-
Boosting the toolbox for live imaging of translation bioRxiv. Dev. Biol. Pub Date : 2024-03-18 Maelle Bellec, Ruoyu Chen, Jana Dhayni, Antonio Trullo, Damien Avinens, Hussein Karaki, Flavia Mazzarda, Helene Lenden-Hasse, Cyril Favard, Ruth Lehmann, Edouard Bertrand, Mounia Lagha, Jeremy Dufourt
Live imaging of translation based on a tag recognition by a single chain antibody is a powerful technique to assess translation regulation in living cells. However, especially in a multicellular organism, this approach is challenging and requires optimization in terms of expression level and detection sensitivity of the system. Here, we improved existing fluorescent tools and developed new ones to
-
Retinoic acid, an essential component of the RP organizer, promotes the spatio-temporal segregation of dorsal neural fates bioRxiv. Dev. Biol. Pub Date : 2024-03-17 Dina Rekler, Shai Ofek, Sarah Kagan, Gilgi Friedlander, Chaya Kalcheim
Dorsal neural tube-derived retinoic acid promotes the end of neural crest production and transition into a definitive roof plate. Here we analyze how this impacts the segregation of central and peripheral lineages, a process essential for tissue patterning and function. Localized in-ovo inhibition of retinoic acid activity followed by single cell transcriptomics unraveled a comprehensive list of differentially
-
See-Star: a versatile hydrogel-based protocol for clearing large, opaque and calcified marine invertebrates bioRxiv. Dev. Biol. Pub Date : 2024-03-17 D. Nathaniel Clarke, Laurent Formery, Christopher J Lowe
Studies of morphology and developmental patterning in adult stages of many invertebrates are hindered by opaque structures, such as shells, skeletal elements, and pigment granules that block or refract light and necessitate sectioning for observation of internal features. An inherent challenge in studies relying on surgical approaches is that cutting tissue is semi-destructive, and delicate structures
-
N-acetyltransferase 10-mediated mRNA N4-acetylation is Essential for the Translational Regulation During Oocyte Meiotic Maturation in Mice bioRxiv. Dev. Biol. Pub Date : 2024-03-17 Lu Chen, Shao-Yuan Liu, Rui-Bao Su, Yu-Ke Wu, Wen-Jing Wang, Xuan Wu, Song-Ying Zhang, Jie Qiao, Qian-Qian Sha, Heng-Yu Fan
Mammalian oocyte maturation is driven by the strict translational regulation of maternal mRNAs stored in the cytoplasm. However, the function and mechanism of post-transcriptional chemical modifications, especially the newly identified N4-acetylcytidine (ac4C) modification catalyzed by N-acetyltransferase 10 (NAT10), are unknown. In this study, we developed a low-input ac4C sequencing technology, ac4C
-
Transcriptional dynamics of the murine heart during perinatal development at single-cell resolution bioRxiv. Dev. Biol. Pub Date : 2024-03-16 Lara Feulner, Florian Wuennemann, Jenna Liang, Philipp Hofmann, Marc-Phillip Hitz, Denis Schapiro, Severine Leclerc, Patrick Piet van Vliet, Gregor Andelfinger
Heart maturation and remodelling during the foetal and early postnatal period are critical for proper survival and growth of the foetus, yet our knowledge of the molecular processes involved are lacking for many cardiac cell types. To gain a deeper understanding of the transcriptional dynamics of the heart during the perinatal period, we performed single-cell RNA-seq on E14.5, E16.5, E18.5, P0, P4
-
Hox-A2 protein expression in avian jaws cartilages and muscle primordia development bioRxiv. Dev. Biol. Pub Date : 2024-03-16 Stephane M Louryan, Myriam Duterre, Nathalie Vanmuylder
Objective: to elucidate the branchial origin of the articular and the square (homology of the malleus and the incus of mammals), we used immunohistochemistry to analyse the expression of the Hox-A2 protein during cephalogenesis in chickens. Materials and methods: immunohistochemistry on paraffin sections of embryos from stage HH16 to HH40. Results: in addition to the columella (equivalent to the mammalian
-
Crosstalk of the MAP3K1 and EGFR pathways mediates gene-environment interactions that disrupt developmental tissue closure bioRxiv. Dev. Biol. Pub Date : 2024-03-15 Jingjing Wang, Bo Xiao, Eiki Kimura, Maureen Mongan, Wei-wen Hsu, Mario Medvedovic, Alvaro Puga, Ying Xia
Aberrant signal transduction pathways can adversely derail developmental processes. One such process is embryonic eyelid closure that requires MAP3K1. Map3k1 knockout mice have defective eyelid closure and an autosomal recessive eye-open at birth phenotype. In utero exposure to dioxin, a persistent environmental toxicant, causes the same eye defect in Map3k1+/- hemizygous but not wild type pups. Here
-
Supercentenarian and remarkable age records exhibit patterns indicative of clerical errors and pension fraud bioRxiv. Dev. Biol. Pub Date : 2024-03-14 Saul Justin Newman
The observation of individuals attaining remarkable ages, and their concentration into geographic sub-regions or 'blue zones', has generated considerable scientific interest. Proposed drivers of remarkable longevity include high vegetable intake, strong social connections, and genetic markers. Here, we reveal new predictors of remarkable longevity and 'supercentenarian' status. In the United States
