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

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

Developmental biology

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

Cell Biology

Modelling

Reviews

Tools & Resources

Research practice & education

Developmental biology

| Patterning & signalling

Self-assembly of cellular neighborhoods converts stochastic signaling into sustained olfactory neurogenesis
Sriivatsan G. Rajan, Joseph N. Lombardo, Lynne M. Nacke, Farid Manuchehrfar, Kaelan Wong, Jocelyn Garcia, Jie Liang, Ankur Saxena

Glucose oxidation and nutrients availability drive neural crest development
Nioosha Nekooie-Marnany, Redouane Fodil, Sophie Féréol, Marine Depp, Roberto Motterlini, Roberta Foresti, Jean-Loup Duband, Sylvie Dufour

Oocyte and cumulus cell cooperativity and metabolic plasticity under the direction of oocyte paracrine factors
Dulama Richani, Anne Poljak, Baily Wang, Saabah B. Mahbub, Joanna Biazik, Jared M. Campbell, Abbas Habibalahi, William A. Stocker, Maria B. Marinova, Brett Nixon, Sonia Bustamante, David Skerrett-Byrne, Craig A. Harrison, Ewa Goldys, Robert B. Gilchrist

Planarian dorsoventral Netrins organize a muscle midline signaling center and regulate blastema formation
Erik G. Schad, Christian P. Petersen

Specific sensory neurons and insulin-like peptides modulate food type-dependent oogenesis and fertilization in Caenorhabditis elegans
Shashwat Mishra, Kelsey Marbach, Mohamed Dabaja, Asra Akhlaq, Mediha Rovcanin, Bianca Pereira, Rashmi Chandra, Antonio Caballero, Diana Fernandes de Abreu, QueeLim Ch’ng, Joy Alcedo

Duplicated zebrafish (Danio rerio) inositol phosphatases inpp5ka and inpp5kb diverged in expression pattern and function
Dhyanam Shukla, Brian M. Gural, Edmund S. Cauley, Llion E. Roberts, Brittany F. Karas, Luca Cavallo, Luka Turkalj, Sally A. Moody, Laura E. Swan, M. Chiara Manzini

A neuroepithelial wave of BMP signalling drives anteroposterior specification of the tuberal hypothalamus
Kavitha Chinnaiya, Sarah Burbridge, Aragorn Jones, Dong Won Kim, Elsie Place, Elizabeth Manning, Ian Groves, Changyu Sun, Matthew Towers, Seth Blackshaw, Marysia Placzek

svep1 and tie1 genetically interact and affect aspects of facial lymphatic development in a Vegfc-independent manner
Melina Hußmann, Sarah Weischer, Claudia Carlantoni, Didier Y. R. Stainier, Thomas Zobel, Stefan Schulte-Merker

Long-ranged formation of the Bicoid gradient requires multiple dynamic modes that spatially vary across the embryo
Thamarailingam Athilingam, Ashwin V.S. Nelanuthala, Catriona Breen, Thorsten Wohland, Timothy E. Saunders

HB-EGF Promotes Horizontal Basal Cell Proliferation and Olfactory Sensory Neuron Regeneration in the Zebrafish Olfactory Epithelium
Siran Sireci, Yigit Kocagöz, Aysu Sevval Alkiraz, Kardelen Güler, Zeynep Dokuzluoglu, Ecem Balcioglu, Mehmet Can Demirler, Stefan Herbert Fuss

Context-dependent requirement of G protein coupling for Latrophilin-2 in target selection of hippocampal axons
Daniel T. Pederick, Nicole A. Perry-Hauser, Huyan Meng, Zhigang He, Jonathan A. Javitch, Liqun Luo

A tissue-specific ubiquitin switch coordinates brain, craniofacial, and skin development
Anthony J. Asmar, Rita M. Yazejian, Youmei Wu, Jason C. Collins, Jenny Hsin, Jean Cho, Andrew D. Doyle, Samhitha Cinthala, Marleen Simon, Richard H. van Jaarsveld, David B. Beck, Laura Kerosuo, Achim Werner

Circadian rhythm orthologs drive pulses of heterochronic miRNA transcription in C. elegans
Brian Kinney, Shubham Sahu, Natalia Stec, Kelly Hills-Muckey, Dexter W. Adams, Jing Wang, Matt Jaremako, Leemor Joshua-Tor, Wolfgang Keil, Christopher M. Hammell

Plzf mediates a switch between Fgf signalling regimes in the developing hindbrain
Sami A. Leino, Sean C. J. Constable, Andrea Streit, David G. Wilkinson

Requirement for STAT3 and its target, TFCP2L1, in self-renewal of naïve pluripotent stem cells in vivo and in vitro
Sophie Kraunsoe, Takuya Azami, Yihan Pei, Graziano Martello, Kenneth Jones, Thorsten Boroviak, Jennifer Nichols

A gradient in glucose metabolism regulates hair cell morphology along the tonotopic axis of the developing cochlea
James DB O’Sullivan, Thomas S Blacker, Claire Scott, Weise Chang, Mohi Ahmed, Val Yianni, Zoe F Mann

Fibroblast activation during decidualization: Embryo-derived TNFα induction of PGI2-PPARδ-ACTIVIN A pathway through luminal epithelium
Si-Ting Chen, Wen-Wen Shi, Yu-Qian Lin, Zhen-Shang Yang, Ying Wang, Meng-Yuan Li, Yue Li, Ai-Xia Liu, Yali Hu, Zeng-Ming Yang

Patterning and growth are coordinated early in the cell cycle
Cara M. Winter, Pablo Szekely, Heather Belcher, Raina Carter, Matthew Jones, Scott E. Fraser, Thai V. Truong, Philip N. Benfey

Notch directs telencephalic development and controls neocortical neuron fate determination by regulating microRNA levels
Jisoo S. Han, Elizabeth Fishman-Williams, Steven C. Decker, Keiko Hino, Raenier V. Reyes, Nadean L. Brown, Sergi Simó, Anna La Torre

A Novel Gene REPTOR2 Activates the Autophagic Degradation of Wing Disc in Pea Aphid
Erliang Yuan, Huijuan Guo, Weiyao Chen, Bingru Du, Yingjie Mi, Zhaorui Qi, Yiyang Yuan, Keyan Zhu-Salzman, Feng Ge, Yucheng Sun

Vestigial-dependent recruitment contributes to robust patterning but is not required for wing-fate induction in Drosophila
Marycruz Flores-Flores, Luis Manuel Muñoz-Nava, Jeremiah Zartman, Marcos Nahmad

GPCR Signaling Promotes a Stress-induced Genetic Program for Phenoptosis in C. elegans
Changnan Wang, Yong Long, Bingying Wang, Chao Zhang, Dengke K. Ma

A neuroepithelial wave of BMP signalling drives anteroposterior specification of the tuberal hypothalamus
Kavitha Chinnaiya, Sarah Burbridge, Aragorn Jones, Dong Won Kim, Elsie Place, Elizabeth Manning, Ian Groves, Changyu Sun, Matthew Towers, Seth Blackshaw, Marysia Placzek

A network of Notch-dependent and -independent her genes controls neural stem and progenitor cells in the zebrafish thalamic proliferation zone
Christian E. Sigloch, Dominik Spitz, Wolfgang Driever

Decapentaplegic ligand ensures niche space restriction inside and outside of Drosophila testicular niche
Sharif M. Ridwan, Autumn Twille, Shinya Matsuda, Matthew Antel, Mayu Inaba

Follicle cell contact maintains main body axis polarity in the Drosophila melanogaster oocyte
Ana Milas, Jorge de-Carvalho, Ivo A. Telley

Origin and diversification of fibroblasts from the sclerotome in zebrafish
Roger C. Ma, Katrinka M. Kocha, Emilio E. Méndez-Olivos, Tyler D. Ruel, Peng Huang

Zebrafish Slit2 and Slit3 act together to regulate retinal axon crossing at the midline
Camila Davison, Gabriela Bedó, Flavio R. Zolessi

The baseless mutant links protein phosphatase 2A with basal cell identity in the brown alga Ectocarpus
Olivier Godfroy, Min Zheng, Haiqin Yao, Agnes Henschen, Akira F. Peters, Delphine Scornet, Sebastien Colin, Paolo Ronchi, Katharina Hipp, Chikako Nagasato, Taizo Motomura, J. Mark Cock, Susana M. Coelho

RTK signalling promotes epithelial columnar cell shape and apical junction maintenance in human lung progenitor cells
Shuyu Liu, Dawei Sun, Richard Butler, Emma L. Rawlins

