Transcriptome dataset for RNA-seq analysis of axolotl embryonic oropharyngeal endoderm explants
| Autor: | Priya Kohli, Deborah Eastman, Lauren Marazzi |
|---|---|
| Rok vydání: | 2020 |
| Předmět: |
Taste
deNovo Assembly Cellular differentiation RNA-Seq lcsh:Computer applications to medicine. Medical informatics Transcriptome 03 medical and health sciences Axolotl 0302 clinical medicine Biochemistry Genetics and Molecular Biology Taste bud medicine lcsh:Science (General) 030304 developmental biology 0303 health sciences Multidisciplinary biology Embryo biology.organism_classification RNAseq Cell biology Ambystoma mexicanum medicine.anatomical_structure lcsh:R858-859.7 Endoderm 030217 neurology & neurosurgery lcsh:Q1-390 |
| Zdroj: | Data in Brief Data in Brief, Vol 32, Iss, Pp 106126-(2020) |
| ISSN: | 2352-3409 |
| Popis: | Animal nutrition and toxin deterrence rely on the ability to taste, which occurs through columnar taste cells clustered within taste buds. Taste buds in mammals are located within specialized tissues, called papillae. However, taste buds in fish and amphibians, such as axolotls (Ambystoma mexicanum), are not housed in papillae, rather they are embedded within the pharyngeal epithelium. This simplified tissue level organization, along with the ability of cultured oropharyngeal explants from early embryos to produce taste buds on the same time-line as embryos, make the axolotl an excellent model to identify molecules specifically involved in taste bud cell differentiation. We performed de novo transcriptomic analysis on RNA sequences from three different stages of oropharyngeal explants: stages 37/38, 39, and 41. RNA-seq data from 17 total samples representing these stages were pooled to generate a de novo assembly of the transcriptome using a Trinity pipeline. From 27.9Gb of raw sequences, we identified 21,244 transcripts. To our knowledge, this is the first published assembly of axolotl oropharyngeal endoderm explants. This data and transcriptome assembly relate to the research article “Transcriptome Analysis of Axolotl Oropharyngeal Explants During Taste Bud Differentiation Stages” (Kohli et al. 2020). This RNA-seq data and transcriptome assembly provide information on genes expressed in the oropharyngeal endoderm and will be valuable in the identification of taste bud development genes. |
| Databáze: | OpenAIRE |
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