Transcriptome profiling of larvae of the marine medaka Oryzias melastigma by Illumina RNA-seq

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• 作者：Bo-Mi Kim^a ; Beom-Soon Choi^b ; Hui-Soo Kim^a ; Jae-Sung Rhee^c ; Doris W.T. Au^d ; Rudolf S.S. Wu^e ; Ik-Young Choi^b ; ^{choii@snu.ac.kr" class="auth_mail" title="E-mail the corresponding author} ; Jae-Seong Lee^a ; ^{jslee2@skku.edu" class="auth_mail" title="E-mail the corresponding author}
• 关键词：Transcriptome ; RNA-seq ; Marine medaka ; Oryzias melastigma ; Larvae ; Ecotoxicogenomics
• 刊名：Marine Genomics
• 出版年：2015
• 出版时间：December 2015
• 年：2015
• 卷：24
• 期：part_P3
• 页码：255-258
• 全文大小：536 K

文摘

We sequenced the whole transcriptome of the 24 h-old larval stage of the marine medaka Oryzias melastigma using Illumina RNA-seq. De novo assembly of 64,914,324 raw reads was performed using Trinity, resulting in 144,953 contigs. TransDecoder found 58,246 candidate coding contigs with homology to other species based on BLAST analysis. Functional gene annotation was performed by GO, KEGG pathway, and COG analyses. We determined an expressed gene catalog for O. melastigma for gene information-based environmental genomic and ecotoxicogenomic research. This information will serve as a resource for elucidating the molecular mechanisms underlying the response of O. melastigma to environmental stresses and chemicals.