Reorganizing Niche Architecture Still Preserves Organ Function in the Hair Follicle
Haoyang Wei, Shuangshuang Du, Jeeun Parksong, H. Amalia Pasolli, Sergi Regot, Lauren E. Gonzalez, Tianchi Xin, Valentina Greco

Islet architecture in adult mice is actively maintained by Robo2 expression in β cells
Bayley J. Waters, Barak Blum

| Morphogenesis & mechanics

Hydrostatic pressure and lateral actomyosin tension control stretch and tension of the basement membrane in epithelia
K.Y. Guerra Santillán, C. Dahmann, E. Fischer-Friedrich

Aquaporin regulates cell rounding through vacuole formation during endothelial-to-hematopoietic transition
Yuki Sato, Mugiho Shigematsu, Maria Shibata-Kanno, Sho Maejima, Chie Tamura, Hirotaka Sakamoto

Transcriptome profiling of tendon fibroblasts at the onset of embryonic muscle contraction reveals novel force-responsive genes
Pavan Nayak, Arul Subramanian, Thomas Schilling

Neurogenin 2 and Neuronal Differentiation 1 control proper development of the chick trigeminal ganglion and its nerve branches
Parinaz Bina, Lisa A. Taneyhill

The RhoGEF protein Plekhg5 regulates medioapical actomyosin dynamics of apical constriction during Xenopus gastrulation
Austin T. Baldwin, Ivan K. Popov, Ray Keller, John B. Wallingford, Chenbei Chang

Actomyosin cables position cell cohorts during Drosophila germband retraction by entraining their morphodynamic and mechanical properties
Sudeepa Nandi, Aanchal Balse, Mandar M. Inamdar, K. Vijay Kumar, Maithreyi Narasimha

Differential elasticity in lineage segregation of embryonic stem cells
Christine M. Ritter, Natascha Leijnse, Younes Farhangi Barooji, Joshua M. Brickman, Amin Doostmohammadi, Lene B. Oddershede

Tissue confinement regulates cell growth and size in epithelia
John Devany, Martin J Falk, Liam J Holt, Arvind Murugan, Margaret L Gardel

Balancing competing effects of tissue growth and cytoskeletal regulation during Drosophila wing disc development
Nilay Kumar, Kevin Tsai, Mayesha Sahir Mim, Jennifer Rangel Ambriz, Weitao Chen, Jeremiah J. Zartman, Mark Alber

Fluid extraction from the left-right organizer uncovers mechanical properties needed for symmetry breaking
Pedro Sampaio, Sara Pestana, Adán Guerrero, Ivo A. Telley, David. J. Smith, Susana S. Lopes

Piezo1-mediated spontaneous activity of satellite glia impacts DRG development
Jacob P. Brandt, Cody J. Smith

Rnf20 shapes the endothelial control of heart morphogenesis and function
Linda Kessler, Rui Gao, Nalan Tetik-Elsherbiny, Olga Lityagina, Azhar Zhailauova, Yonggang Ren, Felix A. Trogisch, Julio Cordero, Yanliang Dou, Yinuo Wang, Evgeny Chichelnitskiy, Joscha Alexander Kraske, Patricia Laura Schäfer, Chi-Chung Wu, Guillermo Barreto, Michael Potente, Thomas Wieland, Roxana Ola, Joerg Heineke, Gergana Dobreva

Thyroid Ablation Alters Passive Stiffness and Swimming Kinematics in Zebrafish
Pranav Parikh, Stacy Nguyen, Sarah McMenamin, Christopher P. Kenaley

PI 4-kinases promote cell surface expansion and facilitate tissue morphogenesis during Drosophila cellularization and gastrulation
Wei Chen, Victoria Bergstein, Bing He

FGF signaling regulates salivary gland branching morphogenesis by modulating cell adhesion
Ayan T. Ray, Philippe Soriano

G protein-coupled Receptor Contributions to Wing Growth and Morphogenesis in Drosophila melanogaster
Francisco J. Huizar, Nilay Kumar, Maria Unger, Vijay Velagala, Qinfeng Wu, Pavel A. Brodskiy, Jeremiah J. Zartman

Ectodysplasin signaling via Xedar is required for mammary gland morphogenesis
Abigail R. Wark, Reiko Tomizawa, Daniel Aldea, Blerina Kokalari, Bailey Warder, Yana G. Kamberov

Migrating mesoderm cells self-organize into a dynamic meshwork structure during chick gastrulation
Yukiko Nakaya, Mitsusuke Tarama, Sohei Tasaki, Ayako Isomura, Tatsuo Shibata

Differential elasticity in lineage segregation of embryonic stem cells
Christine M. Ritter, Natascha Leijnse, Younes Farhangi Barooji, Joshua M. Brickman, Amin Doostmohammadi, Lene B. Oddershede

| Genes & genomes

An RNA binding module of SWI/SNF is required for activation of cell-type specific enhancers and super-enhancers in early development
Dhurjhoti Saha, Srinivas Animireddy, Junwoo Lee, Yuan-chi Lin, Kyle Feola, Abhinav K Jain, Yue Lu, Bin Liu, Blaine Bartholomew

Safeguarding Drosophila female germ cell identity depends on an H3K9me3 mini domain guided by a ZAD zinc finger protein
Laura Shapiro-Kulnane, Helen K. Salz

Generation of a new Adar1p150-/- mouse demonstrates isoform-specific roles in embryonic development and adult homeostasis
Zhen Liang, Carl R Walkley, Jacki E Heraud-Farlow

The effect of short-term activation of AHL15 on long-term plant developmental change and transcriptome profile
Omid Karami, Christiaan Henkel, Remko Offringa

Universal DNA methylation age across mammalian tissues
A.T. Lu, Z. Fei, A. Haghani, T.R. Robeck, J.A. Zoller, C.Z. Li, R. Lowe, Q. Yan, J. Zhang, H. Vu, J. Ablaeva, V.A. Acosta-Rodriguez, D.M. Adams, J. Almunia, A. Aloysius, R. Ardehali, A. Arneson, C.S. Baker, G. Banks, K. Belov, N.C. Bennett, P. Black, D.T. Blumstein, E.K. Bors, C.E. Breeze, R.T. Brooke, J.L. Brown, G. Carter, A. Caulton, J.M. Cavin, L. Chakrabarti, I. Chatzistamou, H. Chen, K. Cheng, P. Chiavellini, O.W. Choi, S. Clarke, L.N. Cooper, M.L. Cossette, J. Day, J. DeYoung, S. DiRocco, C. Dold, E.E. Ehmke, C.K. Emmons, S. Emmrich, E. Erbay, C. Erlacher-Reid, C.G. Faulkes, S.H. Ferguson, C.J. Finno, J.E. Flower, J.M. Gaillard, E. Garde, L. Gerber, V.N. Gladyshev, V. Gorbunova, R.G. Goya, M.J. Grant, C.B. Green, E.N. Hales, M.B. Hanson, D.W. Hart, M. Haulena, K. Herrick, A.N. Hogan, C.J. Hogg, T.A. Hore, T. Huang, J.C. Izpisua Belmonte, A.J. Jasinska, G. Jones, E. Jourdain, O. Kashpur, H. Katcher, E. Katsumata, V. Kaza, H. Kiaris, M.S. Kobor, P. Kordowitzki, W.R. Koski, M. Kruetzen, S.B. Kwon, B. Larison, S.G. Lee, M. Lehmann, J.F. Lemaitre, A.J. Levine, C. Li, X. Li, A.R. Lim, D.T.S. Lin, D.M. Lindemann, T.J. Little, N. Macoretta, D. Maddox, C.O. Matkin, J.A. Mattison, M. McClure, J. Mergl, J.J. Meudt, G.A. Montano, K. Mozhui, J. Munshi-South, A. Naderi, M. Nagy, P. Narayan, P.W. Nathanielsz, N.B. Nguyen, C. Niehrs, J.K. O’Brien, P. O’Tierney Ginn, D.T. Odom, A.G. Ophir, S. Osborn, E.A. Ostrander, K.M. Parsons, K.C. Paul, M. Pellegrini, K.J. Peters, A.B. Pedersen, J.L. Petersen, D.W. Pietersen, G.M. Pinho, J. Plassais, J.R. Poganik, N.A. Prado, P. Reddy, B. Rey, B.R. Ritz, J. Robbins, M. Rodriguez, J. Russell, E. Rydkina, L.L. Sailer, A.B. Salmon, A. Sanghavi, K.M. Schachtschneider, D. Schmitt, T. Schmitt, L. Schomacher, L.B. Schook, K.E. Sears, A.W. Seifert, A. Seluanov, A.B.A. Shafer, D. Shanmuganayagam, A.V. Shindyapina, M. Simmons, K. Singh, I. Sinha, J. Slone, R.G. Snell, E. Soltanmaohammadi, M.L. Spangler, M.C. Spriggs, L. Staggs, N. Stedman, K.J. Steinman, D.T. Stewart, V.J. Sugrue, B. Szladovits, J.S. Takahashi, M. Takasugi, E.C. Teeling, M.J. Thompson, B. Van Bonn, S.C. Vernes, D. Villar, H.V. Vinters, M.C. Wallingford, N. Wang, R.K. Wayne, G.S. Wilkinson, C.K. Williams, R.W. Williams, X.W. Yang, M. Yao, B.G. Young, B. Zhang, Z. Zhang, P. Zhao, Y. Zhao, W. Zhou, J. Zimmermann, J. Ernst, K. Raj, S. Horvath