-
Venom gland organogenesis in the common house spider bioRxiv. Dev. Biol. Pub Date : 2024-03-14 Afrah Hassan, Grace Blakeley, Alistair P. McGregor, Giulia Zancolli
Venom is a remarkable innovation found across the animal kingdom, yet the evolutionary origins of venom systems in various groups, including spiders, remain enigmatic. Here, we investigated the organogenesis of the venom apparatus in the common house spider, Parasteatoda tepidariorum. The venom apparatus consists of a pair of secretory glands, each connected to an opening at the fang tip by a duct
-
An unscheduled switch to endocycles induces a reversible senescent arrest that impairs growth of the Drosophila wing disc bioRxiv. Dev. Biol. Pub Date : 2024-03-14 Yi-Ting Huang, Lauren L. Hesting, Brian R. Calvi
A programmed developmental switch to G / S endocycles results in tissue growth through an increase in cell size. Unscheduled, induced endocycling cells (iECs) promote wound healing but also contribute to cancer. Much remains unknown, however, about how these iECs affect tissue growth. Using the D. melanogaster wing disc as model, we find that populations of iECs initially increase in size but then
-
Non-linear development of EEG coherence in adolescents and young adults shown by the analysis of neurophysiological trajectories and their covariance bioRxiv. Dev. Biol. Pub Date : 2024-03-14 David B Chorlian, Chella Kamarajan, Jacquelyn L Meyers, Ashwini K Pandey, Jian Zhang, Sivan Kinreich, Bernice Porjesz
To contribute to the understanding of changes in the factors governing the development of neural connectivity, the developmental structure of EEG coherence in adolescents and young adults was analyzed using the means, variances, and covariances of high alpha frequency band coherence measures from a set of 27 coherence pairs obtained from a sample of 1426 participants from the COGA study with 5006 observations
-
Eed controls craniofacial osteoblast differentiation and mesenchymal proliferation from the neural crest bioRxiv. Dev. Biol. Pub Date : 2024-03-14 Tim Casey-Clyde, S. John Liu, Juan Antonio Camara Serrano, Camilla Teng, Yoon-Gu Jang, Harish N Vasudevan, Jeffrey O Bush, David R. Raleigh
The histone methyltransferase Polycomb repressive complex 2 (PRC2) is required for specification of the neural crest, and mis-regulation of the neural crest can cause severe congenital malformations. PRC2 is required for induction of the neural crest, but the embryonic, cellular, and molecular consequences of PRC2 activity after neural crest induction are incompletely understood. Here we show that
-
A Foxf1-Wnt-Nr2f1 cascade promotes atrial cardiomyocyte differentiation in zebrafish bioRxiv. Dev. Biol. Pub Date : 2024-03-14 Ugo Coppola, Jennifer Kenney, Joshua S. Waxman
Nr2f transcription factors (TFs) are conserved regulators of vertebrate atrial cardiomyocyte (AC) differentiation. However, little is known about the mechanisms directing Nr2f expression in ACs. Here, we identified a conserved enhancer 3′ to the nr2f1a locus, which we call 3’reg1-nr2f1a (3′reg1), that can promote Nr2f1a expression in ACs. Sequence analysis of the enhancer identified putative Lef/Tcf
-
What makes clocks tick? Characterizing developmental dynamics of adult epigenetic clock sites bioRxiv. Dev. Biol. Pub Date : 2024-03-14 Rosa H Mulder, Alexander Neumann, Janine F Felix, Matthew Suderman, Charlotte A M Cecil
DNA methylation (DNAm) at specific sites can be used to calculate 'epigenetic clocks', which in adulthood are used as indicators of age(ing). However, little is known about how these clock sites 'behave' during development and what factors influence their variability in early life. This knowledge could be used to optimize healthy aging well before the onset of age-related conditions. Here, we leveraged
-
Endogenous Nodal switches Wnt interpretation from posteriorization to germ layer differentiation in geometrically constrained human pluripotent cells bioRxiv. Dev. Biol. Pub Date : 2024-03-14 Miguel Angel Ortiz-Salazar, Elena Camacho-Aguilar, Aryeh Warmflash
The Wnt pathway is essential for inducing the primitive streak, the precursor of the mesendoderm, as well as setting anterior-posterior coordinates. How Wnt coordinates these diverse activities remains incompletely understood. Here, we show that in Wnt-treated human pluripotent cells, endogenous Nodal signaling is a crucial switch between posteriorizing and primitive streak-including activities. While
-
Spatial Dynamics of the Developing Human Heart bioRxiv. Dev. Biol. Pub Date : 2024-03-14 Enikő Lázár, Raphaël Mauron, Žaneta Andrusivová, Julia Foyer, Ludvig Larsson, Nick Shakari, Sergio Marco Salas, Sanem Sariyar, Jan N Hansen, Marco Vicari, Paulo Czarnewski, Emelie Braun, Xiaofei Li, Olaf Bergmann, Christer Sylven, Emma Lundberg, Sten Linnarsson, Mats Nilsson, Erik Sundstrom, Igor Adameyko, Joakim Lundeberg
