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Differentiation

Elsevier BV

All preprints, ranked by how well they match Differentiation's content profile, based on 11 papers previously published here. The average preprint has a 0.01% match score for this journal, so anything above that is already an above-average fit. Older preprints may already have been published elsewhere.

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Innervation of cranial muscles requires Mllt11/Af1q/Tcf7c function during trigeminal ganglion development

Zinck, N. W.; Stanton-Turcotte, D.; Witt, E. A.; Blommers, M.; Iulianella, A.

2024-02-17 developmental biology 10.1101/2024.02.16.580667 medRxiv
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The development of cranial nerves, including the trigeminal nerve, and the formation of neuromuscular junctions (NMJs) are crucial processes for craniofacial motor function. Mllt11/Af1q/Tcf7c (henceforth Mllt11), a novel type of cytoskeletal-interacting protein, has been implicated in neuronal migration and neuritogenesis during central nervous system development. However, its role in peripheral nerve development and NMJ formation remains poorly understood. This study investigates the function of Mllt11 during trigeminal ganglion development and its impact on motor innervation of the masseter muscle. We report Mllt11 expression in the developing trigeminal ganglia, suggesting a potential role in cranial nerve development. Using a conditional knockout mouse model to delete Mllt11 in Wnt1-expressing neural crest cells, we assessed trigeminal ganglion development and innervation of the masseter muscle in the jaw. Surprisingly, we find that Mllt11 loss does not affect the initial formation of the trigeminal ganglion but disrupts its cellular composition, with a reduction in the ratio of neural crest-derived Sox10+ cells relative to placode-derived Isl1/2+ cells. Furthermore, our study demonstrates that conditional Mllt11 knockout leads to reduction of neurofilament density and NMJs within the masseter muscle, indicating altered trigeminal motor innervation. Our findings show that Mllt11 regulates the cellular composition of the trigeminal ganglion and is essential for proper trigeminal motor innervation in the masseter muscle.

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ISLET-1 knockdown causes abnormal peripheral axonal growth of mesencephalic trigeminal neurones in the chick embryo

Koumoundourou, E. A.; Pop, S.; Graham, A.; Wizenmann, A.

2025-04-19 developmental biology 10.1101/2025.04.17.649275 medRxiv
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The trigeminal is one of the best characterized sensory systems in amniotes. It comprises two populations of first-order sensory neurones: the trigeminal ganglion (TG) which are peripheral to the central nervous system and the mesencephalic trigeminal nucleus (MTN), the only sensory neurones that lie within the central nervous system in amniotes. Islet-1, a LIM homeodomain transcription factor which plays essential roles during embryogenesis, contributes to axon pathfinding of sensory neurons in the TG. However, if Islet-1 plays a similar role in the MTN neurones is unknown. To answer whether Islet-1 is as important for axon guidance in these centrally-located sensory neurons as it is for the peripherally-located TG neurones, we investigated the effect of disrupting Islet-1 on axonal pathfinding in the chick MTN. We employed in ovo electroporation to transfect short interfering RNA for Islet-1 (si-Islet-1) into the dorsal midbrain. Our findings showed that, within the central nervous system, Islet-1 knockdown did not affect axonal growth of MTN neurones. However, reduction of Islet-1 in dorsal midbrain cells led to disorganized axonal growth once outside the central nervous system. As a consequence, we observed an abnormal organisation in the maxillary division of the trigeminal nerve in these embryos.

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Spatiotemporal characterization of periocular mesenchyme heterogeneity during anterior segment development

Famulski, J. K.; Van Der Meulen, K.; Vocking, O.; Weaver, M.

