Welcome to our monthly collection of preprints on developmental and stem cell biology (and related fields). The list includes a number of more unusual model organisms including squirrels, hippos, the crustacean Parhyale hawaiensis, deer mice, sticklebacks, mouse lemurs and Agaricomycetes

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

Cell Biology

Modelling

Reviews

Tools & Resources

Research practice & education

Developmental biology

| Patterning & signalling

midline represses Dpp signaling and target gene expression in Drosophila ventral leg development
Lindsay A. Phillips, Markle L. Atienza, Jae-Ryeon Ryu, Pia C. Svendsen, Lynn K. Kelemen, William J. Brook

Lrig1 and Wnt dependent niches dictate segregation of resident immune cells and melanocytes in murine tail epidermis
Susanne C. Baess, Annika Graband, Kristin Seré, Martin Zenke, Catherin Niemann, Sandra Iden

Glycolytic flux-signaling controls mouse embryo mesoderm development
Hidenobu Miyazawa, Marteinn T. Snaebjornsson, Nicole Prior, Eleni Kafkia, Henrik M. Hammarén, Nobuko Tsuchida-Straeten, Kiran R. Patil, Martin Beck, Alexander Aulehla

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

Different temporal requirements for the LRR transmembrane receptors Tartan and Toll-2 in the formation of contractile interfaces at compartmental boundaries
Thomas E. Sharrock, Guy B. Blanchard, Jenny Evans, Bénédicte Sanson

Differential regulation of SHH signaling and the developmental control of species-specific jaw size through neural crest-mediated Gas1 expression
Zuzana Vavrušová, Daniel B. Chu, An Nguyen, Jennifer L. Fish, Richard A. Schneider

A self-generated Toddler gradient guides mesodermal cell migration
Jessica Stock, Tomas Kazmar, Friederike Schlumm, Edouard Hannezo, Andrea Pauli

Revisiting the Role of Notch in Nephron Segmentation: Notch is Required for Proximal, Not Distal Fate Selection During Mouse and Human Nephrogenesis
Kathryn Duvall, Lauren Bice, Alison J. Perl, Naomi Pode Shakked, Praneet Chaturvedi, Raphael Kopan

Prdm16 and Notch functionally and physically interact during artery development
Manu Beerens, Jore Van Wauwe, Sander Craps, Margo Daems, KC Ashmita, Chris Finck, Shane Wright, Nicholas D. Leigh, Calum A. MacRae, Aernout Luttun

Plexins Promote Hedgehog Signaling Through Their Cytoplasmic GAP Activity
Justine M. Pinskey, Tyler M. Hoard, Xiao-Feng Zhao, Nicole E. Franks, Zoë C. Frank, Alexandra N. McMellen, Roman J. Giger, Benjamin L. Allen

Differentiation signals from glia are fine-tuned to set neuronal numbers during development
Anadika R. Prasad, Matthew P. Bostock, Inês Lago-Baldaia, Zaynab Housseini, Vilaiwan M. Fernandes

Target of Rapamycin drives unequal responses to essential amino acid depletion in egg laying
André N. Alves, Carla M. Sgrò, Matthew D. Piper, Christen K. Mirth

Cavefish cope with environmental hypoxia by developing more erythrocytes and overexpression of hypoxia inducible genes
Corine M. van der Weele, William R. Jeffery

Direct and latent effects of ocean acidification on the transition of a sea urchin from planktonic larva to benthic juvenile
Narimane Dorey, Emanuela Butera, Nadjejda Espinel-Velasco, Sam Dupont

Distribution map of peristaltic waves in the chicken embryonic gut reveals importance of ENS and inter-region cross talks along the gut axis
Yuuki Shikaya, Yuta Takase, Ryosuke Tadokoro, Ryo Nakamura, Masafumi Inaba, Yoshiko Takahashi

Altricial bird early-stage embryos express the molecular ‘machinery’ to respond to maternal thyroid hormone cues
Suvi Ruuskanen, Mikaela Hukkanen, Natacha Garcin, Nina Cossin-Sevrin, Bin-Yan Hsu, Antoine Stier

A Notch-dependent transcriptional mechanism controls expression of temporal patterning factors in Drosophila medulla
Alokananda Ray, Xin Li

Neighbor-specific gene expression revealed from physically interacting cells during mouse embryonic development
Junil Kim, Michaela Mrugala Rothová, Linbu Liao, Siyeon Rhee, Guangzheng Weng, Eyal David, Ido Amit, Morteza Chalabi Hajkarim, Joshua M. Brickman, Kyoung Jae Won

From the formation of embryonic appendages to the color of wings: Conserved and novel roles of aristaless1 in butterfly development
Erick X. Bayala, Nicholas VanKuren, Darli Massardo, Marcus Kronforst

Coupling adipose tissue architecture and metabolism via cytoophidia
Jingnan Liu, Yuanbing Zhang, Youfang Zhou, Qiao-Qi Wang, Kang Ding, Suwen Zhao, Pengfei Lu, Ji-Long Liu

ESR2 regulates indian hedgehog signaling in neonatal rat ovary
Iman Dilower, V. Praveen Chakravarthi, Eun B. Lee, Subhra Ghosh, Shaon Borosha, Richita Roy, Saeed Masumi, Anohita Paul, Hindole Ghosh, Michael W. Wolfe, M. A. Karim Rumi

Reemployment of Kupffer’s vesicle cells into axial and paraxial mesoderm via transdifferentiation
Takafumi Ikeda, Kiichi Inamori, Toru Kawanishi, Hiroyuki Takeda

Retinoid-X Receptor Agonists Increase Thyroid Hormone Competence in Lower Jaw Remodeling of Pre-Metamorphic Xenopus laevis tadpoles
Brenda J. Mengeling, Lara F. Vetter, J. David Furlow

pop-1/TCF, ref-2/ZIC and T-box factors regulate the development of anterior cells in the C. elegans embryo
Jonathan D. Rumley, Elicia A. Preston, Dylan Cook, Felicia L. Peng, Amanda L. Zacharias, Lucy Wu, Ilona Jileaeva, John Isaac Murray

Tissue-wide coordination of calcium signaling regulates the epithelial stem cell pool during homeostasis
Jessica L Moore, Feng Gao, Catherine Matte-Martone, Shuangshuang Du, Elizabeth Lathrop, Smirthy Ganesan, Lin Shao, Dhananjay Bhaskar, Andy Cox, Caroline Hendry, Bastian Rieck, Smita Krishnaswamy, Valentina Greco

A NEUROGENIC GENE EXPRESSION SIGNATURE SUPPORTS HUMAN THERMOGENIC ADIPOSE TISSUE DEVELOPMENT IN VIVO.
Javier Solivan-Rivera, Zinger Yang Loureiro, Tiffany DeSouza, Anand Desai, Qin Yang, Raziel Rojas-Rodriguez, Pantos Skritakis, Shannon Joyce, Denise Zhong, Tammy Nguyen, Silvia Corvera

A single cell transcriptional roadmap for human pacemaker cell differentiation
Alexandra Wiesinger, Jiuru Li, Lianne J Fokkert, Priscilla Bakker, Arie O Verkerk, Vincent M Christoffels, Gerard J.J. Boink, Harsha D. Devalla

| Morphogenesis & mechanics

Alveoli form directly by budding led by a single epithelial cell
Astrid Gillich, Krystal R. St. Julien, Douglas G. Brownfield, Kyle J. Travaglini, Ross J. Metzger, Mark A. Krasnow

Restricted proliferation during neurogenesis contributes to regionalization of the amphioxus nervous system
Giacomo Gattoni, Toby GR Andrews, Elia Benito-Gutiérrez

Coagulation Factor IIIa (f3a) Knockdown in Zebrafish Leads to Defective Angiogenesis and Mild Bleeding Phenotype
Saravanan Subramaniam, Jiandong Liu, Craig Fletcher, Ramani Ramchandran, Hartmut Weiler

Hemicentin mediated type IV collagen assembly strengthens juxtaposed basement membrane linkage
Claire A. Gianakas, Daniel P. Keeley, William Ramos-Lewis, Kieop Park, Ranjay Jayadev, Qiuyi Chi, David R. Sherwood

A combined transcriptional and dynamic roadmap of single human pancreatic endocrine progenitors reveals proliferative capacity and differentiation continuum
Belin Selcen Beydag-Tasöz, Joyson Verner D’Costa, Lena Hersemann, Federica Luppino, Yung Hae Kim, Christoph Zechner, Anne Grapin-Botton

Cell polarity determinant Dlg1 facilitates epithelial invagination by promoting tissue-scale mechanical coordination
Melisa A. Fuentes, Bing He

Embryo-scale epithelial buckling forms a propagating furrow that initiates gastrulation
Julien Fierling, Alphy John, Barthélémy Delorme, Alexandre Torzynski, Guy Blanchard, Claire Lye, Grégoire Malandain, Bénédicte Sanson, Jocelyn Étienne, Philippe Marmottant, Catherine Quilliet, Matteo Rauzi

LRRFIP2 modulates the response to hypoxia during embryonic cardiogenesis
Laura Ben Driss, Christophe Houbron, Florian Britto, Alain Schmitt, Morgane Le Gall, Philippe Daubas, Pascal Maire

Tissue-specific inhibition of protein sumoylation uncovers diverse SUMO functions during C. elegans vulval development
Aleksandra Fergin, Gabriel Boesch, Nadja R. Greter, Simon Berger, Alex Hajnal

Patterned mechanical feedback establishes a global myosin gradient
Hannah J. Gustafson, Nikolas Claussen, Stefano De Renzis, Sebastian J. Streichan

Local mechanical stimuli shape tissue growth in vertebrate joint morphogenesis
Ester Comellas, Johanna E Farkas, Giona Kleinberg, Katlyn Lloyd, Thomas Mueller, Timothy J Duerr, Jose J Muñoz, James R Monaghan, Sandra J Shefelbine

Cell-state transitions and collective cell movement generate an endoderm-like region in gastruloids
Ali Hashmi, Sham Tlili, Pierre Perrin, Alfonso Martinez-Arias, Pierre-François Lenne

An interplay between cellular growth and atypical fusion defines morphogenesis of a modular glial niche
Maria Alexandra Rujano, David Briand, Bojana Ðelić, Pauline Spéder

The microRNA miR-132 is a key regulator of lymphatic vascular remodelling
Valeria Arcucci, Musarat Ishaq, Sally Roufail, B. Kate Dredge, Andrew G. Bert, Emily Hackett-Jones, Ruofei Liu, Katherine A. Pillman, Stephen B. Fox, Steven A. Stacker, Gregory J. Goodall, Marc G. Achen

The developing kidney actively negotiates geometric packing conflicts to avoid defects
Louis S. Prahl, John M. Viola, Jiageng Liu, Alex J. Hughes

Nuclear lamins promote protrusion dynamics and collective, confined migration in vivo
Lauren Penfield, Denise J. Montell

Slit-Robo Signalling Establishes a Sphingosine-1-Phosphate Gradient to Polarise Fin Mesenchyme and Establish Fin Morphology
Harsha Mahabaleshwar, P.V. Asharani, Tricia Loo Yi Jun, Shze Yung Koh, Melissa R. Pitman, Samuel Kwok, Jiajia Ma, Bo Hu, Fang Lin, Xue Li Lok, Stuart M. Pitson, Timothy E. Saunders, Tom J. Carney

A transient apical extracellular matrix relays cytoskeletal patterns to shape permanent acellular ridges on the surface of adult C. elegans
Sophie S. Katz, Trevor J. Barker, Hannah M. Maul-Newby, Alessandro P. Sparacio, Ken C.Q. Nguyen, Chloe L. Maybrun, Alexandra Belfi, Jennifer D. Cohen, David H. Hall, Meera V Sundaram, Alison R. Frand

Epistatic genetic interactions govern morphogenesis during sexual reproduction and infection in a global human fungal pathogen
Sheng Sun, Cullen Roth, Anna F. Averette, Paul M. Magwene, Joseph Heitman

α-catenin links integrin adhesions to F-actin to regulate ECM mechanosensing and rigidity-dependence
Abhishek Mukherjee, Shay Melamed, Hana Damouny-Khoury, Malak Amer, Lea Feld, Elisabeth Nadjer-Boger, Michael Patrick Sheetz, Haguy Wolfenson

| Genes & genomes

Single amino-acid mutation in a Drosophila melanogaster ribosomal protein: an insight in uL11 transcriptional activity
Heloise Grunchec, Jerome Deraze, Delphine Dardalhon-Cumenal, Valerie Ribeiro, Anne Coleno-Costes, Karine Dias, Sebastien Bloyer, Emmanuele Mouchel-Vielh, Frederique Peronnet, Helene Thomassin

eIF4A2 targets developmental potency and histone H3.3 transcripts for translational control of stem cell pluripotency
Dan Li, Jihong Yang, Xin Huang, Hongwei Zhou, Jianlong Wang

The transcription factor Zic4 acts as a transdifferentiation switch
Matthias Christian Vogg, Jaroslav Ferenc, Wanda Christa Buzgariu, Chrystelle Perruchoud, Panagiotis Papasaikas, Paul Gerald Layague Sanchez, Clara Nuninger, Céline Delucinge-Vivier, Christine Rampon, Leonardo Beccari, Sophie Vriz, Stéphane Vincent, Brigitte Galliot, Charisios D. Tsiairis

Non-random sister chromatid segregation mediates rDNA copy number maintenance in Drosophila
George J. Watase, Yukiko M. Yamashita

GLP is critical for oogenesis exhibiting a G9A-independent role in transcriptional repression
Hannah Demond, Courtney W Hanna, Juan Castillo-Fernandez, Fátima Santos, Evangelia K Papachristou, Anne Segonds-Pichon, Kamal Kishore, Clive S D’Santos, Gavin Kelsey

Platr4 is an ESC-specific lncRNA that exhibits its function downstream on meso/endoderm lineage commitment
Rasmani Hazra, Lily Brine, Libia Garcia, Brian Benz, Napon Chirathivat, Michael M. Shen, John Erby Wilkinson, Scott K. Lyons, David L. Spector

The dual role of N6-methyladenosine on mouse maternal RNAs and 2-cell specific RNAs revealed by ULI-MeRIP sequencing
You Wu, Xiaocui Xu, Meijie Qi, Chuan Chen, Mengying Li, Rushuang Yan, Xiaochen Kou, Yanhong Zhao, Wenqiang Liu, Yanhe Li, Xuelian Liu, Meiling Zhang, Chengqi Yi, Hong Wang, Bin Shen, Yawei Gao, Shaorong Gao

Linker histone H1FOO is required for bovine preimplantation development by regulating lineage specification and nucleosome assembly
Shuang Li, Yan Shi, Yanna Dang, Bingjie Hu, Lieying Xiao, Panpan Zhao, Shaohua Wang, Kun Zhang

Ocean-Warming During Embryogenesis Programs a Lasting Transcriptomic Signature in Fishes
Daniel M. Ripley, Terence Garner, Samantha A. Hook, Ana Veríssimo, Bianka Grunow, Timo Moritz, Peter Clayton, Holly A. Shiels, Adam Stevens

Intron dynamics reveal principles of gene regulation during the maternal-to-zygotic transition
Kent Riemondy, Jesslyn C. Henriksen, Olivia S. Rissland

Histone demethylome map reveals combinatorial gene regulatory functions in embryonic stem cells
Pratibha Tripathi, Pushkar Dakle, Majid Mehravar, Varun K. Pandey, Michael J. Bullen, Zhongming Zhang, Dhaval Hathiwala, Marc Kerenyi, Andrew Woo, Alireza Ghamari, Alan B. Cantor, Lee H. Wong, Jonghwan Kim, Kimberly Glass, Guo-Cheng Yuan, Luca Pinello, Stuart H. Orkin, Partha Pratim Das

Tissue- and ethnicity-independent hypervariable DNA methylation states show evidence of establishment in the early human embryo
Maria Derakhshan, Noah J. Kessler, Miho Ishida, Charalambos Demetriou, Nicolas Brucato, Gudrun E. Moore, Caroline H.D. Fall, Giriraj R. Chandak, Francois-Xavier Ricaut, Andrew M. Prentice, Garrett Hellenthal, Matt J. Silver

