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

The preprints this month are hosted on bioRxiv and arXiv – use these links below 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

Tools & Resources

Research practice and education

Developmental biology

| Patterning & signalling

Diffusion barriers imposed by tissue topology shape morphogen gradients

Gavin Schlissel, Miram Meziane, Domenic Narducci, Anders S. Hansen, Pulin Li

Hedgehog-dependent and Hedgehog-independent roles for Growth Arrest Specific 1 in mammalian kidney morphogenesis

Nicole E. Franks, Benjamin L. Allen

Fasciclin 2 functions as an expression-level switch on EGFR to control organ shape and size in Drosophila

Luis Garcia-Alonso

The Jag2/Notch1 signaling axis promotes sebaceous gland differentiation and controls progenitor proliferation

Syeda Nayab Fatima Abidi, Sara Chan, Kerstin Seidel, Daniel Lafkas, Louis Vermeulen, Frank Peale, Christian W. Siebel

The roles of TGFβ and serotonin signaling in regulating proliferation of oocyte precursors and germline aging

Erin Z. Aprison, Svetlana Dzitoyeva, Ilya Ruvinsky

A conserved chronobiological complex times C. elegans development

Rebecca K. Spangler, Guinevere E. Ashley, Kathrin Braun, Daniel Wruck, Andrea Ramos-Coronado, James Matthew Ragle, Vytautas Iesmantavicius, Daniel Hess, Carrie L. Partch, Helge Großhans, Jordan D. Ward

Regulation of brain development by the Minibrain/Rala signaling network

Melissa Brown, Erika Sciascia, Ken Ning, Wesam Adam, Alexey Veraksa

MLT-11 is a transient apical extracellular matrix component required for cuticle patterning and function

Jmaes Matthew Ragle, Ariela Turzo, Max T. Levenson, Keya Jonnalagadda, Anton Jackson, An A. Vo, Vivian T. Pham, Jordan D. Ward

Phased ERK-responsiveness and developmental robustness regulate teleost skin morphogenesis

Nitya Ramkumar, Christian Richardson, Makinnon O’Brien, Faraz Ahmed Butt, Jieun Park, Anna T Chao, Michel Bagnat, Kenneth Poss, Stefano Di Talia

BMP signalling facilitates transit amplification in the developing chick and human cerebellum

V Rook, P Haldipur, K Millen, T Butts, RJ Wingate

A positive feedback loop between germ cells and gonads induces and maintains cnidarian sexual reproduction

Camille Curantz, Ciara Doody, Helen R Horkan, Gabriel Krasovec, Paris K Weavers, Timothy Q DuBuc, Uri Frank

AMH protects the ovary from doxorubicin by regulating cell fate and the response to DNA damage

Ngoc Minh Phuong Nguyen, Eun Mi Chang, Maeva Chauvin, Natalie Sicher, Aki Kashiwagi, Nicholas Nagykery, Christina Chow, Phoebe May, Alana Mermin-Bunnel, Josephine Cleverdon, Thy Duong, Marie-Charlotte Meinsohn, Dadi Gao, Patricia K. Donahoe, David Pepin

Functional roles of neural aPKCs in mouse brain development and survival

Aicha El Ellam, Emily J. Alberto, Maria E. Mercau, Dimitrius T. Pramio, Krishna M. Bhat, William M Philbrick, Deborah Schechtman, Carla V. Rothlin, Sourav Ghosh

Chordin-mediated BMP shuttling patterns the secondary body axis in a cnidarian

David Mörsdorf, Maria Mandela Prünster, Grigory Genikhovich

Transcriptional remodeling by OTX2 directs specification and patterning of mammalian definitive endoderm

LS Ee, D Medina-Cano, CM Uyehara, C Schwarz, E Goetzler, E Salataj, A Polyzos, S Madhuranath, T Evans, AK Hadjantonakis, E Apostolou, T Vierbuchen, M Stadtfeld

The External Microbiome Communicates with the Developing Zebrafish (Danio rerio) Embryo Through the Protective Chorion and Influences Developmental Trajectory

Emily Green, Akila Harishchandra, Prabha Ranasinghe, Richard Di Giulio, Nishad Jayasundara

Retinoic acid signaling suppresses chondrocyte identity during cartilage development and regeneration

Claire Arata, Sandeep Paul, Simone Schindler, Mathi Thiruppathy, Mackenzie Flath, Dion Giovannone, Zack Hammer, Dev Subramanie, Gage Crump

| Morphogenesis & mechanics

Histological and gene-expression analyses of pyloric sphincter formation during stomach metamorphosis in Xenopus laevis

Kei Nagura, Takafumi Ikeda, Takashi Hasebe, Yumeko Satou-Kobayashi, Sumio Udagawa, Shuji Shigenobu, Atsuko Ishizuya-Oka, Masanori Taira

Mechanical signaling through membrane tension induces somal translocation during neuronal migration

Takunori Minegishi, Honami Hasebe, Tomoya Aoyama, Keiji Naruse, Yasufumi Takahashi, Naoyuki Inagaki

Versican controlled by Lmx1b regulates hyaluronate density and hydration for semicircular canal morphogenesis