2019-08-05 developmental biology 10.1101/726257 medRxiv
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Establishment of the ocular anterior segment (AS) is a critical event during development of the vertebrate visual system. Failure in this process leads to Anterior Segment Dysgenesis (ASD), which is characterized by congenital blindness and predisposition to glaucoma. The anterior segment is largely formed via a neural crest-derived population, the Periocular Mesenchyme (POM). In this study, we aimed to characterize POM behaviors and identities during zebrafish AS development. POM distributions and migratory dynamics were analyzed using transgenic zebrafish embryos (Tg[foxC1b:GFP], Tg[foxD3:GFP], Tg[pitx2:GFP], Tg[lmx1b.1:GFP], and Tg[sox10:GFP] throughout the course of early AS development (24-72hpf). In vivo imaging analysis revealed unique AS distribution and migratory behavior among the reporter lines, suggesting AS mesenchyme (ASM) is a heterogenous population. This was confirmed using double in situ hybridization. Furthermore, we generated ASM transcriptomic profiles from our reporter lines and using a four-way comparison analysis uncovered unique ASM subpopulation expression patterns. Taken together, our data reveal for the first time that AS-associated POM is not homogeneous but rather comprised of several unique subpopulations identifiable by their distributions, behaviors, and transcriptomic profiles.

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Temporal single cell transcriptome atlas of zebrafish anterior segment development reveals high degree of conservation between the trabecular meshwork and the annular ligament

Vocking, O.; Famulski, J.

2022-10-24 developmental biology 10.1101/2022.10.22.513353 medRxiv
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Anterior segment dysgenesis (ASD), resulting in vision impairment, stems from maldevelopment of anterior segment (AS) tissues. Incidence of ASD has been linked to malfunction of periocular mesenchyme cells (POM). POM cells specify into anterior segment mesenchyme (ASM) cells which colonize and produce AS tissues. In this study we uncover ASM developmental trajectories associated with formation of the AS. Using a transgenic line of zebrafish that fluorescently labels the ASM throughout development, Tg[foxc1b:GFP], we isolated GFP+ ASM cells at several developmental timepoints (48-144hpf) and performed single cell RNA sequencing. Clustering analysis indicates subdifferentiation of ASM as early as 48hpf and subsequent diversification into corneal, epithelium/endothelium/stroma, or annular ligament (AL) lineages. Tracking individual clusters reveals common developmental pathways, up to 72hpf, for the AL and corneal endothelium/stroma, and distinct pathways for corneal epithelium starting at 48hpf. Spatiotemporal validation of over 80 genes found associated AS development demonstrates high degree of conservation with mammalian trabecular meshwork and corneal tissues. In addition, we characterize thirteen novel genes associated with AL and seven with corneal development. Overall, the data provide a molecular verification of the long-standing hypothesis that POM derived ASM give rise to AS tissues and highlight the high degree of conservation between zebrafish and mammals.

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Regulation of neurogenesis and gliogenesis by the matricellular protein CCN2 in the mouse retina

Mohiuddin, G.; Lopez, G.; Sinon, J.; Hartnett, M.; Bulakhova, A.; Chaqour, B.

2021-04-02 developmental biology 10.1101/2021.04.01.438112 medRxiv
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Cellular communication network (CCN) 2 is an extracellular matrix protein with cell type- and context-dependent functions. Using a combination of mouse genetics and omic approaches, we show that CCN2 is expressed in early embryonic retinal progenitor cells (RPCs) and becomes restricted to fully differentiated Muller glial cells (MGCs) thereafter. Germline deletion of CCN2 in mice decreases BrdU labeling, reduces RPC pool, and impairs the competency of remaining RPCs to generate early and late born retinal cell types. Retinal hypocellularity and microphthalmia ensue. The transcriptomic changes associated with CCN2 inactivation include reduced marker and transcriptional regulator genes of retinal ganglion cells, photoreceptors and MGCs. Yap (Yes-associated protein), a singular node for transcriptional regulation of growth and differentiation genes, is also a target of CCN2 signals. In an organotypic model of ex vivo cultured embryonic retinas, CCN2 and YAP immunoreactivity signals overlap. Lentivirus-mediated YAP expression in CCN2-deficient retinal explants increases the number of differentiating Sox9-positive MGCs. Taken together, our data indicate that CCN2 controls the proliferative and differentiation potentials of RPCs ultimately endowing, a subpopulation thereof, with Muller glial cell fate. Summary statementA CCN2-YAP regulatory axis controls retinal progenitor cell growth and lineage commitment to neuronal and glial cell fates.

