Complete Mitochondrial Genome and Phylogenetic Analysis of Tarsiger indicus (Aves: Passeriformes: Muscicapidae)

Genes, Journal Year: 2024, Volume and Issue: 15(1), P. 90 - 90

Published: Jan. 11, 2024

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

Language: Английский

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Five new mitogenomes of Phylloscopus (Passeriformes, Phylloscopidae): Sequence, structure, and phylogenetic analyses

International Journal of Biological Macromolecules, Journal Year: 2019, Volume and Issue: 146, P. 638 - 647

Published: Dec. 30, 2019

Language: Английский

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Understanding microchromosomal organization and evolution in four representative woodpeckers (Picidae, Piciformes) through BAC-FISH analysis

Genome, Journal Year: 2024, Volume and Issue: 67(7), P. 223 - 232

Published: May 14, 2024

The genome organization of woodpeckers has several distinctive features e.g., an uncommon accumulation repetitive sequences, enlarged Z chromosomes, and atypical diploid numbers. Despite the large diversity species, there is a paucity detailed cytogenomic studies for this group we thus aimed to rectify this. Genome patterns hence evolutionary change in microchromosome formation four species (

Language: Английский

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Mitogenome of the little owl Athene noctua and phylogenetic analysis of Strigidae

International Journal of Biological Macromolecules, Journal Year: 2020, Volume and Issue: 151, P. 924 - 931

Published: Feb. 22, 2020

Language: Английский

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Sturnidae sensu lato Mitogenomics: Novel Insights into Codon Aversion, Selection, and Phylogeny

Animals, Journal Year: 2024, Volume and Issue: 14(19), P. 2777 - 2777

Published: Sept. 26, 2024

The Sturnidae family comprises 123 recognized species in 35 genera. taxa Mimidae and Buphagidae were formerly treated as subfamilies within Sturnidae. phylogenetic relationships among the related (Sturnidae sensu lato) remain unresolved due to high rates of morphological change concomitant homoplasy. This study presents five new mitogenomes lato comprehensive mitogenomic analyses. investigated exhibit an identical gene composition 37 genes—including 13 protein-coding genes (PCGs), 2 rRNA genes, 22 tRNA genes—and one control region (CR). most important finding this is drawn from CAM surprisingly unique motifs for each provide a direction molecular identification avian. Furthermore, pervasiveness natural selection PCGs found all examined when analyzing their nucleotide codon usage. We also determine structures mt-tRNA, mt-rRNA, CR lato. Lastly, our analyses not only well support monophyly Sturnidae, Mimidae, Buphagidae, but define nine stable subclades. Taken together, findings will enable further elucidation evolutionary

Language: Английский

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The Mitogenome of Sedum plumbizincicola (Crassulaceae): Insights into RNA Editing, Lateral Gene Transfer, and Phylogenetic Implications

Biology, Journal Year: 2022, Volume and Issue: 11(11), P. 1661 - 1661

Published: Nov. 13, 2022

As the largest family within order Saxifragales, Crassulaceae contains about 34 genera with 1400 species. Mitochondria play a critical role in cellular energy production. Since first land plant mitogenome was reported

Language: Английский

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Mitogenomic Codon Usage Patterns of Superfamily Certhioidea (Aves, Passeriformes): Insights into Asymmetrical Bias and Phylogenetic Implications

Animals, Journal Year: 2022, Volume and Issue: 13(1), P. 96 - 96

Published: Dec. 27, 2022

The superfamily Certhioidea currently comprises five families. Due to the rapid diversification, phylogeny of is still controversial. advent next generation sequencing provides a unique opportunity for mitogenome-wide study. Here, we first provided six new complete mitogenomes (Certhia americana, C. familiaris, Salpornis spilonota, Cantorchilus leucotis, Pheugopedius coraya, and genibarbis). We further paid attention genomic characteristics, codon usages, evolutionary rates, mitogenomes. All analyzed displayed typical ancestral avian gene order with 13 protein-coding genes (PCGs), 22 tRNAs, 2 rRNAs, one control region (CR). Our study indicated strand-biased compositional asymmetry might shape usage preferences in mitochondrial genes. In addition, natural selection be main factor shaping usages Additionally, rate analyses all were under purifying selection. Moreover, MT-ATP8 MT-CO1 most rapidly evolving conserved genes, respectively. According our mitophylogenetic analyses, monophylies Troglodytidae Sittidae strongly supported. Importantly, suggest that should separated from Certhiidae put into Salpornithidae maintain monophyly Certhiidae. findings are useful studies within Certhioidea.