Yusuke Mori, Sierra Smith, Jiacheng Wang, Akankshi Munjal

E-cadherin tunes tissue mechanical behavior before and during morphogenetic tissue flows

Xun Wang, Christian M. Cupo, Sassan Ostvar, Andrew D. Countryman, Karen E. Kasza

Single cell transcriptomics of the Drosophila embryonic salivary gland reveals not only induction but also exclusion of expression as key morphogenetic control steps

Annabel May, Katja Röper

Endogenous OptoRhoGEFs reveal biophysical principles of epithelial tissue furrowing

Andrew D. Countryman, Caroline A. Doherty, R. Marisol Herrera-Perez, Karen E. Kasza

Biomechanical regulation of cell shapes promotes branching morphogenesis of the ureteric bud epithelium

Kristen Kurtzeborn, Vladislav Iaroshenko, Tomáš Zárybnický, Julia Koivula, Heidi Anttonen, Darren Brigdewater, Ramaswamy Krishnan, Ping Chen, Satu Kuure

Endocardial primary cilia and blood flow are required for regulation of EndoMT during endocardial cushion development

Kathryn Berg, Joshua Gorham, Faith Lundt, Jonathan Seidman, Martina Brueckner

Vascular development of fetal and postnatal neocortex of the pig, the European wild boar Sus scrofa

Eric Sobierajski, Katrin Czubay, Christa Beemelmans, Christoph Beemelmans, Martin Meschkat, Dennis Uhlenkamp, Gundela Meyer, Petra Wahle

BMP4 regulates asymmetric Pkd2 distribution in mouse nodal immotile cilia and ciliary mechanosensing required for left–right determination

Takanobu A. Katoh, Tim Lange, Yoshiro Nakajima, Kenta Yashiro, Yasushi Okada, Hiroshi Hamada

Combined forces of hydrostatic pressure and actin polymerization drive endothelial tip cell migration and sprouting angiogenesis

Igor Kondrychyn, Haymar Wint, Liqun He, Christer Betsholtz, Li-Kun Phng

| Genes & genomes

miR214 regulates sex determination through gsdf in zebrafish

N. Wittkopp, A.M. de Jesus Domingues, R.F. Ketting

Effects of HMGCR deficiency on skeletal muscle development

Mekala Gunasekaran, Hannah R. Littel, Natalya M. Wells, Johnnie Turner, Gloriana Campos, Sree Venigalla, Elicia A. Estrella, Partha S. Ghosh, Audrey L. Daugherty, Seth A. Stafki, Louis M. Kunkel, A. Reghan Foley, Sandra Donkervoort, Carsten G. Bönnemann, Laura Toledo-Bravo de Laguna, Andres Nascimento, Daniel Natera-de Benito, Isabelle Draper, Christine C. Bruels, Christina A. Pacak, Peter B. Kang

A microRNA that controls the emergence of embryonic movement

Jonathan A. C. Menzies, Andre M. Chagas, Tom Baden, Claudio R. Alonso

Mitochondrial DNA removal is essential for sperm development and activity

Zhe Chen, Fan Zhang, Annie Lee, Michaela Yamine, Zong-Heng Wang, Guofeng Zhang, Chris Combs, Hong Xu

The emerging H3K9me3 chromatin landscape during zebrafish embryogenesis

Katherine L. Duval, Ashley R. Artis, Mary G. Goll

Normal male fertility in a mouse model of KPNA2 deficiency

Franziska Rother, Dalia Abu Hweidi, Enno Hartmann, Michael Bader

Mitochondrial citrate carrier SLC25A1 is a dosage-dependent regulator of metabolic reprogramming and morphogenesis in the developing heart

Chiemela Ohanele, Jessica N. Peoples, Anja Karlstaedt, Joshua T. Geiger, Ashley D. Gayle, Nasab Ghazal, Fateemaa Sohani, Milton E. Brown, Michael E. Davis, George A. Porter Jr., Victor Faundez, Jennifer Q. Kwong

Placental Malaria Induces a Unique Placental Methylation Profile Associated with Fetal Growth Restriction

Nida Ozarslan, Corina Mong, John Ategeka, Lin Li, Sirirak Buarpung, Joshua F. Robinson, Jimmy Kizza, Abel Kakuru, Moses R. Kamya, Grant Dorsey, Phillip J. Rosenthal, Stephanie L. Gaw

Destabilization of mRNAs enhances competence to initiate meiosis in mouse spermatogenic cells

Natalie G. Pfaltzgraff, Bingrun Liu, Dirk G. de Rooij, David C. Page, Maria M. Mikedis

Patterning, regulation, and role of FoxO/DAF-16 in the early embryo

Michael S. Mauro, Sophia L. Martin, Julien Dumont, Mimi Shirasu-Hiza, Julie C. Canman

Decreased CREB phosphorylation impairs embryonic retinal neurogenesis in the Oa1-/- mouse model of Ocular albinism

Sonia Guha, Andrew M. Nguyen, Alejandra Young, Ethan Mondell, Debora B. Farber

Transcriptional Regulators with Broad Expression in the Zebrafish Spinal Cord

Samantha J. England, Paul C. Campbell, Santanu Banerjee, Richard L. Bates, Ginny Grieb, William F. Fancher, Katharine E. Lewis