Heart development relies on a topologically defined interplay between a diverse array of cardiac cells. We finely curated spatial and single-cell measurements with subcellular imaging-based transcriptomics validation to explore spatial dynamics during early human cardiogenesis. Analyzing almost 80,000 individual cells and 70,000 spatially barcoded tissue regions between the 5.5th and 14th postconceptional
-
The pivotal role of Drgx in survival, wiring and identity of T4/T5 neurons bioRxiv. Dev. Biol. Pub Date : 2024-03-14 Laura Gizler, Katharina Schneider, Sarah Steigleder, Simon Benmaamar, Stephan Schneuwly, Mathias Rass
The development of Drosophila melanogaster's T4/T5 motion-sensing neurons has been extensively studied. Despite identifying many genes, important developmental steps remain unknown. This study investigates the Paired-like homeobox transcription factor Dorsal root ganglia homeobox (Drgx) in T4/T5 neuron development. Drgx expression initiates in T4/T5 neuroblasts and persists in mature neurons. Knockdowns
-
Development in context: interferon response networks regulate human fetal thymic epithelial cell differentiation bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Abdulvasey Mohammed, Benjamin Solomon, Priscila Ferreira Slepicka, Kelsea M Hubka, Hanh Dan Nguyen, Wenqing Wang, Martin Arreola, Michael G Chavez, Christine Y Yeh, Doo Kyung Kim, Virginia D Winn, Casey A Gifford, Veronika Kedlian, Jong-Eun Park, Georg A Hollander, Vittorio Sebastiano, Purvesh Khatri, Sarah A. Teichmann, Andrew Gentles, Katja Gabrielle Weinacht
The thymus instructs T cell immunity and central tolerance, yet its therapeutic potential remains untapped. The quest to regenerate thymic function for clinical application is lagging while the signals that drive thymic epithelial cell differentiation remain incompletely understood. Here, we elucidate pathways instructing commitment and specialization of the human thymic epithelial stroma through complementary
-
The gut contractile organoid: a novel model for studying the gut motility regulated by coordinating signals between interstitial cells of Cajal and smooth muscles bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Rei Yagasaki, Ryo Nakamura, Yuuki Shikaya, Ryosuke Tadokoro, Ruolin Hao, Zhe Wang, Mototsugu Eiraku, Masafumi Inaba, Yoshiko Takahashi
The gut undergoes peristaltic movements regulated by intricate cellular interactions. However, they have poorly been explored due to a lack of model system. We here developed a novel contractile organoid that is derived from the muscle layer of chicken embryonic hindgut. The organoid contained smooth muscle cells (SMCs) and interstitial cells of Cajal (ICCs; pacemaker) with few enteric neurons, and
-
Astrocytes control quiescent NSC reactivation via GPCR signaling-mediated F-actin remodeling bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Kun-Yang Lin, Gujar Mahekta, Jiaen Lin, Wei Yung Ding, Jiawen Huang, Yang Gao, Ye Sing Tan, Xiang Teng, Siok Lan Christine Low, Pakorn Kanchanawong, Yusuke Toyama, Hongyan Wang
The transitioning of neural stem cells (NSCs) between quiescent and proliferative states is fundamental for brain development and homeostasis. Defects in NSC reactivation are associated with neurodevelopmental disorders. Drosophila quiescent NSCs extend an actin-rich primary protrusion toward the neuropil. However, the function of the actin cytoskeleton during NSC reactivation is unknown. Here, we
-
Non-apoptotic caspase events and Atf3 expression underlie direct neuronal differentiation of adult neural stem cells bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Frederic Rosa, Nicolas Dray, Laure Bally-Cuif
Neural stem cells (NSCs) are key physiological components of adult vertebrate brains, generating neurons over a lifetime. In the adult zebrafish pallium, NSCs persist at long term through balanced fate decisions that include direct neuronal conversions, i.e., delamination and neurogenesis without a division. The characteristics and mechanisms of these events remain unknown. Here we reanalyze intravital
-
Post-embryonic tail development through molting of the freshwater shrimp Neocaridina denticulata bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Haruhiko Adachi, Nobuko Moritoki, Tomoko Shindo, Kazuharu Arakawa
Background: Understanding postembryonic morphogenesis through molting in arthropods has recently become a focus of developmental biology. The hierarchical mechanisms of epithelial sheet folds play a significant role in this process. Drosophila is a well-studied model for holometabolous insects, with extensive research on imaginal disc growth. While developmental processes in other arthropods have been
-
Neuroprotective role of Hippo signaling by microtubule stability control in C. elegans bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Hanee Lee, Junsu Kang, Dowoon Lee, Sang-Hee Lee, Christine H Chung, Junho Lee