Chromatin state transition underlies the temporal changes in gene expression during cardiomyocyte maturation
Chia-Yeh Lin, Yao-Ming Chang, Hsin-Yi Tseng, Yen-Ling Shih, Hsiao-Hui Yeh, Po-Li Chen, Chien-Chang Chen, Yu-Ting Yan, Cheng-Fu Kao

| Stem cells, regeneration & disease modelling

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

Robust differentiation of human enteroendocrine cells from intestinal stem cells
Daniel Zeve, Eric Stas, Joshua de Sousa Casal, Prabhath Mannam, Wanshu Qi, Xiaolei Yin, Sarah Dubois, Manasvi S. Shah, Erin P. Syverson, Sophie Hafner, Jeffrey M. Karp, Diana L. Carlone, Jose Ordovas-Montanes, David T. Breault

Single cell RNA-seq identifies developing corneal cell fates in the human cornea organoid
George Maiti, Maithe Rocha Monteiro de Barros, Nan Hu, Mona Roshan, Karl J Wahlin, Shukti Chakravarti

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

Impact of carbon monoxide on early cardiac development in an avian model
Filipa Rombo Matias, Ian Groves, Mari Herigstad

Induced reprogramming of adult murine cardiomyocytes to pluripotency in vivo
Irene de Lázaro, Tiara L Orejón-Sánchez, Christina M Tringides, David J Mooney

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

FUCCI-based live imaging platform reveals cell cycle dynamics and identifies pro-proliferative compounds in human iPSC-derived cardiomyocytes
Francesca Murganti, Wouter Derks, Marion Baniol, Irina Simonova, Katrin Neumann, Shahryar Khattak, Kaomei Guan, Olaf Bergmann

Human embryos arrest in a quiescent-like state characterized by metabolic and zygotic genome activation problems
Yang Yang, Liyang Shi, Xiuling Fu, Gang Ma, Zhongzhou Yang, Yuhao Li, Yibin Zhou, Lihua Yuan, Ye Xia, Xiufang Zhong, Ping Yin, Li Sun, Zhang Wuwen, Isaac A. Babarinde, Yongjun Wang, Xiaoyang Zhao, Andrew P. Hutchins, Guoqing Tong

RNAi screen of RING/U-box domain ubiquitin ligases identifies critical regulators of tissue regeneration in planarians
John M. Allen, Madison Balagtas, Elizabeth Barajas, Carolina Cano Macip, Sarai Alvarez Zepeda, Ionit Iberkleid, Elizabeth M. Duncan, Ricardo M. Zayas

Kismet/CHD7/CHD8 affects gut biomechanics, the gut microbiome, and gut-brain axis in Drosophila melanogaster
Angelo Niosi, Nguyên Henry Võ, Punithavathi Sundar, Chloe Welch, Aliyah Penn, Yelena Yuldasheva, Adam Alfareh, Kaitlin Rausch, Takhmina Rukhsar, Jeffery Cavanaugh, Prince Yadav, Stephanie Peterson, Raina Brown, Alain Hu, Any Ardon-Castro, Darren Nguyen, Robert Crawford, Wendy Lee, Mikkel Herholdt Jensen, Eliza J. Morris, Kimberly Mulligan

Retinoic acid signaling mediates peripheral cone photoreceptor survival in a mouse model of retina degeneration
Ryoji Amamoto, Grace K. Wallick, Constance L. Cepko

Prolyl-hydroxylase inhibitor-induced regeneration of alveolar bone and soft tissue in a mouse model of ligature-induced periodontitis
Elan Zebrowitz, Tetsuhiro Kajikawa, Kamila Bedelbaeva, Azamat Aslanukov, Sam Bollinger, Yong Zhang, David Sarfatti, Jing Cheng, Phillip B. Messersmith, George Hajishengallis, Ellen Heber-Katz

Snrpb, the gene mutated in CCMS, is haploinsufficient and required in neural crest cells for proper splicing of developmentally important genes essential for craniofacial morphogenesis
Sabrina Shameen Alam, Shruti Kumar, Marie-Claude Beauchamp, Eric Bareke, Alexia Boucher, Nadine Nzirorera, Reinnier Padilla, Si Jing Zhang, Jacek Majewski, Loydie A. Jerome-Majewska

Regenerated crustacean limbs are precise replicas
Alba Almazán, Çağrı Çevrim, Jacob M. Musser, Michalis Averof, Mathilde Paris

Monosomy X in isogenic human iPSC-derived trophoblast model impacts expression modules preserved in human placenta
Darcy T. Ahern, Prakhar Bansal, Isaac Faustino, Yuvabharath Kondaveeti, Heather R. Glatt-Deeley, Erin C. Banda, Stefan F. Pinter

Myosin phosphatase target subunit 1 governs integrity of the embryonic gut epithelium to circumvent atresia development in medaka, Oryzias latipes
Daisuke Kobayashi, Kazuhiko Matsuo, Tetsuaki Kimura, Satoshi Ansai, Hayato Yokoi, Shigeo Takashima, Tadao Kitagawa, Takahiro Kage, Takanori Narita, Tomoko Jindo, Masato Kinoshita, Kiyoshi Naruse, Yoshiro Nakajima, Masaki Shigeta, Shinichiro Sakaki, Satoshi Inoue, Rie Saba, Kei Yamada, Takahiko Yokoyama, Yuji Ishikawa, Kazuo Araki, Yumiko Saga, Hiroyuki Takeda, Kenta Yashiro

Manipulating the microbiome alters regenerative outcomes in Xenopus laevis tadpoles via lipopolysaccharide signalling
Phoebe A. Chapman, Campbell B. Gilbert, Thomas J Devine, Daniel T. Hudson, Joanna Ward, Xochitl C. Morgan, Caroline W. Beck

Over-expression of wild-type ACVR1 in fibrodysplasia ossificans progressiva mice rescues perinatal lethality and inhibits heterotopic ossification
Masakazu Yamamoto, Sean J. Stoessel, Shoko Yamamoto, David J. Goldhamer

A phenotypic rescue approach identifies lineage regionalization defects in a mouse model of DiGeorge syndrome
Gabriella Lania, Monica Franzese, Adachi Noritaka, Marchesa Bilio, Annalaura Russo, Erika D’Agostino, Claudia Angelini, Robert G. Kelly, Antonio Baldini

Chemical induction of gut β-like-cells by combined FoxO1/Notch inhibition as a glucose-lowering treatment for diabetes
Takumi Kitamoto, Yun-Kyoung Lee, Wendy M. McKimpson, Hitoshi Watanabe, Nishat Sultana, Wen Du, Jason Fan, Bryan Diaz, Hua V. Lin, Rudolph L. Leibel, Sandro Belvedere, Domenico Accili

Stem cell specific interferon stimulated gene expression is regulated by the formative pluripotency network through IRF1
Merrit Romeike, Stephanie Spach, Marie Huber, Songjie Feng, Gintautas Vainorius, Ulrich Elling, Christa Buecker

Drosophila renal stem cells enhance fitness by delayed remodeling of adult Malpighian tubules
Chenhui Wang, Allan C. Spradling

HSC-independent definitive hematopoietic cells persist into adult life
Michihiro Kobayashi, Haichao Wei, Takashi Yamanashi, David J Shih, Nathalia Azevedo Portilho, Samuel Cornelius, Noemi Valiente, Chika Nishida, Wenjin J Zheng, Joonsoo Kang, Jun Seita, Jia Qian Wu, Momoko Yoshimoto

Gdnf, a germ cell-derived factor, regulates zebrafish germ cell stemness through the creation of new spermatogonial niches (germ and Sertoli cells) and inhibition of spermatogonial differentiation in an autocrine and paracrine manners
Lucas B. Doretto, Arno J. Butzge, Rafael T. Nakajima, Emanuel R. M. Martinez, Beatriz Marques, Maira da Silva Rodrigues, Ivana F. Rosa, Juliana M. B. Ricci, Aldo Tovo-Neto, Daniel F. Costa, Guilherme Malafaia, Changwei Shao, Rafael H. Nóbrega

Comparison of biological features of wild European rabbit mesenchymal stem cells derived from different tissues
Marta Díaz-de Frutos, Alexandra Calle, María Zamora-Ceballos, Juan Bárcena, Esther Blanco, Miguel Ángel Ramírez

M-CSF-stimulated myeloid cells can convert into epithelial cells to participate in re-epithelialization and hair follicle regeneration during skin wound healing
Yunyuan Li, Hatem Nojeidi, Ruhangiz T. Kilani, Aziz Ghahary

Canalized morphogenesis driven by inherited tissue asymmetries in Hydra regeneration
Lital Shani-Zerbib, Liora Garion, Yonit Maroudas-Sacks, Erez Braun, Kinneret Keren

Macrophages break interneuromast cell quiescence by intervening the inhibition of Schwann cells in zebrafish lateral line
Meng-Ju Lin, Chia-Ming Lee, Wei-Lin Hsu, Bi-Chang Chen, Shyh-Jye Lee

Nerve-mediated amputation-induced stem cell activation primes distant appendages for future regeneration events in axolotl
Duygu Payzin-Dogru, Sarah E. Wilson, Steven J. Blair, Burcu Erdogan, Shifa Hossain, Louis V. Cammarata, Juan C. Velazquez Matos, Alan Y. Wong, Julia Losner, Sangwon Min, Hani Singer, Jessica L. Whited

Ret loss-of-function decreases enteric neural crest progenitor proliferation and restricts developmental fate potential during enteric nervous system development
Elizabeth Vincent, Sumantra Chatterjee, Gabrielle H Cannon, Dallas Auer, Holly Ross, Aravinda Chakravarti, Loyal A Goff

The origin of mouse extraembryonic endoderm stem cell lines
Jiangwei Lin

| Plant development

Control of Leaf Vein Patterning by Regulated Plasmodesma Aperture
Nguyen Manh Linh, Enrico Scarpella

TWISTED DWARF1 regulates Arabidopsis stamen development by differential activation of ABCB-mediated auxin transport
Jie Liu, Roberta Ghelli, Maura Cardarelli, Markus Geisler

Reactive oxygen species signalling is involved in alkamide-induced alterations in root development
Tonatiu Campos-García, Jorge Molina-Torres, Kirk Overmyer

Ethylene signaling increases reactive oxygen species accumulation to drive root hair initiation in Arabidopsis
R. Emily Martin, Eliana Marzol, Jose M. Estevez, Gloria K. Muday

Tomato SlBES1.8 influences leaf morphogenesis by mediating gibberellin metabolism and signaling
Deding Su, Wei Xiang, Qin Liang, Ling Wen, Yuan Shi, Yudong Liu, Zhiqiang Xian, Zhengguo Li

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

Rice leaves undergo a rapid metabolic reconfiguration during a specific stage of primordium development
Naomi Cox, Heather J. Walker, James K. Pitman, W. Paul Quick, Lisa M. Smith, Andrew J. Fleming

PIN-FORMED1 polarity in the shoot is insensitive to the polarity of neighbouring cells
Abdul Kareem, Neha Bhatia, Carolyn Ohno, Marcus G. Heisler

CHIQUITA1 maintains temporal transition between proliferation and differentiation in Arabidopsis thaliana
Flavia Bossi, Benjamin Jin, Elena Lazarus, Heather Cartwright, Yanniv Dorone, Seung Y. Rhee

| Evo-devo

Nuclear localization and transactivation of SYS-1/β-catenin is the result of serial gene duplications and subfunctionalizations
Arielle K Wolf, Lori C Adams-Phillips, Amanda N D Adams, Albert J Erives, Bryan T. Phillips

Cellular development and evolution of the mammalian cerebellum
Mari Sepp, Kevin Leiss, Ioannis Sarropoulos, Florent Murat, Konstantin Okonechnikov, Piyush Joshi, Evgeny Leushkin, Noe Mbengue, Céline Schneider, Julia Schmidt, Nils Trost, Lisa Spänig, Peter Giere, Philipp Khaitovich, Steven Lisgo, Miklós Palkovits, Lena M. Kutscher, Simon Anders, Margarida Cardoso-Moreira, Stefan M. Pfister, Henrik Kaessmann

Adaptive tail-length evolution in deer mice is associated with differential Hoxd13 expression in early development
Evan P. Kingsley, Emily R. Hager, Jean-Marc Lassance, Kyle M. Turner, Olivia S. Harringmeyer, Christopher Kirby, Beverly I. Neugeboren, Hopi E. Hoekstra

Gene loss during a transition to multicellularity
Berenice Jiménez-Marín, Jessica B. Rakijas, Antariksh Tyagi, Aakash Pandey, Erik R. Hanschen, Jaden Anderson, Matthew G. Heffel, Thomas G. Platt, Bradley J. S. C. Olson

Evolution of stickleback spines through independent cis-regulatory changes at HOXDB
Julia I. Wucherpfennig, Timothy R. Howes, Jessica N. Au, Eric H. Au, Garrett A. Roberts Kingman, Shannon D. Brady, Amy L. Herbert, Thomas E. Reimchen, Michael A. Bell, Craig B. Lowe, Anne C. Dalziel, David M. Kingsley

The evolution of ovary-specific gene expression in Hawaiian Drosophilidae
Samuel H. Church, Catriona Munro, Casey W. Dunn, Cassandra G. Extavour

Cell Biology

Spatial and temporal requirement of Mlp60A isoforms during muscle development and function in Drosophila melanogaster
Rohan Wishard, Mohan Jayaram, S. R. Ramesh, Upendra Nongthomba

Eukaryotic translation initiation factor eIF4E-5 is required for spermiogenesis in Drosophila melanogaster
Lisa Shao, Jaclyn M. Fingerhut, Brook L. Falk, Hong Han, Giovanna Maldonado, Yuemeng Qiao, Vincent Lee, Elizabeth Hall, Liang Chen, Gordon Polevoy, Greco Hernández, Paul Lasko, Julie A. Brill

Unraveling the roles of Mast4 in amelogenesis via regulating DLX3 and stem cell maintenance of mouse incisors
Dong-Joon Lee, Pyunggang Kim, Hyun-Yi Kim, Jinah Park, Seung-Jun Lee, Haein An, Jin Sun Heo, Min-Jung Lee, Hayato Ohshima, Seiya Mizuno, Satoru Takahashi, Han-Sung Jung, Seong-Jin Kim

EXOSC10/Rrp6 is essential for the eight-cell embryo/morula transition
Fabrice G. Petit, Soazik P. Jamin, Pierre-Yves Kernanec, Emmanuelle Becker, Guillaume Halet, Michael Primig

Control of G2 phase duration by CDC25B modulates the switch from direct to indirect neurogenesis in the neocortex
Mélanie Roussat, Thomas Jungas, Christophe Audouard, Francois Medevielle, Alice Davy, Fabienne Pituello, Sophie Bel-Vialar

CADHERIN mediated AMIS localisation
Xuan Liang, Antonia Weberling, Chun Yuan Hii, Magdalena Zernicka-Goetz, Clare Buckley

Pre-meiotic pairing of homologous chromosomes during Drosophila male meiosis
Thomas Rubin, Nicolas Macaisne, Ana Maria Vallés, Clara Guilleman, Isabelle Gaugué, Jean-René Huynh

CTP synthase does not form cytoophidia in Drosophila interfollicular stalks
Zheng Wu, Ji-Long Liu

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

Ikaros family proteins regulate developmental windows in the mouse retina through convergent and divergent transcriptional programs
Awais Javed, Pierre Mattar, Allie Cui, Michel Cayouette

Sensory axons induce epithelial lipid microdomain remodeling and determine the distribution of junctions in the epidermis
Jeffrey B Rosa, Khaled Y Nassman, Alvaro Sagasti

The origins of placental mesenchymal stromal cells: Full spectrum flow cytometry reveals mesenchymal heterogeneity in first trimester placentae, and phenotypic convergence in culture
A.L. Boss, T. Damani, L.W. Chamley, J.L. James, A.E.S. Brooks

A particle size threshold governs diffusion and segregation of PAR-3 during cell polarization
Yiran Chang, Daniel J. Dickinson