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Cone photoreceptor ablation in microglia-deficient larval zebrafish retina elicits a regenerative response alongside a compensatory immune cell response

Rumford, J. E.; Farre, A. A.; Mai, J.; Weimar, H. V.; Shelton, C. D.; Morales, M.; Mitchell, D. M.

2026-03-01 developmental biology 10.64898/2026.02.26.708140 medRxiv
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Emerging evidence implicates retinal microglia and inflammation as important components impacting the outcome of retinal regeneration, which is spontaneously achieved in zebrafish retina following acute damage but is limited or blocked in mammals. In this paper, we describe the regenerative response in the larval zebrafish retina following ablation of cone photoreceptors. To investigate the role of microglia in the regenerative response, we used both irf8st95 heterozygote (microglia-sufficient) and irf8st95 homozygous mutant (microglia-deficient) zebrafish. We compared multiple aspects of the regenerative response in irf8+/- and irf8-/- larval retinas, including entry of the Muller glia (MG) into the cell cycle, the amplification of MG-derived progenitor cell (MGPC) proliferation, inflammatory and glial reactivity-associated gene expression, and the regeneration of cones. We found only modest impacts to early and late stages of MGPC proliferation and to inflammatory gene expression in irf8 mutants, with no obvious impacts to the regeneration of cones. Notably, we detected a population of immune cells in irf8 mutants that emerged following cone ablation, which expanded in number then were reduced over time, following a trajectory similar to microglia-sufficient siblings but at markedly reduced abundance. The immune cells detected in irf8 mutants included a subset with L-plastin/4C4 antibody staining patterns different than those in microglia-sufficient siblings, suggesting distinct origins and/or phenotype compared to resident microglia in controls. Though strong conclusions about the role of microglia were limited due to the presence of such immune cell populations in irf8 mutants, our results are consistent with several reports that indicate a role for microglia and inflammation in regulating MGPC proliferation in the regenerating retina. Collectively considered with other reports, our results further indicate that compensatory responses, which may include different immune cells and/or signaling from other retinal cell types such as the Muller glia, are elicited in microglia-deficient retinas upon neuronal damage.

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Expression pattern of UNC5H3 during early development of mesencephalon und cerebellum in chicken

Klafke, R.; Harriman, N.; Wingate, R.; Wizenmann, A.

2025-03-01 developmental biology 10.1101/2025.02.28.640710 medRxiv
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The Netrin receptor Uncoordinated-5 receptor C (UNC5C) or UNC5HA has been shown to regulate cell migration in cerebellum and cortex, to control the guidance of the axons in the developing corticospinal tract and to act as a dependence receptor in apoptosis in mouse and rat. We have examined the distribution of UNC5H3 using whole-mount mRNA in situ hybridisation in the embryonic chick, concentrating on its early expression in the mesencephalic/metencephalic region in relation to known ligands, NETRIN1 and NETRIN2. From E2 (embryonic day 2), while the latter are confined to the ventral midline, UNC5H3 is expressed exclusively at the dorsal midline from the diencephalon caudally. Later in development, UNC5H3 is maintained in the rhombic lip (E5 onwards) and subsequently expressed in its putative derivatives; cerebellar granule cells and nuclei within the avian auditory hindbrain complex and the inferior and superior olive.

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Fgf3 and Fgf10a regulate neuronal fasciculation through Schwann cell proliferation and infiltration in zebrafish posterior lateral line

Wong, H. J.; Matsui, T.; Bessho, Y.; Akiyama, R.

2026-04-07 developmental biology 10.64898/2026.04.05.716528 medRxiv
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BackgroundDuring development, axons are organized into bundles, a process known as axonal fasciculation. The zebrafish lateral line nerve has been used as a model to study axonal fasciculation; however, the underlying mechanisms are not yet fully understood. Although Fgf3 and Fgf10a are well known to regulate the migration of the lateral line primordium along which the lateral line nerve projects, their roles in the organization of the lateral line nerve itself have not been clarified. Resultsfgf3,10a double mutants exhibited lateral line axonal defasciculation accompanied by an increased number of Schwann cells. Live imaging revealed a marked increase in Schwann cell proliferation and demonstrated that newly divided Schwann cells migrate along axons and infiltrate interaxonal spaces, thereby expanding these spaces and disrupting axonal fasciculation. Pharmacological manipulations further implicated a contribution of Nrg1-ErbB signaling to this phenotype. ConclusionsOur findings suggest that Fgf3 and Fgf10a are required to restrict Schwann cell proliferation and infiltration, thereby ensuring axonal fasciculation during lateral line development.