KAT3 mutations impair neural crest migration through EMT regulators snai1b and snai2 in Rubinstein Taybi Syndrome

Shweta Verma, Sujit Dalabehera, Subhash Gowda, Koushika Chandrasekaran, Dayanidhi Singh, Bhavana Prasher, Sharmila Bapat, Sivaprakash Ramalingam, Chetana Sachidanandan

The polyadenosine RNA binding protein Nab2 regulates alternative splicing and intron retention during Drosophila melanogaster brain development

Seth M. Kelly, Allison Paschack, Gargi Mishra, Emma Smith, Katherine Shelmidine, Andre Yazhbin, Young Ji

A Genetic Screen in Drosophila uncovers a role for senseless-2 in surface glia in the peripheral nervous system to regulate CNS morphology

Haluk Lacin, Yuqing Zhu, Jose T. DiPaola, Beth A. Wilson, Yi Zhu, James B. Skeath

Amd1-skp2 cascade regulates hepatocyte proliferation during liver growth and hepatocellular carcinoma development in zebrafish

Ke Zhang, Botong Li, Zhiling Deng, Yong Dong, Yuanyuan Li, Bingyu Chen, Ming Zhao, Mao Lu, Xingdong Liu, Zhenhua Guo, Sizhou Huang

Single-cell landscapes of long non-coding RNAs in early vascular endothelial development and hemogenic specification

Xupeng Chen, Xiaowei Ning, Chenguang Lu, Han He, Yingpeng Yao, Yanli Ni, Jie Zhou, Bing Liu, Siyuan Hou, Yu Lan, Zongcheng Li

Chromatin remodeling protein BPTF regulates transcriptional stability in planarian stem cells

Prince Verma, Alejandro Sánchez Alvarado, Elizabeth M. Duncan

Two germ granule eIF4E isoforms reside in different mRNPs to hand off C elegans mRNAs from translational repression to activation

Gita Gajjar, Hayden P. Huggins, Eun Suk Kim, Weihua Huang, Frederic X. Bonnet, Dustin L. Updike, Brett D. Keiper

Dynamics of transcriptional programs and chromatin accessibility in mouse spermatogonial cells from early postnatal to adult life

Irina Lazar-Contes, Rodrigo G. Arzate-Mejia, Deepak K. Tanwar, Leonard C. Steg, Kerem Uzel, Olivier Ulrich Feudjio, Marion Crespo, Pierre-Luc Germain, Isabelle M. Mansuy

The Iroquois (Iro/Irx) homeobox genes are conserved Hox targets involved in motor neuron development

Catarina Catela, Stavroula Assimacopoulos, Yihan Chen, Konstantinos Tsioras, Weidong Feng, Paschalis Kratsios

Histone H2B isoform H2bc27 is expressed in the developing brain of mouse embryos

Saki Egashira, Kazumitsu Maehara, Kaori Tanaka, Mako Nakamura, Tatsuya Takemoto, Yasuyuki Ohkawa, Akihito Harada

CRISPR-RfxCas13d screening uncovers Bckdk as a post-translational regulator of the maternal-to-zygotic transition in teleosts

Luis Hernandez-Huertas, Ismael Moreno-Sanchez, Jesús Crespo-Cuadrado, Ana Vargas-Baco, Gabriel da Silva Pescador, José M. Santos-Pereira, Ariel A. Bazzini, Miguel A. Moreno-Mateos

| Stem cells, regeneration & disease modelling

Human myogenic progenitor cells display tenogenic differentiation potential and facilitate tendon regeneration

Xiexiang Shao, Xingzuan Lin, Hao Zhou, Lili Han, Xin Fu, Sheng Li, Siyuan Zhu, Shenao Zhou, Jianhua Wang, Ping Hu

AHR activation accelerates the resolution of TGF-β1 induced fibroblast activation and promotes alveolar type 1 cell regeneration in alveolar organoids

Andrew S. Hagan, Scott Williams, Casey J. N. Mathison, Shanshan Yan, Bao Nguyen, Glenn C. Federe, Guray Kuzu, Joseph C. Siefert, Janice Hampton, Victor Chichkov, S. Whitney Barnes, Frederick J. King, Brandon Taylor, John R. Walker, Rui Zhao, Jimmy Elliott, Dean P. Phillips, Bin Fang, Rebekah S. Decker

Derivation of human trophoblast stem cells from placentas at birth

Victoria Karakis, John W. Britt, Mahe Jabeen, Adriana San Miguel, Balaji M Rao

Sox5 controls the establishment of quiescence in neural stem cells during postnatal development

Cristina Medina-Menéndez, Lingling Li, Paula Tirado-Melendro, Pilar Rodríguez-Martín, Elena Melgarejo-de la Peña, Mario Díaz-García, María Valdés-Bescós, Rafael López-Sansegundo, Aixa V. Morales

Highly regenerative species-specific genes improve age-associated features in the adult Drosophila midgut