Language: Английский

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Mitochondrial genome characteristics of six Phylloscopus species and their phylogenetic implication

PeerJ, Journal Year: 2023, Volume and Issue: 11, P. e16233 - e16233

Published: Oct. 11, 2023

The mitochondrial genomes of six Phylloscopus species-small insectivores belonging to the Phylloscopidae family-were obtained using Illumina sequencing platform. mitogenomes were closed circular molecules 16,922-17,007 bp in size, containing 13 protein-coding genes, 22 tRNA two rRNA and control regions (CR1 remnant CR2). gene orders conserved 35 sampled GenBank database, with a rearrangement cytb-trnT-CR1-trnP-nad6-trnE-remnant CR2-trnF-rrnS. average base compositions 29.43% A, 32.75% C, 14.68% G, 23.10% T, A+T content slightly higher than that G+C. ATG TAA most frequent initiating terminating codons, respectively. Several boxes identified CR1, including C-string domain I; F, E, D, C boxes, as well bird similarity B II; CSB1 III. Tandem repeats observed CR2 fuscatus proregulus mitogenomes. A phylogenetic analysis maximum likelihood (ML) Bayesian inference (BI) methods, based on genes indicated species was divided into larger clades, splitting time approximately 11.06 million years ago (mya). taxa coronatus/Phylloscopus burkii inornatus/P. located at basal position different clades. result cox1 showed Seicercus nested within Phylloscopus. complete set provides potentially useful resources for further exploration taxonomic status history Phylloscopidae.

Language: Английский

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Characterization of the complete mitochondrial genome of Otus lettia: exploring the mitochondrial evolution and phylogeny of owls (Strigiformes)

Mitochondrial DNA Part B, Journal Year: 2021, Volume and Issue: 6(12), P. 3443 - 3451

Published: Nov. 18, 2021

Large-scale molecular phylogenetic studies of the avian order Strigiformes have been performed, and numerous mitochondrial genomes determined. However, their intergeneric relationships are still controversial, few comprehensive comparative analyses conducted on Strigiformes. In this study, genome Otus lettia was determined compared with other The O. 16,951 bp in size. For Strigiformes, atp8 can be used as a suitable marker for population genetic diversity, while cox1 is candidate barcoding species identification. All protein-coding genes may under strong purifying selection pressure, one extra cytosine insertion located nad3 common to all owls except Tyto longimembris, T. alba, Athene noctua. Four different gene arrangement types were found among mitogenomes, evolutionary relationship between each perfectly explained by tandem duplication random loss model. topologies using showed that target had closer scops + sunia than bakkamoena, genus Glaucidium paraphyletic, Ninox clade at basal position Strigidae lineage. Our trees also supported previous recommendations Sceloglaux albifacies, Ciccaba nigrolineata, Ketupa flavipes should transferred Ninox, Strix, Bubo, respectively. These findings will helpful further unraveling evolution phylogeny

Language: Английский

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Complete mitogenome of Treron sphenurus (Aves, Columbiformes): the first representative from the genus Treron, genomic comparisons and phylogenetic analysis of Columbidae

Animal Biotechnology, Journal Year: 2021, Volume and Issue: 33(6), P. 1003 - 1013

Published: Jan. 13, 2021

The wedge-tailed green pigeon (Treron sphenurus) has a protective value in the evolution of family Columbidae. In this study, complete mitogenome T. sphenurus from Baise City, China, which represents first sequenced species genus Treron Tribe Treronini, is reported. This was accomplished using PCR-based methods and primer-walking sequencing strategy with genus-specific primers. found to be 18,919 bp length comprising 37 genes, including 13 protein-coding two rRNA 22 tRNA one control region. terms structure composition, many similarities were between Hemiphaga novaeseelandiae (New Zealand pigeon) mitogenomes. further supported by phylogenetic analysis showing that close evolutionary relationship H. novaeseelandiae. reported here expected provide valuable molecular information for studies on phylogeny analyses taxonomic status

Language: Английский

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