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Modifiers and Mediators of Craniosynostosis Severity Revealed by Differential Gene Expression

Dudakovic, A.; Nam, H. K.; van Wijnen, A. J.; Hatch, N. E.

2020-01-29 developmental biology 10.1101/2020.01.28.923508 medRxiv
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Severity of craniosynostosis in humans varies widely even in patients with identical genetic mutations. In this study we compared RNA sequencing data from cranial tissues of a severe form of Crouzon craniosynostosis syndrome (C57BL/6 FGFR2C342Y/+ mice) with those of a less severe form of Crouzon craniosynostosis (BALB/c FGFR2C342Y/+ mice) to identify genetic modifiers that influence craniosynostosis phenotype severity. Comparison of the mice revealed neonatal onset of coronal suture fusion in the form of suture obliteration in C57BL/6 mice (88% incidence, p<.001 between genotypes). Coronal suture fusion in the form of point fusions across the suture occurred at approximately 4 weeks after birth, with less severe skull shape abnormalities, in BALB/c mice. Substantially fewer genes were differentially expressed in BALB/c FGFR2+/+ vs. FGFR2C342Y/+ mice (87 out of 15,893 expressed genes) than C57BL/6 FGFR2C+/+ vs. FGFR2C342Y/+ mice (2,043 out of 19,097 expressed genes). Further investigation revealed differential expression of coronal suture fusion associated genes, eph/ephrin boundary genes, cell proliferation genes, osteoblast differentiation genes and epigenetic regulators, among others. The most striking pattern in the data was the minimal change in gene expression seen for most genes in BALB/c FGFR2+/+ vs. FGFR2C342Y/+ mice. Analysis of protein processing and lysosomal components support the hypothesis that the craniosynostosis phenotype is less severe in BALB/c mice because the mutant FGFR2C342Y protein is not expressed to the same extent as that seen in C57BL/6 mice. Together, these results suggest that a strategy aimed at increasing degradation of the mutant receptor or downstream signaling inhibition could lead to diminished phenotype severity.

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Lineage tracing reveals atoh7 positive and negative retinal ganglion cell populations in the zebrafish retina

Bennett, D. M.; Newland, R. I.; Veldman, M. B.; Miesfeld, J. B.

2026-03-22 developmental biology 10.64898/2026.03.19.712911 medRxiv
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PurposeAtoh7 is a transiently expressed developmental transcription factor that gives rise to the seven major retinal cell types. Despite this broad lineage, Atoh7 is only required for retinal ganglion cell (RGC) genesis and survival, even though a significant portion of RGCs are Atoh7 negative based on lineage tracing in mice, suggesting a cell nonautonomous role for Atoh7 in the genesis and survival of all RGCs. Atoh7 function is conserved in zebrafish, yet the full retinal lineage, including the RGC population, has remained unidentified. Therefore, we sought to determine the atoh7 retinal lineage in wild type and atoh7 mutant zebrafish retinas. MethodsWe generated atoh7:iCre transgenic zebrafish and in combination with the established ubi:Switch lineage trace permanently labeled cells that represent the atoh7 lineage. A combination of in vivo live imaging and immunohistochemical techniques were used to validate atoh7:iCre transgene expression and the atoh7 lineage in embryonic, larval, and adult retinas as well as the adult brain. ResultsThe atoh7:iCre;ubi:Switch transgene combination successfully recapitulated the onset of endogenous atoh7 expression and transgene fluorophores persisted into adulthood labeling the atoh7 lineage. Most notably, we determined 79% of total RGCs in the wild type retina come from atoh7+ progenitor cells, a greater number than reported in the mouse retina. In atoh7 mutant retinas, we confirmed a complete loss of RGCs and observed a statistically significant increase in the proportion of atoh7+/Pax6+ amacrine cells, as well as an increase in the total number of Prox1+ bipolar cells. Interestingly, we discovered atoh7+ cells located outside the eye in other areas of the central nervous system. ConclusionsThese data demonstrate the presence of atoh7 positive and negative retinal cell types in the zebrafish retina, including RGCs, highlighting the potential to study survival mechanisms of atoh7 negative RGCs and fate switch paradigms using zebrafish retinal development models.

