The first mitochondrial genome of the sepsid fly Nemopoda mamaevi Ozerov, 1997 (Diptera: Sciomyzoidea: Sepsidae), with mitochondrial genome phylogeny of cyclorrhapha

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 ty...

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Bibliographic Details
Published in:PloS one 2015-03, Vol.10 (3), p.e0123594-e0123594
Main Authors: Li, Xuankun, Ding, Shuangmei, Cameron, Stephen L, Kang, Zehui, Wang, Yuyu, Yang, Ding
Format: Article
Language:English
Subjects:
Animals
Annotations
Base Composition
Base Sequence
Bayesian analysis
Binding sites
Codon
Comparative analysis
Deoxyribonucleic acid
Diptera
Diptera - classification
Diptera - genetics
DNA
Genes
Genome, Mitochondrial
Genomes
Genomics
Homology
Insecta
Insects
Mitochondria
Mitochondrial DNA
Molecular Sequence Data
Nemopoda
Nucleic Acid Conformation
Phylogenetics
Phylogeny
RNA, Ribosomal - genetics
RNA, Transfer - chemistry
RNA, Transfer - genetics
Sepsidae
Sexual selection
Software
Statistical analysis
Stop codon
Taxonomy
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Summary: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.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0123594