Transcriptome profiling of histone acetylation and methylation writers and erasers gene families during mouse spermatogenesis
Candela R. González, Gastón Barbero, Maximiliano de Sousa Serro, Camila Perez Lujan, Alfredo D. Vitullo, Betina González

Roles of the distinct N-terminal amino acid between H3 and H3.3 in Drosophila male germline stem cell lineage
Chinmayi Chandrasekhara, Rajesh Ranjan, Jennifer A. Urban, Wai Lim Ku, Jonathan Snedeker, Keji Zhao, Xin Chen

Organoid-based single-cell spatiotemporal gene expression landscape of human embryonic development and hematopoiesis
Yiming Chao, Yang Xiang, Jiashun Xiao, Shihui Zhang, Weizhong Zheng, Xiaomeng Wan, Zhuoxuan Li, Mingze Gao, Gefei Wang, Zhilin Chen, Mo Ebrahimkhani, Can Yang, Angela Ruohao Wu, Pentao Liu, Yuanhua Huang, Ryohichi Sugimura

Decoding spatiotemporal gene expression of the developing human spinal cord and implications for ependymoma origin
Xiaofei Li, Zaneta Andrusivova, Paulo Czarnewski, Christoffer Mattsson Langseth, Alma Andersson, Yang Liu, Daniel Gyllborg, Emelie Braun, Ludvig Larsson, Lijuan Hu, Zhanna Alekseenko, Hower Lee, Christophe Avenel, Helena Kopp Kallner, Elisabet Åkesson, Igor Adameyko, Mats Nilsson, Sten Linnarsson, Joakim Lundeberg, Erik Sundström

Snip1 and PRC2 coordinate intrinsic apoptosis, cell division, and neurogenesis in the developing brain
Yurika Matsui, Mohamed Nadhir Djekidel, Katherine Lindsay, Parimal Samir, Nina Connolly, Hongfeng Chen, Yiping Fan, Beisi Xu, Jamy C. Peng

Ratio-based sensing of two transcription factors regulates the transit to cell differentiation
Sebastian M. Bernasek, Suzy SJ Hur, Nicolás Peláez, Jean-François Boisclair Lachance, Rachel Bakker, Heliodoro Tejedor Navarro, Nicelio Sanchez-Luege, Luís A. N. Amaral, Neda Bagheri, Ilaria Rebay, Richard W. Carthew

Synthetic regulatory genomics uncovers enhancer context dependence at the Sox2 locus
Ran Brosh, Camila Coelho, André M. Ribeiro-dos-Santos, Gwen Ellis, Megan S. Hogan, Hannah J. Ashe, Nicolette Somogyi, Raquel Ordoñez, Raven D. Luther, Emily Huang, Jef D. Boeke, Matthew T. Maurano

Inter-gastruloid heterogeneity revealed by single cell transcriptomics time course: implications for organoid based perturbation studies
Leah U. Rosen, L. Carine Stapel, Ricard Argelaguet, Charlie George Barker, Andrian Yang, Wolf Reik, John C. Marioni

Spatially Resolved Single-cell Translatomics at Molecular Resolution
Hu Zeng, Jiahao Huang, Jingyi Ren, Connie Kangni Wang, Zefang Tang, Yiming Zhou, Abhishek Aditham, Hailing Shi, Xin Sui, Xiao Wang

Continuous transcriptome analysis reveals novel patterns of early gene expression in Drosophila embryos
J. Eduardo Pérez-Mojica, Lennart Enders, Joseph Walsh, Kin H. Lau, Adelheid Lempradl

Defining the chromatin and transcriptional landscape of stem cell-derived islets
Punn Augsornworawat, Nathaniel J. Hogrebe, Matthew Ishahak, Erica Marquez, Marlie M. Maestas, Mason D. Schmidt, Daniel A. Veronese-Paniagua, Sarah E. Gale, Julia R. Miller, Leonardo Velazco-Cruz, Jeffrey R. Millman

Identification of a self-renewing muscle satellite cell state by single-cell chromatin accessibility profiling
Arinze E. Okafor, Xin Lin, Chenghao Situ, Xiaolin Wei, Xiuqing Wei, Zhenguo Wu, Yarui Diao

Discovery and characterization of LNCSOX17 as an essential regulator in human endoderm formation
Alexandro Landshammer, Adriano Bolondi, Helene Kretzmer, Christian Much, René Buschow, Alina Rose, Hua-Jun Wu, Sebastian Mackowiak, Bjoern Braendl, Pay Giesselmann, Rosaria Tornisiello, Krishna Mohan Parsi, Jack Huey, Thorsten Mielke, David Meierhofer, René Maehr, Denes Hnisz, Franziska Michor, John L. Rinn, Alexander Meissner

Crosstalk between RNA m6A and DNA methylation regulates transposable element chromatin activation and cell fate in human pluripotent stem cells
Tongyu Sun, Yueyuan Xu, Yu Xiang, Erik J Soderblom, Yarui Diao

The Neuroscience Multi-Omic Archive: A BRAIN Initiative resource for single-cell transcriptomic and epigenomic data from the mammalian brain
Seth A. Ament, Ricky S. Adkins, Robert Carter, Elena Chrysostomou, Carlo Colantuoni, Jonathan Crabtree, Heather H. Creasy, Kylee Degatano, Victor Felix, Peter Gandt, Gwenn A. Garden, Michelle Giglio, Brian R. Herb, Farzaneh Khajouei, Elizabeth Kiernan, Carrie McCracken, Kennedy McDaniel, Suvarna Nadendla, Lance Nickel, Dustin Olley, Joshua Orvis, Joseph P. Receveur, Mike Schor, Timothy L. Tickle, Jessica Way, Ronna Hertzano, Anup A. Mahurkar, Owen R White

Lineage segregation in human pre-implantation embryos is specified by YAP1 and TEAD1
Marius Regin, Wafaa Essahib, Andrej Demtschenko, Delphine Dewandre, Laurent David, Claudia Gerri, Kathy Niakan, Greta Verheyen, Herman Tournaye, Johan Sterckx, Karen Sermon, Hilde Van de Velde

Cellular Factors Involved in Transcriptome Dynamics in Early Zebrafish Embryogenesis
Han Rauwerda, Johanna F.B. Pagano, Wim C. de Leeuw, Wim Ensink, Marina van Olst, Ulrike Nehrdich, Martijs J. Jonker, Herman P. Spaink, Timo M. Breit

The TBX20-TLE Interaction is Essential for the Second Heart Field
Whitney Edwards, Olivia K. Bussey, Frank L. Conlon

Regulating the timing of enhancer transitions is key to defining sharp boundaries of Fushi tarazu expression in the Drosophila embryo
Anthony Birnie, Audrey Plat, Jacques P. Bothma

DOT1L interaction partner AF10 controls patterning of H3K79 methylation to maintain cell identity
Coral K. Wille, Edwin N. Neumann, Aniruddha J. Deshpande, Rupa Sridharan

Antagonistic H3K79me-H3K9ac crosstalk determines elongation at housekeeping genes to promote pluripotency
Coral K. Wille, Xiaoya Zhang, Spencer A. Haws, John M. Denu, Rupa Sridharan

Ribosomal RNA 2’-O-methylation dynamics impact cell fate decisions
SJ Häfner, MD Jansson, K Altinel, ML Kraushar, KL Andersen, Z Caldwell Abay-Nørgaard, M Fontenas, DM Sørensen, DM Gay, FS Arendrup, D Tehler, N Krogh, H Nielsen, A Kirkeby, AH Lund

The homeobox transcription factor DUXBL controls exit from totipotency
Maria Vega-Sendino, Teresa Olbrich, Paula Stein, Desiree Tillo, Grace I. Carey, Virginia Savy, Bechara Saykali, Catherine N. Domingo, Tapan K. Maity, Lisa M. Jenkins, Carmen J. Williams, Sergio Ruiz