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Distal-less genes Dlx1/Dlx2 repress oligodendrocyte genesis through transcriptional inhibition of Olig2 expression in the developing vertebrate forebrain

Jiang, Q.; Zagozewski, J.; Godbout, R.; Eisenstat, D.

2020-04-10 developmental biology 10.1101/2020.04.09.012385 medRxiv
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In this study, we demonstrate that mouse DLX2 binds to the Olig2 gene locus in mouse embryonic forebrain in vivo. We further confirm the specificity and the transcriptional repressive effect of the binding in vitro. Furthermore, loss of Dlx1/2 function leads to increased Olig2 expression in the ventral embryonic mouse forebrain in vivo. As well, we demonstrate that chicken DLX1 binds to one chicken Olig2 gene domain in vitro, and overexpression of Dlx1 is sufficient to repress Olig2 expression in the developing chicken forebrain in ovo. Chicken DLX1 with a mutation eliminating its DNA binding ability is unable to bind to the Olig2 probe in vitro, and abrogates its repressive function on Olig2 expression in ovo. Our results establish that Dlx1/2 is both necessary and sufficient to repress oligodendrocyte specification mediated via direct transcriptional inhibition of Olig2 expression in the developing vertebrate forebrain.

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Effectiveness of fixation methods for wholemount immunohistochemistry across cellular compartments in chick embryos

Echeverria, C. V.; Leathers, T. A.; Rogers, C. D.

2024-03-25 developmental biology 10.1101/2024.03.23.586361 medRxiv
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The choice of fixation method significantly impacts tissue morphology and protein visualization after immunohistochemistry (IHC). In this study, we compared the effects of paraformaldehyde (PFA) and trichloroacetic acid (TCA) fixation prior to IHC on chicken embryos. Our findings underscore the importance of validating fixation methods for accurate interpretation of IHC results, with implications for antibody validation and tissue-specific protein localization studies. We found that TCA fixation resulted in larger and more circular nuclei compared to PFA fixation. Additionally, TCA fixation altered the appearance of subcellular localization and fluorescence intensity of various proteins, including transcription factors and cytoskeletal proteins. Notably, TCA fixation revealed protein localization domains that may be inaccessible with PFA fixation. These results highlight the need for optimization of fixation protocols depending on the target epitope and model system, emphasizing the importance of methodological considerations in biological analyses.

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DVL1 variants and C-terminal deletions have differential effects on craniofacial development and WNT signaling

Tophkhane, S. S.; Gignac, S. J.; Verheyen, E. M.; Richman, J.

