Browse
Submit Data
Databases
API
Help

Dataset Information

18 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete mitochondrial genome of Rana johnsi (Smith, 2009) (Anura: Ranidae) and its phylogeny.

ABSTRACT: Rana johnsi (Smith 2009) firstly considered as the member of genus Pseudorana, has been moved into the genus Rana. In this study, we sequenced the complete mitochondrial (mt) genome of R. johnsi using the Sanger method. The circular mt genome was 17,873 bp in length and contains 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, two ribosome RNA genes, and one control region. The overall nucleotide composition in majority-strand was 28% A, 29% T, 29% C, and 14% G. We discussed the phylogenetic relationship of R. johnsi in genus Rana using ML and BI analyses based on 13 PCGs. Excluding the clade of subgenus Lithobates, Rana draytonii was the basal clade to all other Rana species, which included R. johnsi as the basal clade. The monophyly of genus Rana was supported, whereas Pseudorana was failed to support.

SUBMITTER: Chen QP

PROVIDER: S-EPMC8635646 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

The complete mitochondrial genome sequence of Rana dabieshanensis (Anura: Ranidae).

Project description:Rana dabieshanensis is a species of frog within the family Ranidae. In this study, we assembled a complete mitochondrial genome (mito-genome) for R. dabieshanensis by high-throughput sequencing technology. It is 18,291 bp and includes 13 protein-coding genes, 22 tRNA genes, two rRNA genes and one control region. The nucleotide composition is A: 27.0%, T: 28.6%, C: 29.3% and G: 15.2%. Two overlaps among the 13 protein-coding genes were found: ATP8/ATP6, ND4L/ND4. The study of phylogenetic analysis based on complete mitochondrial genome showed that there was close genetic relationship between R. dabieshanensis and R. omeimontis and it is useful for systematic analyses of genus Rana.

| S-EPMC8291061 | biostudies-literature

Sequencing and analysis of the complete mitochondrial genome of Rana amurensis (Anura: Ranidae).

Project description:In this study, the complete mitogenome sequence of Rana amurensis (Anura: Ranidae) is determined using long PCR. It is a circular molecule of 20,571?bp in length (GenBank accession no. MF370348). The complete mtDNA sequence of R. amurensis contained 2 rRNA genes (12S rRNA and 16S rRNA), 22 tRNA genes, 13 protein-coding genes (PCGs) and 2 control regions (D-loops). The nucleotide composition was 28.6% A, 26.8% C, 14.0% G and 30.6% T. Mitochondrial genome analyses based on NJ method yield phylogenetic trees, including that 20 reported family Ranidae frogs. These molecular data presented here provide a useful tool for systematic analyses of genus Rana.

| S-EPMC7800792 | biostudies-literature

The complete mitochondrial genome of the Rana kukunoris (Anura: Ranidae) from Inner Mongolia, China.

Project description:We determined the whole mtNDA genome of the Plateau brown frog (Rana kukunoris) in Helan Mountains, Inner Mongolia. The complete mitochondrial genome consists of 13 protein-coding, 22 tRNA, 2 rRNA genes, and 1 control region (CR), and its total length is 16,644 bp. Three overlaps among the 13 protein-coding genes were found: ATP8/ATP6, ND4L/ND4, and ND5/ND6. The CR is 837 bp in length. The nucleotide composition is 27.49% A, 29.06% T, 14.77% G, 28.68% C. The result of phylogenetic analysis showed that there was close genetic relationship between R. kukunoris and Rana chensinensis.

| S-EPMC7748507 | biostudies-literature

The complete mitochondrial genome information of Rana uenoi (Amphibia, Anura, Ranidae) and the phylogenetic implication.

Project description:We determined the complete mitochondrial genome of Rana uenoi (Anura: Ranidae) for the first time. The whole sequences were 17,370 bp and included 13 protein-coding genes, 2 ribosomal RNA genes, and 22 transfer RNA genes. The gene arrangement was completely identical to those observed from other Ranidae species. We used 11 protein-coding genes to examine the phylogenetic placement of this species in the genus Rana. Rana dybowskii was the closest sister species to R. uenoi. The clade of R. uenoi and R. dybowskii formed a cluster with Rana huarensis, which had a sister relationship with the group of Rana amurensis, Rana coreana, and Rana kunyuensis.

| S-EPMC7928165 | biostudies-literature

The complete mitochondrial genome of Odorrana grahami (Anura: Ranidae).

