Complete mitogenome of Lepidopygopsis typus, an evolutionarily-distinct, endangered cyprinid fish from the Western Ghats Biodiversity Hotspot: Phylogenetic relationships and implications for conservation

Chandra, Swetha; Abhilash, Ravimohanan; Sidharthan, Arya; Raghavan, Rajeev; Dahanukar, Neelesh

doi:10.1016/j.gene.2023.148098

Cited by 2 publications

(1 citation statement)

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“…Base composition and codon usage were analyzed, and AT and GC skew values were calculated using MEGA-X software [23]. We retrieved and downloaded the complete mitochondrial genome sequences of 19 Smiliogastrinae fish species from GenBank (https://www.ncbi.nlm.nih.gov/, accessed on 25 January 2024; Table 7), using Lepidopygopsis typus (OR685011) [24] as outgroup. Phylogenetic trees of Smiliogastrinae fish were constructed based on the tandem sequences of 13 PCGs, using the maximum likelihood [25] and Bayesian inference [26] methods, respectively.…”

Section: Discussionmentioning

confidence: 99%

Comparative Analysis and Phylogenetic Study of Dawkinsia filamentosa and Pethia nigrofasciata Mitochondrial Genomes

Sun,

2024

IJMS

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Smiliogastrinae are recognized for their high nutritional and ornamental value. In this study, we employed high-throughput sequencing technology to acquire the complete mitochondrial genome sequences of Dawkinsia filamentosa and Pethia nigrofasciata. The gene composition and arrangement order in these species were similar to those of typical vertebrates, comprising 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes, and 1 non-coding region. The mitochondrial genomes of D. filamentosa and P. nigrofasciata measure 16,598 and 16,948 bp, respectively. Both D. filamentosa and P. nigrofasciata exhibit a significant preference for AT bases and an anti-G bias. Notably, the AT and GC skew values of the ND6 gene fluctuated markedly, suggesting that the selection and mutation pressures on this gene may differ from those affecting other genes. Phylogenetic analysis, based on the complete mitochondrial genomes of 23 Cyprinidae fishes, revealed that D. filamentosa is closely related to the sister group comprising Dawkinsia denisonii and Sahyadria chalakkudiensis. Similarly, P. nigrofasciata forms a sister group with Pethia ticto and Pethia stoliczkana.

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Section: Discussionmentioning

confidence: 99%

Comparative Analysis and Phylogenetic Study of Dawkinsia filamentosa and Pethia nigrofasciata Mitochondrial Genomes

Sun,

2024

IJMS

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Complete mitochondrial genome of vulnerable fighting fish <i>Betta coccina</i> (Actinoptergii: Perciformes: Osphronemidae) with phylogenetic consideration

Yusof,

Zainon,

Jaapar

et al. 2024

AJB

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We reported the first complete mitochondrial genome of the Scarlet Fighting Fish, Betta coccina (Vierke, 1979), a species of concern due to its vulnerable status. Genome skimming was performed on a specimen collected from Johor, Malaysia to recover its mitochondrial genome. The assembled complete mitogenome is 16,502 bp in size, comprising the standard set of 13 protein-coding genes, 22 tRNAs, and two rRNAs, typical of most vertebrates mitogenome. Phylogenetic analysis was conducted using the whole mitogenome of B. coccina and four publicly available mitogenomes of Betta spp. Our analysis revealed that the B. coccina currently occupied a basal position relative to other Betta spp. with maximal support value. Our results provide valuable insights for both evolutionary studies and genetic conservation efforts of B. coccina and its related species.

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Complete mitogenome of Lepidopygopsis typus, an evolutionarily-distinct, endangered cyprinid fish from the Western Ghats Biodiversity Hotspot: Phylogenetic relationships and implications for conservation

Cited by 2 publications

References 49 publications

Comparative Analysis and Phylogenetic Study of Dawkinsia filamentosa and Pethia nigrofasciata Mitochondrial Genomes

Comparative Analysis and Phylogenetic Study of Dawkinsia filamentosa and Pethia nigrofasciata Mitochondrial Genomes

Complete mitochondrial genome of vulnerable fighting fish <i>Betta coccina</i> (Actinoptergii: Perciformes: Osphronemidae) with phylogenetic consideration

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