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

Yu, Jiaojiao; Liu, Jiabin; Li, Cheng; Wu, Wei; Feng, Feifei; Wang, Qizhi; Ying, Xiaofeng; Qi, Dunwu; Qi, Guilan

doi:10.1080/23802359.2021.1995517

Cited by 6 publications

(15 citation statements)

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“…montgomeryi MW751681 and a few Ixodes species with the characteristics of A% > T% > C% > G% ( Figure S1 ). In metazoan mitogenomes, A + T content is generally higher than G + C content [ 33 , 61 , 85 , 86 , 87 , 88 ]. Previous statistics indicated the A + T content of Ixodidae mitogenomes was over 70% [ 71 ].…”

Section: Resultsmentioning

confidence: 99%

“…Gene arrangement comparison is an important tool for resolving deep-level phylogenetic relationships [ 97 , 98 ]. Genome rearrangement analysis is a routine analysis in comparative mitochondrial genomics [ 33 , 72 , 73 , 99 , 100 , 101 ]. Regarding the Ixodidae mitogenomes, Black and Roehrdanz first reported two gene arrangement types [ 102 ], and Shao et al further summed up three types [ 59 ], which were confirmed by another study [ 76 ].…”

Section: Resultsmentioning

confidence: 99%

“…Unstable and uncertain phylogenetic relationships may affect our understanding of diversity and evolutionary history [ 25 ]. Molecular identification of existing and new species can be assisted by gene fragments (e.g., rrnL and COX1 ) [ 20 , 106 ], but complete mitogenomes may provide more accurate signals than gene fragments for phylogenetic reconstruction [ 23 , 33 , 61 , 73 ]. In this study, the phylogenetic analyses were conducted based on 13 PCGs and 2 rRNAs, which were concatenated into a sequence matrix of 12,892 bp representing 87% of the entire mitogenome alignments.…”

Section: Resultsmentioning

confidence: 99%

“…Mitogenome annotation was performed as previously described [ 33 ]. MITOS WebServer ( , accessed on 25 July 2022) [ 43 ] was used to predetermine protein-coding genes (PCGs), ribosomal RNA genes (rRNAs), and transfer RNA genes (tRNAs) and define their respective gene boundaries based on invertebrate mitochondrial genetic code.…”

Section: Methodsmentioning

confidence: 99%

“…Comparative mitogenomic analyses are of great significance for understanding the biodiversity and evolution, and mitogenomic data can provide efficient phylogenetic signals for a wide variety of animal groups [ 3 , 24 , 33 , 34 ]. The phylogenetic relationships of hard ticks have been studied in depth [ 3 , 4 , 35 , 36 , 37 , 38 , 39 ], but comprehensive comparative mitogenome analyses of them are rarely performed.…”

Section: Introductionmentioning

confidence: 99%

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

Liu

et al. 2022

Genes

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

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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

Liu

et al. 2022

Genes

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

Wang

Zhan

Yang

et al. 2023

Preprint

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In this study, a complete mitochondrial genome of theStrix alucowas reported for the first time, with a total length of 18,632 bp. There were 37 genes, including 22 tRNAs, 2 rRNAs, 13 protein-coding genes (PCGs), and 2 non-coding control regions (D-loop).The second-generation sequencing of the complete mitochondrial genome of theS. alucowas conducted using the Illumina platform, and then Tytoninae was used as the outgroup, PhyloSuite software was applied to build the ML-tree and BI-tree of the Strigiformes, and finally, the divergence time tree was constructed using Beast2.6.7 software, the age ofMiosurnia diurnafossil-bearing sediments (6.0-9.5 Ma) was set as the internal correction point.The common ancestor of theStrixwas confirmed to have diverged during the Pleistocene(2.59~0.01Ma). The dramatic uplift of the Qinling Mountains in the Middle Pleistocene and the climate oscillation of the Pleistocene together causedStrixdivergence between the northern and southern parts of mainland China. The isolation of glacial-interglacial rotation and glacier refuge was the main reason for the divergence of the common ancestor of theStrix uralensisand theS. alucoduring this period. This study provides a reference for the evolution history of theStrix.

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

Xu,

Zhang,

et al. 2024

Diversity

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

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

Cited by 6 publications

References 44 publications

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

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

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

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

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