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De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean

Loggerhead sea turtle Caretta caretta is widely distributed in the oceans of tropical and subtropical latitude. This turtle is an endangered species due to anthropic and natural factors that have decreased their population levels. In this study, RNA sequencing and de-novo assembly of genes expressed...

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Autores principales: Hernández-Fernández, Javier, Pinzón, Andrés, Mariño-Ramírez, Leonardo
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5472237/
https://www.ncbi.nlm.nih.gov/pubmed/28649496
http://dx.doi.org/10.1016/j.gdata.2017.06.005
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author Hernández-Fernández, Javier
Pinzón, Andrés
Mariño-Ramírez, Leonardo
author_facet Hernández-Fernández, Javier
Pinzón, Andrés
Mariño-Ramírez, Leonardo
author_sort Hernández-Fernández, Javier
collection PubMed
description Loggerhead sea turtle Caretta caretta is widely distributed in the oceans of tropical and subtropical latitude. This turtle is an endangered species due to anthropic and natural factors that have decreased their population levels. In this study, RNA sequencing and de-novo assembly of genes expressed in blood were performed. The raw FASTQ files have been deposited on NCBI's SRA database with accession number SRX2629512. A total of 5.4 Gb raw sequence data were obtained, corresponding to 48,257,019 raw reads. Trinity pipeline was used to perform a de-novo assembly, we were able to identify 64,930 transcripts for female loggerhead turtle transcriptome with an N50 of 1131 bp. The obtained transcriptome data will be useful for further studies of the physiology, biochemistry and evolution in this species.
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spelling pubmed-54722372017-06-23 De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean Hernández-Fernández, Javier Pinzón, Andrés Mariño-Ramírez, Leonardo Genom Data Data in Brief Loggerhead sea turtle Caretta caretta is widely distributed in the oceans of tropical and subtropical latitude. This turtle is an endangered species due to anthropic and natural factors that have decreased their population levels. In this study, RNA sequencing and de-novo assembly of genes expressed in blood were performed. The raw FASTQ files have been deposited on NCBI's SRA database with accession number SRX2629512. A total of 5.4 Gb raw sequence data were obtained, corresponding to 48,257,019 raw reads. Trinity pipeline was used to perform a de-novo assembly, we were able to identify 64,930 transcripts for female loggerhead turtle transcriptome with an N50 of 1131 bp. The obtained transcriptome data will be useful for further studies of the physiology, biochemistry and evolution in this species. Elsevier 2017-06-08 /pmc/articles/PMC5472237/ /pubmed/28649496 http://dx.doi.org/10.1016/j.gdata.2017.06.005 Text en © 2017 The Authors http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle Data in Brief
Hernández-Fernández, Javier
Pinzón, Andrés
Mariño-Ramírez, Leonardo
De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean
title De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean
title_full De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean
title_fullStr De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean
title_full_unstemmed De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean
title_short De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean
title_sort de novo transcriptome assembly of loggerhead sea turtle nesting of the colombian caribbean
topic Data in Brief
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5472237/
https://www.ncbi.nlm.nih.gov/pubmed/28649496
http://dx.doi.org/10.1016/j.gdata.2017.06.005
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