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A novel gene organization of the rock sparrow Petronia petronia (Aves: Passeriformes) revealed by complete mitochondrial genome.

ABSTRACT: The whole sequence of the Rock Sparrow (Petronia petronia) mitochondrial genome was determined using La-PCR and conserved primer walking approaches. The entire mitogenome was 17,426 bp in length and harboured 13 protein-coding genes, 2 rRNA genes, 23 tRNA genes, and 1 noncoding control region. The mitogenome of this species resembled other avian species in gene arrangement and composition, except that tRNA-Glu had two copies and the control region contained two parts. One part of the control region is between tRNA-Glu and tRNA-Phe and a second between the two tRNA-Glu copies. The overall nucleotide composition are A (30.7%), T (23.8%), G (14.4%), and C (31.1%) with 54.5% A + T content. These mitochondrial data are potentially important for the study of molecular evolution and conservation genetics.

SUBMITTER: Shi R

PROVIDER: S-EPMC7800464 | biostudies-literature |

REPOSITORIES: biostudies-literature

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Project description:Tarsiger indicus (Vieillot, 1817), the White-browed Bush Robin, is a small passerine bird widely distributed in Asian countries. Here, we successfully sequenced its mitogenome using the Illumina Novaseq 6000 platform (Illumina, San Diego, CA, USA) for PE 2 × 150 bp sequencing. Combined with other published mitogenomes, we conducted the first comprehensive comparative mitogenome analysis of Muscicapidae birds and reconstructed the phylogenetic relationships between Muscicapidae and related groups. The T. indicus mitogenome was 16,723 bp in size, and it possessed the typical avian mitogenome structure and organization. Most PCGs of T. indicus were initiated strictly with the typical start codon ATG, while COX1 and ND2 were started with GTG. RSCU statistics showed that CUA, CGA, and GCC were relatively high frequency in the T. indicus mitogenome. T. cyanurus and T. indicus shared very similar mitogenomic features. All 13 PCGs of Muscicapidae mitogenomes had experienced purifying selection. Specifically, ATP8 had the highest rate of evolution (0.13296), whereas COX1 had the lowest (0.01373). The monophylies of Muscicapidae, Turdidae, and Paradoxornithidae were strongly supported. The clade of ((Muscicapidae + Turdidae) + Sturnidae) in Passeriformes was supported by both Bayesian Inference and Maximum likelihood analyses. The latest taxonomic status of many passerine birds with complex taxonomic histories were also supported. For example, Monticola gularis, T. indicus, and T. cyanurus were allocated to Turdidae in other literature; our phylogenetic topologies clearly supported their membership in Muscicapidae; Paradoxornis heudei, Suthora webbiana, S. nipalensis, and S. fulvifrons were formerly classified into Muscicapidae; we supported their membership in Paradoxornithidae; Culicicapa ceylonensis was originally classified as a member of Muscicapidae; our results are consistent with a position in Stenostiridae. Our study enriches the genetic data of T. indicus and provides new insights into the molecular phylogeny and evolution of passerine birds.

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A novel gene organization of the rock sparrow Petronia petronia (Aves: Passeriformes) revealed by complete mitochondrial genome.

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