Fgf4 maintains Hes7 levels critical for normal somite segmentation clock function

Anderson, Matthew; Magidson, Valentin; Kageyama, Ryoichiro; Lewandoski, Mark

doi:10.7554/elife.55608

Cited by 43 publications

(41 citation statements)

References 89 publications

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“…Whole-mount HCR on E8.75 mouse embryos. HCR fluorescent in situs where carried out as described in 115,116 , with the modification of using 60 pmol of each hairpin per 0.5 ml of amplification buffer. Hairpins were left for 12-14 h at room temperature for saturation of amplification to achieve the highest levels of signal to noise 117 .…”

Section: Coverslip Functionalizationmentioning

confidence: 99%

Integration of spatial and single-cell transcriptomic data elucidates mouse organogenesis

et al. 2021

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Molecular profiling of single cells has advanced our knowledge of the molecular basis of development. However, current approaches mostly rely on dissociating cells from tissues, thereby losing the crucial spatial context of regulatory processes. Here, we apply an image-based single-cell transcriptomics method, sequential fluorescence in situ hybridization (seqFISH), to detect mRNAs for 387 target genes in tissue sections of mouse embryos at the 8–12 somite stage. By integrating spatial context and multiplexed transcriptional measurements with two single-cell transcriptome atlases, we characterize cell types across the embryo and demonstrate that spatially resolved expression of genes not profiled by seqFISH can be imputed. We use this high-resolution spatial map to characterize fundamental steps in the patterning of the midbrain–hindbrain boundary (MHB) and the developing gut tube. We uncover axes of cell differentiation that are not apparent from single-cell RNA-sequencing (scRNA-seq) data, such as early dorsal–ventral separation of esophageal and tracheal progenitor populations in the gut tube. Our method provides an approach for studying cell fate decisions in complex tissues and development.

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Section: Coverslip Functionalizationmentioning

confidence: 99%

Integration of spatial and single-cell transcriptomic data elucidates mouse organogenesis

et al. 2021

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“…The effect of Wnt on boundary position may be indirect by secondarily affecting FGF signaling (Wahl et al, 2007;Simsek and Özbudak, 2018). Regarding the segmentation clock, it seems that both pathways act as a permissive cue to generate Notch oscillations in the posterior PM, and consequently, they will cause its slowdown at the anterior region, where both pathways have reached low expression levels (Gibb et al, 2009;Anderson et al, 2020).…”

Section: The Opposing Gradients Modelmentioning

confidence: 99%

Molecular and Mechanical Cues for Somite Periodicity

Linde‐Medina¹,

Smit

2021

Front. Cell Dev. Biol.

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Somitogenesis refers to the segmentation of the paraxial mesoderm, a tissue located on the back of the embryo, into regularly spaced and sized pieces, i.e., the somites. This periodicity is important to assure, for example, the formation of a functional vertebral column. Prevailing models of somitogenesis are based on the existence of a gene regulatory network capable of generating a striped pattern of gene expression, which is subsequently translated into periodic tissue boundaries. An alternative view is that the pre-pattern that guides somitogenesis is not chemical, but of a mechanical origin. A striped pattern of mechanical strain can be formed in physically connected tissues expanding at different rates, as it occurs in the embryo. Here we argue that both molecular and mechanical cues could drive somite periodicity and suggest how they could be integrated.

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“…One of the most surprising gene family reductions we uncovered is shared by all of the syngnathid lineages we explored; it is the loss of fgf3 and fgf4. Loss of these two fibroblast growth factor genes in syngnathids is striking because their orthologs in other vertebrates have long been hypothesized to play nearly indispensable pleiotropic developmental roles in the pharyngeal arches, teeth, brain, cranial placodes, epidermal appendages, limbs, and the segmental axis (Anderson et al, 2020;Boulet et al, 2004;Cooper et al, 2017;Cooper et al, 2018;Crump et al, 2004;David et al, 2002;Jackman et al, 2013;Leger & Brand, 2002;Lu et al, 2006;Maves et al, 2002;Miyake & Itoh, 2013;Nechiporuk & Raible, 2008;Prykhozhij & Neumann, 2008;Reuter et al, 2019;Walshe et al, 2002;Wang et al, 2007). It is reasonable to weigh whether losing these two multifunctional signaling ligands could have had significant and broad consequences to both deeply conserved developmental pathways and their morphological readouts.…”

Section: Discussionmentioning

confidence: 99%

Leafy and Weedy Seadragon Genomes Connect Genic and Repetitive DNA Features to the Extravagant Biology of Syngnathid Fishes

Small

Healey

Currey

et al. 2021

Preprint

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Seadragons are a remarkable lineage of teleost fishes, and they are members of the family Syngnathidae renowned for having evolved male pregnancy. Comprising three known species, seadragons are widely recognized and admired for their fantastical body forms and coloration, and their specific habitat requirements have made them flagship representatives for marine conservation and natural history interests. Until recently, a gap has been the lack of significant genomic resources for seadragons. We have produced gene-annotated, chromosome-scale genome models for the leafy and weedy seadragon to advance investigations into evolutionary innovation and elaboration of morphological traits in seadragons as well as their pipefish and seahorse relatives. We identified several interesting features specific to seadragon genomes, including divergent non-coding regions near a developmental gene important for integumentary outgrowth, a high genome-wide density of repetitive DNA, and recent expansions of transposable elements and a vesicular trafficking gene family. Surprisingly, comparative analyses leveraging the seadragon genomes and additional syngnathid and outgroup genomes revealed striking, syngnathid-specific losses in the family of fibroblast growth factors (FGFs), which likely involve re-organization of highly conserved gene regulatory networks in ways that have not previously been documented in natural populations. The resources presented here serve as important tools for future evolutionary studies of developmental processes in syngnathids and will be a key resource for conservation studies of the extravagant seadragons and their relatives.

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Fgf4 maintains Hes7 levels critical for normal somite segmentation clock function

Cited by 43 publications

References 89 publications

Integration of spatial and single-cell transcriptomic data elucidates mouse organogenesis

Integration of spatial and single-cell transcriptomic data elucidates mouse organogenesis

Molecular and Mechanical Cues for Somite Periodicity

Leafy and Weedy Seadragon Genomes Connect Genic and Repetitive DNA Features to the Extravagant Biology of Syngnathid Fishes

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