title: Marine medaka ATP-binding cassette (ABC) superfamily and new insight into teleost Abch nomenclature.
abstract: The ABC gene family is recognized as one of the largest gene families in all kingdoms of life. Although many genes involved in the ABC superfamily have been annotated from several fish species, information on large sets of the ABC superfamily and their evolutionary characterization are still unclear. In the marine medaka Oryzias melastigma, 50 ABC transporters were identified with bioinformatics-aided in silico analyses, and their full-length cDNA sequences were characterized. Phylogenetic analysis revealed that they could be classified into the eight subfamilies (A-H) that include all members of all ABC subfamilies. Interestingly, several teleosts' Abcg members were closely clustered with Abch members in a distinctive clade. The abch gene was also observed in the coelacanth and the spotted gar, suggesting that this gene was retained from a bilaterian ancestor and that a gene loss event recently occurred in the tetrapod lineage. In teleosts, the nomenclature of previously annotated abcg genes should be considered carefully, as they form a distinctive clade with the marine medaka abch subfamily and other teleost abch genes, but not with the members of the Abcg subfamily.
authors.affiliation: Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 16419, South Korea.|Department of Chemistry, College of Natural Sciences, Hanyang University, Seoul 04763, South Korea.
authors.forename: Chang-Bum
authors.initials: CB
authors.lastname: Jeong
authors.affiliation: Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 16419, South Korea.
authors.forename: Bo-Mi
authors.initials: BM
authors.lastname: Kim
authors.affiliation: Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 16419, South Korea.
authors.forename: Hye-Min
authors.initials: HM
authors.lastname: Kang
authors.affiliation: National Instrumentation Center for Environmental Management, College of Agriculture and Life Sciences, Seoul National University, Seoul 08826, South Korea.
authors.forename: Ik-Young
authors.initials: IY
authors.lastname: Choi
authors.affiliation: Department of Marine Science, College of Natural Sciences, Incheon National University, Incheon 22012, South Korea.
authors.forename: Jae-Sung
authors.initials: JS
authors.lastname: Rhee
authors.affiliation: Department of Biological Science, College of Science, Sungkyunkwan University, Suwon 16419, South Korea.
authors.forename: Jae-Seong
authors.initials: JS
authors.lastname: Lee
mesh_terms: D018528:ATP-Binding Cassette Transporters / Q000145:classification / Q000235:genetics*; D000818:Animals; D030541:Databases, Genetic; D019143:Evolution, Molecular; D005399:Fishes / Q000235:genetics / Q000378:metabolism; D058977:Molecular Sequence Annotation; D009990:Oryzias / Q000235:genetics* / Q000378:metabolism; D010802:Phylogeny; D012313:RNA / Q000737:chemistry / Q000302:isolation & purification / Q000378:metabolism; D017423:Sequence Analysis, RNA
chemical_list: D018528:ATP-Binding Cassette Transporters; D012313:RNA