title: Identification of xenobiotic biodegradation and metabolism-related genes in the copepod Tigriopus japonicus whole transcriptome analysis.
abstract: In this study, the whole transcriptome of Tigriopus japonicus was sequenced using next generation sequencing technology. De novo assembly was performed using Trinity, which assembled 140,130 contigs. Transdecoder found 54,761 candidate coding contigs, 39,507 of which showed homology to other species covering 15,310 genes by BLAST analysis. Functional gene annotation was performed by Gene Ontology, InterProScan, and KEGG pathway analyses. In addition to various metabolism-related pathways, xenobiotic biodegradation and metabolism were other interesting pathways in T. japonicus. Transcripts encoding various enzymes (e.g. superoxide dismutase, heat shock protein, and peroxidases) in response to a variety of stimuli were identified, which might be useful candidate biomarkers for ecotoxicology studies.
authors.affiliation: Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea.
authors.forename: Hui-Su
authors.initials: HS
authors.lastname: Kim
authors.affiliation: Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea.
authors.forename: Bo-Young
authors.initials: BY
authors.lastname: Lee
authors.affiliation: Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea.
authors.forename: Eun-Ji
authors.initials: EJ
authors.lastname: Won
authors.affiliation: Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea.
authors.forename: Jeonghoon
authors.initials: J
authors.lastname: Han
authors.affiliation: Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea.
authors.forename: Dae-Sik
authors.initials: DS
authors.lastname: Hwang
authors.affiliation: Department of Marine Resource Development, College of Life Sciences, Gangneung-Wonju National University, Gangneung 210-702, South Korea.
authors.forename: Heum Gi
authors.initials: HG
authors.lastname: Park
authors.affiliation: Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea. Electronic address: jslee2@skku.edu.
authors.forename: Jae-Seong
authors.initials: JS
authors.lastname: Lee
mesh_terms: D000818:Animals; D033342:Copepoda / Q000235:genetics* / Q000378:metabolism*; D004734:Energy Metabolism / Q000235:genetics* / Q000502:physiology*; D005786:Gene Expression Regulation / Q000502:physiology*; D059467:Transcriptome
keywords: Copepod; Environmental stimulus; Tigriopus japonicus; Whole transcriptome analysis