De novo apical domain formation inside the Drosophila adult midgut epithelium
Jia Chen, Daniel St Johnston

Modelling

4D reconstruction of developmental trajectories using spherical harmonics
Giovanni Dalmasso, Marco Musy, Martina Niksic, Alexandre Robert-Moreno, Claudio Badía-Careaga, Juan J. Sanz-Ezquerro, James Sharpe

Continuum Theory for Planar Cell Polarity
Mohd Suhail Rizvi, Divyoj Singh, Mohit K. Jolly

Symmetry-Breaking in Plant Stems
Larry Harper, Greg Huey

On the origin of order
Jeffrey J. Fredberg

An Eulerian nonlinear elastic model for compressible and fluidic tissue with radially symmetric growth
Chaozhen Wei, Min W

Tools & Resources

Characterization of retinal development in 13-lined ground squirrels
Sangeetha Kandoi, Cassandra Martinez, Dana Merriman, Deepak A Lamba

A single-cell atlas of human fetal lung development between 14 and 19 weeks of gestation
Laurent Renesme, Flore Lesage, David Cook, Shumei Zhong, Satu Hänninen, Olli Carpén, Ivana Mižíková, Bernard Thébaud

Ureter single-cell and spatial mapping reveal cell types, architecture, and signaling networks
Emily E. Fink, Surbhi Sona, Uyen Tran, Pierre-Emmanuel Desprez, Matthew Bradley, Hong Qiu, Mohamed Eltemamy, Alvin Wee, Madison Wolkov, Marlo Nicolas, Booki Min, Georges-Pascal Haber, Oliver Wessely, Byron H. Lee, Angela H. Ting

Use of standard U-bottom and V-bottom well plates to generate neuroepithelial embryoid bodies
David Choy Buentello, Lena Sophie Koch, Grissel Trujillo-de Santiago, Mario Moisés Alvarez, Kerensa Broersen

Anatomic development of the upper airway during the first five years of life: A three-dimensional imaging study
Ying Ji Chuang, Seong Jae Hwang, Kevin A. Buhr, Courtney A. Miller, Gregory D. Avey, Brad H. Story, Houri K. Vorperian

Identification and classification of cis-regulatory elements in the amphipod crustacean Parhyale hawaiensis
Dennis A Sun, Jessen V Bredeson, Heather S Bruce, Nipam H Patel

Modeling lung cell development using human pluripotent stem cells
Shuk Yee Ngan, Henry Quach, Joshua Dierolf, Onofrio Laselva, Jin-A Lee, Elena Huang, Maria Mangos, Sunny Xia, Christine E. Bear, Amy P. Wong

Rapid and robust directed differentiation of mouse epiblast stem cells into definitive endoderm and forebrain organoids
Daniel Medina-Cano, Emily K. Corrigan, Rachel Glenn, Mohammed Islam, Yuan Lin, Juliet Kim, Hyunwoo Cho, Thomas Vierbuchen

Single cell quantification of ribosome occupancy in early mouse development
Tori Tonn, Hakan Ozadam, Crystal Han, Alia Segura, Duc Tran, David Catoe, Marc Salit, Can Cenik

Single cell profiling of Hofbauer cells and fetal brain microglia reveals shared programs and functions
Alexis M Ceasrine, Rebecca Batorsky, Lydia L. Shook, Sezen Kislal, Evan A. Bordt, Benjamin A. Devlin, Roy H. Perlis, Donna K. Slonim, Staci D. Bilbo, Andrea G. Edlow

Single-cell transcriptome reveals insights into the development and function of the zebrafish ovary
Yulong Liu, Michelle E. Kossack, Matthew E. McFaul, Lana Christensen, Stefan Siebert, Sydney R. Wyatt, Caramai Kamei, Samuel Horst, Nayeli Arroyo, Iain Drummond, Celina E. Juliano, Bruce W. Draper

Transplantable human thyroid organoids generated from embryonic stem cells to rescue hypothyroidism
Mírian Romitti, Barbara de Faria da Fonsecaa, Gilles Doumont, Pierre Gillotay, Adrien Tourneur, 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

A single-cell transcriptome atlas of human early embryogenesis
Yichi Xu, Tengjiao Zhang, Qin Zhou, Mengzhu Hu, Yao Qi, Yifang Xue, Lihui Wang, Zhirong Bao, Weiyang Shi

Rapid and efficient adaptation of the dTAG system in mammalian development reveals stage specific requirements of NELF
Abderhman Abuhashem, Anna-Katerina Hadjantonakis

Biological characteristics of two mesenchymal stem cell lines isolated from the umbilical cord and adipose tissue of a neonatal common hippo (Hippopotamus amphibius)
Jinpu Wei, Xiuxiu Dong, Bo Wang, Yajiang Wu, Wu Chen, Zhijun Hou, Chen Wang, Tao Wang

An expanded toolkit for Drosophila gene tagging using synthesized homology donor constructs for CRISPR mediated homologous recombination
Oguz Kanca, Jonathan Zirin, Yanhui Hu, Burak Tepe, Debdeep Dutta, Wen-Wen Lin, Liwen Ma, Ming Ge, Zhongyuan Zuo, Lu-Ping Liu, Robert W Levis, Norbert Perrimon, Hugo J Bellen

A DNA-based optical force sensor for live-cell applications
Christina Jayachandran, Arindam Ghosh, Meenakshi Prabhune, Jonathan Bath, Andrew J. Turberfield, Lara Hauke, J&oumlrg Enderlein, Florian Rehfeldt, Christoph F. Schmidt

Heterogeneity and genomic loci of ubiquitous Cre reporter transgenes in zebrafish
Robert L. Lalonde, Cassie L. Kemmler, Fréderike W. Riemslagh, Andrew J. Aman, Jelena Kresoja-Rakic, Hannah R. Moran, Susan Nieuwenhuize, David M. Parichy, Alexa Burger, Christian Mosimann

A spectral demixing method for high-precision multi-color localization microscopy
Leonid Andronov, Rachel Genthial, Didier Hentsch, Bruno P. Klaholz

A Single-copy Knock In Translating Ribosome ImmunoPrecipitation (SKI TRIP) tool kit for tissue specific profiling of actively translated mRNAs in C. elegans
Laura E. Wester, Anne Lanjuin, Emanuel H. W. Bruckisch, Maria C. Perez Matos, Caroline Heintz, Martin S. Denzel, William B. Mair

Enhanced microvasculature formation and patterning in iPSC–derived kidney organoids cultured in physiological hypoxia
A. Schumacher, N. Roumans, T. Rademakers, V. Joris, M. Eischen-Loges, M. van Griensven, V.L.S. LaPointe

Extracellular Matrix protein gelatin provides higher expansion, reduces size heterogeneity, and maintains cell stiffness in a long-term culture of mesenchymal stem cells
Pankaj Mogha, Shruti Iyer, Abhijit Majumder

An improved organ explant culture method reveals stem cell lineage dynamics in the adult Drosophila intestine
Marco Marchetti, Chenge Zhang, Bruce A. Edgar

Label-free Cell Tracking Enables Collective Motion Phenotyping in Epithelial Monolayers
Shuyao Gu, Rachel M. Lee, Zackery Benson, Chenyi Ling, Michele I. Vitolo, Stuart S. Martin, Joe Chalfoun, Wolfgang Losert

Tabula Microcebus: A transcriptomic cell atlas of mouse lemur, an emerging primate model organism
The Tabula Microcebus Consortium, Camille Ezran, Shixuan Liu, Stephen Chang, Jingsi Ming, Olga Botvinnik, Lolita Penland, Alexander Tarashansky, Antoine de Morree, Kyle J. Travaglini, Kazuteru Hasegawa, Hosu Sin, Rene Sit, Jennifer Okamoto, Rahul Sinha, Yue Zhang, Caitlin J. Karanewsky, Jozeph L. Pendleton, Maurizio Morri, Martine Perret, Fabienne Aujard, Lubert Stryer, Steven Artandi, Margaret Fuller, Irving L. Weissman, Thomas A. Rando, James E. Ferrell Jr., Bo Wang, Iwijn De Vlaminck, Can Yang, Kerriann M. Casey, Megan A. Albertelli, Angela Oliveira Pisco, Jim Karkanias, Norma Neff, Angela Wu, Stephen R. Quake, Mark A. Krasnow

Lessons on fruiting body morphogenesis from genomes and transcriptomes of Agaricomycetes
László G. Nagy, Peter Jan Vonk, Markus Künzler, Csenge Földi, Máté Virágh, Robin A. Ohm, Florian Hennicke, Balázs Bálint, Árpád Csernetics, Botond Hegedüs, Zhihao Hou, Xiao-Bin Liu, Shen Nan, Manish Pareek, Neha Sahu, Benedek Szathmári, Torda Varga, Hongli Wu, Xiao Yang, Zsolt Merényi

STRAIGHT-IN: A platform for high-throughput targeting of large DNA payloads into human pluripotent stem cells
Catarina Grandela, Albert Blanch-Asensio, Karina O. Brandão, Tessa de Korte, Loukia Yiangou, Mervyn P.H. Mol, Berend J. van Meer, Christine L. Mummery, Richard P. Davis

Light-sheet scattering microscopy to visualize long-term interactions between cells and extracellular matrix
Xiangda Zhou, Renping Zhao, Archana K. Yanamandra, Markus Hoth, Bin Qu

Search for temporal cell segmentation robustness in phase-contrast microscopy videos
Estibaliz Gómez-de-Mariscal, Hasini Jayatilaka, Özgün Çiçek, Thomas Brox, Denis Wirtz, Arrate Muñoz-Barrutia

A Combined Immunophenotypic And Transcriptional Single-Cell Map Of First Trimester Human Fetal Liver Hematopoiesis
Mikael N.E. Sommarin, Rasmus Olofzon, Sara Palo, Parashar Dhapola, Göran Karlsson, Charlotta Böiers

Single-cell transcriptome atlas of Drosophila gastrula 2.0
Shunta Sakaguchi, Yasushi Okochi, Chiharu Tanegashima, Osamu Nishimura, Tadashi Uemura, Mitsutaka Kadota, Honda Naoki, Takefumi Kondo

Research practice & education

Scholar Metrics Scraper (SMS): automated retrieval of citation and author data
Nicole A. Cheung, Dean Giustini, Jeffrey LeDue, Tim H. Murphy

An effective workshop on “How to be an Effective Mentor for Underrepresented STEM Trainees”
Andrea G. Marshall, Caroline B. Palavicino-Maggio, Elsie Spencer, Zer Vue, Heather Beasley, Edgar Garza-Lopez, Lillian Brady, Zachary Conley, Kit Neikirk, Sandra Murray, Denise Martinez, Haysetta Shuler, Derrick Morton, Antentor Hinton Jr.

The Effect of COVID-19 on the Postdoctoral Experience: a comparison of pre-pandemic and pandemic surveys
Andréanne. Morin, Britney A. Helling, Seetha. Krishnan, Laurie E. Risner, Nykia D. Walker, Nancy B. Schwartz

Improving Lab Culture through Self-Assessment: A Case Study
Soleil Hernandez, Raymond Mumme, Laurence Court, Daniel El Basha, Skylar Gay, Barbara Marquez, Yao Xiao, Kai Huang, Hana Baroudi, Wenhua Cao, Carlos Cardenas, Raphael Douglas, Jack Duryea, Zaphanlene Kaffey, Deborah Mann, Kelly Nealon, Tucker Netheron, Callistus Nguyen, Kyuhak Oh, Adenike Olanrewaju, Carlos Sjogreen, DJ Rhee, Jinzhong Yang, Cenji Yu, Lifei Zhang, Yao Zhao, Hamid Ziyaee, Mary Gronberg

Promising or problematic? Perceptions of active learning from STEM students with ADHD and specific learning disabilities
Mariel A. Pfeifer, Julio J. Cordero, Julie Dangremond Stanton

The Role of Mentoring in Promoting Diversity, Equity, and Inclusion in STEM Education and Research
Andrea G. Marshall, Zer Vue, Caroline B. Palavicino-Maggio, Elsie C. Spencer, Heather K. Beasley, Edgar Garza-Lopez, Zachary Conley, Kit Neikirk, Sandra A. Murray, Denise Martinez, Jamaine Davis, Lillian Brady, Haysetta D. Shuler, Derrick Morton, Antentor Hinton Jr.

Analysis of science journalism reveals gender and regional disparities in coverage
Natalie R. Davidson, Casey S. Greene

A remote lecture series roadmap to equity, diversity, and inclusion in STEM
Evan A. Boyle, Gabriela Goldberg, Jonathan C. Schmok, Jillybeth Burgado, Fabiana Izidro Layng, Hannah A. Grunwald, Kylie M. Balotin, Michael S. Cuoco, Keng-Chi Chang, Gertrude Ecklu-Mensah, Aleena K. S. Arakaki, Noorsher Ahmed, Ximena Garcia Arceo, Pratibha Jagannatha, Jonathan Pekar, Mallika Iyer, DASL Alliance, Gene W. Yeo

Enhancing Quantitative and Data Science Education for Graduate Students in Biomedical Science
Louis J. Gross, Rachel Patton McCord, Sondra LoRe, Vitaly V. Ganusov, Tian Hong, W. Christopher Strickland, David Talmy, Albrecht G. von Arnim, Greg Wiggins

Using a Champion-Oriented Mindset to Overcome the Challenges of Graduate School
Andrea G. Marshall, Caroline B. Palavicino-Maggio, Kit Neikirk, Zer Vue, Heather Beasley, Edgar Garza-Lopez, Sandra Murray, Denise Martinez, Jamaine Davis, Haysetta Shuler, Elsie C. Spencer, Derrick Morton, Antentor Hinton Jr

The Importance of Mentors and How to Handle More Than One Mentor
Andrea G. Marshall, Lillian J. Brady, Caroline B. Palavicino-Maggio, Kit Neirkirk, Zer Vue, Heather Beasley, Edgar Garza-Lopez, Sandra Murray, Denise Martinez, Haysetta Shuler, Elsie C. Spencer, Derrick Morton, Antentor Hinton Jr

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Journal of Cell Science and its publisher The Company of Biologists are seeking to appoint a new Community Manager to run our microscopy community website, FocalPlane.

Launched in 2020, FocalPlane is a curated and centralised platform for the microscopy community to share news and techniques, discuss issues relevant to the field and read about the latest research and events. We are now looking for an enthusiastic and motivated person with fresh ideas and a willingness to learn to join us to develop and maintain this site.

Core responsibilities of the position include:

• Creating and commissioning content for FocalPlane, including writing posts and soliciting content from the academic community, societies, companies and other organisations

• Providing user support and ensuring site functionality on a day-to-day basis

• Providing creative and practical input into the development of the site

• Maintaining and developing the site’s presence on social networking sites such as Facebook and Twitter

• Representing Journal of Cell Science and FocalPlane at international conferences

Essential skills:

• PhD in a relevant scientific field, ideally with experience of microscopy

• Willingness to grow and develop knowledge of microscopy

• Demonstrable ability to write for an online audience and/or produce social media content

• Clear understanding of the online environment as it applies to scientists

• Excellent interpersonal and communication skills

• Strong networking abilities online and in person

Desirable:

• Experience with additional media (e.g. video or podcasting)

• Experience with WordPress

• Contacts within the microscopy community

This is an exciting opportunity to develop a hub for the microscopy community – in a similar vein to the Company’s established community site for developmental biologists, the Node – and to engage with relevant people at all levels: academics, developers, facilities, institutes and companies. The Community Manager will work alongside an experienced in-house team, including the Executive Editor of Journal of Cell Science. Additional responsibilities may be provided for the right candidate.

The Company of Biologists exists to support biologists and inspire advances in biology. At the heart of what we do are our five specialist journals – Development, Journal of Cell Science, Journal of Experimental Biology, Disease Models & Mechanisms and Biology Open. All are edited by expert researchers in the field, and all articles are subjected to rigorous peer review. We believe that the profits from publishing the hard work of biologists should support scientific discovery and help develop future scientists. Our grants help support societies, meetings and individuals. Our workshops and meetings give the opportunity to network and collaborate.