Transient Polycomb activity represses developmental genes in growing oocytes
Ellen G. Jarred, Zhipeng Qu, Tesha Tsai, Ruby Oberin, Sigrid Petautschnig, Heidi Bildsoe, Stephen Pederson, Qing-hua Zhang, Jessica M. Stringer, John Carroll, David K. Gardner, Maarten van den Buuse, Natalie A. Sims, William T. Gibson, David L. Adelson, Patrick S. Western

The histone chaperone NASP maintains H3-H4 reservoirs in the early Drosophila embryo
Reyhaneh Tirgar, Jonathan P. Davies, Lars Plate, Jared T. Nordman

The Groucho co-repressor inhibits progression through the early transcription elongation checkpoint to repress gene expression
María Lorena Martínez Quiles, Barbara H Jennings

Hybridization led to a rewired pluripotency network in the allotetraploid Xenopus laevis
Wesley A. Phelps, Matthew D. Hurton, Taylor N. Ayers, Anne E. Carlson, Joel C. Rosenbaum, Miler T. Lee

Cardiomyocyte ploidy is dynamic during postnatal development and varies across genetic backgrounds
Samantha K. Swift, Alexandra L. Purdy, Mary E. Kolell, Michael A. Flinn, Caitlin Lahue, Tyler Buddell, Kaelin A. Akins, Parker Foster, Caitlin C. O’Meara, Christoph D. Rau, Michaela Patterson

TDP-43 safeguards the embryo genome from L1 retrotransposition
Ten D. Li, Kensaku Murano, Tomohiro Kitano, Youjia Guo, Lumi Negishi, Haruhiko Siomi

Balanced SET levels favor the correct enhancer repertoire during cell fate acquisition
Zaghi Mattia, Federica Banfi, Luca Massimino, Monica Volpin, Edoardo Bellini, Simone Brusco, Ivan Merelli, Cristiana Barone, Michela Bruni, Linda Bossini, Luigi Antonio Lamparelli, Laura Pintado, Deborah D’Aliberti, Silvia Spinelli, Luca Mologni, Gaia Colasante, Federica Ungaro, Jean-Michel Cioni, Emanuele Azzoni, Rocco Piazza, Eugenio Montini, Vania Broccoli, Alessandro Sessa

Drosophila Males Use 5′-to-3′ Phased Biogenesis to Make Stellate-silencing piRNAs that Lack Homology to Maternally Deposited piRNA Guides
Zsolt G. Venkei, Ildar Gainetdinov, Margaret R. Starostik, Charlotte P. Choi, Peiwei Chen, Chiraag Balsara, Troy W. Whitfield, George W. Bell, Suhua Feng, Steven E. Jacobsen, Alexei A. Aravin, John K. Kim, Philip D. Zamore, Yukiko M. Yamashita

Stimulation-responsive enhancers regulate inflammatory gene activation through retention and modification of H2A.Z-variant accessible nucleosomes
Audrey Sporrij, Meera Prasad, Brejnev Muhire, Eva M. Fast, Margot E. Manning, Avik Choudhuri, Jodi D. Weiss, Michelle Koh, Song Yang, Robert E. Kingston, Michael Y. Tolstorukov, Hans Clevers, Leonard I. Zon

The imprinted Mir483 is a growth suppressor and metabolic regulator functioning through IGF1
Ionel Sandovici, Denise S. Fernandez-Twinn, Niamh Campbell, Wendy N. Cooper, Yoichi Sekita, Ilona Zvetkova, David Ferland-McCollough, Haydn M. Prosser, Lila M. Oyama, Danilo Cimadomo, Karina Barbosa de Queiroz, Cecilia S.K. Cheuk, Nicola M. Smith, Richard G. Kay, Katharina Hoelle, Noel H. Smith, Stefan H. Geyer, Lukas F. Reissig, Wolfgang J. Weninger, Kenneth Siddle, Anne E. Willis, Martin Bushell, Susan E. Ozanne, Miguel Constância

How enhancers regulate wavelike gene expression patterns: A novel enhancer prediction and live reporter system identifies an enhancer associated with the arrest of pair-rule waves in Tribolium
Christine Mau, Heike Rudolf, Frederic Strobl, Benjamin Schmid, Timo Regensburger, Ralf Palmisano, Ernst Stelzer, Leila Taher, Ezzat El-Sherif

Mediator 1 ablation induces enamel-to-hair lineage conversion through enhancer dynamics
Roman Thaler, Keigo Yoshizaki, Thai Nguyen, Satoshi Fukumoto, Pamela Den Besten, Daniel D. Bikle, Yuko Oda

| Stem cells, regeneration & disease modelling

Initial niche condition determines the aging speed and regenerative activity of quiescent cells
Qi Liu, Nan Sheng, Zhiwen Zhang, Chenjun He, Yao Zhao, Haoyuan Sun, Jianguo Chen, Xiaojing Yang, Chao Tang

Intracellular pH dynamics regulates intestinal stem cell lineage specification
Yi Liu, Efren Reyes, David Castillo-Azofeifa, Ophir D. Klein, Diane L. Barber, Todd Nystul

Intestinal stem cell aging at single-cell resolution: functional perturbations alter cell developmental trajectory reversed by gerotherapeutics
Jiahn Choi, Michele Houston, Ruixuan Wang, Kenny Ye, Wenge Li, Xusheng Zhang, Derek M. Huffman, Leonard H. Augenlicht

Senescence-induced cellular reprogramming drives cnidarian whole-body regeneration
Miguel Salinas-Saavedra, Febrimarsa, Gabriel Krasovec, Helen R Horkan, Andreas D Baxevanis, Uri Frank

A common cis-regulatory variant impacts normal-range and disease-associated human facial shape through regulation of PKDCC during chondrogenesis
Jaaved Mohammed, Neha Arora, Harold S. Matthews, Karissa Hansen, Maram Bader, John R. Shaffer, Seth M. Weinberg, Tomek Swigut, Peter Claes, Licia Selleri, Joanna Wysocka

In Toto imaging of early Enteric Nervous System Development reveals that gut colonization is tied to proliferation downstream of Ret
Phillip A. Baker, Rodrigo Ibarra-García-Padilla, Akshaya Venkatesh, Eileen W. Singleton, Rosa. A. Uribe

Intracellular pH dynamics regulates intestinal stem cell lineage specification
Yi Liu, Efren Reyes, David Castillo-Azofeifa, Ophir D. Klein, Diane L. Barber, Todd Nystul

Lipid Desaturation Regulates the Balance between Self-renewal and Differentiation in Mouse Blastocyst-derived Stem Cells
Chanchal Thomas Mannully, Reut Bruck-Haimson, Anish Zacharia, Paul Orih, Alaa Shehadeh, Daniel Saidemberg, Natalya M Kogan, Sivan Alfandary, Raphael Serruya, Arie Dagan, Isabelle Petit, Arieh Moussaieff

Cellular senescence modulates progenitor cell expansion during axolotl limb regeneration
Qinghao Yu, Hannah E. Walters, Giovanni Pasquini, Sumeet Pal Singh, Daniel León-Periñán, Andreas Petzold, Preethi Kesavan, Cristina Subiran, Ines Garteizgogeascoa, Dunja Knapp, Anne Wagner, Andrea Bernardos, María Alfonso, Gayathri Nadar, Andreas Dahl, Volker Busskamp, Ramón Martínez-Máñez, Maximina H. Yun

Porcn is essential for growth and invagination of the mammalian optic cup
Sabine Fuhrmann, Sara Ramirez, Mirna Mina Abouda, Clorissa D. Campbell

Senescent cells enhance newt limb regeneration by promoting muscle dedifferentiation
Hannah E. Walters, Konstantin Troyanovskiy, Maximina H. Yun

RACK1 may participate in placental development via regulating proliferation and migration of trophoblast cell in pigs following intrauterine growth restriction
Zhimin Wu, Guangling Hu, Ting Gong, Qun Hu, Linjun Hong, Yiyu Zhang, Zheng Ao

YAP1 is essential for self-organized differentiation of pluripotent stem cells
Kira Zeevaert, Roman Goetzke, Mohamed H. Elsafi Mabrouk, Marco Schmidt, Catharina Maaßen, Ann-Christine Henneke, Chao He, Arnold Gillner, Martin Zenke, Wolfgang Wagner

Inhibition of the ATM kinase rescues planarian regeneration after lethal radiation
Divya A. Shiroor, Kuang-Tse Wang, Bhargav D. Sanketi, Justin K. Tapper, Carolyn E. Adler