Project description:The mitochondrial genome of the Disckless-fingered Odorous Frog, Odorrana grahami (Anura: Ranidae), was sequenced using high-throughput sequencing technology. The genome length was 17864 bp, including 22 tRNA genes, 13 protein-coding genes, 2 rRNA genes and 1 control region (D-loop). The AT content of the mitochondrial genome was 55.9%. The composition of mitochondrial genome of O. grahami is similar to that of other species of the genus Odorrana. Phylogenetic analysis of the mitochondrial genomes of six congeners shows that O. grahami is sister to O. margaretae, but the analysis using 16S rRNA gene of additional congeners do not resolve their relationships.

| S-EPMC8158192 | biostudies-literature

The complete mitochondrial genome of the Odorrana schmackeri (Anura, Ranidae).

Project description:The complete mitochondrial genome of O. schmackeri has been sequenced and characterized in this study. The mitogenome is a circular molecule of 18 ? 610?bp in length, containing 13 protein-coding genes (PCGs), two ribosomal RNA (rRNA) genes, 21 transfer RNA (tRNA) genes and a non-coding D-loop region (control region). Its gene arrangements are identical to the typical neobatrachian-type except for the loss of tRNAHis gene. Our data provide a useful resource for the phylogenetic studies of genus Odorrana.

| S-EPMC7800420 | biostudies-literature

Complete mitochondrial genome of the American bullfrog in Korea, Lithobates catesbeianus (Anura: Ranidae).

Project description:The complete mitochondrial (mt) genome of Lithobates catesbeianus was sequenced and characterized. The circular mt genome was constituted of of 37 genes (13 protein-coding genes, 22 transfer RNAs, and 2 ribosomal RNAs) and a non-coding region (NCR). Phylogenetic analysis based on the full mt genome sequences confirmed that among the genus Lithobates, L. catesbeianus Korea is included in a monophyletic group with L. catesbeianus China, but not with either L. catesbeianus Japan or L. catesbeianus Canada. This is the first completed mt genome from L. catesbeianus Korea, which provide data for further study of phylogeny in Lithobates spp. that have been introduced into a number of different countries originally from North America.

| S-EPMC7748749 | biostudies-literature

The complete mitochondrial genome of Hylarana latouchii (Anura: Ranidae) and its phylogenetic analysis.

Project description:We reported the complete mitochondrial genome (mitogenome) of broad-folded frog (Hylarana latouchii). This mitogenome is 17,007 bp in size and consists of 13 protein-coding genes, 22 transfer RNAs, two ribosomal RNAs, and one non-coding sequence (D-loop). The total composition was 58.54% A + T and 41.46% G + C (T: 29.31%, C: 27.33%, A: 29.23%, and G: 14.13%). The phylogenetic analysis revealed that H. latouchii formed a clade with other two species of genus Hylarana. This mitogenomic sequence of H. latouchii provides useful data to study its population genetics and phylogeography.

| S-EPMC8221149 | biostudies-literature

Sequencing and analysis of the complete mitochondrial genome of Rugosa emeljanovi (Anura: Ranidae).

Project description:In this study, the complete mitogenome sequence of Rugosa emeljanovi (Anura: Ranidae) is first determined using long PCR. It is a circular molecule of 17,733 bp in length (GenBank accession no. KU641020). Similar to the typical mtDNA of amphibians, the complete mtDNA sequence of R. emeljanovi contained 2 rRNA genes (12S rRNA and 16S rRNA), 22 tRNA genes, 13 protein-coding genes (PCGs), and a control region (D-loop). The nucleotide composition was 28.1% A, 26.8% C, 14.8% G, and 30.3% T. Mitochondrial genome analyses based on the NJ method yield phylogenetic trees, including the 13 already reported Ranidae family frogs. The molecular data presented here provide a useful tool for systematic analyses of genus Rugosa and Glandirana.

| S-EPMC7801011 | biostudies-literature

Characterization of complete mitochondrial genome of Hylarana guentheri (Anura: Ranidae) and its phylogenetic implication.

Project description:The Günther's frog (Hylarana guentheri) belongs to a member of the family Ranidae. We provide a complete mitogenome of H. guentheri and examine its phylogenetic position with other related species. Its mitogenome is a closed circular molecule 18,698 bp in length including 13 protein coding genes, 22 tRNA coding genes, two rRNA-coding genes, and a control region (CR) that are conserved in most Ranidae mitogenomes. The overall base composition of the H. guentheri mitogenome is 29.27% A, 30.45% T, 26.14% C, and 14.15% G, which is typical for Amphibious animals' mitochondrial genomes. The alignment of the Ranidae species control regions showed high levels of genetic variation and abundant AT content. Seven tandem repeats were found in the control region. Phylogenetic analysis with Bayesian inference and maximum likelihood based on 13 protein-coding genes indicated that H. guentheri is more closely related to Nidirana okinavana than to Babina subaspera and B. holsti. The complete mitogenome of H. guentheri provides a potentially useful resource for further exploration of the taxonomic status and phylogenetic relationships of Hylarana and related species.

| S-EPMC7748803 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data