The Company of Biologists is an inclusive organisation and we believe that everyone has a contribution to make. We want all our employees to feel included, valued and appreciated. We believe in equality of opportunity for all staff and encourage applications from all individuals regardless of sexual orientation, gender identity or expression, religion, ethnicity, age, neurodiversity, disability status and citizenship.

Applicants should send a CV along with a covering letter that summarises their relevant experience, and in particular any specific microscopy/image analysis skills, and includes links to any online activities, salary expectations, and details about why they are enthusiastic about this opportunity.

Applications and informal queries should be sent by email to recruitment@biologists.com by 31 January 2022. We may request written tests in advance of any interview.

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Join Natalia Sanchez Soriano, Alison Twelvetrees and Sean Sweeney to understand Mitochondrial homeostasis during ageing and neurodegeneration!

https://www.findaphd.com/phds/project/mrc-dimen-doctoral-training-partnership-mitochondrial-homeostasis-during-ageing-and-neurodegeneration/?p138904

Deadline Friday, January 14, 2022

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Thanks to everyone who has contributed to the Node in 2021. We hope you have enjoyed interacting with the site over the past year. As a reminder, the Node is a community site so anyone with an interest in developmental biology or stem cells can, once registered, post on the website. This could be a research story, a commentary, an interview or a job or event listing. If you have any suggestions for new features or would like advice from the Node team you can contact us at thenode@biologists.com. But before we look ahead to 2022, we focus on 2021 in numbers:

• 1 Countdown to 2022
• 3 Featured resources
• 10 Development presents… webinars
• 14 SciArt profiles
• 179 posts
• >200 job adverts
• >200 events listed
• 530 tweets
• 1024 scientists registered in the Node Network
• 378,900 website views

Happy New Year from the Node team

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Regeneration is the mechanism by which a species can restore damaged or missing cells, tissues, organs, or body parts. Different living organisms have vastly differing regenerative capabilities. Humans, while capable of regenerating some organs following damage or disease, most notably the liver, are very limited in their capacity. Other organisms, however, have remarkable regenerative capacities that facilitate re-growth of entire limbs, parts of nervous systems, or even whole-body regeneration like planarians.

Despite the relative prevalence of regeneration and the potential contributions of its research to modern medicine, the field is widely understudied, especially from a comparative evolutionary perspective (Lai and Aboobaker 2018 Dev Bio).

This summer, the BDSB Summer Studentship gave me the opportunity to undertake an exciting research project, further studying the regenerative abilities of the European Garden Spider, Araneus diadematus, within the McGregor Laboratory at Oxford Brookes, under the supervision of Research Fellow and spider expert, Anna Schönauer.

Fritz Vollrath’s work (Vollrath, 1990) describes the remarkable ability of juvenile A. diadematus (Figure 1, A) to quickly regenerate functional legs from the coxa-trochanter joint following autotomy (Figure 1, B). This functionality is crucial to their survival, as the spiders rely on the limbs’ sensory-motor abilities for weaving their geometrically complex webs, which are intricately designed to facilitate capture of prey (Reed et al 1965).

Regeneration is understood to be an ancestral trait in arachnid species (Goss, 1992) and although some lineages have lost this ability (Vollrath, 1990), the evolutionary relationships giving rise to these differences remain unclear. Research into the development of closely related spider species, with and without regenerative capabilities, offers potential insight into the changes that have led to the loss of this trait. Further, as outlined in Karl Ernst von Baer’s Laws of Embryology (Wanninger, 2015), studying the early development of a species offers essential contributions to the uncovering of evolutionary patterns and relationships of characteristics.

The aim of my project was to improve understanding of the regeneration walking legs in the Araneus diadematus. Initially my Objectives comprised:

1. Generating a time series to document the species’ post-embryonic development
2. Comparing the regeneration of the first walking legs between different instars
3. Analysing the leg transcriptome of an A. diadematus leg, to compare with a species unable to regenerate lost limbs – Parasteatoda tepidarioum.

Due to impediments imposed by Covid19, in addition to further challenges thrown up by the unpredictable nature of scientific research, the outcomes and overall procedure of my project ultimately deviated significantly from the parameters of my original aims. Covid regulations limited my lab access early enough in the year, and as a result, I was unable to accurately document the beginning of the time series for the species, obstructing my first aim.

However, acquisition of A. diadematus embryos, contributed an additional branch to the project and supplemented my first objective. Embryos were frozen at different times in development, prior to being peeled, DAPI stained, and microscopically imaged (Figure 2). This contributed to the creation of a partial embryonic time-series, in place of the initially intended post-embryonic time-series.

The examination and comparison of the imaged A. diadematus embryos, with pre-existing images of the P. tepidarioum (Mittman and Wolff 2012) also presents the opportunity to identify significant disparities within the development of the two species, with the potential to propose relevant evolutionary relationships of regeneration, signposted through embryonic development.

The findings from the second objective, analyzing and comparing the regeneration and emergent legs (Figure 3) of individuals within the third and fourth instar, prompted a secondary investigation, examining the effects and implications of the leg regeneration of individuals within the fifth instar. Throughout these analyses, I thoroughly enjoyed the weekly imaging and recording of my experimental subjects’ regenerative development, but nothing quite compared to the excitement of discovering the emergence of a new regenerated leg on my visits to the lab’s spider room first thing in the morning.

The final objective (obtaining, analyzing, and comparing the A. diadematus leg transcriptome) is still ongoing and I am learning a lot about the patience required for bioinformatics!

My experiences in the lab have emphasized the fluid and unpredictable nature of scientific study, reinforcing the importance of patience, open mindedness, and flexibility. The Gurdon Summer Studentship has taught me so much that I would not otherwise have had access to in the ordinary course of my undergraduate program. I’ve been involved in lab meetings and journal clubs, worked alongside an amazing group of PhD students, and gained experience using cutting-edge equipment and techniques. I’ve developed lab skills, learned specialized spider husbandry techniques, and grown as a scientist, thanks to the lab team I have been privileged to be a small part of.

I did not underestimate the incredible opportunity being afforded to me and was excited before the project started, but I could not have imagined just how much I would enjoy the process. The unpredictable nature of the field of developmental biology has made for an exciting summer and I owe an enormous debt of gratitude to the BDSB. Further I am beyond grateful to Alistair McGregor and to Anna Schönauer for this incredible opportunity and for their support, encouragement, and training. Their passion for their subject is infectious and would inspire anyone to study further in the field of developmental biology!

References

Goss, R. J. (1992) “The Evolution of Regeneration: Adaptive or Inherent?,” Journal of theoretical biology, 159(2), pp. 241–60.

Lai, A. G. and Aboobaker, A. A. (2018) “Evoregen in Animals: Time to Uncover Deep Conservation or Convergence of Adult Stem Cell Evolution and Regenerative Processes,” Developmental Biology, 433(2), pp. 118–131. doi: 10.1016/j.ydbio.2017.10.010.

Mittmann, B. and Wolff, C. (2012) “Embryonic Development and Staging of the Cobweb Spider Parasteatoda Tepidariorum C. L. Koch, 1841 (syn.: Achaearanea Tepidariorum; Araneomorphae; Theridiidae),” Development genes and evolution, 222(4), pp. 189–216. doi: 10.1007/s00427-012-0401-0.

Reed, C. F. Witt, P. N. and Jones, R. L. (1965) “The Measuring Function of the First Legs of Araneus Diadematus Cl,” Behaviour, 25(1-2), pp. 98–119.

Vollrath, F. (1990) “Leg regeneration in web spiders and its implications for orb weaver phylogeny”. Basel (Suiza): Zoologisches Institute.

Wanninger, A. (2015) “Evolutionary developmental biology of invertebrates”. Wien: Springer (Online access: Springer (t). doi: 10.1007/978-3-7091-1868-9.

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In our final SciArt profile of 2021 we meet Jessica Richardson, a final year PhD student in Kate Poole’s group at the University of New South Wales, Sydney. In addition to using her artistic skills in her lab work, Jessica works as a freelance illustrator and writer. You can find Jessica on Twitter and LinkedIn.

Where are you originally from and what do you work on now?

I grew up and still live in Sydney, Australia, where I completed my Bachelor’s degree in Neuroscience and Physiology. I am currently in the final year of my PhD in Physiology and Pharmacology at UNSW Sydney working in Associate Professor Kate Poole’s lab. For my PhD project, I am investigating how cells can sense mechanical forces using specialised proteins known as mechanically activated ion channels.

Outside of my research, I am a freelance illustrator and writer and am currently working on various projects, including contributing writing and drawings for high school science textbooks, as well as creating promotional material for commercial organisations in the STEMM space.

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Were you always going to be a scientist?

I have always had a passion for science since childhood and was the annoying child that constantly asked ‘why?’ and ‘how does that work?’, so you could say so. However, my journey towards becoming a scientist hasn’t been a linear path! I’ve always struggled to choose between pursuing a career in STEMM or pursuing one in the creative industries. For a long time during high school, I really wanted to be creative writer and/or a comic artist. At some point, my love for science won out and I decided to pursue a degree in neuroscience. Neuroscience had always fascinated me as a subject, especially regarding how we sense the world around us and how that differs so greatly from person to person.

But that wasn’t the end of the story. Early during my degree, my university made a double-degree available: a Bachelor of Advanced Science alongside a Bachelor of Fine Arts. At around the same time, I also was introduced to the possibility of a career in science illustration which would combine two of my passions, so I immediately transferred into this degree.

Unfortunately, the Art and Design school was on a different campus from the main campus and trying to run across town between my lab tutorials and my art classes with my huge art book (and supplies) and safety glasses still on was too much. I made the sad decision to transfer to science only, knowing that while I could always find the time to make art on my own while completing my science degree, the reverse would not be true.

And what about art – have you always enjoyed it?

I have always enjoyed making art since I was a very young child. I was always doodling in class in school and always had to have a sketch book on hand. Throughout primary school and high school, I experimented a lot with different mediums, and to this day, while I’ve found my preferred mediums, I still like to dabble occasionally in different techniques.

What or who are your most important artistic influences?

Generally speaking, I have always been influenced by genres that use monochromatic black and white colours and heavy shadowing. Think the stark look of noir films and black and white comics, as well as high contrast black and white photography. Looking back to my childhood dreams of being a comic book artist, I was definitely inspired by comic book artists like Frank Miller and James O’Barr, and still am, in recent years, by newer comic artists like Nicola Scott and Fiona Staples. I definitely incorporate these influences into my science illustration work and figures, and often try to create a cartoon-like feel. However, especially for illustrating cellular environments at a molecular level, I am heavily inspired by David Goodsell, who creates absolutely stunning works of art to visualise such complex concepts about the microscopic world.

My absolute biggest artistic influence and inspiration, however, has to be my oldest sister, Sara, who first got me interested in drawing and gave me my very first lessons on proportions, perspective, shading, and drawing human faces. Looking through old sketchbooks from when I was a child, there are plenty of beautiful drawings by her and many more poor emulations from me. I really have her to thank for my artistic endeavours.

How do you make your art?

My favourite things to draw with are ink and fine-tipped pens. I like to use stippling and heavy shadows and contrast in my artworks and using a lot of black ink really gets this job done well! When making my more formal science illustrations and figures, however I like to use a graphics tablet and Adobe Illustrator and Photoshop.

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Does your art influence your science at all, or are they separate worlds?

I didn’t realise how much my art influenced my science until I began to present my scientific work. Trying to explain my results and ideas, and more importantly trying to communicate them quickly during my presentations and in publications made me focus on making figures and diagrams that could easily convey complex information. While it is a cliché that ‘a picture is worth a thousand words’, I strongly believe this to be true, and that really helps when you have a set word limit!

While it is a cliché that ‘a picture is worth a thousand words’, I strongly believe this to be true, and that really helps when you have a set word limit!

I think that the mental and physical act of trying to represent complicated ideas visually can teach you a lot about what is important in your own work and hence where to go next in your experiments. For instance, even having to ask simple questions like “what can I draw in a high level of detail? What aspects can I only draw very vaguely?” can give insight into where there are holes in your own knowledge, or even what might be unknown in the field and waiting to be discovered.  

What are you thinking of working on next?

I am currently finishing the final stages of my PhD and am really excited to see what’s next for me in research. I hope to continue making illustrations to communicate my own research (and others!). In the future, I’d really love to start a science web comic as well as design online visual educational tools for learning STEMM subjects. I have long-term ambitions about creating or joining a consultancy for science communication, helping other scientists to create figures and drawings which are not only useful and accurate, but visually appealing too.

Thanks to Jessica and all the other SciArtists we have featured so far. We’re looking for new people to feature in this series – whatever kind of art you do, from sculpture to embroidery to music to drawing, if you want to share it with the community just email thenode@biologists.com (nominations are also welcome!)

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On Wednesday 8 December, Development hosted three talks to celebrate the 25th anniversary of our zebrafish special issue.

Below you’ll find each of the talks, plus reflections on the impact of the special issue, 25 years on from its publication, from our guest chair Alex Schier.

Alex Schier (Harvard University and Biozentrum, University of Basel)
Reflections on the 25th anniversary of the ‘zebrafish issue’

Caren Norden (Instituto Gulbenkian Ciência)
‘Lamination in the vertebrate retina: An interplay of diverse modes of cell migration’

You can read the preprint of the research presented by Caren here.

Frieda Leesch (Research Institute of Molecular Pathology)
‘A molecular network of conserved factors keeps ribosomes dormant in the egg’

The research presented by Frieda is available as a preprint on biorxiv

Brad Cairns (Huntsman Cancer Institute)
‘Maternally-inherited anti-sense piRNAs antagonize transposon expression in zebrafish and medaka embryos’

You can read the preprint of the research presented by Brad here.

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Doing great science depends on teamwork, whether this is within the lab or in collaboration with other labs. However, sometimes the resources that support our work can be overlooked. In our new series, ‘Featured Resource’, we aim to shine a light on these unsung heroes of the science world. For our third article, Yvonne Bradford and Leyla Ruzicka tell us about the work of ZFIN. Read on to find out a little about the history of ZFIN, the people running the site and what resources are available.

When was ZFIN established and how has it evolved?

The Zebrafish Information Network (ZFIN) was established by Monte Westerfield in 1994 following the first international Zebrafish research meeting at Cold Spring Harbor. In its infancy, ZFIN played a large role as a community contact resource for zebrafish researchers and students. By 1997 ZFIN curators were establishing nomenclature guidelines for genes and mutant lines, as well as curating mutant line information from scientific publications¹. Leap to 2003 and ZFIN had established cross links and integration of ZFIN data with other genomic resources including GenBank, Vega, UniProt and Ensembl, and curators were annotating additional data types that included gene expression, orthology, and Gene Ontology data². Over the next several decades, ZFIN curators continued to expand the data supported at ZFIN to include complex genotypes, transgenic lines, phenotypes, morpholinos, CRISPRs, TALENs, antibodies, and transcripts³⁴⁵⁶⁷. Over the past 27 years, ZFIN has grown into a mature knowledgebase for zebrafish researchers providing information about genes and alleles, gene expression and phenotype data, human disease associations and models, Gene Ontology data for gene function, orthology, reagent information and protocol wikis, BLAST and Genome Viewers, as well as deep integration with genetic and genomic data service providers.  Throughout ZFIN’s history, serving the research community has been central to the development of the resource. ZFIN has a core aim of providing accurate, accessible and interoperable data to researchers, students, bioinformaticians, and other online databases to facilitate the use of Danio rerio as a model organism to understand developmental biology, genetics, genomics, phenomics, and ultimately human biology.  

Who are the people behind the resource?

ZFIN is located at the University of Oregon in Eugene, Oregon. The ZFIN team consists of scientific curators who hold a PhD or MSc and have expertise in genetics, developmental, cellular, molecular, and evolutionary biology, as well as software developers skilled in Java web architecture, PostgreSQL database development, and many modern coding languages to implement user interfaces.  Although the following list represents ZFIN staff as of 2021, many prior staff members significantly contributed to the success of ZFIN over the years.

