene regulatory network underlies differential growth control in the Brassicaceae family
Ying Sun, Dong-Ha Oh, Lina Duan, Prashanth Ramachandran, Andrea Ramirez, Anna Bartlett, Maheshi Dassanayake, José R Dinneny

 

Arabidopsis roots from Vukašinović, et al.

 

Local brassinosteroid biosynthesis enables optimal root growth
Nemanja Vukašinović, Yaowei Wang, Isabelle Vanhoutte, Matyáš Fendrych, Boyu Guo, Miroslav Kvasnica, Petra Jiroutová, Jana Oklestkova, Miroslav Strnad, Eugenia Russinova

 

Cell wall damage impairs root hair cell patterning and tissue morphogenesis mediated by the Arabidopsis receptor kinase STRUBBELIG
Ajeet Chaudhary, Xia Chen, Barbara Leśniewska, Jin Gao, Sebastian Wolf, Kay Schneitz

 

Arabidopsis leaf cells from Blümke, et al.

 

The receptor-like cytoplasmic kinase MAZZA and CLAVATA-family receptors interact in vivo, together mediating developmental processes in Arabidopsis thaliana
Patrick Blümke, Jenia Schlegel, Sabine Becher, Karine Pinto, Rüdiger Simon

 

Control of stem cell niche and fruit development in Arabidopsis thaliana by AGO10/ZWL requires the bHLH transcription factor INDEHISCENT
Manoj Valluru, Karim Sorefan

 

The movement of a leaf-derived mobile AGL24 mRNA specifies floral organ identity in Arabidopsis
Nien-Chen Huang, Huan-Chi Tien, Tien-Shin Yu

 

LARP6C regulates selective mRNA translation to promote pollen tube guidance in Arabidopsis thaliana
Elodie Billey, Said Hafidh, Isabel Cruz-Gallardo, Celso G. Litholdo Jr, Viviane Jean, Marie-Christine Carpentier, Claire Picart, Katarina Kulichova, David Honys, Maria R. Conte, Jean-Marc Deragon, Cécile Bousquet-Antonelli

 

Phytochrome contributes to blue-light-mediated stem elongation and associated shade-avoidance response in mature Arabidopsis plants
Yun Kong, Youbin Zheng

 

A plant lipocalin is required for retinal-mediated de novo root organogenesis
Alexandra J. Dickinson, Jingyuan Zhang, Michael Luciano, Guy Wachsman, Martin Schnermann, José R. Dinneny, Philip N. Benfey

 

Auxin requirements for a meristematic state in roots depend on a dual brassinosteroid function
Michal Ackerman-Lavert, Yulia Fridman, Rotem Matosevich, Hitaishi Khandal, Lilach Friedlander-Shani, Kristina Vragovic, Rina Ben-El, Guy Horev, Idan Efroni, Sigal Savaldi-Goldstein

 

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

 

A plant lipocalin is required for retinal-mediated de novo root organogenesis
Alexandra J. Dickinson, Jingyuan Zhang, Michael Luciano, Martin Schnermann, José R. Dinneny, Philip N. Benfey

 

The receptor-like cytoplasmic kinase MAZZA integrates CLAVATA-family receptor signaling to mediate stomatal patterning in Arabidopsis thaliana
Patrick Blümke, Jenia Schlegel, Sabine Becher, Karine Pinto, Rüdiger Simon

 

The cell fate controlling CLE40 peptide requires CNGC9 to trigger highly localized Ca2+ transients in Arabidopsis thaliana root meristems
Maike Breiden, Vilde Olsson, Karine Gustavo-Pinto, Patrick Schultz, Gregoire Denay, Jenia Schlegel, Petra Dietrich, Melinka A. Butenko, Rüdiger Simon

 

Epigenetic transgenerational effects on RNAi in Arabidopsis
Qüan’an Hu, Jérôme Ailhas, Todd Blevins, Ulrich Klahre, Franck Vazquez, Michael Florian Mette, Frederick Meins Jr.

