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斑马角鲨从头转录组组装。

A de novo transcriptome assembly of the zebra bullhead shark, Heterodontus zebra.

机构信息

Phyloinformatics unit, RIKEN Center for Life Science Technologies (CLST), 2-2-3 Minatojima-minamimachi, Chuo-ku, Kobe, Hyogo, Japan.

Laboratory for Phyloinformatics, RIKEN Center for Biosystems Dynamics Research (BDR), 2-2-3 Minatojima-minamimachi, Chuo-ku, Kobe, Hyogo, Japan.

出版信息

Sci Data. 2018 Oct 8;5:180197. doi: 10.1038/sdata.2018.197.

Abstract

Although cartilaginous fishes have played crucial roles in various fields, including evolutionary biology, marine ecology, bioresources, and aquarium exhibitions, molecular information for these species is poorly available. The present study reports a transcriptome assembly from an embryo of the zebra bullhead shark (Heterodontus zebra), produced by paired-end RNA sequencing. Transcriptome data is generated with a de novo transcriptome assembler, Trinity. Amino acid sequences are predicted from the assemblies, using TransDecoder. Because cartilaginous fishes serve as the outgroup of bony vertebrates, the data would contribute to comparative analyses of a various biological fields. In addition, this study would be useful for conservation biology, such as transcriptome-based population genetics.

摘要

虽然软骨鱼类在进化生物学、海洋生态学、生物资源和水族馆展览等各个领域都发挥了至关重要的作用,但这些物种的分子信息却很少。本研究通过对斑马角鲨(Heterodontus zebra)胚胎进行双端 RNA 测序,报告了一个转录组组装。转录组数据是使用从头转录组组装器 Trinity 生成的。使用 TransDecoder 从组装中预测氨基酸序列。由于软骨鱼类是硬骨脊椎动物的外群,这些数据将有助于各种生物学领域的比较分析。此外,这项研究对于基于转录组的保护生物学,如种群遗传学,也将是有用的。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/00b3/6174923/b7322ae7d659/sdata2018197-f1.jpg

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