The evolutionarily conserved Hippo (Hpo) pathway has been shown to impact early development and tumorigenesis by governing cell proliferation and apoptosis. However, its post-developmental roles are relatively unexplored. Here, we demonstrate its roles in post-mitotic cells by showing that defective Hpo signaling accelerates age-associated structural and functional decline of neurons in C. elegans
-
Rejuvenation of aged oocyte through exposure to young follicular microenvironment bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Haiyang Wang, Zhongwei Huang, Yaelim Lee, XinJie Song, Xingyu Shen, Chang Shu, Lik Hang Wu, Leroy Sivappiragasam Pakkiri, Poh Leong Lim, Xi Zhang, Chester Lee Drum, Jin Zhu, Rong Li
Reproductive aging is a major cause of fertility decline, attributed to decreased oocyte quantity and competence. Follicular somatic cells play crucial roles in the growth and development of the oocyte by providing nutrients and regulatory factors. Here we investigated how oocyte quality is affected by its somatic cell environment by creating chimeric follicles, whereby an oocyte from one follicle
-
Symmetry breaking and fate divergence during lateral inhibition in Drosophila bioRxiv. Dev. Biol. Pub Date : 2024-03-13 minh-son phan, Jang-mi Kim, cara picciotto, lydie couturier, nisha veits, Khallil Mazouni, francois schweisguth
Lateral inhibition by Notch mediates the adoption of alternative cell fates amongst groups of initially equipotent cells, leading to the formation of regular patterns of cell fates in many tissues across species. Genetic and molecular studies have established a model whereby an intercellular negative feedback loop serves to amplify small stochastic differences in Notch activity, thereby generating
-
An Lgr5-independent developmental lineage is involved in mouse intestinal regeneration bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Maryam Marefati, Valeria Fernandez-Vallone, Morgane Leprovots, Gabriella Vasile, Frederick Libert, Anne Lefort, Gilles Dinsart, Achim Weber, Jasna Jetzer, Marie-Isabelle Garcia, Gilbert Vassart
Collagenase/dispase treatment of intestinal tissue from adult mice generates cells growing in matrigel as immortal cystic spheroids in addition to differentiated organoids. Contrary to classical EDTA-derived organoids, these spheroids display poor intestinal differentiation and are independent of Rspondin/Noggin/EGF for growth. Their transcriptome resembles strikingly that of fetal intestinal spheroids
-
Regenerative clustering of Enteroblasts in the Drosophila midgut revealed by a morphometric analysis bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Fionna Zhu, Michael J Murray
Enteroblasts (EBs) are the cells responsible for the maintenance of the epithelium that lines the adult midgut in Drosophila. In response to cell death and damage, EBs undergo a Mesenchymal-Epithelial-Transition (MET) as they incorporate into the epithelium and differentiate into enterocytes (ECs). The morphogenetic mechanisms driving this MET process are not well understood. To improve phenotypic
-
Cdon is required for organ Left-Right patterning via regulating DFCs migration and the sequential ciliogenesis bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Zhilin Deng, Wenqi Chang, Chengni Li, Botong Li, Shuying Huang, Jingtong Huang, Ke Zhang, Yuanyuan Li, Xindong Liu, Qin Ran, Zhenhua Guo, Sizhou Huang
Cdon and boc are members of the cell adhesion molecule subfamily III Ig/fibronectin. Although they were reported to be involved in muscle and neural development at late developmental stage, while their early roles in embryonic development are unknown. Here we discovered that zebrafish cdon but not boc was expressed in dorsal forerunner cells (DFCs) and epitheliums of Kupffer's vesicle (KV), implying
-
Her9 controls the stemness properties of the hindbrain boundary cells bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Carolyn Engel-Pizcueta, Covadonga Fernandez Hevia, Adria Voltes, Jean LIVET, Cristina Pujades
Different spatiotemporal distribution of progenitor/neurogenic capacities permits that brain regions engage asynchronously in neurogenesis. In the hindbrain, rhombomere progenitor cells are the main contributors to neurons during the first neurogenic phase, whereas boundary cells participate later, relying on Notch3-activity. To analyze the mechanism(s) that maintain boundary cells as proliferative
-
Exploration of phosphoproteomic association during epimorphic regeneration bioRxiv. Dev. Biol. Pub Date : 2024-03-13 Sarena Banu, Anusha P V, Komal Mandal, Mohammed M Idris
Unravelling the intricate patterns of site-specific protein phosphorylation during Epimorphic regeneration holds the key to unlocking the secrets of tissue complexity. Understanding these precise modifications and their impact on protein function could shed light on the remarkable regenerative capacity of tissues, with potential implications for therapeutic interventions. In this study we have systematically
-
Escape from X inactivation is directly modulated by levels of Xist non-coding RNA bioRxiv. Dev. Biol. Pub Date : 2024-03-12 Antonia Hauth, Jasper Panten, Emma Kneuss, Christel Picard, Nicolas Servant, Isabell Rall, Yuvia A Perez-Rico, Lena Clerquin, Nila Servaas, Laura Villacorta, Ferris Jung, Christy Luong, Howard Y Chang, Judith B Zaugg, Oliver Stegle, Duncan T Odom, Agnese Loda, Edith heard
