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

Bo-Mi KIM, Beom-Soon CHOI, Hui-Soo KIM, Jae-Sung RHEE, Doris W. T. AU, Shiu Sun Rudolf WU, Ik-Young CHOI, Jae-Seong LEE

Research output: Contribution to journalArticles

8 Citations (Scopus)

Abstract

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. Copyright © 2015 Elsevier B.V. All rights reserved.
Original languageEnglish
Pages (from-to)255-258
JournalMarine Genomics
Volume24
Issue numberPart 3
DOIs
Publication statusPublished - 2015

Citation

Kim, B.-M., Choi, B.-S., Kim, H.-S., Rhee, J.-S., Au, D. W. T., Wu, R. S. S., . . . Lee, J.-S. (2015). Transcriptome profiling of larvae of the marine medaka Oryzias melastigma by Illumina RNA-seq. Marine Genomics, 24(Part 3), 255-258. doi: 10.1016/j.margen.2015.07.013

Keywords

  • Transcriptome
  • RNA-seq
  • Marine medaka
  • Oryzias melastigma
  • Larvae
  • Ecotoxicogenomics

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