Browse
Submit Data
Databases
API
Help

Dataset Information

15 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete mitochondrial genome of the Xizang hot-spring snake, Thermophis baileyi Wall, 1907 (Reptilia, colubridae).

ABSTRACT: The Xizang hot-spring snake, Thermophis baileyi (Reptilia, Colubridae), is a relict species of the family Colubridae, which is known only from Tibet, China. In this study, we report the complete mitochondrial genome of this species. The total length of the genome is 17,385?bp, and comprises 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes, and 2 control regions. The total base composition is 32.5% for A, 23.8% for T, 13.5% for G, and 30.2% for C. The phylogenetic tree with 13 protein-coding genes (PCGs) of T. baileyi together with 12 other closely related species belonging to the family Colubridae was built, in order to prove the validity of the mitogenome of T. baileyi.

SUBMITTER: Weng SY

PROVIDER: S-EPMC7800217 | biostudies-literature | 2016 Dec

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete mitochondrial genome of the Xizang hot-spring snake, Thermophis baileyi Wall, 1907 (Reptilia, colubridae).

Weng Shi-Yang SY Peng Li-Fang LF He Miao M Duan Shuang-Quan SQ Huang Song S

Mitochondrial DNA. Part B, Resources 20161209 1

The Xizang hot-spring snake, Thermophis baileyi (Reptilia, Colubridae), is a relict species of the family Colubridae, which is known only from Tibet, China. In this study, we report the complete mitochondrial genome of this species. The total length of the genome is 17,385 bp, and comprises 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes, and 2 control regions. The total base composition is 32.5% for A, 23.8% for T, 13.5% for G, and 30.2% for C. The phylogenetic tree with 13 protein- ...[more]

PMID: 33473679

Similar Datasets

Revealing the complete mitochondrial genome of Thermophis baileyi Wall, 1907 (Reptilia: Colubridae) through the next-generation sequencing.

Project description:The complete mitochondrial genome of Thermophis baileyi was sequenced using the next-generation sequencing (NGS) in the present study. The total length of the mitogenome was 17,355?bp, which was composed of 13 protein-coding genes, 22 transfer RNA (tRNA) genes, 2 ribosomal RNA (rRNA) genes (12s and 16s rRNA), and 2 control regions (CR I and CR II). The base composition was 32.4% for A, 23.8% for T, 30.2% for C, and 13.6% for G. Coding genes of each protein in the mtDNA had the same start and stop codons among three Thermophis species.

| S-EPMC7799630 | biostudies-literature

Complete mitochondrial genome of the Xianggelila Hot-spring snake, Thermophis shangrila (Reptilia, Colubridae).

Project description:The Xianggelila hot-spring snake, Thermophis shangrila (Reptilia, Colubridae), is a species of family Colubridae, which is seen only in Shangri-La, Northern Yunnan, China. Herein, the complete mitochondrial genome of this species has been reported. The total length of the genome was 17,327?bp, and composed of 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes and 2 control regions. The total base composition was 32.7% for A, 23.7% for T, 13.5% for G and 32.7% for C. The phylogenetic tree with 13 protein-coding genes of T. shangrila together with 12 other closely related species belonging to the family Colubridae was reconstructed.

| S-EPMC7800787 | biostudies-literature

Next-generation sequencing yields the complete mitochondrial genome of the Shangrila hot-spring snakes (Thermophis shangrila; Reptilia: Colubridae).

Project description:In this study, we sequenced the complete mitochondrial genome of Thermophis shangrila by using the next-generation sequencing technique. The total length of the mitogenome was 17,407?bp, which was composed of 13 protein coding genes, two rRNA genes (12s and 16s rRNA), 22 tRNA genes, and two control regions (CRI and CRII). The base composition was 32.6% for A, 23.9% for T, 30.0% for C, and 13.5% for G. We added a fragment about 150?bp in length at control region I, which Peng et al. failed to obtain using Sanger dideoxy sequencing.

| S-EPMC7799666 | biostudies-literature

The complete mitochondrial genome of the greater green snake Cyclophiops major (Reptilia, Serpentes, Colubridae).

Project description:The greater green snake Cyclophiops major is a protected and colubrid species. Here, we investigated the complete mitochondrial genome of C. major. The genome is 17,217bp in size, including 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes, 2 control regions, and an origin of light-strand replication. All genes are distributed on the heavy strand, except for ND6 gene and 8 tRNA genes. The AT content of the overall base composition of light strand is 59.83%, showing AT bias. Phylogenetic tree was built based on the genome of C. major and other related snakes to analyze their phylogenic relationship.

| S-EPMC7799836 | biostudies-literature

The complete mitochondrial genome of Plagiopholis styani (Reptilia: Squamata: Colubridae).