In placental females, one copy of the two X chromosomes is largely silenced during a narrow developmental time window, in a process mediated by the non-coding RNA Xist. Here, we demonstrate that Xist can initiate X-chromosome inactivation (XCI) well beyond early embryogenesis. By modifying its endogenous level, we show that Xist has the capacity to actively silence genes that escape XCI both in neuronal
-
Two opposing roles for Bmp signalling in the development of electrosensory lateral line organs bioRxiv. Dev. Biol. Pub Date : 2024-03-12 Alexander S. Campbell, Martin Minařík, Roman Franěk, Michaela Fučíková, Miloš Havelka, David Gela, Martin Pšenička, Clare V. H. Baker
The lateral line system enables all fishes and aquatic-stage amphibians to detect local water movement via mechanosensory hair cells in neuromasts, and many species to detect weak electric fields via electroreceptors (modified hair cells) in ampullary organs. Both neuromasts and ampullary organs develop from lateral line placodes. However, the molecular mechanisms underpinning ampullary organ formation
-
Sendai virus persistence questions the transient naive reprogramming method for iPSC generation bioRxiv. Dev. Biol. Pub Date : 2024-03-12 Alejandro De Los Angeles, Clemens B Hug, Vadim N Gladyshev, George M Church, Sergiy Velychko
Since the revolutionary discovery of induced pluripotent stem cells (iPSCs) by Shinya Yamanaka, the comparison between iPSCs and embryonic stem cells (ESCs) has revealed significant differences in their epigenetic states and developmental potential. A recent compelling study published in Nature by Buckberry et al.1 demonstrated that a transient-naive-treatment (TNT) could facilitate epigenetic reprogramming
-
Screening of functional maternal-specific chromatin regulators in early embryonic development bioRxiv. Dev. Biol. Pub Date : 2024-03-12 Guifen Liu, Yiman Wang, Xiangxiu Wang, Wen Wang, Zheng Cao, Yong Zhang
The early stages of embryonic development rely on maternal products for proper regulation. However, systematic screening for functional maternal-specific factors has been challenging due to the time- and labor-intensive nature of traditional approaches. Here, we combined a computational pipeline and F0 homozygous mutation technology to screen for functional maternal-specific chromatin regulators in
-
Thymic epithelial organoids mediate T cell development bioRxiv. Dev. Biol. Pub Date : 2024-03-12 Tania Hubscher, Francisco Lorenzo-Martin, Thomas Barthlott, Lucie Tillard, Jakob Langer, Paul Rouse, Clare Blackburn, Georg Clare Hollander, Matthias Lutolf
Although the advent of organoids opened unprecedented perspectives for basic and translational research, immune system-related organoids remain largely underdeveloped. Here we established organoids from the thymus, the lymphoid organ responsible for T cell development. We identified conditions enabling thymic epithelial progenitor cell proliferation and development into organoids with in vivo-like
-
Cell extrusion - a novel mechanism driving neural crest cell delamination bioRxiv. Dev. Biol. Pub Date : 2024-03-12 Emma L Moore, Ruonan Zhao, Mary Cathleen McKinney, Kexi Yi, Christopher L Wood, Paul Trainor
Neural crest cells (NCC) comprise a heterogeneous population of cells with variable potency, that contribute to nearly every tissue and organ system throughout the body. Considered unique to vertebrates, NCC are transiently generated within the dorsolateral region of the neural plate or neural tube, during neurulation. Their delamination and migration are crucial events in embryo development as the
-
Deletion of RFX6, a Diabetes-Associated Gene, Impairs iPSC-Derived Islet Organoid Development and Survival, With No Impact on the Generation of PDX1+/NKX6.1+ Progenitors bioRxiv. Dev. Biol. Pub Date : 2024-03-11 Noura Aldous, Ahmed K. Elsayed, Bushra Memon, Sadaf Ijaz, Sikander Hayat, Essam M. Abdelalim
RFX6 is essential for pancreatic development and insulin secretion, while its role in diabetes pathogenesis is unclear. Here, RFX6 expression was detected in PDX1+ cells in the hESC-derived posterior foregut (PF). However, in the pancreatic progenitors (PPs), RFX6 did not co-localize with PDX1 and NKX6.1, but instead with NEUROG3, NKX2.2, and islet hormones in the endocrine progenitor (EPs) and islets
-
Transcription factor-based transdifferentiation of human embryonic to trophoblast stem cells bioRxiv. Dev. Biol. Pub Date : 2024-03-11 Paula A Balestrini, Ahmed Abdelbaki, Afshan McCarthy, Liani Devito, Claire E Senner, Alice E Chen, Prabhakaran Munusamy, Paul Blakeley, Kay Elder, Phil Snell, Leila Christie, Paul Serhal, Rabi A Odia, Mahesh Sangrithi, Kathy K Niakan, Norah ME Fogarty