2024-02-29 developmental biology 10.1101/2024.02.28.582602 medRxiv
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Robinow Syndrome (RS) is a rare disease characterized by craniofacial malformations and limb shortening linked with mutations in seven WNT pathway genes. Our objective was to investigate the functional effects of frameshift mutations the intracellular adaptor protein, Dishevelled (DVL1; c.1519{Delta}T, p.Trp507Glyfs*142) on chicken craniofacial development. Misexpression of wt (wt) or mutant hDVL1 variants in vivo caused upper beak shortening (wtDVL1 n=8/14; DVL11519{Delta}T 12/13). At early stages of development, the DVL11519{Delta}T inhibited frontonasal mass narrowing, chondrogenesis, and proliferation. To test whether the phenotypes were caused due to the abnormal C-terminal peptide in DVL11519{Delta}T, we designed two additional constructs. The DVL11519* (DVL1507*) retains first 30 amino acids of the C-terminus while DVL11431* (DVL1477*) removes the entire C-terminus. DVL11519* injected embryos had normal beaks while DVL11431* caused high mortality and the phenotypes were like the DVL11519{Delta}T. In frontonasal micromass cultures, both DVL11519{Delta}T and DVL11431* inhibited skeletogenesis while the DVL11519* resembled wtDVL1 and GFP cultures. In luciferase assays DVL11519{Delta}T, DVL11519*and DVL11431* weakly activated the WNT canonical and non-canonical JNK-PCP pathways compared to wtDVL1. Furthermore, we observed that variant DVL1507*fs is stalled in the nucleus similar to hDVL1477*, possibly due to the abnormal C-terminus interfering with the nuclear export sequence. wtDVL1 and DVL1507* were distributed in nucleus and the cytoplasm. Our RS-DVL11519{Delta}T avian model recapitulates the broad face and jaw hypoplasia and demonstrates defects in both branches of WNT signaling. This is the first study to clarify the role of abnormal C-terminus in ADRS and to recognize the importance of an uncharacterized C-terminal sequence. Summary StatementFunctional and biochemical studies on chicken embryos with the Robinow syndrome (RS) DVL1 variant demonstrate defects in skeletogenesis and both branches of WNT signaling. This is the first study to establish a link between the RS facial defects and the mutated C-terminal sequence. We identified first 30 amino acids of the DVL1 C-terminus are sufficient for normal development.

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Loss of cell cycle control renders cells nonresponsive to local extrinsic differentiation cues

Cerveny, K.; Tower, I.; Lamb, D.; Van Duzer, A.; Bronstein, H.; Hagen, O.; Varga, M.

2019-07-30 developmental biology 10.1101/720276 medRxiv
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Objective and approachesAberrantly proliferating cells are linked to a number of diseases including cancers and developmental defects.To determine the extent to which local extrinsic signals contribute to or ameliorate mutant cell behaviors, we examined survival and differentiation of mutant cells in wild-type retinal environments by generating chimeric zebrafish embryos comprised of unlabeled host cells and GFP-labeled neural progenitor donor cells. In addition, we examined the fate of retinal progenitor cells when cdkn1c, a cyclin dependent kinase inhibitor, was induced in clones within wild-type and hdac1 mutant retinae.\n\nResultsWe found that seven of the ten mutants examined exhibited apoptosis when grafted into wild-type tissue, with cells from two slowly cycling mutants, elys and emi1, noticeably differentiating in a wild-type environment. Observations of the one hyperproliferative mutant, hdac1, revealed that these mutant cells did not appear to die or differentiate but instead survived and formed tumor-like rosettes in a wild-type environment. Ectopic expression of cdkn1c was unable to force cell cycle exit and differentiation of the majority of hdac1 mutant cells.\n\nConclusionsTogether, these results suggest that although a wild-type environment rarely encourages cell cycle exit and differentiation of neural progenitors with cell cycle defects, wild-type survival signals may enable hyperproliferative progenitor cells to persist instead of die.

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Differential roles of diet on development and spinal cord regeneration in larval zebrafish

Puriofy, E. J.; Mruk, K.

2023-06-22 developmental biology 10.1101/2023.06.20.545707 medRxiv
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The zebrafish is a powerful model organism for studying development and regeneration. However, there is a lack of a standardized reference diet. Most studies evaluate the rate of growth, survival and fecundity. In this study, we compare three diets and their effects on growth and regeneration after a spinal cord injury (SCI). Fish were fed daily for one week with daily measurements of overall length and width of spinal injury. Significant different in length after the trial were observed between live feed and commercial feeds. Similarly, differences in rate of regeneration were observed. Our data highlights the need for establishing a standardized diet for regeneration studies to improve research reproducibility.

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Continuous nucleolar ribosomal RNA synthesis in differentiating lens fiber cells until abrupt nuclear degradation required for ocular lens transparency

Rayee, D.; Meier, U. T.; Eliscovich, C.; Cvekl, A.