Project description:In this study, the complete mitochondrial genome of Plagiopholis styani was acquired and described. The mitogenome is a circular molecule of 19,669 base pairs (bp) in length including 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, two ribosomal RNA (rRNA) genes, and two control regions (D-loop), which is similar to other Colubridae snakes. The total base composition of mitochondrial DNA is A 33.0%, C 24.9%, G 12.8%, and T 29.3%. The mitochondrial genome of Plagiopholis styani contributes to revealing the phylogenetic relationships among species of the Colubridae family.

| S-EPMC8477961 | biostudies-literature

Complete mitochondrial genome of the Rufous burrowing snake, Achalinus rufescens (Reptilia: Xenodermatidae).

Project description:The complete mitochondrial genome (mitogenome) sequence of Achalinus rufescens was determined by using a PCR-based method. The total length of mitogenome is 17,339?bp and contains 13 protein-coding genes, 22 tRNA genes, 2 ribosome RNA genes and 2 control regions (D-loop). All the protein-coding genes of A. rufescens were distributed on the H-strand, except for the ND6 subunit gene and eight tRNA genes which were encoded on the L-strand. The phylogenetic tree of A. rufescens and 11 other closely species was built. The DNA data presented here will be useful to study the evolutionary relationships and genetic diversity of A. rufescens.

| S-EPMC7800391 | biostudies-literature

Sequencing and analysis of mitochondrial genome of Elaphe carinata (Reptilia, Squamata, Colubridae).

Project description:The complete mitochondrial genome of Elaphe carinata was sequenced and analysed using muscle tissue for the first time. The genome is 17?154 bp in length. The complete mitochondrial genome contains 22 tRNA genes, 13 protein-coding genes (PCGs), two rRNA genes, two control regions (CRI and CRII) and one putative origin of L-strand replication. The gene order and nucleotide composition of E. carinata are very similar with E. davidi, E. schrenckii, E. anomala and E. bimaculata. A phylogenetic tree of mitochondrial genomes analyses of 16 species snakes of Colubridae was made based on the Neighbour-Joining (NJ) method, E. carinata has the most closely relationship with E. davidi, while E. poryphyracea and Euprepiophis perlacea are special species.

| S-EPMC7800545 | biostudies-literature

Mammoth Hot Spring, Yellowstone National Park

Project description:The thermophilic Aquificales inhabit and play important biogeochemical roles in the geothermal environments globally. Although intensive studies on physiology, microbial ecology, biochemistry, metagenomics and metatranscriptomics of the Aquificales¬ species and Aquificales-containing environmental samples have been conducted, comprehensive understandings about their ecophysiology, especially in the natural niches have been limited. In the present study, an integrated suite of metagenomic, metatranscriptomic and metaproteomic analyses, for the first time, were conducted on a filamentous microbial community from the Apron and Channel Facies (ACF) of CaCO3 (travertine) deposition at Narrow Gauge, Mammoth Hot Springs, Yellowstone National Park.

2020-05-26 | PXD006506 | Pride

Complete genome sequence of Metallosphaera cuprina, a metal sulfide-oxidizing archaeon from a hot spring.

Project description:The genome of the metal sulfide-oxidizing, thermoacidophilic strain Metallosphaera cuprina Ar-4 has been completely sequenced and annotated. Originally isolated from a sulfuric hot spring, strain Ar-4 grows optimally at 65°C and a pH of 3.5. The M. cuprina genome has a 1,840,348-bp circular chromosome (2,029 open reading frames [ORFs]) and is 16% smaller than the previously sequenced Metallosphaera sedula genome. Compared to the M. sedula genome, there are no counterpart genes in the M. cuprina genome for about 480 ORFs in the M. sedula genome, of which 243 ORFs are annotated as hypothetical protein genes. Still, there are 233 ORFs uniquely occurring in M. cuprina. Genome annotation supports that M. cuprina lives a facultative life on CO(2) and organics and obtains energy from oxidation of sulfidic ores and reduced inorganic sulfuric compounds.

| S-EPMC3133273 | biostudies-literature

Complete genome sequence of the thermophilic Thermus sp. CCB_US3_UF1 from a hot spring in Malaysia.

Project description:Thermus sp. strain CCB_US3_UF1 is a thermophilic bacterium of the genus Thermus, a member of the family Thermaceae. Members of the genus Thermus have been widely used as a biological model for structural biology studies and to understand the mechanism of microbial adaptation under thermal environments. Here, we present the complete genome sequence of Thermus sp. CCB_US3_UF1 isolated from a hot spring in Malaysia, which is the fifth member of the genus Thermus with a completely sequenced and publicly available genome (Genbank date of release: December 2, 2011). Thermus sp. CCB_US3_UF1 has the third largest genome within the genus. The complete genome comprises of a chromosome of 2.26 Mb and a plasmid of 19.7 kb. The genome contains 2279 protein-coding and 54 RNA genes. In addition, its genome revealed potential pathways for the synthesis of secondary metabolites (isoprenoid) and pigments (carotenoid).

| S-EPMC4599208 | biostudies-literature