title: Genome-wide identification of whole ATP-binding cassette (ABC) transporters in the intertidal copepod Tigriopus japonicus.
abstract: BACKGROUND
  The ATP-binding cassette (ABC) transporter superfamily is one of the largest transporter gene families and is observed in all animal taxa. Although a large set of transcriptomic data was recently assembled for several species of crustaceans, identification and annotation of the large ABC transporter gene family have been very challenging.
  
  
  RESULTS
  In the intertidal copepod Tigriopus japonicus, 46 putative ABC transporters were identified using in silico analysis, and their full-length cDNA sequences were characterized. Phylogenetic analysis revealed that the 46 T. japonicus ABC transporters are classified into eight subfamilies (A-H) that include all the members of all ABC subfamilies, consisting of five ABCA, five ABCB, 17 ABCC, three ABCD, one ABCE, three ABCF, seven ABCG, and five ABCH subfamilies. Of them, unique isotypic expansion of two clades of ABCC1 proteins was observed. Real-time RT-PCR-based heatmap analysis revealed that most T. japonicus ABC genes showed temporal transcriptional expression during copepod development. The overall transcriptional profile demonstrated that half of all T. japonicus ABC genes were strongly associated with at least one developmental stage. Of them, transcripts TJ-ABCH_88708 and TJ-ABCE1 were highly expressed during all developmental stages.
  
  
  CONCLUSIONS
  The whole set of T. japonicus ABC genes and their phylogenetic relationships will provide a better understanding of the comparative evolution of essential gene family resources in arthropods, including the crustacean copepods.
authors.forename: Chang-Bum
authors.initials: CB
authors.lastname: Jeong
authors.forename: Bo-Mi
authors.initials: BM
authors.lastname: Kim
authors.affiliation: Department of Biological Sciences, College of Science, Sungkyunkwan University, Suwon 440-746, South Korea. jslee2@skku.edu.
authors.forename: Jae-Seong
authors.initials: JS
authors.lastname: Lee
authors.forename: Jae-Sung
authors.initials: JS
authors.lastname: Rhee
mesh_terms: D018528:ATP-Binding Cassette Transporters / Q000235:genetics*; D000818:Animals; D033342:Copepoda / Q000145:classification / Q000235:genetics* / Q000254:growth & development; D020869:Gene Expression Profiling; D023281:Genomics; D058977:Molecular Sequence Annotation; D010802:Phylogeny
chemical_list: D018528:ATP-Binding Cassette Transporters
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