title: The first mitochondrial genome of the sepsid fly Nemopoda mamaevi Ozerov, 1997 (Diptera: Sciomyzoidea: Sepsidae), with mitochondrial genome phylogeny of cyclorrhapha.
abstract: Sepsid flies (Diptera: Sepsidae) are important model insects for sexual selection research. In order to develop mitochondrial (mt) genome data for this significant group, we sequenced the first complete mt genome of the sepsid fly Nemopoda mamaevi Ozerov, 1997. The circular 15,878 bp mt genome is typical of Diptera, containing all 37 genes usually present in bilaterian animals. We discovered inaccurate annotations of fly mt genomes previously deposited on GenBank and thus re-annotated all published mt genomes of Cyclorrhapha. These re-annotations were based on comparative analysis of homologous genes, and provide a statistical analysis of start and stop codon positions. We further detected two 18 bp of conserved intergenic sequences from tRNAGlu-tRNAPhe and ND1-tRNASer(UCN) across Cyclorrhapha, which are the mtTERM binding site motifs. Additionally, we compared automated annotation software MITOS with hand annotation method. Phylogenetic trees based on the mt genome data from Cyclorrhapha were inferred by Maximum-likelihood and Bayesian methods, strongly supported a close relationship between Sepsidae and the Tephritoidea.
authors.affiliation: Department of Entomology, China Agricultural University, Beijing, China.
authors.forename: Xuankun
authors.initials: X
authors.lastname: Li
authors.affiliation: Department of Entomology, China Agricultural University, Beijing, China.
authors.forename: Shuangmei
authors.initials: S
authors.lastname: Ding
authors.affiliation: Earth, Environmental & Biological Sciences School, Science & Engineering Faculty, Queensland University of Technology, Brisbane, Australia.
authors.forename: Stephen L
authors.initials: SL
authors.lastname: Cameron
authors.affiliation: Department of Entomology, China Agricultural University, Beijing, China.
authors.forename: Zehui
authors.initials: Z
authors.lastname: Kang
authors.affiliation: Department of Entomology, China Agricultural University, Beijing, China.
authors.forename: Yuyu
authors.initials: Y
authors.lastname: Wang
authors.affiliation: Department of Entomology, China Agricultural University, Beijing, China.
authors.forename: Ding
authors.initials: D
authors.lastname: Yang
mesh_terms: D000818:Animals; D001482:Base Composition; D001483:Base Sequence; D003062:Codon; D004175:Diptera / Q000145:classification / Q000235:genetics*; D054629:Genome, Mitochondrial; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D010802:Phylogeny; D012335:RNA, Ribosomal / Q000235:genetics; D012343:RNA, Transfer / Q000737:chemistry / Q000235:genetics
chemical_list: D003062:Codon; D012335:RNA, Ribosomal; D012343:RNA, Transfer
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