Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete mitochondrial genome of Tachysurus nitidus (Siluriformes: Bagridae) from the Geum river in Korea.

ABSTRACT: The complete mitochondrial genome of a bagrid catfish, Tachysurus nitidus was completely analyzed by the primer walking method. It was composed of 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, and a control region with a total length of 16,537 bp. In the phylogenetic tree, using mitochondrial genome of 13 related sequences revealed that T. nitidus (MW451217) of Korea is clustered with T. nitidus (KC822643) of China. This complete mitochondrial genome provides an important resource for reviewing the phylogenetic relationships and taxonomic status of the bagrid species.

SUBMITTER: Kwak YH

PROVIDER: S-EPMC8032339 | biostudies-literature | 2021 Apr

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete mitochondrial genome of Tachysurus nitidus (Siluriformes: Bagridae) from the Geum river in Korea.

Kwak Yeong-Ho YH Kim Keun-Yong KY Song Ha-Yoon HY Song Mi-Young MY

Mitochondrial DNA. Part B, Resources 20210406 4

The complete mitochondrial genome of a bagrid catfish, Tachysurus nitidus was completely analyzed by the primer walking method. It was composed of 13 protein-coding genes, 2 ribosomal RNA genes, 22 transfer RNA genes, and a control region with a total length of 16,537 bp. In the phylogenetic tree, using mitochondrial genome of 13 related sequences revealed that T. nitidus (MW451217) of Korea is clustered with T. nitidus (KC822643) of China. This complete mitochondrial genome ...[more]

PMID: 33889742

Similar Datasets

The full-length mitochondrial genome of Tachysurus fulvidraco (Siluriformes: Bagridae) from Geum river in Korea.

Project description:The full-length mitochondrial genome of the yellow catfish, Tachysurus fulvidraco was analyzed by the primer walking method. Its assembled mitochondrial genome was found to be 16,527 bp, consisting of 37 genes (13 protein-coding genes, 22 tRNA gens, and 2 rRNA gens). The gene content and order of T. fulvidraco were congruent with those of typical vertebrate fishes. In the phylogenetic tree, it showed the closet relationship to the another conspecific specimen from China and Pseudobagrus koreanus and well separated from the other species in the family Bagridae.

| S-EPMC7594764 | biostudies-literature

The complete mitochondrial genome of Tachysurus virgatus (Oshima 1926) (Siluriformes: Bagridae) and its phylogenetic status.

Project description:Tachysurus virgatus (Oshima 1926) is a small and benthic Bagridae species that resides in the Southern China and Viet Nam. Currently, limited published genetic information has hindered our understanding of this species. In the current study, the complete mitochondrial genome of T. virgatus was determined using next generation sequencing, which was 16,524 base pairs (bp) in length and identical to most genomes of bony fishes. Phylogenetic analyses supported four clades (I, II, III, and IV) occurring in the family Bagridae and T. virgatus formed an independent clade that was sister to the clades I and II.

| S-EPMC7782150 | biostudies-literature

The complete mitochondrial genome of Leiocassis argentivittatus (Siluriformes: Bagridae).

Project description:In this study, the complete mitochondrial genome of Leiocassis argentivittatus has been determined by polymerase chain reaction methods for the first time. The overall base composition of Leiocassis argentivittatus mitogenome is 31.7% for A, 26.4% for C, 14.9% for G and 27.0% for T. The percentage of G + C content is 41.3%. The mitogenome is a circular DNA molecule of 16,534 bp in length with a D-loop region and contains 22 transfer RNA (tRNA) genes, 2 ribosomal RNA (rRNA) genes and 13 protein-coding genes. The mitochondrial genome sequencing for Leiocassis argentivittatus in this study provides important molecular data for further evolutionary analysis of Siluriformes.

| S-EPMC7800079 | biostudies-literature

Genetic Structure and Diversity of Hatchery and Wild Populations of Yellow Catfish Tachysurus fulvidraco (Siluriformes: Bagridae) from Korea.

Project description:Yellow catfish Tachysurus fulvidraco is an important commercial fish species in South Korea. However, due to their current declines in its distribution area and population size, it is being released from hatchery populations into wild populations. Hatchery populations also produced from wild broodstocks are used for its captive breeding. We reported 15 new microsatellite DNA markers of T. fulvidraco to identify the genetic diversity and structure of its hatchery and wild populations, providing baseline data for useful resource development strategies. The observed heterozygosity of the hatchery populations ranged from 0.816 to 0.873, and that of the wild populations ranged from 0.771 to 0.840. Their inbreeding coefficient ranged from -0.078 to 0.024. All populations experienced a bottleneck (p < 0.05), with effective population sizes ranging from 21 to infinity. Their gene structure was divided into two groups with STRUCTURE results of K = 2. It was confirmed that each hatchery population originated from a different wild population. This study provides genetic information necessary for the future development and conservation of fishery resources for T. fulvidraco.

| S-EPMC11011370 | biostudies-literature

Determination of the complete mitochondrial genome of Pseudobagrus gracilis (Siluriformes: Bagridae) and its phylogeny.