2024-10-22 developmental biology 10.1101/2024.10.21.619434 medRxiv
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Cellular differentiation requires highly coordinate action of all three transcriptional systems to produce rRNAs, mRNAs, and various "short" and "long" non-coding RNAs by RNA Polymerase I, II, and III systems, respectively. The RNA Polymerase I catalyzes transcription of about 400 copies of rDNA genes generating 18S, 5.8S, and 28S rRNA molecules from the individual primary transcript. Lens fiber cell differentiation is a unique process to study transcriptional mechanisms of individual crystallin genes as their very high transcriptional outputs are directly comparable only to globin genes in erythrocytes. Importantly, both terminally differentiated lens fiber cells and mammalian erythrocytes degrade their nuclei though by different mechanisms. In lens, generation of organelle-free zone (OFZ) includes degradation of mitochondria, endoplasmic reticulum, Golgi apparatus, and nuclei; nevertheless, very little is known about their nucleoli and rRNA transcription. Here, using RNA fluorescence in situ hybridization (FISH) we evaluated nascent rRNA transcription during the entire process of lens fiber cell differentiation. The lens fiber cell nuclei undergo morphological changes prior their denucleation, including chromatin condensation; remarkably, the nascent rRNA transcription persists in all nuclei next to the OFZ. The changes in both nuclei and nucleoli shape and microarchitecture were evaluated by immunofluorescence to detect fibrillarin, nucleolin, UBF, and other nuclear proteins. These studies demonstrate for the first time that highly condensed lens fiber cell nuclei have the capacity to support rRNA transcription. Thus, "late" production of rRNA molecules and consequently the ribosomes contribute to the terminal translational mechanisms to produce maximal quantities of the crystallin proteins.

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Characterisation of lmx1b paralogues in zebrafish reveals divergent roles in skeletal, kidney, and muscle development

Moss, J. J.; Neal, C. R.; Kague, E.; Lane, J.; Hammond, C. L.

2025-08-06 developmental biology 10.1101/2025.08.05.668678 medRxiv
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LMX1B, a LIM-homeodomain family transcription factor, plays critical roles in the development of multiple tissues, including limbs, eyes, kidneys, brain, and spinal cord. Mutations in the human LMX1B gene cause the rare autosomal-dominant disorder, Nail-patella syndrome which affects development of limbs, eyes, brain, and kidneys. In zebrafish, lmx1b has two paralogues: lmx1ba and lmx1bb. While lmx1b morpholino data exists, stable mutants were previously lacking. Here we describe the characterisation of lmx1b stable mutant lines, with a focus on development of tissues which are affected in Nail-patella syndrome. We demonstrate that the lmx1b paralogues have divergent developmental roles in zebrafish, with lmx1ba affecting skeletal and neuronal development, and lmx1bb affecting renal development. The double mutant, representing loss of both paralogues (lmx1b dKO) showed a stronger phenotype which included additional defects to trunk muscle patterning, and a failure to fully inflate the notochord leading to a dramatic reduction in body length. Overall, these mutant lines demonstrate the utility of zebrafish for modelling Nail- patella syndrome and describe a previously undescribed role for lmx1b in notochord cell inflation. SUMMARY STATEMENTZebrafish lmx1ba and lmx1bb knockout lines exhibit paralogue-specific roles in cartilage, renal, muscle, and notochord development, establishing zebrafish as a viable model for dissecting LMX1B- related pathologies such as Nail-patella syndrome.

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SMIM36, a novel and conserved microprotein, is involved in retinal lamination in zebrafish.

Sharma, S.; Ramasamy, S.; Khan, Y.; Joshi, D. C.; Pillai, B.

2023-01-14 developmental biology 10.1101/2023.01.14.524032 medRxiv
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Microproteins are small proteins comprising 2 to 200 amino acids, arising from small Open Reading Frames (smORFs). They are found in different parts of the cell and regulate basic molecular processes like DNA replication, repair, transcription and recombination. SMIM or SMall Integral Membrane proteins are novel, largely uncharacterized, members to the class of microproteins defined by the presence of a transmembrane domain. The retinal transcriptome of zebrafish, reported previously by our group, revealed several novel mRNA transcripts that show oscillating expression in a diurnal manner. Here, we show that one of these transcripts encodes the zebrafish homolog of the human SMIM36 protein, which has not been functionally characterised. This highly conserved microprotein is expressed in the human and zebrafish retina, and efficiently translated in cell lines. Using single-cell RNA-seq datasets, we found that it is expressed in the bipolar cells, rods and Muller glia in the human retina. The knockdown of SMIM36 using splice-block morpholino caused microphthalmia and defects in the retinal layers in zebrafish. Therefore, we show the role of a microprotein in the neural retina thus paving the way for future studies on the role of SMIM proteins in retinal disorders.