 

Regulation of touch dependant de novo root regeneration in Arabidopsis
Anju Pallipurath Shanmukhan, Mabel Maria Mathew, Mohammed Aiyaz, Abdul Kareem, Dhanya Radhakrishnan, Kalika Prasad

 

AUXIN RESPONSE FACTOR 6 (ARF6) and ARF8 promote Gibberellin-mediated hypocotyl xylem expansion and cambium homeostasis
Mehdi Ben-Targem, Dagmar Ripper, Martin Bayer, Laura Ragni

 

Arabidopsis root hairs from Chin, et al.

 

The BEACH Domain-Containing Protein SPIRRIG Modulates Actin-Dependent Root Hair Development in Coordination with the WAVE/SCAR and ARP2/3 Complexes
Sabrina Chin, Taegun Kwon, Bibi Rafeiza Khan, J. Alan Sparks, Eileen L. Mallery, Daniel B. Szymanski, Elison B. Blancaflor

 

KNOX HOMOLOGS SHOOT MERISTEMLESS (STM) and KNAT6 are epistatic to CLAVATA3 (CLV3) during embryonic meristem development in Arabidopsis thaliana
Sharma Nidhi, Liu Tie

 

The cell fate controlling CLE40 peptide requires CNGC9 to trigger highly localized Ca2+ transients in Arabidopsis thaliana root meristems
Maike Breiden, Vilde Olsson, Karine Gustavo Pinto, Patrick Bluemke, Gregoire Denay, Jenia Schlegel, Melinka A Butenko, Ruediger Simon

 

A giant cell enhancer achieves cell-type specificity through activation via TCP and repression by Dof transcription factors
Lilan Hong, Clint S. Ko, S. Earl Kang, Jose L. Pruneda-Paz, Adrienne H. K. Roeder

 

Efficient simultaneous mutagenesis of multiple genes in specific plant tissues by multiplex CRISPR
Norbert Bollier, Rafael Andrade Buono, Thomas B. Jacobs, Moritz K. Nowack

 

Cryptic promoter activation occurs by at least two different mechanisms in the Arabidopsis genome
Hisayuki Kudo, Mitsuhiro Matsuo, Soichirou Satoh, Rei Hachisu, Masayuki Nakamura, Yoshiharu Y Yamamoto, Takayuki Hata, Hiroshi Kimura, Minami Matsui, Junichi Obokata

 

De novo activated transcription of newborn coding sequences is inheritable in the plant genome
Takayuki Hata, Naoto Takada, Chihiro Hayakawa, Mei Kazama, Tomohiro Uchikoba, Makoto Tachikawa, Mitsuhiro Matsuo, Soichirou Satoh, Junichi Obokata

 

Kozak sequence acts as a negative regulator for de novo transcription initiation of newborn coding sequences in the plant genome
Takayuki Hata, Soichirou Satoh, Naoto Takada, Mitsuhiro Matsuo, Junichi Obokata

 

Plant genome response to incoming coding sequences: stochastic transcriptional activation independent of chromatin configuration
Soichirou Satoh, Takayuki Hata, Naoto Takada, Makoto Tachikawa, Mitsuhiro Matsuo, Sergei Kushnir, Junichi Obokata

 

 

Evo-devo & evo

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

 

Genomic Analyses of New Genes and Their Phenotypic Effects Reveal Rapid Evolution of Essential Functions in Drosophila 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

 

Spotted gar heads from Xia, et al.

 

Cellular and molecular mechanisms of frontal bone development in spotted gar (Lepisosteus oculatus)
Alyssa Enny, Andrew W. Thompson, Brett Racicot, Ingo Braasch, Tetsuya Nakamura

 

Capitella embryos from Webster, et al.

 

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

 

Shaking hands is a putative terminal selector and controls axon outgrowth of central complex neurons in the insect model Tribolium
Natalia Carolina Garcia-Perez, Gregor Bucher, Marita Buescher

 

Placozoans from Romanova, et al.