Hiroki Nagai, Yuya Adachi, Tenki Nakasugi, Ema Takigawa, Junichiro Ui, Takashi Makino, Masayuki Miura, Yu-ichiro Nakajima

Generation of spermatogonia from pluripotent stem cells in humans and non-human primates

Eoin C. Whelan, Young Sun Hwang, Yasunari Seita, Ryo Yokomizo, N. Adrian Leu, Keren Cheng, Kotaro Sasaki

Genetic Inactivation of the β1 adrenergic receptor prevents Cerebral Cavernous Malformations in zebrafish

Wenqing Li, Sara McCurdy, Miguel A. Lopez-Ramirez, Ho-sup Lee

Patterning effects of FGF17 and cAMP on generation of dopaminergic progenitors for cell replacement therapy in Parkinson’s disease

Amalie Holm Nygaard, Alrik L. Schörling, Zehra Abay-Nørgaard, Erno Hänninen, Yuan Li, Adrian Santoja, Gaurav Singh Rathore, Alison Salvador, Charlotte Rusimbi, Yu Zhang, Agnete Kirkeby

Impaired yolk sac NAD metabolism disrupts murine embryogenesis with relevance to human birth defects

Kayleigh Bozon, Hartmut Cuny, Delicia Z. Sheng, Ella M. M. A. Martin, Paul Young, David T. Humphreys, Sally L. Dunwoodie

Stem cell culture conditions affect in vitro differentiation potential and efficiency of mouse gastruloid development

Marloes Blotenburg, Lianne Suurenbroek, Vivek Bhardwaj, Peter Zeller

Glial ferritin maintains neural stem cells via transporting iron required for self-renewal in Drosophila

Zhixin Ma, Wenshu Wang, Xiaojing Yang, Menglong Rui, Su Wang

Cell Competition Eliminates Aneuploid Human Pluripotent Stem Cells

Amanda Ya, Chenhui Deng, Kristina M. Godek

Mouse embryonic stem cells require sustained DNMT1-mediated DNA methylation maintenance for epigenomic, genomic and functional integrity

Elizabeth Elder, Anthony Lemieux, Lisa-Marie Legault, Maxime Caron, Virginie Bertrand-Lehouillier, Thomas Dupas, Noël Raynal, Guillaume Bourque, Daniel Sinnett, Nicolas Gévry, Serge McGraw

Cell-matrix force transmission regulates the loss of naïve pluripotency in mouse embryonic stem cells

Srivatsava Viswanadha, Manuel Gómez-González, Celine Labouesse, Valeria Venturini, Xavier Trepat, Kevin Chalut, Zanetta Kechagia, Pere Roca-Cusachs

Embryonic diversification of adult neural stem cells and ependymal cells

Shima Yamaguchi, Takaaki Kuniya, Hanae Omiya, Yutaka Suzuki, Masahide Seki, Hideki Ukai, Lingyan Fang, Yujin Harada, Daichi Kawaguchi, Yukiko Gotoh

Delivery of A Jagged1-PEG-MAL hydrogel with Pediatric Human Bone Cells Regenerates Critically-Sized Craniofacial Bone Defects

Archana Kamalakar, Brendan Tobin, Sundus Kaimari, M. Hope Robinson, Afra I. Toma, Timothy Cha, Samir Chihab, Irica Moriarity, Surabhi Gautam, Pallavi Bhattaram, Shelly Abramowicz, Hicham Drissi, Andrés J. García, Levi B. Wood, Steven L. Goudy

Transcriptomic analysis identifies injury-responsive fibroblast populations as potential mediators of Wnt-dependent spinal cord regeneration

Samuel R. Alper, Deeptha Vasudevan, Maya K. Wheeler, Samin Panahi, Richard I. Dorsky

Sex specific emergence of trisomic Dyrk1a-related skeletal phenotypes in the development of a Down syndrome mouse model

Jonathan M. LaCombe, Kourtney Sloan, Jared R. Thomas, Matthew P. Blackwell, Isabella Crawford, Joseph M. Wallace, Randall J. Roper

BMP signaling promotes heart regeneration via alleviation of replication stress

Mohan Dalvoy Vasudevarao, Denise Posadas Pena, Michaela Ihle, Chiara Bongiovanni, Pallab Maity, Simone Redaelli, Kathrin Happ, Dominik Geissler, Hossein Falah Mohammadi, Melanie Rall-Scharpf, Chi-Chung Wu, Arica Beisaw, Karin Scharffetter-Kochanek, Gabriele D’Uva, Lisa Wiesmüller, Gilbert Weidinger

Direct lineage conversion of postnatal mouse cortical astrocytes to oligodendrocyte lineage cells

Justine Bajohr, Erica Y. Scott, Arman Olfat, Mehrshad Sadria, Kevin Lee, Maria Fahim, Hiba T. Taha, Daniela Lozano Casasbuenas, Ann Derham, Scott A. Yuzwa, Gary D. Bader, Maryam Faiz

The pioneer transcription factor Zelda facilitates the exit from regeneration and restoration of patterning in Drosophila

Anish Bose, Keaton Schuster, Chandril Kodali, Surabhi Sonam, Rachel Smith-Bolton

Loss of the mitochondrial carrier, SLC25A1, during embryogenesis induces a unique senescence program controlled by p53