The enrichment of self-domestication and neural crest function loci in the heritability of neurodevelopmental disorders is not independent of genomic regulatory functions
Dora Koller, Antonio Benítez-Burraco, Renato Polimanti

Allele-specific expression reveals genetic drivers of tissue regeneration in mice
Heather E. Talbott, Katya L. Mack, Michelle Griffin, Nicholas J. Guardino, Jennifer B.L. Parker, Amanda F. Spielman, Michael F. Davitt, Shamik Mascharak, Mark J. Berger, Derrick C. Wan, Hunter B. Fraser, Michael T. Longaker

The relationship between PD-L1 and quiescence in melanocyte stem cell aging
Joseph W. Palmer, Kyrene M. Villavicencio, Misgana Idris, Dominique Weddle, Fabian V. Filipp, NISC Comparative Sequencing Program, William J. Pavan, Melissa L. Harris

Three-dimensional chromatin re-organization during muscle stem cell aging
Benjamin A. Yang, Jacqueline A. Larouche, Kaitlyn M. Sabin, Paula M. Fraczek, Stephen C. J. Parker, Carlos A. Aguilar

A bipartite function of ESRRB can integrate signaling over time to balance self-renewal and differentiation
Teresa E. Knudsen, William Hamilton, Martin Proks, Maria Lykkegaard, Alexander V. Nielsen, Ala Trusina, Joshua M. Brickman

p57Kip2 acts as a transcriptional corepressor to regulate intestinal stem cell fate and proliferation
Justine Creff, Ada Nowosad, Anne Prel, Anne Pizzoccaro, Marion Aguirrebengoa, Nicolas Duquesnes, Caroline Callot, Thomas Jungas, Christine Dozier, Arnaud Besson

Atg1 and Marf collaborate to maintain germline stem cells in Drosophila
Minal S. Ayachit, Bhupendra V. Shravage

Hematopoietic stem and progenitor cell heterogeneity is inherited from the embryonic hemogenic endothelium
Joey J. Ghersi, Gabriel Baldissera, Jared Hintzen, Stephanie A. Luff, Siyuan Cheng, Ivan Fan Xia, Christopher M. Sturgeon, Stefania Nicoli

Loss of the E3 ubiquitin ligases UBR-5 or HECD-1 restores Caenorhabditis elegans development in the absence of SWI/SNF function
Lisa Lampersberger, Francesca Conte, Subhanita Ghosh, Yutong Xiao, Jonathan Price, David Jordan, David Q Matus, Peter Sarkies, Petra Beli, Eric A Miska, Nicholas O Burton

A Single-Cell Level Comparison of Human Inner Ear Organoids and the Human Cochlea and Vestibular Organs
Wouter H. van der Valk, Edward S.A. van Beelen, Matthew R. Steinhart, Carl Nist-Lund, John C.M.J. de Groot, Peter Paul G. van Benthem, Karl R. Koehler, Heiko Locher

Effects of α-crystallin gene knockout on zebrafish lens development
Mason Posner, Kelly L. Murray, Brandon Andrew, Stuart Brdicka, Alexis Roberts, Kirstan Franklin, Adil Hussen, Taylor Kaye, Emmaline Kepp, Mathew S. McDonald, Tyler Snodgrass, Keith Zientek, Larry L. David

Decoding the IGF1 Signaling Gene Regulatory Network Behind Alveologenesis from A Mouse Model of Bronchopulmonary Dysplasia
F Gao, C Li, SM Smith, N Peinado, G Kohbodi, E Tran, E Loh, W Li, Z Borok, P Minoo

Deficiency in the cell-adhesion molecule dscaml1 impairs hypothalamic CRH neuron development and neuroendocrine stress axis function
Manxiu Ma, Alyssa A. Brunal, Kareem C. Clark, Carleigh Studtmann, Katelyn Stebbins, Shin-ichi Higashijima, Y. Albert Pan

Germ-stem cells and oocyte production in the Honeybee Queen Ovary
Georgia Cullen, Joshua B. Gilligan, Joseph G. Guhlin, Peter K. Dearden

Incoherent collective cell chemotaxis in a zebrafish model of branchio-oto-renal syndrome
Jerónimo R. Miranda-Rodríguez, Augusto Borges, Filipe Pinto-Teixeira, Indra Wibowo, Hans-Martin Pogoda, Matthias Hammerschmidt, Koichi Kawakami, Hernán López-Schier

SRSF2 is required for mRNA splicing and spermatogenesis
Wen-Long Lei, Zongchang Du, Tie-Gang Meng, Ruibao Su, Yuan-Yuan Li, Wenbo Liu, Si-Min Sun, Meng-Yu Liu, Yi Hou, Chun-Hui Zhang, Yaoting Gui, Heide Schatten, Zhiming Han, Chenli Liu, Zhen-Bo Wang, Wei-Ping Qian, Qing-Yuan Sun

The Long Noncoding RNA Playrr Regulates Pitx2 Dosage and Protects Against Cardiac Arrhythmias
Frances L. Chen, Eva M. Oxford, Shao-Pei Chou, Na Li, John P. Leach, Sienna K. Perry, Bhargav D. Sanketi, Christina Cong, Sophie A. Kupiec-Weglinski, Rebecca Dubowitz, Erin Daugherity, James F. Martin, Charles G. Danko, Natasza A. Kurpios

An intragenic FAT1 regulatory element deleted in muscular dystrophy patients drives muscle and mesenchyme expression during development
Nathalie Caruso, Angela K Zimmermann, Tarana Nigam, Celine Becker, Karelia Lipson, Françoise Helmbacher

Regenerative hallmarks of aging: Insights through the lens of Pleurodeles waltl
Georgios Tsissios, Gabriella Theodoroudis-Rapp, Weihao Chen, Anthony Sallese, Byran Smucker, Lake Ernst, Junfan Chen, Yiqi Xu, Sophia Ratvasky, Hui Wang, Katia Del Rio-Tsonis

Histopathological characteristics of different parts of surgical specimens of UPJ stenosis
NaFeisha TuErdi, Junbo Bai, Kaifang Liu, Shuai Liu, Hongxing Xiong, Yu Gao, Jia Li

Single-cell brain organoid screening identifies developmental defects in autism
Chong Li, Jonas Simon Fleck, Catarina Martins-Costa, Thomas R. Burkard, Marlene Stuempflen, Ábel Vertesy, Angela Maria Peer, Christopher Esk, Ulrich Elling, Gregor Kasprian, Nina S. Corsini, Barbara Treutlein, Juergen A. Knoblich

Ethanol Exposure Perturbs Sea Urchin Development and Disrupts Developmental Timing
Nahomie Rodríguez-Sastre, Nicholas Shapiro, Dakota Y. Hawkins, Alexandra T. Lion, Monique Peyreau, Andrea E. Correa, Kristin Dionne, Cynthia A. Bradham

FRIZZLED 2 regulates limb development by mediating both β-catenin-dependent and independent Wnt signaling pathways
Xuming Zhu, Mingang Xu, N. Adrian Leu, Edward E. Morrisey, Sarah E. Millar

Identification of the Metaphyseal Skeletal Stem Cell
Guan Yang, Qi He, Xiaoxiao Guo, Rong-Yu Li, Jingting Lin, Wanyu Tao, Wenjia Liu, Huisang Lin, Mingchuan Tang, Shilai Xing, Yini Qi, Yanli Peng, Lei Dong, Jingdong Han, Bin Zhou, Yan Teng, Xiao Yang

| Plant development

Transgressive and parental dominant gene expression and cytosine methylation during seed development in Brassica napus hybrids
Mauricio Orantes-Bonilla, Hao Wang, HueyTyng Lee, Agnieszka A. Golicz, Dandan Hu, Wenwen Li, Jun Zou, Rod J. Snowdon

Key role of auxin cellular accumulation in totipotency and pluripotency acquisition
Omid Karami, Azadeh Khadem, Arezoo Rahimi, Remko Offringa

The Arabidopsis SHORTROOT network coordinates shoot apical meristem development with auxin dependent lateral organ initiation
Elmehdi Bahafid, Imke Bradtmöller, Ann Marlene Thies, Thi Thuy Oanh Nicole Nguyen, Crisanto Gutierrez, Bénédicte Desvoyes, Yvonne Stahl, Ikram Blilou, Rüdiger Simon

Spatial control of ARGONAUTE-mediated RNA silencing in anther development
Hinako Tamotsu, Koji Koizumi, Alejandro Villar Briones, Reina Komiya

Slow and not so furious: de novo stomatal pattern formation during plant embryogenesis
Margot E Smit, Anne Vatén, Andrea Mair, Carrie A M Northover, Dominique C Bergmann