 

Hidden cell diversity in Placozoa: Ultrastructural Insights from Hoilungia hongkongensis
Daria Y Romanova, Frederique Varoqueaux, Jean Daraspe, Mikhail A. Nikitin, Michael Eitel, Dirk Fasshauer, Leonid L. Moroz

 

Studying evolution of the primary body axis in vivo and in vitro
Kerim Anlas, Vikas Trivedi

 

Suboptimal intermediates underlie evolution of the Bicoid homeodomain
Pinar Onal, Himari Imaya Gunasinghe, Kristaley Yui Umezawa, Michael Zheng, Jia Ling, Leen Azeez, Anecine Dalmeus, Tasmima Tazin, Stephen Small

 

A single origin of animal excretory organs
Ludwik Gąsiorowski, Carmen Andrikou, Ralf Janssen, Paul Bump, Graham E. Budd, Christopher J. Lowe, Andreas Hejnol

 

The order of trait emergence in the evolution of cyanobacterial multicellularity
Katrin Hammerschmidt, Giddy Landan, Fernando Domingues Kümmel Tria, Jaime Alcorta, Tal Dagan

 

Rooting the animal tree of life
Yuanning Li, Xing-Xing Shen, Benjamin Evans, Casey W. Dunn, Antonis Rokas

 

A fish-specific new gene evolves new functions in cichlid fishes
Langyu Gu, Chenzheng Li, Xiaobing Mao, Zongfang Wei, Youkui Huang, Ximin He, Wenjun Zhou, Li Li, Deshou Wang

 

 

 

Cell biology

The centriolar satellite protein Cfap53/Ccdc11 facilitates the formation of the first zygotic microtubule organizing center in the zebrafish embryo
Sven Willekers, Federico Tessadori, Babet van der Vaart, Heiko Henning, Riccardo Stucchi, Maarten Altelaar, Bernard A.J. Roelen, Anna Akhmanova, Jeroen Bakkers

 

Heterotrimeric kinesin-2 motor subunit, KLP68D, localises Drosophila odour receptor coreceptor in the distal domain of the olfactory cilia
Swadhin C. Jana, Akanksha Jain, Priya Dutta, Anjusha Singh, Lavanya Adusumilli, Mukul Girotra, Seema Shirolikar, Krishanu Ray

 

Chromosome Integrity is Required for the Initiation of Meiotic Sex Chromosome Inactivation in Caenorhabditis elegans
Yisrael Rappaport, Hanna Achache, Roni Falk, Omer Murik, Oren Ram, Yonatan B. Tzur

 

PCMD-1 bridges the centrioles and the PCM scaffold in C. elegans
Lisa Stenzel, Judith Mehler, Alina Schreiner, Sim Üstüner, Elisa Zuccoli, Esther Zanin, Tamara Mikeladze-Dvali

 

Pre-T cell nuclei from Taylor, et al.

 

Developmental regulation of mitotic chromosome formation revealed by condensin reporter mice
Gillian C A Taylor, Lewis A Macdonald, Matilda Bui, Lucy Scott, Ioannis Christodoulou, Jimi C Wills, Dimitrios K Papadopoulos, Andrew J Wood

 

Aurora Kinase A proximity interactome reveals centriolar satellites as regulators of its function during primary cilium biogenesis
Melis D. Arslanhan, Navin Rauniyar, John R. Yates III, Elif N. Firat-Karalar

 

CENP-C regulates centromere assembly, asymmetry and epigenetic age in Drosophila germline stem cells
Ben L Carty, Anna A Dattoli, Elaine M Dunleavy

 

Microfluidic guillotine reveals multiple timescales and mechanical modes of wound response in Stentor coeruleus
Kevin S. Zhang, Lucas R. Blauch, Wesley Huang, Wallace F. Marshall, Sindy K. Y. Tang

 