During the first week of development, human embryos form a blastocyst comprised of an inner cell mass and trophectoderm (TE) cells, the latter of which are progenitors of placental trophoblast. Here we investigated the expression of transcripts in the human TE from early to late blastocyst stages. We identified enrichment of transcription factors GATA2, GATA3, TFAP2C and KLF5 and characterised their
-
EpicTope: narrating protein sequence features to identify non-disruptive epitope tagging sites bioRxiv. Dev. Biol. Pub Date : 2024-03-11 Joseph Zinski, Henri Chung, Parnal Joshi, Finn Warrick, Brian D Berg, Gregory Glova, Maura Anne McGrail, Darius Balciunas, Iddo Friedberg, Mary C Mullins
Epitope tagging is an invaluable technique enabling the identification, tracking, and purification of proteins in vivo. We developed a tool, EpicTope, to facilitate this method by identifying amino acid positions suitable for epitope insertion. Our method uses a scoring function that considers multiple protein sequence and structural features to determine locations least disruptive to the protein's
-
Self-organization of embryonic stem cells into a reproducible embryo model through epigenome editing bioRxiv. Dev. Biol. Pub Date : 2024-03-11 Gerrald A. Lodewijk, Sayaka Kozuki, Clara Han, Benjamin R. Topacio, Abolfazl Zargari, Seungho Lee, Gavin Knight, Randolph Ashton, Lei S. Qi, S. Ali Shariati
Embryonic stem cells (ESCs) can self-organize in vitro into developmental patterns with spatial organization and molecular similarity to that of early embryonic stages. This self-organization of ESCs requires transmission of signaling cues, via addition of small molecule chemicals or recombinant proteins, to induce distinct embryonic cellular fates and subsequent assembly into structures that can mimic
-
Identification of Neural Crest and Neural Crest-Derived Cancer Cell Invasion and Migration Genes Using High-throughput Screening and Deep Attention Networks bioRxiv. Dev. Biol. Pub Date : 2024-03-10 Jennifer C. Kasemeier-Kulesa, Simon Martina Perez, ruth E Baker, Paul M Kulesa
Background: Cell migration and invasion are well-coordinated processes in development and disease but remain poorly understood. We previously showed that highly migratory neural crest (NC) cells share a 45-gene panel with other cell invasion phenomena, including cancer. To identify critical genes of the 45-gene panel, we performed a high-throughput siRNA screen and used statistical and deep learning
-
A novel protein Moat prevents ectopic epithelial folding by limiting Bazooka/Par3-dependent adherens junctions bioRxiv. Dev. Biol. Pub Date : 2024-03-10 Lingkun Gu, Rolin Sauceda, Jasneet Brar, Ferdos Fessahaye, Minsang Joo, Joan Lee, Jacqueline Nguyan, Marissa Teng, Mo Weng
Cortical myosin contraction and cell adhesion work together to promote tissue shape changes, but how they are modulated to achieve diverse morphogenetic outcomes remains unclear. Epithelial infolding occurs via apical constriction, mediated by apical accumulation of contractile myosin engaged with adherens junctions, as in Drosophila ventral furrow formation. While levels of contractile myosin correlate
-
Multiple Isoforms of the Activin-like receptor Baboon differentially regulate proliferation and conversion behaviors of neuroblasts and neuroepithelial cells in the Drosophila larval brain bioRxiv. Dev. Biol. Pub Date : 2024-03-09 Gyunghee G. Lee, Aidan J. Peterson, Myung-Jun Kim, Michael B. O'Connor, Jae Park
In Drosophila coordinated proliferation of two neural stem cells, neuroblasts (NB) and neuroepithelial (NE) cells, is pivotal for proper larval brain growth that ultimately determines the final size and performance of an adult brain. The larval brain growth displays two phases based on behaviors of NB and NEs: the first one in early larval stages, influenced by nutritional status and the second one
-
Unraveling the Role of MIXL1 Activation in Endoderm Differentiation of Isogenic Human Induced Pluripotent Stem Cells bioRxiv. Dev. Biol. Pub Date : 2024-03-07 Pierre Osteil, Sarah Withey, Nicole Santucci, Nader Aryamanesh, Chi Nam Ignatius Pang, Nazmus Salehin, Jane Sun, Annie Qin, Jiayi Su, Hilary Knowles, Zhaoxiang Cai, George Craft, Mark E Graham, Xiucheng Bella Li, Ernst J Wolvetang, Patrick P.L. Tam
Human induced pluripotent stem cells (hiPSC) possess the ability to differentiate into a multitude of tissue types but display heterogeneity in the propensity of differentiation into specific tissue lineages. An examination of isogenic hiPSC lines revealed variations in the endoderm propensity under directed differentiation conditions. Characterization of the transcriptome and proteome of the hiPSC
-
EyeHex toolbox for complete segmentation of ommatidia in fruit fly eyes bioRxiv. Dev. Biol. Pub Date : 2024-03-07 Huy Tran, Nathalie DOSTATNI, Ariane Ramaekers
Variation in Drosophila compound eye size is studied in various research contexts ranging from evolutionary to biomedical studies. Studying this variation requires the collection of large datasets required for the statistical power of the subsequent analyses. EyeHex is a new tool that automatically and fully segments fruit fly compound eyes from both brightfield and scanning electron microscopy images
