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Late-stage embryonic gene expression in three cartilaginous fishes

ABSTRACT: Gene expression profiling of pooled late stage embryos from Leucoraja erinacea, Scyliorhinus canicula and Callorhinchus milii show that HOXC cluster genes are not expressed in the two elasmobranch fishes, L. erinacea and S. canicula. This finding supports the observations that these genes are not found in whole genome shotgun sequencing of L. erinacea or genomic clones from S. canicula.

ORGANISM(S): Leucoraja erinacea Callorhinchus milii Scyliorhinus canicula

PROVIDER: GSE26235 | GEO | 2011/12/15

SECONDARY ACCESSION(S): PRJNA135005

REPOSITORIES: GEO

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Late-stage embryonic gene expression in three cartilaginous fishes

Project description:Gene expression profiling of pooled late stage embryos from Leucoraja erinacea, Scyliorhinus canicula and Callorhinchus milii show that HOXC cluster genes are not expressed in the two elasmobranch fishes, L. erinacea and S. canicula. This finding supports the observations that these genes are not found in whole genome shotgun sequencing of L. erinacea or genomic clones from S. canicula. Profile gene expression in pooled late stage embryos from three species (L. erinacea, S. canicula and C. milii)

2011-12-15 | E-GEOD-26235 | biostudies-arrayexpress

Late-stage embryonic gene expression in three cartilaginous fishes

Project description:Late-stage embryonic gene expression in three cartilaginous fishes

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Project description:Leucoraja ocellata/erinacea ddRAD fastq

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The little skate genome and the evolutionary emergence of wing-like fin appendages [Hi-C Skate stage 31]

Project description:While retaining ancestral morphological and genomic traits, skates evolved a novel body plan with remarkably enlarged wing-like fins that allowed skates to thrive in benthic environments, but their molecular underpinnings remain elusive. Here we investigate the origin of this phenotypical innovation by assembling a high-quality chromosome-scale genome sequence for the little skate Leucoraja erinacea and by generating extensive regulatory profiling datasets in developing fins (gene expression, chromatin occupancy and conformation). We show that despite their derived morphology, the skate genome retains multiple features of the ancestral jawed vertebrate genome.

2023-01-12 | GSE217073 | GEO

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Project description:Leucoraja erinacea Transcriptome or Gene expression

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Organized B cell selection sites in cartilaginous fishes reveal the evolutionary foundation of germinal center-based selection.

Project description:The absence of germinal centers (GCs) in cartilaginous fishes lies at odds with data showing nurse sharks can produce robust antigen-specific responses and affinity mature their B cell repertoires. To Investigate this paradox, we performed RNA sequencing on single nuclei, allowing us to characterize the cell types present in the nurse shark spleen, and RNAscope to provide in situ cellular resolution of key marker gene expression following immunization with R-phycoerythrin (PE). We tracked PE to the splenic follicles where it co-localizes with CXCR5high centrocyte-like B cells, surrounded by a peripheral ring of AID+ CXCR4+ centroblast-like B cells, and a population of putative T follicular helper (Tfh) cells. Further, we reveal selection of mutated B cell clones dissected from these follicles. We propose the B cell selection sites identified here represent the evolutionary foundation of GC-based selection, dating back to the jawed vertebrate ancestor.

2023-05-16 | GSE232302 | GEO

The immunoglobulins of cartilaginous fishes.

Project description: Not available

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RNASeq of molecular basis of ancestral vertebrate electroreception

Project description:Elasmobranch fishes, including sharks, rays, and skates, use specialized electrosensory organs called Ampullae of Lorenzini to detect extremely small changes in environmental electric fields. Electrosensory cells within these ampullae are able to discriminate and respond to minute changes in environmental voltage gradients through an as-yet unknown mechanism. Here we show that the voltage-gated calcium channel CaV1.3 and big conductance calcium-activated potassium (BK) channel are preferentially expressed by electrosensory cells in little skate (Leucoraja erinacea) and functionally couple to mediate electrosensory cell membrane voltage oscillations, which are important in the detection of specific, weak electrical signals. Both channels exhibit unique properties compared with their mammalian orthologues to support electrosensory functions: structural adaptations in CaV1.3 mediate a low voltage threshold for activation, while alterations in BK support specifically tuned voltage oscillations. These findings reveal a molecular basis of electroreception and demonstrate how discrete evolutionary changes in ion channel structure facilitate sensory adaptation.

2017-03-01 | GSE93582 | GEO

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