Delineating the heterogeneity of matrix-directed differentiation towards soft and stiff tissue lineages via single-cell profiling
Shlomi Brielle, Danny Bavli, Alex Motzik, Yoav Kan-Tor, Batia Avni, Oren Ram, Amnon Buxboim

 

Epithelial colonies in vitro elongate through collective effects
Jordi Comelles, SS Soumya, Linjie Lu, Emilie Le Maout, S. Anvitha, Guillaume Salbreux, Frank Jülicher, Mandar M. Inamdar, Daniel Riveline

 

Transient active osmotic swelling of epithelium upon curvature induction
Caterina Tomba, Valeriy Luchnikov, Luca Barberi, Carles Blanch-Mercader, Aurélien Roux

 

Papillary and Reticular Fibroblasts Generate Distinct Microenvironments that Differentially Impact Angiogenesis
Adèle Mauroux, Pauline Joncour, Benjamin Gillet, Sandrine Hughes, Corinne Ardidie-Robouant, Laëtitia Marchand, Athanasia Liabotis, Philippe Mailly, Catherine Monnot, Stephane Germain, Sylvie Bordes, Brigitte Closs, Florence Ruggiero, Laurent Muller

 

 

 

Modelling

Robust growth termination through local mechanical feedback in the Drosophila wing disc
Alexander Erlich

 

Guillemin and Stumpf’s representation of the epigenetic landscape

 

Non-equilibrium statistical physics, transitory epigenetic landscapes, and cell fate decision dynamics
Anissa Guillemin, Michael P.H. Stumpf

 

Turing’s diffusive threshold in random reaction-diffusion systems
Pierre A. Haas, Raymond E. Goldstein

 

A self-exciting point process to study multi-cellular spatial signaling patterns
Archit Verma, Siddhartha G. Jena, Danielle R. Isakov, Kazuhiro Aoki, Jared E. Toettcher, Barbara E. Engelhardt

 

Spatiotemporal model of cellular mechanotransduction via Rho and YAP
Javor K. Novev, Mathias L. Heltberg, Mogens H. Jensen, Amin Doostmohammadi

 

Non-equilibrium model of short-range repression in gene transcription regulation
F. E. Garbuzov, V. V. Gursky

 

Master regulators as order parameters of gene expression states
Andreas Krämer

 

 

 

Tools & resources

 

3D mouse development from Vianello

 

Exploring and illustrating the mouse embryo: virtual objects to think and create with
Stefano Davide Vianello

 

Orthogonal CRISPR-Cas genome editing and efficient inhibition with anti-CRISPRs in zebrafish embryos
Paige R. Takasugi, Evan P. Drage, Sahar N. Kanishka, Marissa A. Higbee, James A. Gagnon

 

In vivo proteomic mapping through GFP-directed proximity-dependent biotin labelling in zebrafish
Zherui Xiong, Harriet P. Lo, Kerrie-Ann McMahon, Nick Martel, Alun Jones, Michelle M. Hill, Robert G. Parton, Thomas E. Hall

 

An in vivo reporter for tracking lipid droplet dynamics in transparent zebrafish
Dianne Lumaquin, Eleanor Johns, Joshua Weiss, Emily Montal, Olayinka Ooladipupo, Abderhman Abuhashem, Richard M. White

 

Highly multiplexed spatially resolved gene expression profiling of mouse organogenesis
T. Lohoff, S. Ghazanfar, A. Missarova, N. Koulena, N. Pierson, J.A. Griffiths, E.S. Bardot, C.-H.L. Eng, R.C.V. Tyser, R. Argelaguet, C. Guibentif, S. Srinivas, J. Briscoe, B.D. Simons, A.-K. Hadjantonakis, B. Göttgens, W. Reik, J. Nichols, L. Cai, J.C. Marioni

 