Anna Kasprzyk-Pawelec, Mingjun Tan, Raneen Rahhal, Alec McIntosh, Harvey Fernandez, Rami Mosaoa, Lei Jiang, Gray W. Pearson, Eric Glasgow, Jerry Vockley, Christopher Albanese, Maria Laura Avantaggiati

| Plant development

Transit amplifying cells balance growth and differentiation in above-ground meristems

Jessica Joossens, Denia Herwegh, Reinout Laureyns, Julie Pevernagie, Tom Van Hautegem, Lotte Pollaris, Samik Bhattacharya, Christian Korfhage, Thomas Depuydt, Kirin Demuynck, Klaas Vandepoele, Yvan Saeys, Clinton Whipple, Josh Strable, Hilde Nelissen

Dual role of BdMUTE during stomatal development in the model grass Brachypodium distachyon

Roxane P. Spiegelhalder, Lea S. Berg, Tiago D. G. Nunes, Melanie Dörr, Barbara Jesenofsky, Heike Lindner, Michael T. Raissig

The major nucleoid-associated protein WHIRLY1 promotes chloroplast development in barley

Karin Krupinska, Jürgen Eirich, Urska Repnik, Christine Desel, Monireh Saeid Nia, Anke Schäfer, Ulrike Voigt, Bationa Bennewitz, Wolfgang Bilger, Iris Finkemeier, Götz Hensel

A regulatory gene network that couples floral transition to shoot apical meristem morphology in Arabidopsis

Enric Bertran Garcia de Olalla, Gabriel Rodriguez-Maroto, Martina Cerise, Alice Vayssieres, Edouard Severing, Yaiza Lopez-Sampere, Kang Wang, Sabine Schaefer, Pau Formosa-Jordan, George Coupland

Brassinosteroids function as the plant male and female reproductive hormone coordinating gene expression.

Kumi Matsuura-Tokita, Takamasa Suzuki, Yusuke Kimata, Yumiko Takebayashi, Minako Ueda, Takeshi Nakano, Hitoshi Sakakibara, Akihiko Nakano, Tetsuya Higashiyama

Unequal genetic redundancies among MYC bHLH transcription factors underlie seedling photomorphogenesis in Arabidopsis

Vikas Garhwal, Sreya Das, Sreeramaiah N Gangappa

Hypocotyl Development in Arabidopsis and other Brassicaceae Displays Evidence of Photoperiodic Memory

James Ronald, Sarah C.L. Lock, Will Claydon, Zihao Zhu, Kayla McCarthy, Elizabeth Pendlington, Ethan J. Redmond, Gina Y.W. Vong, Sanoj P. Stanislas, Seth J. Davis, Marcel Quint, Daphne Ezer

Mechanism of nucleus-chloroplast communication by alternative promoter usage and stromules to establish photomorphogenesis in Arabidopsis

Jae-Hyung Lee, Thu Minh Doan, Sandhya Senthilkumar, Chan Yul Yoo

Arabidopsis ABCC4 encodes a cytokinin efflux transporter and is involved in root system development

Takuya Uragami, Takatoshi Kiba, Mikiko Kojima, Yumiko Takebayashi, Yuzuru Tozawa, Yuki Hayashi, Toshinori Kinoshita, Hitoshi Sakakibara

Beyond the phloem: A general role of the Arabidopsis OCTOPUS gene family in controlling plant growth vigour

Simona Crivelli, Kai Bartusch, M. Aguila Ruiz-Sola, Mario Coiro, Signe Schmidt Kjølner Hansen, Elisabeth Truernit

The exogenous application of the apocarotenoid retinaldehyde negatively regulates auxin-mediated root growth

Kang Xu, Haoran Zeng, Feiyang Lin, Emi Yumoto, Masashi Asahina, Ken-ichiro Hayashi, Hidehiro Fukaki, Hisashi Ito, Masaaki K. Watahiki

Mechanical forces instruct division plane orientation of cambium stem cells during radial growth in Arabidopsis thaliana

Mathias Höfler, Xiaomin Liu, Thomas Greb, Karen Alim

MDF regulates both auxin-dependent and -independent pathways of adventitious root regeneration in Arabidopsis

Fahad Aldowigh, Rodrigo Matus, Haozhan Gao, Julien Agneessens, Jennifer Topping, Keith Lindsey

CLAVATA signalling shapes barley inflorescence architecture by controlling activity and determinacy of shoot apical and rachilla meristems

Isaia Vardanega, Jan Eric Maika, Edgar Demesa-Arevalo, Tianyu Lan, Gwendolyn K. Kirschner, Jafargholi Imani, Ivan F. Acosta, Katarzyna Makowska, Götz Hensel, Thilanka Ranaweera, Shin-Han Shiu, Thorsten Schnurbusch, Maria von Korff Schmising, Rüdiger Simon

Retinoblastoma-related (RBR) has both canonical and non-canonical regulatory functions during thermo-morphogenic responses in Arabidopsis seedlings