GOLVEN peptides regulate lateral root spacing as part of a negative feedback loop on the establishment of auxin maxima
Joris Jourquin, Ana Ibis Fernandez, Ke Xu, Jan Šimura, Karin Ljung, Tom Beeckman

Polarly Localized WPR Proteins Interact With PAN Receptors And The Actin Cytoskeleton During Maize Stomatal Development
Qiong Nan, Si Nian Char, Bing Yang, Eric J. Bennett, Bing Yang, Michelle R. Facette

How important are functional and developmental constraints on phenotypic evolution? An empirical test with the stomatal anatomy of flowering plants
Christopher D. Muir, Miquel Àngel Conesa, Jeroni Galmés, Varsha S. Pathare, Patricia Rivera, Rosana López Rodríguez, Teresa Terrazas, Dongliang Xiong

DELLA proteins regulate spore germination and reproductive development in Physcomitrium patens
Alexandros Phokas, Rabea Meyberg, Asier Briones-Moreno, Jorge Hernandez-Garcia, Panida T. Wadsworth, Eleanor F. Vesty, Miguel A. Blazquez, Stefan A. Rensing, Juliet C. Coates

Genotypic variation in tolerance to salinity in Pakistani okra (Abelmoschus esculentus L.) varieties as assessed at seed germination, seedling growth and biochemical characters
Hayat Ullah, Tour Jan, Fazal Wahid, Muhammad Zahoor, Shahab Uddin, Shabana Bibi

| Evo-devo

Coronary artery established through amniote evolution
Kaoru Mizukami, Hiroki Higashiyama, Yuichiro Arima, Koji Ando, Shigetomo Fukuhara, Sachiko Miyagawa-Tomita, Hiroki Kurihara

Twenty-seven ZAD-ZNF genes of Drosophila melanogaster are orthologous to the embryo polarity determining mosquito gene cucoid
Muzi Li, Koray Kasan, Zinnia Saha, Yoseop Yoon, Urs Schmidt-Ott

Can growth in captivity alter the calcaneal microanatomy of a wild ungulate?
Romain Cottereau, Katia Ortiz, Yann Locatelli, Alexandra Houssaye, Thomas Cucchi

Machine-learning dissection of Human Accelerated Regions in primate neurodevelopment
Sean Whalen, Fumitaka Inoue, Hane Ryu, Tyler Fairr, Eirene Markenscoff-Papadimitriou, Kathleen Keough, Martin Kircher, Beth Martin, Beatriz Alvarado, Orry Elor, Dianne Laboy Cintron, Alex Williams, Md. Abul Hassan Samee, Sean Thomas, Robert Krencik, Erik M. Ullian, Arnold Kriegstein, John L. Rubenstein, Jay Shendure, Alex A. Pollen, Nadav Ahituv, Katherine S. Pollard

Conserved signaling pathways antagonize and synergize with co-opted doublesex to control development of novel mimetic butterfly wing patterns
Nicholas W. VanKuren, Meredith M. Doellman, Sofia I. Sheikh, Daniela H. Palmer Droguett, Darli Massardo, Marcus R. Kronforst

Regulatory and coding sequences of TRNP1 co-evolve with brain size and cortical folding in mammals
Zane Kliesmete, Lucas E. Wange, Beate Vieth, Miriam Esgleas, Jessica Radmer, Matthias Hülsmann, Johanna Geuder, Daniel Richter, Mari Ohnuki, Magdalena Götz, Ines Hellmann, Wolfgang Enard

Differential modularity of the mammalian Engrailed 1 enhancer network directs eccrine sweat gland development
Daniel Aldea, Blerina Kokalari, Yuji Atsuta, Heather L. Dingwall, Ying Zheng, Arben Nace, George Cotsarelis, Yana G. Kamberov

Developmental changes of opsin gene expression in ray-finned fishes (Actinopterygii)
Nik Lupše, Monika Kłodawska, Veronika Truhlářová, Prokop Košátko, Vojtěch Kašpar, Arnold Roger Bitja Nyom, Zuzana Musilova

How development affects evolution
Mauricio González-Forero

Changes in global repression underlie the evolution of Drosophila abdominal pigmentation
Iván D. Méndez-González, Thomas M. Williams, Mark Rebeiz

A mathematical framework for evo-devo dynamics
Mauricio González-Forero

Laboratory evolution of flies to morphogen dosage via rapid maternal changes reveals predictable outcomes
Xueying C. Li, Lautaro Gandara, Måns Ekelöf, Kerstin Richter, Theodore Alexandrov, Justin Crocker

Divergent expression of aristaless1 and aristaless2 is associated with embryonic appendage and pupal wing development in butterflies
Erick X. Bayala, Isabella Cisneros, Darli Massardo, Nicholas W. VanKuren, Marcus R. Kronforst

Morphological and temporal variation in early embryogenesis contributes to species divergence in Malawi cichlid fishes
Aleksandra Marconi, Cassandra Yang, Samuel McKay, M. Emília Santos

The Nanog epigenetic remodeling complex was essential to vertebrate mesoderm evolution
Luke A. Simpson, Darren Crowley, Teri Forey, Helena Acosta, Zoltan Ferjentsik, Jodie Chatfield, Alexander Payne, Benjamin S. Simpson, Catherine Redwood, James E. Dixon, Nadine Holmes, Fei Sang, Ramiro Alberio, Mathew Loose, Andrew D. Johnson

Cell Biology

Design principles for selective polarization of PAR proteins by cortical flows
Rukshala Illukkumbura, Nisha Hirani, Joana Borrego-Pinto, Tom Bland, KangBo Ng, Lars Hubatsch, Jessica McQuade, Robert G. Endres, Nathan W. Goehring

A Scribble/Cdep/Rac pathway regulates follower cell crawling and cluster cohesion during collective border cell migration
Joseph P. Campanale, James A. Mondo, Denise J. Montell

Length-limitation of astral microtubules orients cell divisions in intestinal crypts
Saleh Jad, Fardin Marc-Antoine, Frenoy Olivia, Soleilhac Matis, Gaston Cécile, Cui Hongyue, Dang Tien, Noémie Gaudin, Vincent Audrey, Minc Nicolas, Delacour Delphine

Aneuploidy triggers autophagy and p53-mediated apoptosis and impairs second lineage segregation in human preimplantation embryos
Marius Regin, Yingnan Lei, Edouard Couvreu De Deckersberg, Yves Guns, Pieter Verdyck, Greta Verheyen, Hilde Van de Velde, Karen Sermon, Claudia Spits

Distinct features in fish Bouncer proteins determine sperm-egg compatibility
Krista R.B. Gert, Karin Panser, Joachim Surm, Benjamin S. Steinmetz, Alexander Schleiffer, Yehu Moran, Fyodor Kondrashov, Andrea Pauli

Stress vesicles are induced by acute mechanical force and precede the commitment of epidermal stem cells to terminal differentiation
Sixia Huang, Paola Kuri, Jonathan Zou, Adriana Blanco, Maxwell Marshall, Gabriella Rice, Stephen Prouty, Tzvete Dentchev, Miriam Doepner, Joel D. Boerckel, Brian C. Capell, Todd W. Ridky, Panteleimon Rompolas

Initial spindle positioning at the oocyte center protects against incorrect kinetochore-microtubule attachment and aneuploidy in mice
Jessica N. Kincade, Avery Hlavacek, Takashi Akera, Ahmed Z. Balboula

The filipodia-like protrusions of adjacent somatic cells shape the developmental potential of mouse oocytes
Flora Crozet, Gaëlle Letort, Christelle Da Silva, Adrien Eichmuller, Anna Francesca Tortorelli, Morgane Belle, Julien Dumont, Tristan Piolot, Aurélien Dauphin, Fanny Coulpier, Alain Chédotal, Jean-Léon Maître, Marie-Hélène Verlhac, Hugh.J Clarke, Marie-Emilie Terret

The Slingshot phosphatase 2 is required for acrosome biogenesis during spermatogenesis in mice
Ke Xu, Xianwei Su, Kailun Fang, Yue Lv, Gang Lu, Waiyee Chan, Zi-Jiang Chen, Jinlong Ma, Hongbin Liu

Asymmetric distribution of centromere proteins between germline stem and daughter cells maintains a balanced niche in Drosophila males
Antje M Kochendoerfer, Elaine M Dunleavy

Cytoophidia safeguard binucleation of Drosophila male accessory gland cells
Dong-Dong You, Xiao-Li Zhou, Qiao-Qi Wang, Ji-Long Liu