Non-invasive, label-free optical analysis to detect aneuploidy within the inner cell mass of the preimplantation embryo
Tiffany C. Y. Tan, Saabah B. Mahbub, Carl A. Campugan, Jared M. Campbell, Abbas Habibalahi, Darren J. X. Chow, Sanam Mustafa, Ewa M. Goldys, Kylie R. Dunning

 

Gene edited fluorescent cerebral organoids to study human brain function and disease
Lisa Bachmann, Lucia Gallego Villarejo, Natalie Heinen, David Marks, Thorsten Mueller

 

Epha1 is a cell surface marker for neuromesodermal progenitors and their early mesoderm derivatives
Luisa de Lemos, André Dias, Ana Nóvoa, Moisés Mallo

 

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

 

Electroporated chick epithelial cells from Tomizawa, et al.

 

In ovo electroporation of chicken limb bud ectoderm
Reiko R. Tomizawa, Clifford J. Tabin, Yuji Atsuta

 

QuantifyPolarity, a new tool-kit for measuring planar polarized protein distributions and cell properties in developing tissues
Su Ee Tan, Weijie Tan, Katherine H Fisher, David Strutt

 

Generation of two Multipotent Mesenchymal Progenitor Cell Lines Capable of Osteogenic, Mature Osteocyte, Adipogenic, and Chondrogenic Differentiation
Matthew Prideaux, Christian S. Wright, Megan L. Noonan, Xin Yi, Erica L. Clinkenbeard, Elsa Mevel, Jonathan A. Wheeler, Sharon Byers, Uma Sankar, Kenneth E. White, Gerald J. Atkins, William R. Thompson

 

Multi-modal Nonlinear Optical and Thermal Imaging Platform for Label-Free Characterization of Biological Tissue
Wilson R Adams, Brian Mehl, Eric Lieser, Manqing Wang, Shane Patton, Graham A Throckmorton, J Logan Jenkins, Jeremy B Ford, Rekha Gautam, Jeff Brooker, E. Duco Jansen, Anita Mahadevan-Jansen

 

MINSTED fluorescence localization and nanoscopy
Michael Weber, Marcel Leutenegger, Stefan Stoldt, Stefan Jakobs, Tiberiu S. Mihaila, Alexey N. Butkevich, Stefan W. Hell

 

SlicerMorph: An open and extensible platform to retrieve, visualize and analyze 3D morphology
Sara Rolfe, Steve Pieper, Arthur Porto, Kelly Diamond, Julie Winchester, Shan Shan, Henry Kirveslahti, Doug Boyer, Adam Summers, A. Murat Maga

 

Isotropic 3D electron microscopy reference library of whole cells and tissues
C. Shan Xu, Song Pang, Gleb Shtengel, Andreas Müller, Alex T. Ritter, Huxley K. Hoffman, Shin-ya Takemura, Zhiyuan Lu, H. Amalia Pasolli, Nirmala Iyer, Jeeyun Chung, Davis Bennett, Aubrey V. Weigel, Tobias C. Walther, Robert V. Farese Jr., Schuyler B. van Engelenburg, Ira Mellman, Michele Solimena, Harald F. Hess

 

A commercial antibody to the human condensin II subunit NCAPH2 cross-reacts with a SWI/SNF complex component
Erin E. Cutts, Gillian C Taylor, Mercedes Pardo, Lu Yu, Jimi C Wills, Jyoti S. Choudhary, Alessandro Vannini, Andrew J Wood

 

MUNIn (Multiple cell-type UNifying long-range chromatin Interaction detector): a statistical framework for identifying long-range chromatin interactions from multiple cell types
Weifang Liu, Armen Abnousi, Qian Zhang, Yun Li, Ming Hu, Yuchen Yang

 

High-throughput generation and 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

 

Template-independent genome editing and repairing correct frameshift disease in vivo
Lian Liu, Kuan Li, Linzhi Zou, Hanqing Hou, Qun Hu, Shuang Liu, Shufeng Wang, Yangzhen Wang, Jie Li, Chenmeng Song, Jiaofeng Chen, Changri Li, Haibo Du, Jun-Liszt Li, Fangyi Chen, Zhigang Xu, Wenzhi Sun, Qianwen Sun, Wei Xiong