Rasik Shiekh Bin Hamid, Fruzsina Nagy, Nikolett Kaszler, Ildikó Domonkos, Magdolna Gombos, Eszter Molnár, Aladár Pettkó-Szandtner, László Bögre, Attila Fehér, Zoltán Magyar

| Evo-devo

Single-cell transcriptomics reveals evolutionary reconfiguration of embryonic cell fate specification in the sea urchin Heliocidaris erythrogramma

Abdull J. Massri, Alejandro Berrio, Anton Afanassiev, Laura Greenstreet, Krista Pipho, Maria Byrne, Geoffrey Schiebinger, David R. McClay, Gregory A. Wray

Contrasting the development of larval and adult body plans during the evolution of biphasic lifecycles in sea urchins

Brennan D. McDonald, Abdull J. Massri, Alejandro Berrio Escobar, Maria Byrne, David R. McClay, Gregory A. Wray

Comparative single cell analysis reveals complex patterns of cell type and cell signaling innovations at the fetal-maternal interface

Daniel J. Stadtmauer, Silvia Basanta, Jamie D. Maziarz, Alison G. Cole, Gülay Dagdas, Gilbecca Rae Smith, Frank van Breukelen, Mihaela Pavličev, Günter P. Wagner

The embryo-derived protein PDI is highly conserved among placental mammals and alters the function of the endometrium in species with different implantation strategies

Haidee Tinning, Alysha Taylor, Dapeng Wang, Anna Pullinger, Georgios Oikonomou, Miguel A. Velazquez, Paul Thompson, Achim Treumann, Peter T. Ruane, Mary J O’Connell, Niamh Forde

Differences in size and number of embryonic type-II neuroblast lineages are associated with divergent timing of central complex development between beetle and fly

Simon Rethemeier, Sonja Fritzsche, Dominik Mühlen, Gregor Bucher, Vera S. Hunnekuhl

Evidence of neocortex-like primitive laminar pallium in avian embryo and its organization by microRNA-19b

Archita Mishra, Niveda Udaykumar, Suvimal Kumar Sindhu, Jonaki Sen

Evolution of the sex-determination gene Doublesex within the termite lineage

Kokuto Fujiwara, Satoshi Miyazaki, Kiyoto Maekawa

Convergent evolution associated with the loss of developmental diapause may promote extended lifespan in bees

Priscila K. F. Santos, Karen M. Kapheim

Sperm competition favours intermediate sperm size in a hermaphrodite

Santhosh Santhosh, Dieter Ebert, Tim Janicke

The role of heterochronic gene expression and regulatory architecture in early developmental divergence

Nathan D. Harry, Christina Zakas

Combinatorial Wnt signaling determines wing margin color patterns of the swallowtail butterfly ground plan

Anyi Mazo-Vargas, Alan Liang, Brian Liang, Jeanne M.C. McDonald, Arnaud Martin, Robert D. Reed

A red algal polysaccharide influences the multicellular development of the choanoflagellate Salpingoeca rosetta

Olivia Perotti, Gabriel Viramontes Esparza, David S. Booth

Total-evidence phylogenetic analysis resolves the evolutionary timescale of mantis shrimps (Stomatopoda) and provides insights into their molecular and morphological evolutionary ratesv

Cara Van Der Wal, Shane T. Ahyong, Maxim W.D. Adams, Nathan Lo, Simon Y.W. Ho

A novel expression domain of extradenticle underlies the evolutionary developmental origin of the chelicerate patella

Benjamin C. Klementz, Georg Brenneis, Isaac A. Hinne, Ethan M. Laumer, Sophie M. Neu, Grace M. Hareid, Guilherme Gainett, Emily V.W. Setton, Catalina Simian, David E. Vrech, Isabella Joyce, Austen A. Barnett, Nipam H. Patel, Mark S. Harvey, Alfredo V. Peretti, Monika Gulia-Nuss, Prashant P. Sharma

The intracellular symbiont Wolbachia alters Drosophila development and metabolism to buffer against nutritional stress

Amelia RI Lindsey, Jason M Tennessen, Michael A Gelaw, Megan W Jones, Audrey J Parish, Irene LG Newton, Travis Nemkov, Angelo D’Alessandro, Madhulika Rai, Nicole Stark

Early development of the mineralized external skeleton of the polyplacophoran mollusk, with insight into the evolutionary history of shell plates and spicules

Hiroki Yoshikawa, Yoshiaki Morino, Hiroshi Wada

A Sex specific homologue of snake Waprin is essential for Embryonic Development in the Red Flour Beetle, Tribolium castaneum

Chhavi Choudhary, Divyanshu Kishore, Keshav Kumar Meghwanshi, Vivek Verma, Jayendra Nath Shukla

Cell Biology

An actomyosin network organizes niche morphology and responds to feedback from recruited stem cells

Bailey N. Warder, Kara A. Nelson, Justin Sui, Lauren Anllo, Stephen DiNardo

The Rac1 homolog CED-10 is a component of the MES-1/SRC-1 pathway for asymmetric division of the C. elegans EMS blastomere

Helen Lamb, Małgorzata Liro, Krista Myles, McKenzi Fernholz, Holly Anderson, Lesilee S. Rose

