Characterization and phylogenetic analysis of the complete mitochondrial genome of sun loach (<i>Yasuhikotakia eos</i>)

Yang, Xiaoge; Lian, Yuxi; Chen, Minmin; Li, Xuequn; Yu, Dan

doi:10.1080/23802359.2020.1842263

Cited by 5 publications

(5 citation statements)

References 5 publications

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“…The annotated mitogenome included 13 protein-coding genes (PCGs), 2 ribosomal RNA genes, 22 transfer RNA genes, and 1 non-coding control region ( Supplemental Figure 1 ). As previously reported for fish genomes including species in the genus Yasuhikotakia (Grau et al 2017 ; Yang et al 2021 ), the mitogenome of Y . splendida displayed an A + T bias with an overall base composition of 32.0% A, 24.7% T, 27.6% C, and 15.7% G. The Y .…”

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confidence: 60%

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The complete mitochondrial genome of the Jaguar Loach (Yasuhikotakia splendida)

Waltzek

Subramaniam

Viadanna

et al. 2021

Mitochondrial DNA Part B

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Herein, we present the complete mitochondrial genome of the Jaguar Loach, Yasuhikotakia splendida. The sequence was determined from an aquarium specimen using a next-generation sequencing approach. The annotated Y. splendida mitogenome was 16,695 bp in length and contained 13 proteincoding genes (PCGs), 2 ribosomal RNA genes, 22 transfer RNA genes, and 1 non-coding control region. The Y. splendida mitogenome displayed an A þ T bias with an overall base composition of 32.0% A, 24.7% T, 27.6% C, and 15.7% G. Maximum Likelihood and Bayesian phylogenetic analyses, based on the aligned mitogenome sequences of 22 botiid loach species from each of the 8 genera and 3 outgroups, generated nearly identical trees that supported the Jaguar Loach as the sister species to the Skunk Loach, Y. morleti.

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confidence: 60%

“…splendida mitogenome gene arrangement was similar to that of other species of Yasuhikotakia including the Skunk Loach, Y. morleti , Redtail Loach, Y . modesta (Grau et al 2017 ), and Sun Loach, Y. eos (Yang et al 2021 ). The majority of the Y .…”

mentioning

confidence: 99%

The complete mitochondrial genome of the Jaguar Loach (Yasuhikotakia splendida)

Waltzek

Subramaniam

Viadanna

et al. 2021

Mitochondrial DNA Part B

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“…The size of the 22 tRNA genes ranged from 66 (tRNA Cys , tRNA Val ) to 75 (tRNA Leu ) nucleotides. All tRNAs were foldable, with a typical clover structure, and their anticodon was exactly the same as the vertebrate tRNAs sequenced (Yan et al 2009, Li et al 2016, Yang et al 2021. Two rRNA genes, 12S rRNA (948 bp) and 16S rRNA genes (1545 bp) were located between tRNA Phe and tRNA Leu , separated by tRNA Val .…”

Section: Mitochondrial Genome; Squamata; Sphaerodactylidae; Teratoscincus Przewalskiimentioning

confidence: 93%

Complete mitochondrial genome ofTeratoscincus przewalskii(Reptilia, Squamata, Sphaerodactylidae) and phylogenetic analysis

Liu

et al. 2021

Mitochondrial DNA Part B

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The complete mitochondrial genome of the lizard, Teratoscincus przewalskii, which belongs to the family Sphaerodactylidae was determined based on Illumina data in this study. The result showed that the closed double-stranded circular mitogenome was 16,779 bp in total length (GenBank accession number: MW491837) with 44.07% GC. The complete mitochondrial genome consisted of 13 protein-coding genes, 22 transfer RNA genes, two ribosomal genes, and one noncoding control region. Phylogenetic analysis using mitochondrial genomes suggested that T. przewalskii was most closely related to its congener T. keyserlingii. This work provides valuable molecular information for further research on species identification and molecular evolution.

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“…Therein, cox3 (0.0076) and nd4l (0.0087) were evolving under a strong purifying selection, whereas nd4 (0.0549), nd5 (0.0782), and nd2 (0.0784) were evolving under comparatively relaxed mutational constraints. Currently, selective pressure in mitochondrial PCGs has been poorly studied in other Cobitidae species [13,18,39,40,[56][57][58],…”

Section: Genome Comparative Analysismentioning

confidence: 99%

Characterization of the Complete Mitochondrial Genome of the Elongate Loach and Its Phylogenetic Implications in Cobitidae

Ke,

Zhou,

Hou

et al. 2023

Animals

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The elongate loach is an endemic fish in China. Previous studies have provided some insights into the mitochondrial genome composition and the phylogenetic relationships of the elongate loach inferred using protein-coding genes (PCGs), yet detailed information about it remains limited. Therefore, in this study we sequenced the complete mitochondrial genome of the elongate loach and analyzed its structural characteristics. The PCGs and mitochondrial genome were used for selective stress analysis and genomic comparative analysis. The complete mitochondrial genome of the elongate loach, together with those of 35 Cyprinidae species, was used to infer the phylogenetic relationships of the Cobitidae family through maximum likelihood (ML) reconstruction. The results showed that the genome sequence has a full length of 16,591 bp, which includes 13 PCGs, 22 transfer RNA genes (tRNA), 2 ribosomal RNA genes (rRNA), and 2 non-coding regions (CR D-loop and light chain sub-chain replication origin OL). Overall, the elongate loach shared the same gene arrangement and composition of the mitochondrial genes with other teleost fishes. The Ka/Ks ratios of all mitochondrial PCGs were less than 1, indicating that all of the PCGs were evolving under purifying selection. Genome comparison analyses showed a significant sequence homology of species of Leptobotia. A significant identity between L. elongata and the other five Leptobotia species was observed in the visualization result, except for L. mantschurica, which lacked the tRNA-Arg gene and had a shorter tRNA-Asp gene. The phylogenetic tree revealed that the Cobitidae species examined here can be grouped into two clades, with the elongate loach forming a sister relationship with L. microphthalma. This study could provide additional inferences for a better understanding of the phylogenetic relationships among Cobitidae species.

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Characterization and phylogenetic analysis of the complete mitochondrial genome of sun loach (Yasuhikotakia eos)

Cited by 5 publications

References 5 publications

The complete mitochondrial genome of the Jaguar Loach (Yasuhikotakia splendida)

The complete mitochondrial genome of the Jaguar Loach (Yasuhikotakia splendida)

Complete mitochondrial genome ofTeratoscincus przewalskii(Reptilia, Squamata, Sphaerodactylidae) and phylogenetic analysis

Characterization of the Complete Mitochondrial Genome of the Elongate Loach and Its Phylogenetic Implications in Cobitidae

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