• Principal Investigator – Monte Westerfield
• Project Manager – Yvonne Bradford
• Scientific Curation Team:
  • David Fashena
  • Ken Frazer
  • Doug Howe
  • Holly Paddock
  • Sridhar Ramachandran
  • Leyla Ruzicka
  • Amy Singer
  • Wei-Chia Tseng
  • Ceri Van Slyke
• Software Development Team:
  • Ryan Martin
  • Christian Pich
  • Ryan Taylor
• Literature Acquisition Assistant – Kaia Fullmer

Where does funding come from?

Initially, ZFIN was funded by the W.M Keck Foundation and the National Science Foundation. In 1998, Dr. Westerfield was awarded NIH funding for the Zebrafish International Resource Center (ZIRC) that included database support for ZFIN.  Since 2002, ZFIN has been independently funded by the National Human Genome Research Institute of the National Institutes of Health.

What is available for researchers? 

ZFIN hosts a diverse collection of data, as well as genomic and community resources. ZFIN provides expertly curated data on zebrafish, including information on genes, alleles, transgenic lines, human disease models, gene expression, mutant phenotypes, gene function, orthology, publications, researchers, labs, and reagents. ZFIN has data-specific web pages for genes, alleles, fish, antibodies, constructs, morpholinos, CRISPRs, TALENs, clones, publications, and ontology terms. Researchers can search for data using the single box search on the home page (https://zfin.org/) with results returned in the single box search interface, which allows for easy refinement of results using filters. ZFIN data are also available for download (https://zfin.org/downloads). ZFIN is the nomenclature authority for zebrafish genes, alleles, and transgenic lines. ZFIN provides nomenclature support to the community through the ZFIN Nomenclature Coordinator who works with the Zebrafish Nomenclature Committee, which is composed of active zebrafish researchers, to approve names and symbols for gene loci and transgenic lines. Researchers can contact the ZFIN Nomenclature Coordinator at nomenclature@zfin.org.

ZFIN provides access to genomic resources through the Genomics menu on the Home Page. Researchers can access BLAST resources and genome browsers at ZFIN, NCBI, UCSC, and Ensembl. In addition, the ZFIN gene page has genome browser images and links to sequence analysis tools in the sequences and transcripts sections.

Researchers can access community resources from the Resources and Community menus at the top of the ZFIN Home Page. The Resources menu provides links to The Zebrafish Book, Anatomy Atlases, Zebrafish Resource Centers, and community wikis. ZFIN hosts the zebrafish research community wiki that has sections for protocols and antibodies. The protocols section provides an area where zebrafish researchers can share experimental protocols and tips covering a range of topics from general zebrafish care to molecular and behavioural methods, and the antibodies section focuses on antibody usage notes and protocols.  The Community menu offers researchers access to zebrafish News, Job postings, and Meeting announcements, as well as links to search for researchers, labs, and companies.

How can the community contribute to ZFIN?

In addition to annotating zebrafish research publications, ZFIN accepts direct submissions from users. From the Support menu at the top of the home page, under ‘Using ZFIN’, there is a link to submit data to ZFIN. The link leads to a page that has links to the various ways users can submit data directly. To help researchers submit data, a guide that outlines the minimal set of information for data that are submitted for inclusion in ZFIN is available in the Methods in Cell Biology chapter: A Scientist’s guide for submitting data to ZFIN⁸.

How can the community help ZFIN?

The research community can help ZFIN in many ways:

• Cite ZFIN in publications. Directions for citing ZFIN can be found in the Support menu, in the About ZFIN link (https://zfin.atlassian.net/wiki/spaces/general/pages/1891415775/ZFIN+Database+Information)
• Respond to ZFIN surveys. ZFIN sends out user surveys to registered users yearly. The surveys determine which features will be developed at ZFIN
• Keep your person/lab/company pages in ZFIN up to date
• Help facilitate the curation of your publications:
  • Contact ZFIN about gene and allele/transgenic line nomenclature before publication
  • Make sure data in papers are unambiguous – use identifiers, accession numbers, and approved names whenever possible for genes, alleles, and reagents.
  • Respond to requests for information by ZFIN curators on details in papers including genes, alleles, transgenes, sequence information, and reagents.

What are the most used features on ZFIN?

Gene pages are the most highly accessed pages at ZFIN. The gene page integrates all data pertinent to a gene and is a hub of information for researchers.  Other ZFIN resources that are highly accessed include gene expression and phenotype data, publications and associated images, and search interfaces. ZFIN person and lab pages are also very popular, as is The Zebrafish Book⁹, the classic handbook for zebrafish research.

Any new developments that you can recommend, which researchers might be less aware of?

ZFIN is a founding member of the Alliance of Genome Resources (The Alliance), a consortium of six Model Organism databases (Mouse Genome Database, Rat Genome Database, Saccharomyces Genome Database, WormBase, FlyBase, and ZFIN) and the Gene Ontology database. The Alliance aims to develop and maintain sustainable genome information resources that facilitate the use of model organisms in understanding the genetic and genomic basis of human biology and disease¹⁰. Follow the “Alliance” links from ZFIN gene pages to explore comparative data on Orthology, Human Disease, Gene Ontology, and Gene Expression, plus details about Variants and Phenotypes. The Alliance also provides download files and APIs for programmatic access to model organism data.

References

1. Westerfield M, Doerry E, Kirkpatrick A, Driever W, Douglas S. An on-line database for zebrafish development and genetics research. Seminars in cell & developmental biology. 1997;8(5):477–88. doi:10.1006/scdb.1997.0173

2. Sprague J, Clements D, Conlin T, Edwards P, Frazer K, Schaper K, Segerdell E, Song P, Sprunger B, Westerfield M. The Zebrafish Information Network (ZFIN): the zebrafish model organism database. Nucleic acids research. 2003;31(1):241–243. doi:10.1093/NAR/GKG027

3. Sprague J, Bayraktaroglu L, Bradford Y, Conlin T, Dunn N, Fashena D, Frazer K, Haendel M, Howe DGDG, Knight J, et al. The Zebrafish Information Network: the zebrafish model organism database provides expanded support for genotypes and phenotypes. Nucleic acids research. 2008;36(Database issue):D768-72. doi:10.1093/nar/gkm956

4. Bradford YM, Conlin T, Dunn NA, Fashena D, Frazer K, Howe DG, Knight J, Mani P, Martin R, Moxon SAT, et al. {ZFIN:} enhancements and updates to the zebrafish model organism database. Nucleic Acids Res. 2011;39(Database-Issue):822–829. doi:10.1093/nar/gkq1077

5. Howe DG, Bradford YM, Conlin T, Eagle AE, Fashena D, Frazer K, Knight J, Mani P, Martin R, Moxon SAT, et al. ZFIN, the Zebrafish Model Organism Database: increased support for mutants and transgenics. Nucleic Acids Research . 2013;41(Database issue):D854-60. doi:10.1093/nar/gks938

6. Ruzicka L, Bradford YM, Frazer K, Howe DG, Paddock H, Ramachandran S, Singer A, Toro S, Van Slyke CE, Eagle AE, et al. ZFIN, The zebrafish model organism database: Updates and new directions. Genesis. 2015;53(8). doi:10.1002/dvg.22868

7. Howe DG, Ramachandran S, Bradford YM, Fashena D, Toro S, Eagle A, Frazer K, Kalita P, Mani P, Martin R, et al. The zebrafish information network: Major gene page and home page updates. Nucleic Acids Research. 2021;49(D1):D1058–D1064. doi:10.1093/nar/gkaa1010

8. Howe DGG, Bradford YMM, Eagle A, Fashena D, Frazer K, Kalita P, Mani P, Martin R, Moxon STT, Paddock H, et al. A scientist’s guide for submitting data to ZFIN. Methods in Cell Biology. 2016;135:451–481. doi:10.1016/bs.mcb.2016.04.010

9. Westerfield M. The zebrafish book: a guide for the laboratory use of zebrafish (Danio rerio). 4th ed. Eugene, OR: University of Oregon Press; 2000.

10. Bult CJ, Blake JA, Calvi BR, Cherry JM, DiFrancesco V, Fullem R, Howe KL, Kaufman T, Mungall C, Perrimon N, et al. The alliance of genome resources: Building a modern data ecosystem for model organism databases. Genetics. 2019;213(4):1189–1196. doi:10.1534/genetics.119.302523

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

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

Developmental biology

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

Cell Biology

Modelling

Reviews

Tools & Resources

Research practice & education

Developmental biology

| Patterning & signalling

An RNA-based feed-forward mechanism ensures motor switching in oskar mRNA transport
Imre Gáspár, Ly Jane Phea, Mark A. McClintock, Simone Heber, Simon L. Bullock, Anne Ephrussi

Quantitative imaging in whole-mount zebrafish embryos traces morphogen gradient maintenance and noise propagation in BMP signaling
Xu Wang, Linlin Li, Ye Bu, Yixuan Liu, Tzu-Ching Wu, David M. Umulis

The Drosophila RNA binding protein Nab2 patterns dendritic arbors and axons via the planar cell polarity pathway
Edwin B. Corgiat, Sara M. List, J. Christopher Rounds, Dehong Yu, Ping Chen, Anita H. Corbett, Kenneth H. Moberg

Netrins and receptors control Drosophila optic lobe organization and transmedullary neuron axon targeting
Yu Zhang, Scott Lowe, Xin Li

Target of Rapamycin drives unequal responses to essential amino acid depletion in egg laying
André N. Alves, Carla M. Sgrò, Matthew D. Piper, Christen K. Mirth

Live imaging YAP signaling in mouse embryo development
Bin Gu, Brian Bradshaw, Min Zhu, Yu Sun, Sevan Hopyan, Janet Rossant

The expression of essential selenoproteins during zebrafish development requires SECIS binding protein 2-like
Nora T. Kiledjian, Rushvi Shah, Michael B. Vetick, Paul R. Copeland

Adar1 deletion causes degeneration of exocrine pancreas via Mavs-dependent interferon signaling
Dhwani N. Rupani, Robert W. Cowan, Fredrik I. Thege, Vidhi Chandra, Sonja M. Wörmann, Hajar Rajaei, Prerna Malaney, Olivereen Le Roux, Sara L. Manning, Jack Hashem, Jennifer Bailey-Lundberg, Florencia McAllister, Andrew D. Rhim

Fendrr synergizes with Wnt signalling to regulate fibrosis related genes during lung development
Tamer Ali, Sandra Rogala, Maria-Theodora Melissari, Sandra Währisch, Bernhard G Herrmann, Phillip Grote

A microRNA cluster downstream of the selector gene Fezf2 coordinates fate specification with dendritic branching in cortical neurons
Asha Iyer, Verl B Siththanandan, Victoria Lu, Ramesh Nair, Lee O. Vaasjo, Maria J Galazo, Suzanne Tharin

A life cycle alteration can correct molting defects in Caenorhabditis elegans
Shaonil Binti, Rosa V. Melinda, Braveen B. Joseph, Phil Edeen, Sam D. Miller, David S. Fay

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

A comprehensive series of temporal transcription factors in the fly visual system
Nikolaos Konstantinides, Anthony M. Rossi, Aristides Escobar, Liébaut Dudragne, Yen-Chung Chen, Thinh Tran, Azalia Martinez Jaimes, Mehmet Neset Özel, Félix Simon, Zhiping Shao, Nadejda M. Tsankova, John F. Fullard, Uwe Walldorf, Panos Roussos, Claude Desplan

Live imaging YAP signaling in mouse embryo development
Bin Gu, Brian Bradshaw, Min Zhu, Yu Sun, Sevan Hopyan, Janet Rossant

TP53 promotes lineage commitment of human embryonic stem cells through ciliogenesis and sonic hedgehog signaling
Sushama Sivakumar, Shutao Qi, Ningyan Cheng, Adwait A. Sathe, Mohammed Kanchwala, Ashwani Kumar, Bret M. Evers, Chao Xing, Hongtao Yu

TGFβ signaling is required for sclerotome resegmentation during development of the spinal column in Gallus gallus
Sade W. Clayton, Ronisha McCardell, Rosa Serra

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

Selective YAP activation in Procr cells is essential for ovarian stem/progenitor expansion and epithelium repair
Jingqiang Wang, Lingli He, Zhiyao Xie, Wentao Yu, Lanyue Bai, Zuoyun Wang, Yi Lu, Chunye Liu, Junfen Fu, Lei Zhang, Yi Arial Zeng

Omics profiling identifies MAPK/ERK pathway as a gatekeeper of nephron progenitor metabolism
Hyuk Nam Kwon, Kristen Kurtzeborn, Xing Jin, Abigail Loh, Nathalie Escande-Beillard, Bruno Reversade, Sunghyouk Park, Satu Kuure

How do avian embryos resume development following diapause? A new role for TGF-β in regulating pluripotency-related genes
Narayan Pokhrel, Olga Genin, Dalit Sela-Donenfeld, Yuval Cinnamon

A non-transcriptional function of Yap orchestrates the DNA replication program
Rodrigo Meléndez García, Olivier Haccard, Albert Chesneau, Hemalatha Narassimprakash, Jérôme E Roger, Muriel Perron, Kathrin Marheineke, Odile Bronchain

Pre-implantation mouse embryo movement under hormonally altered conditions
Hannah Lufkin, Diana Flores, Zachary Raider, Manoj Madhavan, Madeline Dawson, Anna Coronel, Dhruv Sharma, Ripla Arora

STAT3 and HIF1α cooperatively mediate the transcriptional and physiological responses to hypoxia
Alberto Dinarello, Riccardo Massimiliano Betto, Chiara Cioccarelli, Linda Diamante, Giacomo Meneghetti, Margherita Peron, Annachiara Tesoriere, Claudio Laquatra, Natascia Tiso, Graziano Martello, Francesco Argenton

CLASS-II KNOX genes coordinate spatial and temporal patterns of the tomato ripening
Alexandra Keren-Keiserman, Amit Shtern, Daniel Chalupowicz, Chihiro Furumizu, John Paul Alvarez, Ziva Amsalem, Tzahi Arazi, Sharon Tuvia-Alkalai, Idan Efroni, Elazar Fallik, Alexander Goldshmidt

Connexinplexity: The spatial and temporal expression of connexin genes during vertebrate organogenesis
Rachel M. Lukowicz-Bedford, Dylan R. Farnsworth, Adam C. Miller

PDFGRα+ Stromal Cells Promote Salivary Gland Proacinar Differentiation Through FGF2-dependent BMP7 Signaling
Nicholas Moskwa, Ayma Mahmood, Deirdre A. Nelson, Amber L. Altrieth, Paolo Forni, Melinda Larsen

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

Mechanisms underlying the cooperation between loss of epithelial polarity and Notch signaling during neoplastic growth in Drosophila
Rémi Logeay, Charles Géminard, Patrice Lassus, Miriam Rodríguez-Vázquez, Diala Kantar, Lisa Héron-Milhavet, Bettina Fischer, Sarah J. Bray, Jacques Colinge, Alexandre Djiane

Using light-sheet microscopy to study spontaneous activity in the developing lateral-line system
Qiuxiang Zhang, Katie Kindt

SELENOT deficiency alters projection neuron migration during corticogenesis in mice
Emmanuelle Carpentier, Anthony Falluel-Morel, Lisa Brunet, Magalie Bénard, David Godefroy, Loubna Boukhzar, Arnaud Arabo, Youssef Anouar

SRSF3 is a key regulator of epicardial formation
Irina-Elena Lupu, Andia N. Redpath, Nicola Smart

Mural cell SRF controls pericyte migration, vessel patterning and blood flow
Michael Martin Orlich, Rodrigo Diéguez-Hurtado, Regine Muehlfriedel, Vithiyanjali Sothilingam, Hartwig Wolburg, Cansu Ebru Oender, Pascal Woelffing, Christer Betsholtz, Konstantin Gaengel, Mathias Seeliger, Ralf H. Adams, Alfred Nordheim

Charting ESCRT function reveals distinct and non-compensatory roles in blood progenitor maintenance and lineage choice in Drosophila
Arindam Ray, Yashashwinee Rai, Maneesha S Inamdar