Plasmodium NEK1 coordinates MTOC organisation and kinetochore attachment during rapid mitosis in male gamete formation

Mohammad Zeeshan, Ravish Rashpa, David J. Ferguson, George Mckeown, Raushan Nugmanova, Amit K. Subudhi, Raphael Beyeler, Sarah L. Pashley, Robert Markus, Declan Brady, Magali Roques, Andrew R. Bottrill, Andrew M. Fry, Arnab Pain, Sue Vaughan, Anthony A. Holder, Eelco C. Tromer, Mathieu Brochet, Rita Tewari

Endothelial deletion of p53 generates transitional endothelial cells and improves lung development during neonatal hyperoxia

Lisandra Vila Ellis, Jonathan D Bywaters, Jichao Chen

Elevated temperature fatally disrupts nuclear divisions in the early Drosophila embryov

Girish Kale, Pratika Agarwal, J Jaime Diaz-Larrosa, Steffen Lemke

Temporal and anteriorly positioned mitotic zones drive asymmetric microtubule patterns needed for Left-Right Organizer development

Yan Wu, Yiling Lan, Favour Ononiwu, Abigail Poole, Kirsten Rasmussen, Jonah Da Silva, Abdalla Wael Shamil, Li-En Jao, Heidi Hehnly

Haploidy-linked cell proliferation defects limit larval growth in Zebrafish

Kan Yaguchi, Daiki Saito, Triveni Menon, Akira Matsura, Miyu Hosono, Takeomi Mizutani, Tomoya Kotani, Sreelaja Nair, Ryota Uehara

IP3R1 is required for meiotic progression and embryonic development by regulating mitochondrial calcium and oxidative damage

Chang Zhang, Xiaoqing Sun, Deyi Wu, Guoxia Wang, Hainan Lan, Xin Zheng, Suo Li

Epidermal cell fusion promotes the transition from an embryonic to a larval transcriptome in C. elegans

Owen H. Funk, Daniel L. Levy, David S. Fay

Differential behavior of pericytes and adipose stromal cells in vasculogenesis and angiogenesis

Julian Gonzalez-Rubio, Hiltrud Königs-Werner, Christian G. Cornelissen, Anja Lena Thiebes

Endosomal-lysosomal organellar assembly (ELYSA) structures coordinate lysosomal degradation systems through mammalian oocyte-to-embryo transition

Yuhkoh Satouh, Takaki Tatebe, Isei Tanida, Junji Yamaguchi, Yasuo Uchiyama, Ken Sato

Modelling

Growth regulation bringing modularity to morphogenesis of complex three-dimensional exoskeletons

Hiroshi C. Ito, Yu Uchiumi

How a reaction-diffusion signal can control spinal cord regeneration in axolotls: A modelling study

Valeria Caliaro, Diane Peurichard, Osvaldo Chara

An adaptive numerical method for multi–cellular simulations of tissue development

James M. Osborne

Life history shapes variation in egg composition in the blue tit Cyanistes caeruleus

Cristina-Maria Valcu, Richard A. Scheltema, Ralf M. Schweiggert, Mihai Valcu, Kim Teltscher, Dirk M. Walther, Reinhold Carle, Bart Kempenaers

Stochastic dynamics of two-compartment models with regulatory mechanisms for hematopoiesis

Ren-Yi Wang, Marek Kimmel, Guodong Pang

Waves, patterns and bifurcations: a tutorial review on the vertebrate segmentation clock

Paul François, Victoria Mochulska

Tools & Resources

Engineering fluorescent reporters in human pluripotent cells and strategies for live imaging human neurogenesis

Alwyn Dady, Lindsay Davidson, Nicolas Loyer, Timothy Sanders, Jens Januschke, Kate G. Storey

Single-cell RNA sequencing of mutant whole mouse embryos: from the epiblast to the end of gastrulation

Elizabeth Abraham, Mikel Zubillaga, Thomas Roule, Eleonora Stronati, Naiara Akizu, Conchi Estaras

Unraveling the proteome landscape of mouse hematopoietic stem and progenitor compartment with high sensitivity low-input proteomics

Nil Üresin, Valdemaras Petrosius, Pedro Aragon-Fernandez, Benjamin Furtwängler, Erwin M. Schoof, Bo T. Porse

Reconstruction of artificial nuclei with nuclear import activity in living mouse oocytes

Nao Yonezawa, Tomoko Shindo, Haruka Oda, Hiroshi Kimura, Yasushi Hiraoka, Tokuko Haraguchi, Kazuo Yamagata

Topological data analysis of pattern formation of human induced pluripotent stem cell colonies

Iryna Hartsock, Eunbi Park, Jack Toppen, Peter Bubenik, Elena S. Dimitrova, Melissa L. Kemp, Daniel A. Cruz

Noninvasive time-lapse 3D subcellular analysis of embryo development for machine learning-enabled prediction of blastocyst formation

Chungha Lee, Geon Kim, Taeseop Shin, Sangho Lee, Jae Young Kim, Kyoung Hee Choi, Jieun Do, Jaehyeong Park, Jaephil Do, Ji Hyang Kim, YongKeun Park