 

Far-red fluorescent genetically encoded calcium ion indicators
Rochelin Dalangin, Mikhail Drobizhev, Rosana S. Molina, Abhi Aggarwal, Ronak Patel, Ahmed S. Abdelfattah, Yufeng Zhao, Jiahui Wu, Kaspar Podgorski, Eric R. Schreiter, Thomas E. Hughes, Robert E. Campbell, Yi Shen

 

CentTracker: a trainable, machine learning-based tool for large-scale analyses of C. elegans germline stem cell mitosis
M. Réda Zellag, Yifan Zhao, Vincent Poupart, Ramya Singh, Jean-Claude Labbé, Abigail R. Gerhold

 

Performance comparison: exome-sequencing as a single test replacing Sanger-sequencing
Hila Fridman, Concetta Bormans, Moshe Einhorn, Daniel Au, Arjan Bormans, Yuval Porat, Luisa Fernanda Sanchez, Brent Manning, Ephrat Levy-Lahad, Doron M. Behar

 

Establishment of Etv5 gene knockout mice as a recipient model for spermatogonial stem cell transplantation
Xianyu Zhang, Xin Zhao, Guoling Li, Mao Zhang, Pingping Xing, Zicong Li, Bin Chen, Huaqiang Yang, Zhenfang Wu

 

Automated and customizable quantitative image analysis of whole C. elegans germlines
Erik Toraason, Victoria L. Adler, Nicole A. Kurhanewicz, Acadia DiNardo, Adam M. Saunders, Cori K. Cahoon, Diana E. Libuda

 

 

 

Research practice & education

Task specialization across research careers
Nicolas Robinson-Garcia, Rodrigo Costas, Cassidy R. Sugimoto, Vincent Larivière, Gabriela F. Nane

 

Matchathon: A guide to student-faculty connections in PhD programs
Haley Amemiya, Zena Lapp, Cathy Smith, Margaret Durdan, Michelle DiMondo, Beth Bodiya, Scott Barolo

 

Challenges in Undergraduate Synthetic Biology Training: Insights from a Canadian iGEM Student Perspective
Patrick Diep, Austin Boucinha, Bi-ru Amy Yeung, Brayden Kell, Xingyu Chen, Daniel Tsyplenkov, Danielle Serra, Andres Escobar, Ansley Gnanapragasam, Christian A. Emond, Victoria A. Sajtovich, Radhakrishnan Mahadevan, Dawn M. Kilkenny, Garfield Gini-Newman, Mads Kaern, Brian Ingalls

 

Grant Review Feedback: Appropriateness and Usefulness
Stephen A Gallo, Karen B Schmaling, Lisa A Thompson, Scott R Glisson

 

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

 

The case for formal methodology in scientific reform
Berna Devezer, Danielle J. Navarro, Joachim Vandekerckhove, Erkan Ozge Buzbas

 

Building a pathway for diversity in plant sciences in Argentina: highlighting the work of women scientists through virtual activities
Gabriela Alejandra Auge, María José de Leone, Rocío Deanna, Sonia Oliferuk, Pamela Anahí Ribone, Elina Welchen

 

Demographics and Employment of Max-Planck Society’s Postdocs
M. Vallier, M. Mueller, P. Alcami, G. Bellucci, M. Grange, YX. Lu, S. Duponchel

 

How to best evaluate applications for junior fellowships? Remote evaluation and face-to-face panel meetings compared
Marco Bieri, Katharina Roser, Rachel Heyard, Matthias Egger

 

Attitudes and Practices of Open Data, Preprinting, and Peer-review – a Cross Sectional Study on Croatian Scientists
K Baždarić, I Vrkić, E Arh, M Mavrinac, M Gligora Marković, L Bilić-Zulle, J Stojanovski, M. Malički

 

 




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