Viral proteins and virus-like particles of the LTR5_Hs endogenous retrovirus in human primordial germ cell-like cells
Mutsumi Kobayashi, Misato Kobayashi, Johannes Kreuzer, Eric Zaniewski, Jae Jung Kim, Keiko Shioda, Hikari Hagihara, Junko Odajima, Ayako Nakashoji, Yi Zheng, Jianping Fu, Maria Ericsson, Kazuhiro Kawamura, Shannon L. Stott, Daniel Irimia, Wilhelm Haas, Chin-Lee Wu, Maria Tokuyama, Toshi Shioda

ATFS-1 regulates peroxisome assembly genes and protects both mitochondria and peroxisomes during peroxin perturbations
Tomer Shpilka, Nandhitha Uma Naresh, YunGuang Du, Jennifer L. Watts, Cole M. Haynes

Modelling

Ultra-sensitive coupling between organ growth and size by YAP-1 ensures uniform body plan proportions in C. elegans
Klement Stojanovski, Ioana Gheorghe, Anne Lanjuin, William B. Mair, Benjamin D. Towbin

Single-cell Senseless protein analysis reveals metastable states during the transition to a sensory organ fate
Ritika Giri, Shannon Brady, Dimitrios K. Papadopoulos, Richard W. Carthew

Emergent chirality in active solid rotation of pancreas spheres
Tzer Han Tan, Aboutaleb Amiri, Irene Seijo-Barandiarán, Michael F. Staddon, Anne Materne, Sandra Tomas, Charlie Duclut, Marko Popović, Anne Grapin-Botton, Frank Jülicher

Controlling periodic long-range signalling to drive a morphogenetic transition
Hugh Z Ford, Angelika Manhart, Jonathan R Chubb

Universal dynamics of biological pattern formation in spatio-temporal morphogen variations
Mohit P. Dalwadi, Philip Pearce

Unbalanced response to growth variations reshapes the cell fate decision landscape
Jingwen Zhu, Pan Chu, Xiongfei Fu

Modeling cell size regulation under complex and dynamic environments
César Nieto, César Vargas-García, Juan Manuel Pedraza, Abhyudai Singh

Large-scale analysis and computer modeling reveal hidden regularities behind variability of cell division patterns in Arabidopsis thaliana embryogenesis
Elise Laruelle, Katia Belcram, Alain Trubuil, Jean-Christophe Palauqui, Philippe Andrey

Dynamic fibronectin assembly and remodeling by leader neural crest cells prevents jamming in collective cell migration
W. Duncan Martinson, Rebecca McLennan, Jessica M. Teddy, Mary C. McKinney, Lance A. Davidson, Ruth E. Baker, Helen M. Byrne, Paul M. Kulesa, Philip K. Maini

Morphogen gradient formation in partially absorbing media
Paul C Bressloff

Epigenetic factor competition reshapes the EMT landscape
M. Ali Al-Radhawi, Shubham Tripathi, Yun Zhang, Eduardo D. Sontag, Herbert Levine

Reviews

The History, Current Status, Benefits, and Challenges of 3D Printed Organs
Alicia Shin

A comprehensive survey on computational learning methods for analysis of gene expression data
Nikita Bhandari, Rahee Walambe, Ketan Kotecha, Satyajeet Khare

Post-Transcriptional Modification by Alternative Splicing in Cardiovascular Development and Congenital Heart Defects
Zubin Mehta and Marlin Touma

Tools & Resources

Generation of floxed alleles for cell-specific knockout in zebrafish
Masahiro Shin, Takayuki Nozaki, Benjamin Toles, Amy Kolb, Kevin Luk, Sumio Isogai, Kinji Ishida, Tomohito Hanasaka, Michael J. Parsons, Scot A. Wolfe, Nathan D. Lawson

gUMI-BEAR, a modular, unsupervised population barcoding method to track variants and evolution at high resolution
Shahar Rezenman, Maor Knafo, Ivgeni Tsigalnitski, Shiri Barad, Ghil Jona, Dikla Levi, Orly Dym, Ziv Reich, Ruti Kapon

Molecular characterization of the intact muscle spindle using a multi-omics approach
Bavat Bornstein, Lia Heinemann-Yerushalmi, Sharon Krief, Ruth Adler, Bareket Dassa, Dena Leshkowitz, Minchul Kim, Guy Bewick, Robert W. Banks, Elazar Zelzer

A single cell atlas of the cycling murine ovary
ME Morris, MC Meinsohn, M Chauvin, HD Saatcioglu, A. Kashiwagi, NA. Sicher, NMP Nguyen, S Yuan, Rhian Stavely, M Hyun, PK Donahoe, B Sabatini, D Pépin

Zinc-based Ultrasensitive Microscopic Barrier Assay (ZnUMBA): a live-imaging method for detecting epithelial barrier breaches with spatiotemporal precision
Tomohito Higashi, Rachel E. Stephenson, Cornelia Schwayer, Karla Huljev, Carl-Philipp Heisenberg, Hideki Chiba, Ann L. Miller

Multi-modal mass spectrometry imaging reveals single-cell metabolic states in mammalian liver
Hua Tian, Presha Rajbhandari, Jay Tarolli, Aubrianna M. Decker, Taruna V. Neelakantan, Tina Angerer, Fereshteh Zandkarimi, Jacob Daniels, Helen Remotti, Gilles Frache, Nicholas Winograd, Brent R. Stockwell

Efficient CRISPR/Cas9 mediated large insertions using long single-stranded oligonucleotide donors in C. elegans
Matthew Eroglu, Bin Yu, Brent Derry

Development of an Agrobacterium-delivered codon-optimized CRISPR/Cas9 system for chickpea genome editing
Santosh Kumar Gupta, Niraj Kumar Vishwakarma, Paheli Malakar, Poonam Vanaspati, Nilesh Kumar Sharma, Debasis Chattopadhyay

Submicron-sized in-situ osmotic pressure sensors for in-vitro applications in biology
Wenbo Zhang, Luca Bertinetti, Efe Cuma Yavuzsoy, Changyou Gao, Emanuel Schneck, Peter Fratzl

Comparing the efficiency of six clearing methods in developing seeds of Arabidopsis thaliana
Venkata Pardha Saradhi Attuluri, Juan Francisco Sánchez López, Lukáš Maier, Kamil Paruch, Hélène S. Robert

ARTseq-FISH reveals position-dependent fate decisions driven by cell cycle changes
Xinyu Hu, Bob van Sluijs, Óscar García Blay, Yury Stepanov, Koen Rietrae, Wilhelm T.S. Huck, Maike M. K. Hansen

NetAct: a computational platform to construct core transcription factor regulatory networks using gene activity
Kenong Su, Ataur Katebi, Vivek Kohar, Benjamin Clauss, Danya Gordin, Zhaohui S. Qin, R. Krishna M. Karuturi, Sheng Li, Mingyang Lu

Heritable CRISPR-Cas9 editing of plant genomes using RNA virus vectors
Mireia Uranga, Verónica Aragonés, José-Antonio Daròs, Fabio Pasin

A CRISPR/Cas9-based enhancement of high-throughput single-cell transcriptomics
Amitabh C. Pandey, Jon Bezney, Dante DeAscanis, Ethan Kirsch, Farin Ahmed, Austin Crinklaw, Kumari Sonal Choudhary, Tony Mandala, Jeffrey Deason, Jasmin Hamdi, Azeem Siddique, Sridhar Ranganathan, Phillip Ordoukhanian, Keith Brown, Jon Armstrong, Steven Head, Eric J. Topol

Efficient and scalable generation of primordial germ cells in 2D culture using basement membrane extract overlay
Arend W. Overeem, Yolanda W. Chang, Ioannis Moustakas, Celine M. Roelsen, Sanne Hillenius, Talia Van Der Helm, Valérie F. Van Der Schrier, Hailiang Mei, Christian Freund, Susana M. Chuva De Sousa Lopes

A human fetal lung cell atlas uncovers proximal-distal gradients of differentiation and key regulators of epithelial fates
Peng He, Kyungtae Lim, Dawei Sun, Jan Patrick Pett, Quitz Jeng, Krzysztof Polanski, Ziqi Dong, Liam Bolt, Laura Richardson, Lira Mamanova, Monika Dabrowska, Anna Wilbrey-Clark, Elo Madissoon, Zewen Kelvin Tuong, Emma Dann, Chenqu Suo, Isaac Goh, Masahiro Yoshida, Marko Z Nikolić, Sam M Janes, Xiaoling He, Roger A Barker, Sarah A Teichmann, John C. Marioni, Kerstin B Meyer, Emma L Rawlins

