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

---

Complete Mitochondrial Genome and Phylogenetic Analysis of the Blue Whistling Thrush (Myophonus caeruleus)

Genes, Journal Year: 2024, Volume and Issue: 15(7), P. 830 - 830

Published: June 24, 2024

The blue whistling thrush (Myophonus caeruleus) is a bird belonging to the order Passeriformes and family Muscicapidae. M. caeruleus widely distributed in China, Pakistan, India, Myanmar resident southern part of Yangtze River China summer migratory northern River. At present, there are some controversies about classification caeruleus. We use complete mitochondrial genomes provide insights into phylogenetic position its relationships among genome (GenBank: MN564936) 16,815 bp long contains 13 protein-coding genes (PCGs), 2 rRNA genes, 22 tRNA non-coding control region (D-loop). thirteen PCGs started with GTG ATG ended five types stop codons. nucleotide composition T was 23.71%, that C 31.45%, A 30.06%, G 14.78%. secondary structures tRNAs were predicted, all which could form typical cloverleaf structures. There 24 mismatches, mainly G–U mismatches. Through tree reconstruction, it found Saxicola, Monticola, Oenanthe, Phoenicurus clustered one clade, together sister group Myophonus.

Language: Английский

---

The Complete Mitogenomes of Two Species of Snakehead Fish (Perciformes: Channidae): Genome Characterization and Phylogenetic Analysis

Diversity, Journal Year: 2024, Volume and Issue: 16(6), P. 346 - 346

Published: June 14, 2024

Channidae (snakehead fish) is a family of medium-to-large freshwater carnivorous fish and contain the genus, Channa. Here, complete mitogenomes two Channa were determined comparatively analyzed with 16 other species. The newly sequenced circular DNA molecules sizes 16,953 bp (Channa burmanica; OP954106) 16,897 aurantimaculata; OQ134162). composed 37 genes one D-loop region. Positive AT skews negative GC found in mitogenomes. Most protein-coding (PCGs) started conventional start codon, ATG; however, sequence stop codon was variable. There no obvious difference relative synonymous usage among mitogenomes, species shared similar number mitogenomic PCGs, which also to mean values for 15 All Ka/Ks <1; cox1 had lowest value, atp8 highest. tRNAs typical clover structures, except trnS1. Phylogenetic analysis showed that C. burmanica aurantimaculata close relationship they closely related gachua. These findings enrich gene database species, clarify mitochondrial genome structure provide basic data invasive biological surveillance future.

Language: Английский

---

Complete Mitogenomes of Ticks Ixodes acutitarsus and Ixodes ovatus Parasitizing Giant Panda: Deep Insights into the Comparative Mitogenomic and Phylogenetic Relationship of Ixodidae Species

Genes, Journal Year: 2022, Volume and Issue: 13(11), P. 2049 - 2049

Published: Nov. 6, 2022

Ticks rank second in the world as vectors of disease. Tick infestation is one factors threatening health and survival giant pandas. Here, we describe mitogenomes Ixodes acutitarsus ovatus parasitizing pandas, perform comparative phylogenetic genomic analyses on newly sequenced other available hard ticks. All six determined contain a typical gene component share an ancient Arthropoda arrangement pattern. Our study suggests that I. species complex with high genetic divergence, indicating different clades represent distinct species. Comparative mitogenomic show average A + T content Ixodidae 78.08%, their GC-skews are strongly negative, while AT-skews fluctuate around 0. large number microsatellites detected mitogenomes, main microsatellite motifs mononucleotide trinucleotide AAT. We summarize five types, identify trnY-COX1-trnS1-COX2-trnK-ATP8-ATP6-COX3-trnG fragment most conserved region, whereas region near control rearrangement hotspot mitogenomes. The trees based 15 genes provide very convincing relationship (Ixodes (Robertsicus ((Bothriocroton Haemaphysalis) (Amblyomma (Dermacentor (Rhipicentor (Hyalomma Rhipicephalus))))))) strong supports. Remarkably, Archaeocroton sphenodonti embedded Haemaphysalis clade supports, resulting paraphyly genus, so in-depth morphological molecular studies essential to determine taxonomic status A. its closely related results new insights into phylogeny evolution ticks, well basic data for population genetics assessment efficient surveillance panda-infesting

Language: Английский

---

Mitochondrial Genome Analysis and Phylogeny and Divergence Time Evaluation of theStrix aluco

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2023, Volume and Issue: unknown

Published: Jan. 21, 2023

ABSTRACT In this study, a complete mitochondrial genome of the Strix aluco was reported for first time, with total length 18,632 bp. There were 37 genes, including 22 tRNAs, 2 rRNAs, 13 protein-coding genes (PCGs), and non-coding control regions (D-loop). The second-generation sequencing S. conducted using Illumina platform, then Tytoninae used as out-group, PhyloSuite software applied to build ML-tree BI-tree Strigiformes, finally, divergence time tree constructed Beast2.6.7 software, age Miosurnia diurna fossil-bearing sediments (6.0-9.5 Ma) set internal correction point. common ancestor confirmed have diverged during Pleistocene(2.59~0.01Ma). dramatic uplift Qinling Mountains in Middle Pleistocene climate oscillation together caused between northern southern parts mainland China. isolation glacial-interglacial rotation glacier refuge main reason uralensis period. This study provides reference evolution history . Summary statement assemble , report A full discussion made, it inferred that glacial led differentiation genus.

Language: Английский

---

Mitochondrial genome analysis, phylogeny and divergence time evaluation of Strix aluco (Aves, Strigiformes, Strigidae)

Biodiversity Data Journal, Journal Year: 2023, Volume and Issue: 11

Published: March 20, 2023

Background Prior research has shown that the European peninsulas were main sources of Strix aluco colonisation Northern Europe during late glacial period. However, phylogenetic relationship and divergence time between S. from Leigong Mountain Nature Reserve, Guizhou Province, China Strigiformes overseas remains unclear. The mitochondrial genome structure birds is a covalent double-chain loop highly conserved and, thus, suitable for analysis. This study examined using whole . New information In this study, complete , with total length 18,632 bp, reported first time. A 37 genes found, including 22 tRNAs, two rRNAs, 13 protein-coding non-coding control regions. Certain species Tytoninae used as out-group PhyloSuite software was applied to build ML-tree BI-tree Strigiformes. Finally, tree constructed BEAST 2.6.7 age Miosurnia diurna fossil-bearing sediments (6.0–9.5 Ma) set internal correction point. common ancestor confirmed have diverged Pleistocene (2.58–0.01 Ma). combined action dramatic uplift Qinling Mountains in Middle climate oscillation caused northern southern parts mainland China. isolation glacial-interglacial rotation glacier refuge reason uralensis their provides reference evolutionary history

Language: Английский

---