title: The complete mitochondrial genome of Biston panterinaria (Lepidoptera: Geometridae), with phylogenetic utility of mitochondrial genome in the Lepidoptera.
abstract: The complete mitochondrial genome (mitogenome) of the Chinese pistacia looper Biston panterinaria was sequenced and annotated (15,517bp). It contains the typical 37 genes of animal mitogenomes and a high A+T content (79.5%). All protein coding genes (PCGs) use standard ATN initiation codons except for cytochrome c oxidase 1 (COX1) with CGA. Eleven PCGs use a common stop codon of TAA or TAG, whereas COX2 and NADH dehydrogenase 4 (ND4) use a single T. All transfer RNA (tRNA) genes have the typical clover-leaf structure with the exception of tRNA(Ser(AGN)). We reconstructed a preliminary mitochondrial phylogeny of six ditrysian superfamilies and performed comparative analyses of inference methods (Bayesian Inference (BI), Maximum Likelihood (ML), and Maximum Parsimony (MP)), dataset compositions (including and excluding 3rd codon positions), and alignment methods (Muscle, Clustal W, and MAFFT). Our analyses indicated that inference methods and dataset compositions more significantly affected the phylogenetic results than alignment methods. BI analysis consistently revealed uncontroversial relationships with all dataset compositions. By contrast, ML analysis failed to reconstruct stable phylogeny at two nodes, whereas MP analysis had more difficulties in the tree resolution and nodal support. Distinct from most previous studies, our analyses revealed that Geometroidea had a closer lineage relationship with Bombycoidea than Noctuoidea. Similar to previous molecular studies, our analyses revealed that Hesperiidae were nested in the Papilionoidea clade, providing further evidence to the previous concept that Papilionoidea was paraphyletic, and none of the butterflies were associated with the Macroheterocera.
authors.affiliation: Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China.
authors.forename: Xiushuai
authors.initials: X
authors.lastname: Yang
authors.forename: Dayong
authors.initials: D
authors.lastname: Xue
authors.forename: Hongxiang
authors.initials: H
authors.lastname: Han
mesh_terms: D000818:Animals; D001482:Base Composition; D001483:Base Sequence; D001499:Bayes Theorem; D002874:Chromosome Mapping; D003062:Codon; D020459:Genes, rRNA; D054629:Genome, Mitochondrial; D019476:Insect Proteins / Q000235:genetics; D016013:Likelihood Functions; D024101:Mitochondrial Proteins / Q000235:genetics; D008957:Models, Genetic; D058977:Molecular Sequence Annotation; D008969:Molecular Sequence Data; D009036:Moths / Q000235:genetics*; D010802:Phylogeny; D012343:RNA, Transfer / Q000235:genetics; D017422:Sequence Analysis, DNA
chemical_list: D003062:Codon; D019476:Insect Proteins; D024101:Mitochondrial Proteins; D012343:RNA, Transfer