Reemployment of Kupffer’s vesicle cells into axial and paraxial mesoderm via transdifferentiation
Takafumi Ikeda, Kiichi Inamori, Toru Kawanishi, Hiroyuki Takeda

Retinoid-X Receptor Agonists Increase Thyroid Hormone Competence in Lower Jaw Remodeling of Pre-Metamorphic Xenopus laevis tadpoles
Brenda J. Mengeling, Lara F. Vetter, J. David Furlow

ESR2 regulates indian hedgehog signaling in neonatal rat ovary
Iman Dilower, V. Praveen Chakravarthi, Eun B. Lee, Subhra Ghosh, Shaon Borosha, Richita Roy, Saeed Masumi, Anohita Paul, Hindole Ghosh, Michael W. Wolfe, M. A. Karim Rumi

Ikaros family proteins regulate developmental windows in the mouse retina through convergent and divergent transcriptional programs
Awais Javed, Pierre Mattar, Allie Cui, Michel Cayouette

Maternal parity affects Day 8 embryo gene expression in old mares
Emilie Derisoud, Luc Jouneau, Clothilde Gourtay, Anne Margat, Catherine Archilla, Yan Jaszczyszyn, Rachel Legendre, Nathalie Daniel, Nathalie Peynot, Michèle Dahirel, Laurie Briot, Frédéric De Geoffroy, Véronique Duranthon, Pascale Chavatte-Palmer

Cell-state transitions and collective cell movement generate an endoderm-like region in gastruloids
Ali Hashmi, Sham Tlili, Pierre Perrin, Alfonso Martinez-Arias, Pierre-François Lenne

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

Coupling adipose tissue architecture and metabolism via cytoophidia
Jingnan Liu, Yuanbing Zhang, Youfang Zhou, Qiao-Qi Wang, Kang Ding, Suwen Zhao, Pengfei Lu, Ji-Long Liu

From the formation of embryonic appendages to the color of wings: Conserved and novel roles of aristaless1 in butterfly development
Erick X. Bayala, Nicholas VanKuren, Darli Massardo, Marcus Kronforst

CTP synthase does not form cytoophidia in Drosophila interfollicular stalks
Zheng Wu, Ji-Long Liu

Neighbor-specific gene expression revealed from physically interacting cells during mouse embryonic development
Junil Kim, Michaela Mrugala Rothová, Linbu Liao, Siyeon Rhee, Guangzheng Weng, Eyal David, Ido Amit, Morteza Chalabi Hajkarim, Joshua M. Brickman, Kyoung Jae Won

A Notch-dependent transcriptional mechanism controls expression of temporal patterning factors in Drosophila medulla
Alokananda Ray, Xin Li

Prdm16 and Notch functionally and physically interact during artery development
Manu Beerens, Jore Van Wauwe, Sander Craps, Margo Daems, KC Ashmita, Chris Finck, Shane Wright, Nicholas D. Leigh, Calum A. MacRae, Aernout Luttun

The RNA helicase DDX6 controls early mouse embryogenesis by repressing aberrant inhibition of BMP signaling through miRNA-mediated gene silencing
Jessica Kim, Masafumi Muraoka, Rieko Ajima, Hajime Okada, Atsushi Toyoda, Hiroshi Mori, Yumiko Saga

IGF1 Signaling in Temporomandibular Joint Fibrocartilage Stem Cells Regulates Cartilage Growth and Homeostasis in Mice
Ruiye Bi, Xueting Luo, Qianli Li, Peiran Li, Yi Fan, Binbin Ying, Songsong Zhu

| Morphogenesis & mechanics

Spontaneous rotations in epithelia as an interplay between cell polarity and RhoA activity at boundaries
S. Lo Vecchio, O. Pertz, M. Szopos, L. Navoret, D. Riveline

The roles of distinct Ca2+ signaling mediated by Piezo and inositol triphosphate receptor (IP3R) in the remodeling of E-cadherin during cell dissemination
Alejandra J.H. Cabrera, Barry M. Gumbiner, Young V. Kwon

Cell Wall Biochemistry Drives Pollen Tube Mechanics and Affects Growth Rate
Hannes Vogler, Gautam Munglani, Tohnyui Ndinyanka Fabrice, Christian Draeger, Jan T. Burri, Christof Eichenberger, J. Paul Knox, Jean Claude Mollet, Bradley J. Nelson, Hans J. Herrmann, Christoph Ringli, Ueli Grossniklaus

A myosin chaperone, UNC-45A, is a novel regulator of intestinal epithelial barrier integrity and repair
Susana Lechuga, Alexander X. Cartagena-Rivera, Afshin Khan, Bert I. Crawford, Vani Narayanan, Daniel E. Conway, Jaakko Lehtimäki, Pekka Lappalainen, Florian Rieder, Michelle S. Longworth, Andrei I. Ivanov

Multifaceted control of E-cadherin dynamics by the Adaptor Protein Complex 1 during epithelial morphogenesis
Miguel Ramírez Moreno, Katy Boswell, Helen L. Casbolt, Natalia A. Bulgakova

Calcium fluctuations drive morphological patterning at the onset of Hydra morphogenesis
Erez Braun

Integration of vascular progenitors into functional blood vessels represents a novel mechanism of vascular growth
Sanjeeva Metikala, Michael Warkala, Satish Casie Chetty, Brendan Chestnut, Elizabeth Plender, Olivia Nester, Sophie Astrof, Saulius Sumanas

A lateral protrusion latticework connects neuroepithelial cells and is regulated during neurogenesis
Ioannis Kasioulis, Alwyn Dady, John James, Alan Prescott, Pamela A. Halley, Kate G. Storey

The C. elegans gonadal sheath Sh1 cells extend asymmetrically over a differentiating germ cell population in the proliferative zone
Xin Li, Noor Singh, Camille Miller, India Washington, Bintou Sosseh, Kacy Lynn Gordon

Optogenetic dissection of the roles of actomyosin in the mechanics underlying tissue fluidity
R. Marisol Herrera-Perez, Christian Cupo, Cole Allan, Alicia B. Dagle, Karen E. Kasza

Visceral organ morphogenesis via calcium-patterned muscle contractions
Noah P. Mitchell, Dillon Cislo, Suraj Shankar, Yuzheng Lin, Boris I. Shraiman, Sebastian J. Streichan

Cell cycle difference creates cortical tension difference that separates germ layer fates
Naohito Takatori, Yuuya Tachiki

Morphological aspects of opossum (Didelphis aurita) pancreas during intramarsupial development
Priscila Izabel Santos de Tótaro, Tarcísio De Souza Duarte, Clóvis Andrade Neves, Cláudio Cesar Fonseca, Silene Souza Rodrigues Sartori

Esrrγa regulates nephron development and ciliogenesis by controlling prostaglandin synthesis and cooperation with Ppargc1a
Hannah M. Wesselman, Ana L. Flores-Mireles, Rebecca A. Wingert

Competition for endothelial cell polarity drives vascular morphogenesis
Pedro Barbacena, Maria Dominguez-Cejudo, Catarina G. Fonseca, Manuel Gómez-González, Laura M. Faure, Georgia Zarkada, Andreia A. Pena, Anna Pezzarossa, Daniela Ramalho, Ylenia Giarratano, Marie Ouarné, David Barata, Isabela Fortunato, Lenka H. Misiková, Ian Mauldin, Yulia Carvalho, Xavier Trepat, Pere Roca-Cusachs, Anne Eichmann, Miguel O. Bernabeu, Cláudio A. Franco

Vertebrate hemicentin-1 interacts physically and genetically with nidogen-2
Jin-Li Zhang, Stefania Richetti, Thomas Ramezani, Daniela Welcker, Steffen Lütke, Hans-Martin Pogoda, Julia Hatzold, Frank Zaucke, Douglas R. Keene, Wilhelm Bloch, Gerhard Sengle, Matthias Hammerschmidt

Tetraspanin Cd9b and Cxcl12a/Cxcr4b have a synergistic effect on the control of collective cell migration
KS Marsay, S Greaves, H Mahabaleshwar, CM Ho, H Roehl, PN Monk, T. J. Carney, LJ Partridge

The developing kidney actively negotiates geometric packing conflicts to avoid defects
Louis S. Prahl, John M. Viola, Jiageng Liu, Alex J. Hughes

An interplay between cellular growth and atypical fusion defines morphogenesis of a modular glial niche
Maria Alexandra Rujano, David Briand, Bojana Ðelić, Pauline Spéder

Local mechanical stimuli shape tissue growth in vertebrate joint morphogenesis
Ester Comellas, Johanna E Farkas, Giona Kleinberg, Katlyn Lloyd, Thomas Mueller, Timothy J Duerr, Jose J Muñoz, James R Monaghan, Sandra J Shefelbine

Patterned mechanical feedback establishes a global myosin gradient
Hannah J. Gustafson, Nikolas Claussen, Stefano De Renzis, Sebastian J. Streichan

Tissue-specific inhibition of protein sumoylation uncovers diverse SUMO functions during C. elegans vulval development
Aleksandra Fergin, Gabriel Boesch, Nadja R. Greter, Simon Berger, Alex Hajnal

Spatiotemporal expression of regulatory kinases directs the transition from mitosis to cellular morphogenesis
Shuo Yang, Jennifer McAdow, Yingqiu Du, Jennifer Trigg, Paul H. Taghert, Aaron N. Johnson

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

Mechanics of cell integration in vivo
Guilherme B. Ventura, Aboutaleb Amiri, Raghavan Thiagarajan, Mari Tolonen, Amin Doostmohammadi, Jakub Sedzinski

| Genes & genomes

Interpreting ruminant specific conserved non-coding elements by developmental gene regulatory network
Xiangyu Pan, Zhaoxia Ma, Xinqi Sun, Hui Li, Tingting Zhang, Chen Zhao, Nini Wang, Rasmus Heller, Wing Hung Wong, Wen Wang, Yu Jiang, Yong Wang

Mitochondrial DNA variants segregate during human preimplantation development into genetically different cell lineages that are maintained postnatally
Joke Mertens, Marius Regin, Neelke De Munck, Edouard Couvreu de Deckersberg, Florence Belva, Karen Sermon, Herman Tournaye, Christophe Blockeel, Hilde Van de Velde, Claudia Spits

Nucleolar-based Dux repression is essential for 2-cell stage exit
Sheila Q. Xie, Bryony J. Leeke, Chad Whidling, Ryan T. Wagner, Ferran Garcia-Llagostera, Paul Chammas, Nathan T-F. Cheung, Dirk Dormann, Michael T. McManus, Michelle Percharde

Cellular remodeling and JAK inhibition promote zygotic gene expression in the Ciona germline
Naoyuki Ohta, Lionel Christiaen

A feedback loop between heterochromatin and the nucleopore complex controls germ-cell to oocyte transition during Drosophila oogenesis
Kahini Sarkar, Noor M Kotb, Alex Lemus, Elliot T Martin, Alicia McCarthy, Justin Camacho, Ayman Iqbal, Alex M. Valm, Morgan A Sammons, Prashanth Rangan

An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype
Kathleen C. Keough, Parisha P. Shah, Ketrin Gjoni, Garrett T. Santini, Nadeera M. Wickramasinghe, Carolyn E. Dundes, Ashley Karnay, Angela Chen, Rachel E.A. Salomon, Patrick J. Walsh, Son C. Nguyen, Sean Whalen, Eric F. Joyce, Kyle M. Loh, Nicole Dubois, Katherine S. Pollard, Rajan Jain

ASC proneural transcription factors mediate the timely initiation of the neural program during neuroectodermal to neuroblast transition ensuring progeny fidelity
Vasiliki Theodorou, Aikaterini Stefanaki, Minas Drakos, Dafne Triantafyllou, Christos Delidakis

Comprehensive identification of fetal cis-regulatory elements in the human genome by single-cell multi-omics analysis
Hao Yu, Na Ai, Ping Peng, Yuwen Ke, Xuepeng Chen, Yun Li, Ting Zhao, Shan Jiang, Jiang Liu, Lan Jiang

Pan-primate DNA methylation clocks
Steve Horvath, Amin Haghani, Joseph A. Zoller, Ake T. Lu, Jason Ernst, Matteo Pellegrini, Anna J. Jasinska, Julie A. Mattison, Adam B. Salmon, Ken Raj, Markus Horvath, Kimberly C. Paul, Beate R. Ritz, Todd R. Robeck, Maria Spriggs, Erin E. Ehmke, Susan Jenkins, Cun Li, Peter W. Nathanielsz

Trim41 is essential for preventing X chromosome chaotic synapsis in male mice
Seiya Oura, Toshiaki Hino, Takashi Satoh, Taichi Noda, Takayuki Koyano, Ayako Isotani, Makoto Matsuyama, Shizuo Akira, Kei-ichiro Ishiguro, Masahito Ikawa

Reciprocal zebrafish-medaka hybrids reveal maternal control of zygotic genome activation timing
Krista R. Gert, Luis Enrique Cabrera Quio, Maria Novatchkova, Yixuan Guo, Bradley R. Cairns, Andrea Pauli

Maternally-inherited anti-sense piRNAs antagonize transposon expression in teleost embryos
Yixuan Guo, Krista R. Gert, Svetlana Lebedeva, Magdalena E. Potok, Candice L. Wike, Edward J. Grow, René F. Ketting, Andrea Pauli, Bradley R. Cairns

STAG2 promotes the myelination transcriptional program in oligodendrocytes
Ningyan Cheng, Mohammed Kanchwala, Bret M. Evers, Chao Xing, Hongtao Yu

The Ets protein Pointed P1 represses Asense expression in type II neuroblasts by activating Tailless
Rui Chen, Xiaobing Deng, Sijun Zhu

Parental genomes segregate into different blastomeres during multipolar zygotic divisions leading to mixoploid and chimeric blastocysts
Tine De Coster, Heleen Masset, Olga Tšuiko, Maaike Catteeuw, Nicolas Dierckxsens, Sophie Debrock, Karen Peeraer, Katrien Smits, Ann Van Soom, Joris Robert Vermeesch

Identification and characterization of BEND2 as a novel and key regulator of meiosis during mouse spermatogenesis
Longfei Ma, Dan Xie, Xiwen Lin, Hengyu Nie, Jian Chen, Chenxu Gao, Shuguang Duo, Chunsheng Han

Loss of histone methyltransferase SETD1B in oogenesis results in the redistribution of genomic histone 3 lysine 4 trimethylation
Courtney W. Hanna, Jiahao Huang, Christian Belton, Susanne Reinhardt, Andreas Dahl, Simon Andrews, A. Francis Stewart, Andrea Kranz, Gavin Kelsey

Feedforward regulatory logic underlies robustness of the specification-to-differentiation transition and fidelity of terminal cell fate during C. elegans endoderm development
Chee Kiang Ewe, Erica M. Sommermann, Josh Kenchel, Sagen E. Flowers, Morris F. Maduro, Joel H. Rothman

Interchromosomal interaction of homologous Stat92E alleles regulates transcriptional switch during stem-cell differentiation
Matthew Antel, Madona Masoud, Romir Raj, Ziwei Pan, Sheng Li, Barbara G. Mellone, Mayu Inaba

Cellular remodeling and JAK inhibition promote zygotic gene expression in the Ciona germline
Naoyuki Ohta, Lionel Christiaen

Defining the Transcriptional and Epigenetic Basis of Organotypic Endothelial Diversity in the Developing and Adult Mouse
Manuel E. Cantu Gutierrez, Matthew C. Hill, Gabrielle Largoza, James F. Martin, Joshua D. Wythe

Sperm Histone H3 Lysine 4 tri-methylation serves as a metabolic sensor of paternal obesity and is associated with the inheritance of metabolic dysfunction
Anne-Sophie Pepin, Christine Lafleur, Romain Lambrot, Vanessa Dumeaux, Sarah Kimmins

The distinct effects of MEK and GSK3 inhibition upon the methylome and transcriptome of mouse embryonic stem cells
Julia Spindel, Christel Krueger, Felix Krueger, Evangelia K. Papachristou, Kamal Kishore, Clive S. D’Santos, Wolf Reik