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Severe neural tube defects due to failure of closure initiation can arise without abnormality of neuroepithelial convergent extension

Nychyk, O.; Galea, G. L.; Mole, M. J.; Savery, D.; Greene, N.; Stanier, P.; Copp, A. J.

2021-07-04 developmental biology 10.1101/2021.07.04.451044 medRxiv
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Planar cell polarity (PCP) signalling is vital for initiation of neural tube closure in mice, with diminished convergent extension (CE) cell movements leading to a severe form of neural tube defect (NTD), termed craniorachischisis (CRN). Some human NTDs are also associated with PCP gene mutations, but affected individuals are generally heterozygous, whereas PCP homozygosity or compound heterozygosity is needed to produce CRN in mice. This suggests human NTDs may involve other genetic or environmental factors, that interact with partial loss of PCP function. We found that reduced sulfation OF glycosaminoglycans (GAGs) interacts with heterozygosity for the Lp allele of Vangl2 (a core PCP gene), to cause CRN in mice. Here, we hypothesised that this GAG-PCP interaction may regulate convergent extension movements, and hence lead to severe NTDs in the context of only partial loss of PCP function. Both Lp and null alleles of Vangl2 gave similar findings. Culture of E8.5 embryos in the presence of chlorate (a GAG sulfation inhibitor), or enzymatic cleavage of GAG chains, led to failure of NT closure initiation in the majority of Lp/+ embryos, whereas few +/+ littermates exhibited CRN. The chlorate effect was rescued by exogenous sulphate. Surprisingly, DiO labeling of the embryonic node demonstrated no abnormality of midline axial extension in chlorate-treated Lp/+ embryos that developed CRN. In contrast, positive control Lp/Lp embryos displayed severe convergent extension defects in this assay. Morphometric analysis of the closure initiation site revealed abnormalities in the size and shape of somites that flank the closing neural tube in chlorate-treated Lp/+ embryos. We conclude that severe NTDs involving failure of closure initiation can arise by a mechanism other than faulty neuroepithelial convergent extension. Matrix-mediated expansion of somites, flanking the closing neural tube, may be required for closure initiation.

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The extracellular matrix in selective decussation of retinal ganglion cell axons: β2 laminins regulate the ipsilateral projection

Hernandez-Arce, A.; Turo, M.; Robinson, A. N.; McNamara, S.; Yeo, D.; Martinez-De Luna, R. I.

2025-12-29 developmental biology 10.64898/2025.12.28.696306 medRxiv
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AbstractIn binocular animals, retinal ganglion cell (RGC) axons selectively decussate at the optic chiasm. Selective decussation is directed by radial glia and midline neurons in the optic chiasm. Radial glia attach to the underlying pial basement membrane (PBM) that is rich in {beta}2 laminins. Here, we asked whether {beta}2 laminins in the PBM control the selective decussation of RGC axons. Genetic deletion of the {beta}2 subunit increased the proportion of non-decussating RGC axons in the ipsilateral tract. {beta}2 laminins are expressed in the PBM during the peak and late phases of RGC axon growth, and their deletion results in fragmentation of the PBM and dysmorphic radial glia. Consistent with the increase in the proportion of ipsilateral axons, we found persistent expression of the ipsilateral guidance cue EphrinB2 in radial glia during the late phase of axonal decussation, thus extending the developmental window for the development of the ipsilateral projection. Surprisingly, this increase in EphrinB2 was accompanied by an increase in the number of ipsilateral RGCs in the ventrotemporal retina. These results suggest that {beta}2 laminins regulate the size of the ipsilateral projection by providing cues that control the generation of ipsilateral RGCs and the expression of the ipsilateral cue EphrinB2 in the optic chiasm. Together, these findings position {beta}2 laminins as a novel regulator of the ipsilateral projection.