-
Comprehensive mapping of sensory and sympathetic innervation of the developing kidney bioRxiv. Dev. Biol. Pub Date : 2024-03-07 Pierre-Emmanuel Y N'Guetta, Sarah R McLarnon, Adrien Tassou, Matan Geron, Sepenta Shirvan, Rose Z Hill, Gregory Scherrer, Lori L O'Brien
The kidney functions as a finely tuned sensor to balance body fluid composition and filter out waste through complex coordinated mechanisms. This versatility requires tight neural control, with innervating efferent nerves playing a crucial role in regulating blood flow, glomerular filtration rate, water and sodium reabsorption, and renin release. In turn sensory afferents provide feedback to the central
-
Astrocytes in the mouse suprachiasmatic nuclei respond directly to glucocorticoids feedback bioRxiv. Dev. Biol. Pub Date : 2024-03-06 Kristian Haendler, Varun K.A. Sreenivasan, Violetta Pilorz, Jon Olano Bringas, Laura Escobar Castanondo, Nora Bengoa-Vergniory, Henrik Oster, Malte Spielmann, Mariana Astiz
The circadian timing system anticipates daily recurring changes in the environment to synchronize physiology. In mammals, the master pacemaker is the hypothalamic suprachiasmatic nuclei (SCN), which synchronizes "wake" functions by inducing the circadian release of Glucocorticoids (GCs) from the adrenal gland. GCs peak right before the active phase and set the time of peripheral clocks, however, it
-
Roles of TYRO3 Family Receptors in Germ Cell Development During Mouse Testis Formation bioRxiv. Dev. Biol. Pub Date : 2024-03-06 Zhenhua Ming, Stefan Bagheri-Fam, Emily R Frost, Janelle M Ryan, Michele D Binder, Vincent R Harley
Objective: To investigate the role of a potential SOX9 target gene, Tyro3, along with its family members, Axl and Mertk (TAM family) in mouse testis development. Design: Experimental laboratory study. Setting: Research institute units. Subject(s): Embryonic day (E)11.5 Swiss mouse gonads for ex vivo gonad culture; Tyro3 knockout mouse embryos. Intervention(s): E11.5 Swiss mouse gonads were cultured
-
Human Pluripotent Stem Cell Derived Organoids Reveal a Role for WNT Signaling in Dorsal-Ventral Patterning of the Hindgut bioRxiv. Dev. Biol. Pub Date : 2024-03-06 Na Qu, Abdelkader Daoud, Daniel O. Kechele, Jorge O Munera
The cloaca is a transient structure that forms in the terminal hindgut giving rise to the rectum dorsally and the urogenital sinus ventrally. Similarly, human hindgut cultures derived from human pluripotent stem cells generate human colonic organoids (HCOs) which also contain co-developing urothelial tissue. In this study, our goal was to identify pathways involved in cloacal patterning and apply this
-
Liebenberg syndrome severity arises from variations in Pitx1 locus topology and ectopically transcribing cells bioRxiv. Dev. Biol. Pub Date : 2024-03-06 Olimpia Bompadre, Raquel Rouco, Fabrice Darbellay, Antonella Rauseo, Fanny Guerard-Millet, Claudia Gentile, Marie Kmita, Guillaume Andrey
Enhancer hijacking, a common cause of gene misregulation linked to disease, occurs when non-matching enhancers and promoters interact ectopically. This interaction is made possible by genetic changes that alter the arrangement or insulation of gene regulatory landscapes. While the concept of enhancer hijacking is well understood, the specific reasons behind the variation in phenotypic severity or the
-
The development of brain pericytes requires expression of the transcription factor nkx3.1 in intermediate precursors bioRxiv. Dev. Biol. Pub Date : 2024-03-06 Suchit Ahuja, Cynthia Adjekukor, Qing Li, Katrinka M Kocha, Nicole Rosin, Elodie Labit, Sarthak Sinha, Ankita Narang, Quan Long, Jeff Biernaskie, Peng Huang, Sarah J Childs
Brain pericytes are one of the critical cell types that regulate endothelial barrier function and activity, thus ensuring adequate blood flow to the brain. The genetic pathways guiding undifferentiated cells into mature pericytes are not well understood. We show here that pericyte precursor populations from both neural crest and head mesoderm of zebrafish express the transcription factor nkx3.1 develop
-
Temporally resolved early BMP-driven transcriptional cascade during human amnion specification bioRxiv. Dev. Biol. Pub Date : 2024-03-06 Nikola Sekulovski, Jenna C Wettstein, Amber E Carleton, Lauren N Juga, Linnea E Taniguchi, Xiaolong Ma, Sridhar Rao, Jenna Kropp Schmidt, Thaddeus Golos, Chien-Wei Lin, Kenichiro Taniguchi
Amniogenesis, a process critical for continuation of healthy pregnancy, is triggered in a collection of pluripotent epiblast cells as the human embryo implants. Previous studies have established that BMP signaling is a major driver of this lineage specifying process, but the downstream BMP-dependent transcriptional networks that lead to successful amniogenesis remain to be identified. This is, in part
-
Mitochondrial dynamics regulate cell size in the developing cochlea bioRxiv. Dev. Biol. Pub Date : 2024-03-06 James DB O'Sullivan, Stephen Terry, Claire A Scott, Anwen Bullen, Daniel J Jagger, Zoe F Mann
