title: The complete mitochondrial genome of the black surfperch, Embiotoca jacksoni: Selection and substitution rates among surfperches (Embiotocidae).
abstract: The complete 16,515bp nucleotide sequence of the mitochondrial genome was determined for the black surfperch, Embiotoca jacksoni (Perciformes: Embiotocidae). The black surfperch mitochondrial genome contains 13 protein-coding genes, two ribosomal RNA genes, 22 transfer RNA genes, and the non-coding control region (D-loop), the gene order of which is identical to that observed in most vertebrates. The protein-coding gene sequences of E. jacksoni mitochondrial DNA were compared with two other embiotocid surfperches with available complete mitochondrial genomes, Cymatogaster aggregata and Ditrema temminckii. Across all mitochondrial protein-coding genes in surfperches the weighted average substitution rate was 2.079% per My and average dN/dS ratios for each protein-coding gene ranged from 0.016 in CytB to 0.608 in ND3. Substitution rates and dN/dS ratios were relatively high for ATP8 compared to other protein-coding genes. Although most protein-coding genes showed signals of purifying selection, we found evidence for positive selection in ND3 in E. jacksoni.
authors.affiliation: Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, California 95060, USA. Electronic address: garycharleslongo@gmail.com.
authors.forename: Gary C
authors.initials: GC
authors.lastname: Longo
authors.affiliation: Department of Biomolecular Engineering, University of California, Santa Cruz, California 95064, USA.
authors.forename: Brendan
authors.initials: B
authors.lastname: O'Connell
authors.affiliation: Department of Biomolecular Engineering, University of California, Santa Cruz, California 95064, USA.
authors.forename: Richard E
authors.initials: RE
authors.lastname: Green
authors.affiliation: Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, California 95060, USA.
authors.forename: Giacomo
authors.initials: G
authors.lastname: Bernardi
mesh_terms: D000818:Animals; D054629:Genome, Mitochondrial; D010473:Perciformes / Q000235:genetics*; D017422:Sequence Analysis, DNA
keywords: Black surfperch; Embiotoca jacksoni; Embiotocidae; Mitochondrial divergence; Mitochondrial genome