Project description:Pseudobagrus gracilis is an endemic bagrid catfish in the Pearl River. To date, sparse studies conducted on this species have blocked our understanding of this species. In this study, the complete mitochondrial genome of P. gracilis was sequenced and reported using Illumina MiSeq platform. The P. gracilis mitogenome was 16,527 bp in length and comprised 13 protein-coding genes, 22 transfer RNA genes, 2 ribosomal RNA genes, and one control region (D-loop). Its overall nucleotide base composition was 31.0% (A), 15.6% (G), 26.3% (C), and 27.1% (T), with an AT content 58.1%. Phylogenetic analyses based on Neighbor-joining approach revealed that Pseudobagrus species formed three lineages (I, II and III) and P. gracilis had close relationship with P. emarginatus, P. pratti and P. truncatus.

| S-EPMC8284119 | biostudies-literature

The complete mitochondrial genome of Mystus gulio Hamilton (Siluriformes: Bagridae) and its phylogenetic implication.

Project description:Mystus gulio Hamilton, also called long whiskers catfish, is an endemic fish and a common food in some Asian countries. In this study, the complete mitochondrial genome of M. gulio was sequenced using the MinION system (Oxford Nanopore Technologies). The mitochondrial genome is 16,518 bp in length (41.1% [G + C] content) and consists of 13 protein-coding genes, 22 transfer RNA genes, and two ribosomal RNA genes. The results of phylogenetic analysis inferred from whole mitochondrial genomes of Mystus and related species in the family Bagridae revealed that M. gulio is closely related to Mystus cavasius.

| S-EPMC10044156 | biostudies-literature

Complete mitochondrial genomes of two catfishes (Siluriformes, Bagridae) and their phylogenetic implications.

Project description:The mitochondrial genome (mitogenome) has been widely used as a molecular marker to investigate phylogenetic analysis and evolutionary history in fish. However, the study of mitogenomes is still scarce in the family Bagridae. In this study, the mitogenomes of Tachysurusbrachyrhabdion and T.gracilis were sequenced, annotated, and analyzed. The mitogenomes were found to be 16,532 bp and 16,533 bp, respectively, and each contained 37 typical mitochondrial genes, which are 13 protein-coding genes (PCGs), 22 tRNA genes, two rRNA genes, and a control region. All PCGs begin with the codon ATG, except for the cytochrome c oxidase subunit 1 (COI) gene, while seven PCGs end with an incomplete termination codon. All tRNA genes can fold into their typical cloverleaf secondary structures, except for tRNASer(AGY), which lacks the dihydrouracil arm. The Ka/Ks ratios for all PCGs are far lower than one. Phylogenetic analyses based on Bayesian inference (BI) and maximum likelihood (ML) showed that the two clades in Bagridae excluded Ritarita. The monophyly of Tachysurus supports previous research and the traditional classification that Leiocassis, Pseudobagrus, Pelteobagrus, and Tachysurus belong to one genus (Tachysurus). These findings provide a phylogenetic basis for future phylogenetic and taxonomic studies of Bagridae.

| S-EPMC9848681 | biostudies-literature

Complete mitochondrial genome of Korean catfish, Liobagrus somjinensis (Actinopterygii, Siluriformes, Amblycipitidae), from South Korea.

Project description:The Korean catfish, Liobagrus somjinensis, was recorded in 2010 as a new species of genus Liobagrus. The complete mitochondrial DNA sequence of L. somjinensis was sequenced by next-generation sequencing (NGS) analysis. The assembled mitogenome was 16,526 bp in length and encoded 13 protein-coding genes (PCGs), 22 tRNAs, and 2 rRNAs. The gene arrangement, content, and total size were clearly identical with the congeneric species, L. mediadiposalis. Phylogenetic analysis based on nucleotide dataset, consisting PCGs and rRNA genes revealed the taxonomical relationship in species level among the genus Liobagrus.

| S-EPMC7748594 | biostudies-literature

Complete mitochondrial genome of the river cooter (Pseudemys concinna, Testudines: Emydidae) in Korea.

Project description:The complete mitochondrial genome of Pseudemys concinna in Korea was sequenced and characterized. The mitochondrial genome is constituted of 37 genes (13 protein-coding genes, 22 transfer RNA (tRNA) genes, and two ribosomal RNA (rRNA) genes) and a noncoding region. Phylogenetic analysis based on the complete mitochondrial genome showed that P. concinna has closer relationship with Chrysemys picta than Trachemys scripta elegans. This is the first case for complete mitochondrial genome from P. concinna in Korea, which will provide information for biogeographical studies and management plan for invasive species.

| S-EPMC9487955 | biostudies-literature

Complete mitochondrial genome of Tachysurus vachellii, natural diploid catfish from Nansi Lake.

Project description:Tachysurus vachellii are commercially important edible fish due to delicious taste, little bone in muscle, and high nutritional value especially in Asia. The complete mitochondrial genome of Tachysurus vachellii has been sequenced. The mitochondrial genome is 16,529 bp in length, with the base composition of 31.6% A, 26.6% T, 26.9% C, and 14.9% G, containing two ribosomal RNA genes, 13 protein-coding genes, 22 transfer RNA genes, and a major non-coding control region (D-loop region). The gene order and orientation are similar with some typical fish species. The data will provide useful molecular information for phylogenetic studies concerning T. vachellii and its related species.

| S-EPMC8462921 | biostudies-literature