In multicellular tissues, cell size and shape are intricately linked with physiological function. In the vertebrate auditory organ, the neurosensory epithelium develops as a mosaic of sensory hair cells (HCs), and their glial-like supporting cells (SCs), which have distinct morphologies at different frequency positions along its tonotopic long axis. In the chick cochlea, the basilar papilla (BP), proximal
-
IPPK-1 and IP6 contribute to ventral nerve cord assembly in C. elegans bioRxiv. Dev. Biol. Pub Date : 2024-03-06 Nathaniel Noblett, Tony Roenspies, Stephane Flibotte, Antonio Colavita
Inositol phosphates (IPs) play important roles in nervous system development and function. One of these roles uncovered by loss-of-function studies, is that IP isomers are essential for proper neural tube formation. In this study, we show that inositol pentakisphosphate 2-kinase (IPPK-1), the kinase that phosphorylates IP5 to generate IP6, is involved in assembling the ventral nerve cord (VNC) in C
-
FMNL2 regulates actin for ER and mitochondria distribution in oocyte meiosis bioRxiv. Dev. Biol. Pub Date : 2024-03-05 Meng-Hao Pan, Zhen-Nan Pan, Ming-Hong Sun, Xiao-Han Li, Jia-Qian Ju, Shi-Ming Luo, Xiang-Hong Ou, Shaochen Sun
During mammalian oocyte meiosis, spindle migration and asymmetric cytokinesis are unique steps for the successful polar body extrusion. The asymmetry defects of oocytes will lead to the failure of fertilization and embryo implantation. In present study we reported that an actin nucleating factor formin-like 2 (FMNL2) played critical roles in the regulation of spindle migration and organelle distribution
-
A disrupted compartment boundary underlies abnormal cardiac patterning and congenital heart defects bioRxiv. Dev. Biol. Pub Date : 2024-03-04 Irfan S Kathiriya, Martin H Dominguez, Kavitha S Rao, Jonathon M. Muncie-Vasic, W. Patrick Devine, Kevin M. Hu, Swetansu K Hota, Bayardo I Garay, Diego Quintero, Piyush Goyal, Megan N Matthews, Reuben Thomas, Tatyana Sukonnik, Dario Miguel-Perez, Sarah Winchester, Emily F Brower, André Forjaz, Pei-Hsun Wu, Denis Wirtz, Ashley L Kiemen, Benoit G. Bruneau
Failure of septation of the interventricular septum (IVS) is the most common congenital heart defect (CHD), but mechanisms for patterning the IVS are largely unknown. We show that a Tbx5+/Mef2cAHF+ progenitor lineage forms a compartment boundary bisecting the IVS. This coordinated population originates at a first- and second heart field interface, subsequently forming a morphogenetic nexus. Ablation
-
Endocardial HDAC3 is required for myocardial trabeculation bioRxiv. Dev. Biol. Pub Date : 2024-03-04 Jihyun Jang, Mette Bentsen, Ye Jun Kim, Erick Kim, Vidu Garg, Chen-Leng Cai, Mario Looso, Deqiang Li
Background: Trabeculation, a key process in early heart development, is the formation of myocardial trabecular meshwork. The failure of trabeculation often leads to embryonic lethality. Support from endocardial cells, including the secretion of extracellular matrix (ECM) and growth factors is critical for trabeculation; however, it is unknown how the secretion of ECM and growth factors is initiated
-
Something old, something new: the origins of an unusual renal cell underpinning a beetle water-conserving mechanism bioRxiv. Dev. Biol. Pub Date : 2024-03-04 Robin Beaven, Takashi Koyama, Muhammad Tayyib Naseem, Kenneth Veland Halberg, Barry Denholm
Tenebrionid beetles have been highly successful in colonising environments where water is scarce, underpinned by their unique osmoregulatory adaptations. These include a cryptonephridial arrangement of their organs, in which part of their renal/Malpighian tubules are bound to the surface of the rectum. This allows them to generate a steep osmotic gradient to draw water from within the rectum and return
-
Cerebellar granule cell migration and folia development requires Mllt11/Af1q/Tcf7c bioRxiv. Dev. Biol. Pub Date : 2024-03-04 Marley Blommers, Danielle Stanton-Turcotte, Emily A. Witt, Mohsen Heidari, Angelo Iulianella
The organization of neurons into distinct layers, known as lamination, is a common feature of the nervous system. This process, which arises from the direct coupling of neurogenesis and neuronal migration, plays a crucial role in the development of the cerebellum, a structure exhibiting a distinct folding cytoarchitecture with cells arranged in discrete layers. Disruptions to neuronal migration can
-
Sex differences in early human fetal brain development bioRxiv. Dev. Biol. Pub Date : 2024-03-04 Federica Buonocore, Jenifer P Suntharalingham, Olumide Ogunbiyi, Aragorn Jones, Nadjeda Moreno, Paola Niola, Tony Brooks, Nita Solanky, Mehul T Dattani, Ignacio del Valle, John C Achermann
The influence of sex chromosomes and sex hormones on early human brain development is poorly understood. We therefore undertook transcriptomic analysis of 46,XY and 46,XX human brain cortex samples (n=64) at four different time points between 7.5 and 17 weeks post conception (wpc), in two independent studies. This developmental period encompasses the onset of testicular testosterone secretion in the