Investigation of Human Endogenous Retrovirus-K (ERVK) Expression and Function in Normal Placentation and Preterm Pregnancy
Jimi L. Rosenkrantz, Michael Martinez, Adithi Mahankali, Lucia Carbone, Shawn L. Chavez

Genome-wide mapping of histone modification H3K4me3 in bovine oocytes and early embryos
Yanna Dang, Lei Luo, Yan Shi, Shuang Li, Shaohua Wang, Kun Zhang

Mouse CHD4-NURD is required for neonatal spermatogonia survival and normal gonad development
Rodrigo O. de Castro, Luciana Previato, Agustin Carbajal, Victor Goitea, Courtney T. Griffin, Roberto J. Pezza

Young transposable elements rewired gene regulatory networks in human and chimpanzee hippocampal intermediate progenitors
Sruti Patoori, Samantha Barnada, Marco Trizzino

TFAP2 paralogs pioneer chromatin access for MITF and directly inhibit genes associated with cell migration
Colin Kenny, Ramile Dilshat, Hannah Seberg, Eric Van Otterloo, Gregory Bonde, Annika Helverson, Eiríkur Steingrímsson, Robert A. Cornell

Non-random sister chromatid segregation mediates rDNA copy number maintenance in Drosophila
George J. Watase, Yukiko M. Yamashita

Intron dynamics reveal principles of gene regulation during the maternal-to-zygotic transition
Kent Riemondy, Jesslyn C. Henriksen, Olivia S. Rissland

Critical role of H3K27 methylation in cell fate determination of two cell lineages in male gametophyte
Xiaorong Huang, Meng-Xiang Sun

Dynamics of sex-biased gene expression during development in the stick insect Timema californicum
Djordjevic Jelisaveta, Dumas Zoé, Robinson-Rechavi Marc, Schwander Tanja, Parker Darren James

A Unified Genomic Mechanism of Cell-Fate Change
Masa Tsuchiya, Alessandro Giuliani, Giovanna Zimatore, Jekaterina Erenpreisa, Kenichi Yoshikawa

Analysis of transcriptional changes associated with pubertal development
Justyna Resztak, Jane Choe, Julong Wei, Rachel Bruinsma, Russell Houpt, Adnan Alazizi, Henriette E. Mair-Meijers, Richard B. Slatcher, Samuele Zilioli, Roger Pique-Regi, Francesca Luca

| Stem cells, regeneration & disease modelling

Identification and Characterization of Stem Cells in Mammalian Esophageal Stratified Squamous Epithelia
Yanan Yang, Guodong Deng, Lili Qiao, Hui Yuan, Xiaohong Yu, Lei Xu, Shih-Hsin Lu, Wei Jiang, Xiying Yu

Trisomy 21 induces pericentrosomal crowding disrupting early stages of primary ciliogenesis and mouse cerebellar development
Cayla E Jewett, Bailey L McCurdy, Eileen T O’Toole, Katherine S Given, Carrie H Lin, Valerie Olsen, Whitney Martin, Laura G Reinholdt, Joaquin M Espinosa, Kelly D Sullivan, Wendy B Macklin, Rytis Prekeris, Chad G Pearson

Pluripotency-Independent Induction of Human Trophoblast Stem Cells from Fibroblasts
Moriyah Naama, Ahmed Radwan, Valery Zayat, Shulamit Sebban, Moran Rahamim, Rachel Lasry, Mohammad Jaber, Ofra Sabag, Hazar Yassen, Dana Orzech, Areej Khatib, Silvina Epsztejn-Litman, Michal Novoselsky-Persky, Kirill Makedonski, Noy Deri, Debra Goldman-Wohl, Howard Cedar, Simcha Yagel, Rachel Eiges, Yosef Buganim

MTG16 (CBFA2T3) represses E protein-dependent transcription to regulate colonic secretory cell differentiation, epithelial regeneration, and tumorigenesis
Rachel E. Brown, Justin Jacobse, Shruti A. Anant, Koral M. Blunt, Bob Chen, Paige N. Vega, Chase T. Jones, Jennifer M. Pilat, Frank Revetta, Aidan H. Gorby, Kristy R. Stengel, Yash A. Choksi, Kimmo Palin, M. Blanca Piazuelo, M. Kay Washington, Ken S. Lau, Jeremy A. Goettel, Scott W. Hiebert, Sarah P. Short, Christopher S. Williams

MicroRNA-24-3p promotes skeletal muscle differentiation and regeneration by regulating HMGA1
Paromita Dey, Miles A. Soyer, Bijan K. Dey

Notch-dependent DNA cis-regulatory elements and their dose-dependent control of C. elegans stem cell self-renewal
Tina R Lynch, Mingyu Xue, Cazza W. Czerniak, ChangHwan Lee, Judith Kimble

Base editing in bovine embryos reveals a species-specific role of SOX2 in regulation of pluripotency
Lei Luo, Yan Shi, Huanan Wang, Zizengchen Wang, Yanna Dang, Shuang Li, Shaohua Wang, Kun Zhang

Transgenerational impact of aberrant inflammation in rat pregnancy
Takafumi Ushida, Tiziana Cotechini, Nicole Protopappas, Aline Atallah, Charlotte Collyer, Shannyn K. Macdonald-Goodfellow, M. Yat Tse, Louise M. Winn, Stephen C. Pang, Michael A. Adams, Maha Othman, Tomomi Kotani, Hiroaki Kajiyama, Charles H. Graham

Interchromosomal interaction of homologous Stat92E alleles regulates transcriptional switch during stem-cell differentiation
Matthew Antel, Madona Masoud, Romir Raj, Ziwei Pan, Sheng Li, Barbara G. Mellone, Mayu Inaba

Transcriptional evaluation of the ductus arteriosus at the single-cell level uncovers a requirement for vimentin for complete closure
Jocelynda Salvador, Gloria E. Hernandez, Feiyang Ma, Cyrus W. Abrahamson, Matteo Pellegrini, Robert Goldman, Karen M. Ridge, M. Luisa Iruela-Arispe

Oxytocin promotes epicardial cell activation and heart regeneration after cardiac injury
Aaron H. Wasserman, Yonatan R. Lewis-Israeli, Amanda R. Huang, McKenna D. Dooley, Allison L. Mitchell, Manigandan Venkatesan, Aitor Aguirre

Transcription factor induction of vascular blood stem cell niches in vivo
Elliott J. Hagedorn, Julie R. Perlin, Rebecca J. Freeman, Samuel J. Wattrus, Tianxiao Han, Clara Mao, Ji Wook Kim, Inés Fernández-Maestre, Madeleine L. Daily, Christopher D’Amato, Michael J. Fairchild, Raquel Riquelme, Brian Li, Dana A.V.E. Ragoonanan, Khaliun Enkhbayar, Emily L. Henault, Helen G. Wang, Shelby E. Redfield, Samantha H. Collins, Asher Lichtig, Song Yang, Yi Zhou, Balvir Kunar, Jesus Maria Gomez-Salinero, Thanh T. Dinh, Junliang Pan, Karoline Holler, Henry A. Feldman, Eugene C. Butcher, Alexander van Oudenaarden, Shahin Rafii, J. Philipp Junker, Leonard I. Zon

Impaired ability in visual-spatial attention in Chinese children with developmental dyslexia
Mengyu Tian, Runzhou Wang, Hong-Yan Bi

Chigno/CG11180 and SUMO are Chinmo-Interacting Proteins with a Role in Drosophila Testes Stem Cells
Leanna Rinehart, Wendy E. Stewart, Natalie Luffman, Matthew Wawersik, Oliver Kerscher

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

Krüppel-like factor 4 is required for development and regeneration of germline and yolk cells from somatic stem cells in planarians
Melanie Issigonis, Akshada B. Redkar, Tania Rozario, Umair W. Khan, Rosa Mejia-Sanchez, Sylvain W. Lapan, Peter W. Reddien, Phillip A. Newmark

Somatic regulation of female germ cell regeneration and development in planarians
Umair W. Khan, Phillip A. Newmark

Highly efficient Runx1 enhancer eR1-mediated genetic engineering for fetal, child and adult hematopoietic stem cells
Cai Ping Koh, Avinash Govind Bahirvani, Chelsia Qiuxia Wang, Tomomasa Yokomizo, Cherry Ee Lin Ng, Linsen Du, Vinay Tergaonkar, Dominic Chih-Cheng Voon, Hiroki Hosoi, Takashi Sonoki, Mok Meng Huang Michelle, Akiko Niibori-Nambu, Yi Zhang, Archibald S. Perkins, Zakir Hossain, Daniel G. Tenen, Yoshiaki Ito, Byrappa Venkatesh, Motomi Osato

Systematic mapping of rRNA 2’-O methylation during frog development and involvement of the methyltransferase Fibrillarin in eye and craniofacial development in Xenopus laevis
Jonathan Delhermite, Lionel Tafforeau, Sunny Sharma, Virginie Marchand, Ludivine Wacheul, Ruben Lattuca, Simon Desiderio, Yuri Motorin, Eric Bellefroid, Denis L.J. Lafontaine

Over 400 million years of cooperation: Untangling the chondrocranium-dermatocranium connection
Susan M. Motch Perrine, M. Kathleen Pitirri, Emily L. Durham, Mizuho Kawasaki, Hao Zheng, Danny Z. Chen, Kazuhiko Kawasaki, Joan T. Richtsmeier

Transient grb10a Knockdown Permanently Alters Growth, Cardiometabolic Phenotype and the Transcriptome in Danio rerio
Bridget L Evans, Terence Garner, Chiara De Leonibus, Oliver H Wearing, Holly A Shiels, Adam F L Hurlstone, Peter E Clayton, Adam Stevens

Transplantable human thyroid organoids generated from embryonic stem cells to rescue hypothyroidism
Mírian Romitti, Barbara de Faria da Fonsecaa, Gilles Doumont, Pierre Gillotay, Adrien Tourneur, 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

HSC-independent definitive hematopoietic cells persist into adult life
Michihiro Kobayashi, Haichao Wei, Takashi Yamanashi, David J Shih, Nathalia Azevedo Portilho, Samuel Cornelius, Noemi Valiente, Chika Nishida, Wenjin J Zheng, Joonsoo Kang, Jun Seita, Jia Qian Wu, Momoko Yoshimoto

Drosophila renal stem cells enhance fitness by delayed remodeling of adult Malpighian tubules
Chenhui Wang, Allan C. Spradling

Single cell profiling of Hofbauer cells and fetal brain microglia reveals shared programs and functions
Alexis M Ceasrine, Rebecca Batorsky, Lydia L. Shook, Sezen Kislal, Evan A. Bordt, Benjamin A. Devlin, Roy H. Perlis, Donna K. Slonim, Staci D. Bilbo, Andrea G. Edlow

Stem cell specific interferon stimulated gene expression is regulated by the formative pluripotency network through IRF1
Merrit Romeike, Stephanie Spach, Marie Huber, Songjie Feng, Gintautas Vainorius, Ulrich Elling, Christa Buecker

Chemical induction of gut β-like-cells by combined FoxO1/Notch inhibition as a glucose-lowering treatment for diabetes
Takumi Kitamoto, Yun-Kyoung Lee, Wendy M. McKimpson, Hitoshi Watanabe, Nishat Sultana, Wen Du, Jason Fan, Bryan Diaz, Hua V. Lin, Rudolph L. Leibel, Sandro Belvedere, Domenico Accili

A phenotypic rescue approach identifies lineage regionalization defects in a mouse model of DiGeorge syndrome
Gabriella Lania, Monica Franzese, Adachi Noritaka, Marchesa Bilio, Annalaura Russo, Erika D’Agostino, Claudia Angelini, Robert G. Kelly, Antonio Baldini

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

Circadian regulation of lung repair and regeneration
Amruta Naik, Kaitlyn Forrest, Yasmine Issah, Utham Valekunja, Akhilesh B Reddy, Elizabeth Hennessy, Thomas S. Brooks, Apoorva Babu, Mike Morley, Gregory R. Grant, Garret A. FitzGerald, Amita Sehgal, G. Scott Worthen, David B. Frank, Edward E Morrisey, Shaon Sengupta

Re-entry into mitosis and regeneration of intestinal stem cells through enteroblast dedifferentiation in Drosophila midguts
Aiguo Tian, Virginia Morejon, Sarah Kohoutek, Yi-Chun Huang, Wu-Min Deng, Jin Jiang

Simple and efficient differentiation of human iPSCs into contractible skeletal muscles for muscular disease modeling
Muhammad Irfanur Rashid, Takuji Ito, Daisuke Shimojo, Kanae Arimoto, Kazunari Onodera, Rina Okada, Takunori Nagashima, Kazuki Yamamoto, Zohora Khatun, Hideyuki Okano, Hidetoshi Sakurai, Kazunori Shimizu, Manabu Doyu, Yohei Okada

Directing iPSC Differentiation into iTenocytes using Combined Scleraxis Overexpression and Cyclic Loading
Angela Papalamprou, Victoria Yu, Angel Chen, Tina Stefanovic, Giselle Kaneda, Khosrowdad Salehi, Chloe Castaneda, Arkadiusz Gertych, Juliane D Glaeser, Dmitriy Sheyn

The IRE1/XBP1 signaling axis promotes skeletal muscle regeneration through a cell non-autonomous mechanism
Anirban Roy, Meiricris Tomaz da Silva, Raksha Bhat, Kyle R. Bohnert, Takao Iwawaki, Ashok Kumar

Single-cell Transcriptomic Analysis Reveals the Cellular Heterogeneity of Mesenchymal Stem Cells
Chen Zhang, Xueshuai Han, Jingkun Liu, Lei Chen, Ying Lei, Kunying Chen, Jia Si, Tian-yi Wang, Hui Zhou, Xiaoyun Zhao, Xiaohui Zhang, Yihua An, Yueying Li, Qian-fei Wang

| Plant development

Initiation of organ maturation and fruit ripening in grapevine is controlled by the CARPO-NAC transcription factor
Erica D’Incà, Chiara Foresti, Luis Orduña, Alessandra Amato, Elodie Vandelle, Antonio Santiago, Alessandro Botton, Stefano Cazzaniga, Edoardo Bertini, Mario Pezzotti, James Giovannoni, Julia Vrebalov, José Tomás Matus, Giovanni Battista Tornielli, Sara Zenoni

Jasmonic Acid coordinates with Light, Glucose and Auxin signalling in Regulating Branching Angle of Arabidopsis Lateral Roots
Manvi Sharma, Mohan Sharma, K Muhammed Jamsheer, Ashverya Laxmi

Dosage of duplicated and antifunctionalized homeobox proteins influences spikelet development in barley
Venkatasubbu Thirulogachandar, Geetha Govind, Götz Hensel, Sandip M. Kale, Markus Kuhlmann, Lennart Eschen-Lippold, Twan Rutten, Ravi Koppolu, Jeyaraman Rajaraman, Sudhakar Reddy Palakolanu, Christiane Seiler, Shun Sakuma, Murukarthick Jayakodi, Justin Lee, Jochen Kumlehn, Takao Komatsuda, Thorsten Schnurbusch, Nese Sreenivasulu

A vacuolar hexose transport is required for xylem development in the inflorescence stem of Arabidopsis
Emilie Aubry, Beate Hoffmann, Françoise Vilaine, Françoise Gilard, Patrick A.W. Klemens, Florence Guérard, Bertrand Gakière, H. Ekkehard Neuhaus, Catherine Bellini, Sylvie Dinant, Rozenn Le Hir

TWISTED DWARF1 regulates Arabidopsis stamen development by differential activation of ABCB-mediated auxin transport
Jie Liu, Roberta Ghelli, Maura Cardarelli, Markus Geisler

SCARECROW is deployed in distinct developmental contexts during rice and maize leaf development
Thomas. E. Hughes, Jane A. Langdale

The regeneration factors ERF114 and ERF115 act as transducers of mechanical cues to developmental pathways
Balkan Canher, Fien Lanssens, Ai Zhang, Anchal Bisht, Shamik Mazumdar, Jefri Heyman, Frauke Augstein, Sebastian Wolf, Annelie Carlsbecker, Charles W. Melnyk, Lieven De Veylder