Engineering an fgfr4 knockout zebrafish to study its role in development and disease

Emma N. Harrison, Amanda N. Jay, Matthew R. Kent, Talia P. Sukienik, Collette A. LaVigne, Genevieve C. Kendall

Deep learning-based reconstruction of embryonic cell-division cycle from label-free microscopy time-series of evolutionarily diverse nematodes

Dhruv Khatri, Chaitanya A Athale

Embryo spatial 3D genomics

Yuang Ma, Bo Gou, Yuetong Xu, Muya Shu, Falong Lu, Xiang Li

Barcoding Notch signaling in the developing brain

Abigail Siniscalco, Roshan Priyarangana Perera, Jessie E Greenslade, Aiden Masters, Hannah M Doll, Bushra Raj

T-ChIC: multi-omic detection of histone modifications and full-length transcriptomes in the same single cell

Peter Zeller, Marloes Blotenburg, Vivek Bhardwaj, Buys Anton de Barbanson, Fredrik Salmen, Alexander van Oudenaarden

OoCount: A Machine-Learning Based Approach to Mouse Ovarian Follicle Counting and Classification

Lillian Folts, Anthony S. Martinez, Corey Bunce, Blanche Capel, Jennifer McKey

An in vivo CRISPR screen in chick embryos reveals a role for MLLT3 in specification of neural cells from the caudal epiblast

Ashley RG Libby, Tiago Rito, Arthur Radley, James Briscoe

Analysis of developmental gene expression using smFISH and in silico staging of C. elegans embryos

Laura Breimann, Ella Bahry, Marwan Zouinkhi, Klim Kolyvanov, Lena Annika Street, Stephan Preibisch, Sevinç Ercan

Deep-Tissue Spatial Omics: Imaging Whole-Embryo Transcriptomics and Subcellular Structures at High Spatial Resolution

Valentina Gandin, Jun Kim, Liang-Zhong Yang, Yumin Lian, Takashi Kawase, Amy Hu, Konrad Rokicki, Greg Fleishman, Paul Tillberg, Alejandro Aguilera Castrejon, Carsen Stringer, Stephan Preibisch, Zhe J. Liu

Deep learning pipeline reveals key moments in human embryonic development predictive of live birth in IVF

Camilla Mapstone, Helen Hunter, Daniel Brison, Julia Handl, Berenika Plusa

Mesendodermal cells fail to contribute to heart formation following blastocyst injection

Biyi Li, Chulan Kwon

Enhanced endogenous gene tagging in human induced pluripotent stem cells via AAV6-mediated donor delivery

Erik A. Ehlers, Kyle N. Klein, Margaret A. Fuqua, Julia R. Torvi, Javier Chávez, Lauren M. Kuo, Jacob McCarley, Jacqueline E. Smith, Gaea Turman, Danielle Yi, Ruwanthi N. Gunawardane, Brock Roberts

Marsupial single-cell transcriptomics provides an atlas of developmental heterochrony

Sergio Menchero, Christopher Barrington, Gregorio Alanis-Lobato, Wazeer Varsally, Kathy K. Niakan, James M. A. Turner

Multiplexed single cell transcriptomics optimizes mesodermal patterning and hemogenic endothelial output from murine embryonic stem cells

Barbara Varnum-Finney, Adam M. Heck, Sanjay R. Srivatsan, Stacey Dozono, Rachel Wellington, Cynthia Nourigat-McKay, Tessa Dignum, Cole Trapnell, Brandon Hadland

Spatiotemporal profiling of neural crest cells in the common wall lizard Podarcis muralis

Robin Pranter, Nathalie Feiner

Spatiotemporally resolved transcriptome atlas of developing mouse placenta reveals mechanisms of embryonic lethality

Yuting Fu, Xiaoqi Zeng, Yifang Liu, Shikai Jia, Yujia Jiang, Jia Ping Tan, Yue Yuan, Tianchang Xia, Yun Mei, Shan Wen, Xiaojing Liu, Yue You, Weike Pei, Chengshuo Yang, Sida Shao, Saifeng Cheng, Luyi Tian, Longqi Liu, Xiaoyu Wei, Xiaodong Liu

Research practice & education

PROPEL: a scalable model for postbaccalaureate training to promote diversity in the biomedical workforce

Jessica Allen, Ekland Abdiwahab, Meghan D. Morris, Claude Jourdan Le Saux, Paola Betancur, K. Mark Ansel, Ryan D. Hernandez, Todd G. Nystul

Building Brains for Robots: A Hands-On Approach to Learning Neuroscience in the Classroom

Raha Kannan, Maribel Gendreau, Alex Hatch, Sydney K. Free, Kithinji Muriungi, Yash A. Garje, Jennifer DeBoer, Gregory J. Gage, Christopher A. Harris

“The best home for this paper”: A qualitative study of how authors select where to submit manuscripts

Lauren A. Maggio, Natascha Chtena, Juan Pablo Alperin, Laura Moorhead, John M. Willinsky

Enabling preprint discovery, evaluation, and analysis with Europe PMC

Mariia Levchenko, Michael Parkin, Johanna McEntyre, Melissa Harrison

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