Single molecule imaging and modelling of mRNA decay dynamics in the Drosophila embryo
Lauren Forbes Beadle, Jennifer C. Love, Yuliya Shapovalova, Artem Artemev, Magnus Rattray, Hilary L. Ashe

Bat pluripotent stem cells reveal unique entanglement between host and viruses
Marion Déjosez, Arturo Marin, Graham M. Hughes, Ariadna E. Morales, Carlos Godoy-Parejo, Jonathan Gray, Yiren Qin, Arun A. Singh, Hui Xu, Javier Juste, Carlos Ibáñez, Kris M. White, Romel Rosales, Nancy J. Francoeur, Robert P. Sebra, Dominic Alcock, Sébastien J. Puechmaille, Andrzej Pastusiak, Simon D.W. Frost, Michael Hiller, Richard A. Young, Emma C. Teeling, Adolfo García-Sastre, Thomas P. Zwaka

Enhancing Sox/Oct cooperativity induces higher-grade developmental reset
Caitlin M. MacCarthy, Vikas Malik, Guangming Wu, Taras Velychko, Gal Keshet, Ralf Jauch, Vlad Cojocaru, Hans R. Schöler, Sergiy Velychko

Lifetime development changes in rats tracked by urinary proteome
Xuanzhen Pan, Yongtao Liu, Yijin Bao, Youhe Gao

PLANAtools – an interactive gene expression repository for the planarian Schmidtea mediterranea
Michael Hoffman, Omri Wurtzel

mRNA-based generation of marmoset PGCLCs capable of differentiation into gonocyte-like cells
Musashi Kubiura-Ichimaru, Christopher Penfold, Kazuaki Kojima, Constance Dollet, Haruka Yabukami, Katsunori Semi, Yasuhiro Takashima, Thorsten Boroviak, Hideya Kawaji, Knut Woltjen, Aki Minoda, Erika Sasaki, Toshiaki Watanabe

Barcode-free prediction of cell lineages from scRNA-seq datasets
A.S. Eisele, M. Tarbier, A.A. Dormann, V. Pelechano, D.M. Suter

Large scale production of human blastoids amenable to modeling blastocyst development and maternal-fetal crosstalk
Leqian Yu, Toshihiko Ezashi, Yulei Wei, Jialei Duan, Deirdre Logsdon, Linfeng Zhan, Asrafun Nahar, Carlos A. Pinzon Arteaga, Lizhong Liu, Caitlen Stobbe, Mandy Katz-Jaffe, William B Schoolcraft, Lei Wang, Tao Tan, Gary C. Hon, Ye Yuan, Jun Wu

Toward Improving Immunotolerance for Stem Cell-Derived Islets
Quan Zhou, Hongfei Li, Dario Gerace, Igor Nikolskly, Xi Wang, Jennifer Kenty-Ryu, Jingping Zhang, Matthew Hinderhofer, Elaine Robinson, Douglas A. Melton

Transplantable human thyroid organoids generated from embryonic stem cells to rescue hypothyroidism
Mírian Romitti, Adrien Tourneur, Barbara de Faria da Fonseca, Gilles Doumont, Pierre Gillotay, Xiao-Hui Liao, Sema Elif Eski, Gaetan Van Simaeys, Laura Chomette, Helene Lasolle, Olivier Monestier, Dominika Figini Kasprzyk, Vincent Detours, Sumeet Pal Singh, Serge Goldman, Samuel Refetoff, Sabine Costagliola

Neighbor-specific gene expression revealed from physically interacting cells during mouse embryonic development
Junil Kim, Michaela Mrugala Rothová, Esha Madan, Siyeon Rhee, Guangzheng Weng, António M. Palma, Linbu Liao, Eyal David, Ido Amit, Morteza Chalabi Hajkarim, Andrés Gutiérrez-García, Paul B. Fisher, Joshua M. Brickman, Rajan Gogna, Kyoung Jae Won

An ImageJ-based tool for three-dimensional registration between different types of microscopic images
Hiroshi Koyama, Kanae Kishi, Toshihiko Fujimori

A single cell atlas of the cycling murine ovary
ME Morris, MC Meinsohn, M Chauvin, HD Saatcioglu, A. Kashiwagi, NA. Sicher, NMP Nguyen, S Yuan, Rhian Stavely, M Hyun, PK Donahoe, B Sabatini, D Pépin

Developmental role of macrophages modelled in human pluripotent stem cell derived intestinal tissue
Andrew T. Song, Renata H. M. Sindeaux, Yuanyi Li, Hicham Affia, Tapan Agnihotri, Severine Leclerc, Patrick Piet van Vliet, Mathieu Colas, Jean-Victor Guimond, Natasha Patey, Jean-Sebastien Joyal, Elie Haddad, Luis Barreiro, Gregor Andelfinger

Platform-Agnostic CellNet (PACNet) enables cross-study meta-analysis of cell fate engineering protocols
Emily K.W. Lo, Jeremy Velazquez, Da Peng, Chulan Kwon, Mo R. Ebrahimkhani, Patrick Cahan

siRNA-mediated gene knockdown via electroporation in hydrozoan jellyfish embryos
Tokiha Masuda-Ozawa, Sosuke Fujita, Ryotaro Nakamura, Hiroshi Watanabe, Erina Kuranaga, Yu-ichiro Nakajima

SGC: A semi-supervised pipeline for gene clustering using self-training approach in gene co-expression networks
Niloofar Aghaieabiane, Ioannis Koutis

CustOmics: A versatile deep-learning based strategy for multi-omics integration
Hakim Benkirane, Yoann Pradat, Stefan Michiels, Paul-Henry Cournède

Polarization effects on fluorescence emission of zebrafish neurons using light-sheet microscopy
Hong Ye, Xin Xu, Jixiang Wang, Jing Wang, Yi He, Yu Mu, Guohua Shi

In Situ 3D Spatiotemporal Measurement of Soluble Biomarkers in Organoid Culture
Alexander J McGhee, Eric O McGhee, Jack E Famiglietti, W. Gregory Sawyer

DRAGON: Determining Regulatory Associations using Graphical models on multi-Omic Networks
Katherine H. Shutta, Deborah Weighill, Rebekka Burkholz, Marouen Ben Guebila, Dawn L. DeMeo, Helena U. Zacharias, John Quackenbush, Michael Altenbuchinger

Research practice & education

Effect of time spent on active learning on exam performance: A controlled case study on a course with different instructors but identical teaching materials
Xinjian Cen, Rachel J. Lee, Jeffrey Maloy, Melinda T. Owens

Including both sexes in in vivo research does not necessitate an increase in sample size: a key role for factorial analysis methods
Benjamin Phillips, Timo N. Haschler, Natasha A. Karp

Students Attitudes Surrounding STEM: A Social Cognitive Career Theory Instrument for High School
EmilyKate McDonough, Kayle S. Sawyer, Jessica Wilks, Berri Jacque

Collaborative partnership model to transform bioinformatics core into a highly effective research partner and multiply the impact
R. Krishna Murthy Karuturi, Govindarajan Kunde-Ramamoorthy, Gregg TeHennepe, Joshy George, Vivek Philip

Leadership in PhD (LeaP): a longitudinal leadership skill building program for underrepresented biomedical research trainees
Mali D Doles, Ji Yun Kang, Linda M Scholl, Jason D Doles

Researchers and their experimental models: A pilot survey
Lorenzo Del Pace, Laura Viviani, Marco Straccia

Analysis and Exploration of the Implementation System of Mixed Ownership of Scientific and Technological Achievements in Colleges and Universities
Panjun Gao, Yong Qi, Qing Guo

Limitations of qPCR to estimate DNA quantity: An RFU method to facilitate inter-laboratory comparisons for activity level, and general applicability
Peter Gill, Øyvind Bleka, Ane Elida Fonneløp

Initial recommendations for performing, benchmarking, and reporting single-cell proteomics experiments
Laurent Gatto, Ruedi Aebersold, Juergen Cox, Vadim Demichev, Jason Derks, Edward Emmott, Alexander M. Franks, Alexander R. Ivanov, Ryan T. Kelly, Luke Khoury, Andrew Leduc, Michael J. MacCoss, Peter Nemes, David H. Perlman, Aleksandra A. Petelski, Christopher M. Rose, Erwin M. Schoof, Jennifer Van Eyk, Christophe Vanderaa, John R. Yates III, Nikolai Slavov

Ten Simple Rules for Using Public Biological Data for Your Research
Vishal Oza , Jordan Whitlock , Elizabeth Wilk , Angelina Uno-Antonison , Brandon Wilk , Manavalan Gajapathy , Timothy Howton , Austyn Trull , Lara Ianov , Elizabeth Worthey , Brittany Lasseigne

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