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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The complete mitochondrial genome of the ‘Extinct in the Wild’ Spix’s Macaw (Cyanopsitta spixii)

Journal of Ornithology, Journal Year: 2025, Volume and Issue: unknown

Published: April 11, 2025

Language: Английский

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Codon Usage Analyses Reveal the Evolutionary Patterns among Plastid Genes of Saxifragales at a Larger-Sampling Scale

Genes, Journal Year: 2023, Volume and Issue: 14(3), P. 694 - 694

Published: March 11, 2023

Saxifragales is a 15-family order of early-divergent Eudicots with rich morphological diversity and an ancient rapid radiation. Codon usage bias (CUB) analyses have emerged as essential tool for understanding the evolutionary dynamics in genes. Thus far, codon utilization patterns had only been reported four separate genera within Saxifragales. This study provides comprehensive assessment manipulation based on 50 plastid genes, covering 11 constituent families at larger sampling scale. Our results first showed high preference AT bases AT-ending codons. We then used effective number codons (ENC) to assess range levels also detected high-informative intrafamilial differences ENC three families. Subsequently, parity rule 2 (PR2) plot revealed both family-unique order-shared patterns. Most importantly, plots neutrality collectively supported dominant roles selection CUB Notably, phylogenetic affinities inferred by ML BI methods were consistent each other, they all comprised two primary clades subclades. These findings significantly enhance our processes Saxifrage order, could potentially inspire more higher taxonomic levels.

Language: Английский

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Selected Lark Mitochondrial Genomes Provide Insights into the Evolution of Second Control Region with Tandem Repeats in Alaudidae (Aves, Passeriformes)

Life, Journal Year: 2024, Volume and Issue: 14(7), P. 881 - 881

Published: July 15, 2024

The control region (

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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Genome evolution of Buchnera aphidicola (Gammaproteobacteria): Insights into strand compositional asymmetry, codon usage bias, and phylogenetic implications

International Journal of Biological Macromolecules, Journal Year: 2023, Volume and Issue: 253, P. 126738 - 126738

Published: Sept. 9, 2023

Language: Английский

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The ABC1K gene family in Chinese cabbage: phylogeny, structure and function

Genetic Resources and Crop Evolution, Journal Year: 2024, Volume and Issue: 71(8), P. 4647 - 4667

Published: March 13, 2024

Language: Английский

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