The transcription factor AtHB23 modulates starch turnover for root development and plant survival under salinity
María Florencia Perotti, Agustín Lucas Arce, Federico Damián Ariel, Carlos María Figueroa, Raquel Lía Chan

The annotation and analysis of complex 3D plant organs using 3DCoordX
Athul Vijayan, Soeren Strauss, Rachele Tofanelli, Tejasvinee Atul Mody, Karen Lee, Miltos Tsiantis, Richard S. Smith, Kay Schneitz

CHIQUITA1 maintains temporal transition between proliferation and differentiation in Arabidopsis thaliana
Flavia Bossi, Benjamin Jin, Elena Lazarus, Heather Cartwright, Yanniv Dorone, Seung Y. Rhee

The dynamics of HD-ZIP III – ZPR protein interactions play essential roles in embryogenesis, meristem function and organ development
Anna Vitlin Gruber, Melissa Kosty, Yasaman Jami-Alahmadi, James A. Wohlschlegel, Jeff A. Long

| Evo-devo

Natural variation in the maternal and zygotic mRNA complements of the early embryo in Drosophila melanogaster
Anna A. Feitzinger, Anthony Le, Ammon Thompson, Mehnoor Haseeb, Mohan K. Murugesan, Austin M. Tang, Susan E. Lott

How to align arthropod legs
Heather S. Bruce

The Daphnia carapace and the origin of novel structures
Heather S. Bruce, Nipam H. Patel

Krüppel-like factor 4 is required for development and regeneration of germline and yolk cells from somatic stem cells in planarians
Melanie Issigonis, Akshada B. Redkar, Tania Rozario, Umair W. Khan, Rosa Mejia-Sanchez, Sylvain W. Lapan, Peter W. Reddien, Phillip A. Newmark

Cephalopod Retinal Development Shows Vertebrate-like Mechanisms of Neurogenesis
Francesca Napoli, Christina M. Daly, Stephanie Neal, Kyle J. McCulloch, Alexandra Zaloga, Alicia Liu, Kristen M. Koenig

A tripartite structure, the complex nuclear receptor element (cNRE), is a cis-regulatory module of viral origin required for atrial chamber preferential gene expression
Luana Nunes Santos, Ângela Maria da Souza Costa, Martin Nikolov, Allysson Coelho Sampaio, Frank E. Stockdale, Gang F Wangø, Hozana Andrade Castillo, Mariana Bortoletto Grizante, Stefanie Dudczig, Michelle Vasconcelos, Nadia Rosenthal, Patricia Regina Jusuf, Paulo de Oliveira, Tatiana Guimarães de Freitas Matos, William Nikovits Jr., Michael Schubert, Mirana Ramialison, José Xavier-Neto

An evolutionarily conserved cis-regulatory element of Nkx3.2 contributes to early jaw joint morphology in zebrafish
Jake Leyhr, Laura Waldmann, Beata Filipek-Górniok, Hanqing Zhang, Amin Allalou, Tatjana Haitina

Life Strategies in Placozoa
Daria Y. Romanova, Mikhail A. Nikitin, Sergey V. Shchenkov, Leonid L. Moroz

Cell Biology

A novel mechanism of bulk cytoplasmic transport by cortical dynein in Drosophila ovary
Wen Lu, Margot Lakonishok, Anna S. Serpinskaya, Vladimir I. Gelfand

Single-particle tracking of dynein identifies PP2A B55/SUR-6 as a cell cycle regulator of cortical force generation
Alan Edwards, John B. Linehan, Vincent Boudreau, Paul S. Maddox

Sequestration of LINE-1 in novel cytosolic bodies by MOV10 restricts retrotransposition
Rajika Arora, Maxime Bodak, Laura Penouty, Cindy Hackman, Constance Ciaudo

Arp2/3 complex activity is necessary for mouse ESC differentiation, times formative pluripotency, and enables lineage specification
Francesca M. Aloisio, Diane L. Barber

Separable mechanisms drive local and global polarity establishment in the C. elegans intestinal epithelium
Melissa A. Pickett, Maria D. Sallee, Victor F. Naturale, Deniz Akpinaroglu, Joo Lee, Kang Shen, Jessica L. Feldman

Placental structure, function and mitochondrial phenotype relate to fetal size and sex in mice
Esteban Salazar-Petres, Daniela Pereira Carvalho, Jorge Lopez-Tello, Amanda Nancy Sferruzzi-Perri

Tracheal tube fusion in Drosophila involves release of extracellular vesicles from multivesicular bodies
Carolina Camelo, Anna Körte, Thea Jacobs, Stefan Luschnig

Mouse oocytes develop in cysts with the help of nurse cells
Wanbao Niu, Allan C. Spradling

Ubiquitin ligases and a processive proteasome facilitate protein clearance during the oocyte-to-embryo transition in Caenorhabditis elegans
Caroline A. Spike, Tatsuya Tsukamoto, David Greenstein

Shaping the size of a neuronal lineage: the role of Imp and Syp RBPs in the precise elimination of neurons by apoptosis
Wenyue Guan, Mathilde Bouchet, Aurélien Darmas, Jonathan Enriquez

The sperm protein Spaca6 is essential for fertilization in zebrafish
Mirjam I. Binner, Anna Kogan, Karin Panser, Alexander Schleiffer, Victoria E. Deneke, Andrea Pauli

Tetraspanin Cd9b plays a role in fertility in zebrafish
S Greaves, KS Marsay, PN Monk, H Roehl, LJ Partridge

Pre-meiotic pairing of homologous chromosomes during Drosophila male meiosis
Thomas Rubin, Nicolas Macaisne, Ana Maria Vallés, Clara Guilleman, Isabelle Gaugué, Jean-René Huynh

CADHERIN mediated AMIS localisation
Xuan Liang, Antonia Weberling, Chun Yuan Hii, Magdalena Zernicka-Goetz, Clare E Buckley

Daughter centrioles assemble preferentially towards the nuclear envelope in Drosophila syncytial embryos
Neil H. J. Cunningham, Imène B. Bouhlel, Paul T. Conduit

Modelling

Modeling the mechanics of growing epithelia with a bilayer plate theory
Joseph Ackermann, Paul-Qiuyang Qu, Loïc LeGoff, Martine Ben Amar

Cells use molecular working memory to navigate in changing chemoattractant fields
Akhilesh Nandan, Abhishek Das, Robert Lott, Aneta Koseska

insideOutside: an accessible algorithm for classifying interior and exterior points, with applications in embryology
Stanley E. Strawbridge, Agata Kurowski, Elena Corujo-Simon, Alexander G. Fletcher, Jennifer Nichols

Scaling dictates the decoder structure
Jingxiang Shen, Feng Liu, Chao Tang

Reconstruction of dynamic regulatory networks reveals signaling-induced topology changes associated with germ layer specification
Emily Y. Su, Abby Spangler, Qin Bian, Jessica Y. Kasamoto, Patrick Cahan

Adhesion strength between cells regulate non-monotonic growth by a biomechanical feedback mechanism
Abdul N Malmi-Kakkada, Sumit Sinha, Xin Li, D. Thirumalai

Active morphogenesis of patterned epithelial shells
Diana Khoromskaia, Guillaume Salbreux

A continuum mathematical model of substrate-mediated tissue growth
Maud El-Hachem, Scott W McCue, Matthew J Simpson

Mechanochemical models for calcium waves in embryonic epithelia
Katerina Kaouri, Paul E. Méndez, Ricardo Ruiz-Baier

Global cell-cell communication enables spatial segregation of cells in organoids of the inner cell mass
Simon Schardt, Sabine C. Fischer

Interfacial friction dictates long-range force propagation in tissues
Yuting Lou, Takumi Kawaue, Ivan Yow, Yusuke Toyama, Jacques Prost, Tetsuya Hiraiwa

Reviews

Morphomics via Next-generation Electron Microscopy
Raku Son, Kenji Yamazawa, Akiko Oguchi, Mitsuo Suga, Masaru Tamura, Yasuhiro Murakawa, Satoshi Kume

Self-organization in embryonic development: myth and reality
Stuart A. Newman

From Single Cells to Flowers – Biological Complexity Driving Plant Reproductive Development
Isabel Schwarz , Manuel Neumann , Rosario Vega , Xiaocai Xu , Letizia Cornaro , Lucia Colombo, Teva Vernoux , Jian Xu , Sebastian Marquardt , Kerstin Kaufmann

Selective Drivers of Simple Multicellularity
Kai Tong , G. Ozan Bozdag , William C. Ratcliff

The Evolution of Hox Genes in Spiralia
Andreas Hejnol, Ludwik Gasiorowski , Jose-Maria Martin-Duran

Tools & Resources

MusMorph, a database of standardized mouse morphology data for morphometric meta-analyses
Jay Devine, Marta Vidal-García, Wei Liu, Amanda Neves, Lucas D. Lo Vercio, Rebecca M. Green, Heather A. Richbourg, Marta Marchini, Colton M. Unger, Audrey C. Nickle, Bethany Radford, Nathan M. Young, Paula N. Gonzalez, Robert E. Schuler, Alejandro Bugacov, Campbell Rolian, Christopher J. Percival, Trevor Williams, Lee Niswander, Anne L. Calof, Arthur D. Lander, Axel Visel, Frank R. Jirik, James M. Cheverud, Ophir Klein, Ramon Y. Birnbaum, Amy E. Merrill, Rebecca R. Ackermann, Daniel Graf, Myriam Hemberger, Wendy Dean, Nils D. Forkert, Stephen A. Murray, Henrik Westerberg, Ralph S. Marcucio, Benedikt Hallgrímsson

A toolkit to generate inducible and interconvertible Drosophila transgenes
Franz Wendler, Sangbin Park, Claire Hill, Alessia Galasso, Kathleen R. Chang, Iman Awan, Yulia Sudarikova, Mar Bustamante-Sequeiros, Sichen Liu, Ethan Sung, Gabrielle Aisabonoko, Seung K. Kim, Luis Alberto Baena-Lopez

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

Self-organized emergence of hyaline cartilage in hiPSC-derived multi-tissue organoids
Manci Li, Juan E. Abrahante, Amanda Vegoe, Yi Wen Chai, Beth Lindborg, Ferenc Toth, Peter A. Larsen, Timothy D. O’Brien

A deep learning framework for quantitative analysis of actin microridges
Rajasekaran Bhavna, Mahendra Sonawane

Chromosome counting in the mouse zygote using low-invasive super-resolution live-cell imaging
Yu Hatano, Daisuke Mashiko, Mikiko Tokoro, Tatsuma Yao, Kazuo Yamagata

A powerful and versatile new fixation protocol for immunohistology and in situ hybridization that preserves delicate tissues in planaria
Carlos Guerrero-Hernández, Viraj Doddihal, Frederick G. Mann Jr., Alejandro Sánchez Alvarado

A method to quantitate maternal transcripts localized in sea urchin egg cortex by RT-qPCR with accurate normalization
Yulia O. Kipryushina, Mariia A. Maiorova, Konstantin V. Yakovlev

Robust temporal map of human in vitro myelopoiesis using single-cell genomics
Clara Alsinet, Maria Primo, Valentina Lorenzi, Andrew J Knights, Carmen Sancho-Serra, Jong-Eun Park, Beata S Wyspianska, David F Tough, Damiana Alvarez-Errico, Daniel J Gaffney, Roser Vento-Tormo

DeepProjection: Rapid and structure-specific projections of tissue sheets embedded in 3D microscopy stacks using deep learning
Daniel Haertter, Xiaolei Wang, Stephanie M. Fogerson, Nitya Ramkumar, Janice M. Crawford, Kenneth D. Poss, Stefano Di Talia, Daniel P. Kiehart, Christoph F. Schmidt

Paraxial mesoderm organoids model development of human somites
Christoph Budjan, Shichen Liu, Adrian Ranga, Senjuti Gayen, Olivier Pourquie, Sahand Hormoz

Single-cell Atlas Unveils Cellular Heterogeneity and Novel Markers in Human Neonatal and Adult Intervertebral Discs
Wensen Jiang, Juliane D. Glaeser, Khosrowdad Salehi, Giselle Kaneda, Pranav Mathkar, Anton Wagner, Ritchie Ho, Dmitriy Sheyn

Rapid and efficient adaptation of the dTAG system in mammalian development reveals stage specific requirements of NELF
Abderhman Abuhashem, Anna-Katerina Hadjantonakis

A single-cell transcriptome atlas of human early embryogenesis
Yichi Xu, Tengjiao Zhang, Qin Zhou, Mengzhu Hu, Yao Qi, Yifang Xue, Lihui Wang, Zhirong Bao, Weiyang Shi

Single-cell transcriptome reveals insights into the development and function of the zebrafish ovary
Yulong Liu, Michelle E. Kossack, Matthew E. McFaul, Lana Christensen, Stefan Siebert, Sydney R. Wyatt, Caramai Kamei, Samuel Horst, Nayeli Arroyo, Iain Drummond, Celina E. Juliano, Bruce W. Draper

Spatial charting of single cell transcriptomes in tissues
Runmin Wei, Siyuan He, Shanshan Bai, Emi Sei, Min Hu, Alastair Thompson, Ken Chen, Savitri Krishnamurthy, Nicholas E. Navin

The Tabula Sapiens: a multiple organ single cell transcriptomic atlas of humans
The Tabula Sapiens Consortium, Stephen R Quake

Transgenic tools for targeted chromosome rearrangements allow construction of balancer chromosomes in non-melanogaster Drosophila species
David L. Stern

When less is more – Endogenous tagging with TurboID increases the sensitivity of proximity labelling-based experiments
Alexander Stockhammer, Laila S. Benz, Christian Freund, Benno Kuropka, Francesca Bottanelli

Fast DNA-PAINT imaging using a deep neural network
Kaarjel K. Narayanasamy, Johanna V. Rahm, Siddharth Tourani, Mike Heilemann

Simultaneous multicolor DNA-PAINT without sequential fluid exchange using spectral demixing
Niclas Gimber, Sebastian Strauss, Ralf Jungmann, Jan Schmoranzer

Single organoid RNA-sequencing reveals high organoid-to-organoid variability
Kristin Gehling, Swati Parekh, Farina Schneider, Marcel Kirchner, Vangelis Kondylis, Chrysa Nikopoulou, Peter Tessarz

Stain-free Detection of Embryo Polarization using Deep Learning
Cheng Shen, Adiyant Lamba, Meng Zhu, Ray Zhang, Changhuei Yang, Magdalena Zernicka Goetz

4Dia: A tool for automated 4D microscope image alignment
Nimmy S. John, Michelle A. Urman, ChangHwan Lee

Research practice & education

Gender Imbalance in the Editorial Activities of a Researcher-led Journal
Tal Seidel Malkinson, Devin B. Terhune, Mathew Kollamkulam, Maria J. Guerreiro, Dani S. Bassett, Tamar R. Makin

Assessing Motivations and Barriers to Science Outreach within Academia: A Mixed-Methods Survey
Nicole C. Woitowich, Geoffrey C. Hunt, Lutfiyya N. Muhammed, Jeanne Garbarino

The Effect of COVID-19 on the Postdoctoral Experience: a comparison of pre-pandemic and pandemic surveys
Andréanne Morin, Britney A. Helling, Seetha Krishnan, Laurie E. Risner, Nykia D. Walker, Nancy B. Schwartz

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Mark your diaries and get your applications in for the upcoming Workshops run by The Company of Biologists.  Three Workshops that are of particular interest to developmental and stem cell biologists are currently accepting applications for funded places from early-career researchers:

• The Biology and Physics of Left-Right Patterning, 5-8 June 2022 – application deadline: 17 December 2021
• Fostering Quantitative Modelling and Experimentation in Developmental Biology, 10-13 July 2022 – application deadline: 7 January 2022
• Cell State Transitions: Approaches, Experimental Systems and Models, 24-27 July 2022 – application deadline: 21 January 2022

Want to know more about the format of our Workshops, and how and why you should apply? Our Science Communications Officer, Laura Hankins explains more here.

For a full list of 2022 Workshops, visit https://www.biologists.com/workshops/

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