Browse
Submit Data
Databases
API
Help

Dataset Information

12 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The nearly complete mitochondrial genome of Chinese pygmy dormouse Typhlomys cinereus (Rodentia: Platacanthomyidae).

ABSTRACT: In this study, we report the nearly complete mitochondrial genome of a Chinese pygmy dormouse Typhlomys cinereus (Rodentia: Platacanthomyidae). The 15,011?bp genome is consisted of 13 protein-coding genes, 16S rRNA, 21 tRNAs, partial 12S rRNA and control region. A phylogenetic tree was built using 12 protein-coding genes of 19 species from Dipodoidea and Muroidea. Our result shows that T. cinereus represents the earliest split within Muroidea. The genome would contribute to further study of phylogeny in Muroidea and Rodentia.

SUBMITTER: Lv X

PROVIDER: S-EPMC7800791 | biostudies-literature | 2016 Sep

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The nearly complete mitochondrial genome of Chinese pygmy dormouse Typhlomys cinereus (Rodentia: Platacanthomyidae).

Lv Xinfang X Cong Haiyan H Kong Lingming L Motokawa Masaharu M Harada Masashi M Wu Yi Y Li Yuchun Y

Mitochondrial DNA. Part B, Resources 20160905 1

In this study, we report the nearly complete mitochondrial genome of a Chinese pygmy dormouse Typhlomys cinereus (Rodentia: Platacanthomyidae). The 15,011 bp genome is consisted of 13 protein-coding genes, 16S rRNA, 21 tRNAs, partial 12S rRNA and control region. A phylogenetic tree was built using 12 protein-coding genes of 19 species from Dipodoidea and Muroidea. Our result shows that T. cinereus represents the earliest split within Muroidea. The genome would contribute to further ...[more]

PMID: 33473568

Similar Datasets

The complete mitochondrial genome of Muraenesox cinereus (Anguilliformes Muraenesocidae).

Project description:In this study, we present the complete mitogenome and a phylogenetic analysis of Muraenesox cinereus determined by long PCR and primer walking methods. The complete mitochondrial genome is a circular molecule of 17,987 bp in length and contains the same set of 37 mitochondrial genes [13 protein-coding genes, 2 ribosomal RNA (rRNA), and 22 transfer RNA (tRNA)], and a control region as other bony fishes. The base composition of the entire mitogenome showed a slight excess of AT bias. The entire mitogenome data produced in this study provides the genomic resources available for future evolutionary studies.

| S-EPMC7894417 | biostudies-literature

The complete mitochondrial genome of Psammomys obesus (Rodentia: Muridae).

Project description:The fat sand rats (Psammomys obesus) can easily induce obesity and acquire type 2 diabetes mellitus when they are fed with high-carbohydrate diets. P. obesus is often used as an animal model for studies on diabetes and obesity. We described 16,592 bp of P. obesus mtDNA that contains 13 protein-coding genes (PGCs), two rRNA genes (12S rRNA and 16S rRNA), 22 transfer RNA (tRNA) genes, and one control region (D-loop). The complete mitochondrial genome sequence provided here would be useful for further understanding the evolution of ratite and conservation genetics of P. obesus.

| S-EPMC7800552 | biostudies-literature

The complete mitochondrial genome of Terek sandpiper, Xenus cinereus (Charadriiformes: Scolopacidae).

Project description:The complete mitochondrial DNA genome of Terek sandpiper, Xenus cinereus, was detected by using polymerase chain reaction method and DNASTAR software package. The circular mitogenome (16,817?bp in length) contains 13 protein-coding genes, 2 rRNA genes (12S ribosomal RNA and 16S ribosomal RNA), 22 tRNA genes and a control region. The content of four kinds of bases of the complete mitochondrial DNA is 30.7% for A, 24.9% for T, 30.2% for C and 14.3% for G, respectively. To validate our data, 12 published complete mitochondrial genomes of Charadriiformes along with the genome of Terek sandpiper were used to construct the phylogenetic tree.

| S-EPMC7800694 | biostudies-literature

The complete mitochondrial genome of pygmy red-toothed shrew (Chodsigoa parva).

Project description:The study of pygmy red-toothed shrew (Chodsigoa parva), which is the smallest species of geuns Chodsigoa, is extremely lacking. Also, it is classified as data deficient (DD) on The IUCN Red List. Here, we obtained a complete mitochondrial genome of Chodsigoa parva. The mitochondrial genome of C. parva is totally 17,216?bp in length and it is composed of 13 protein-coding genes, 22 transfer RNA genes (tRNA), 2 ribosomal RNA genes (rRNA), and 2 non-coding regions. We restructured Bayesian phylogenetic tree by using 19 species those belong to family Soricidae. The mitochondrial genome can provide basic data for further study about the phylogenetic relationship of family Soricidae.

| S-EPMC7707013 | biostudies-literature

Complete mitochondrial genome of the water vole, Microtus richardsoni (Cricetidae, Rodentia).

Project description:Water voles (Microtus richardsoni) are sensitive species distributed in the mountains of Canada (Alberta, British Columbia), and the United States of America (Idaho, Montana, Oregon, Utah, Washington, and Wyoming). We assembled the complete circular M. richardsoni mitogenome, which is 16,285 bp in length and encodes 13 protein-coding genes, 22 tRNA genes, and two rRNA genes. We estimated the phylogenetic tree of M. richardsoni and 24 related arvicoline species with two outgroup species: Phodopus roborovskii and Cricetus cricetus.

| S-EPMC7782294 | biostudies-literature

The complete mitochondrial genome of marmoset rats Hapalomys delacouri (Rodentia: Muridae).

Project description:The marmoset rats (Hapalomys delacouri) is a rarely investigated rodent. It occupies important ecological niche and phylogenetic position. The complete mitochondrial genome of H. delacouri was determined for the first time by long PCR and second-generation sequencing. The results showed that the entire mitogenome of H. delacouri was 16,316 bp long (deposited in GenBank with accession number MK850463). The gene order and orientation were the same as the most rodent. Only tRNALys (TTT) and tRNASer (AGN) of 22 transfer RNAs showed atypical cloverleaf structures, lacking a dihydrouridine (DHU) arm. The newly added H. delacouri mitogenome will benefit population genetic and phylogenetic studies in the rodent.

| S-EPMC7687551 | biostudies-literature

Complete Mitochondrial Genome of Three Species of the Genus Microtus (Arvicolinae, Rodentia).

Project description:The 65 species of the genus Microtus have unusual sex-related genetic features and a high rate of karyotype variation. However, only nine complete mitogenomes for these species are currently available. We describe the complete mitogenome sequences of three Microtus, which vary in length from 16,295 bp to 16,331 bp, contain 13 protein-coding genes (PCGs), two ribosomal RNA genes, 22 transfer RNA genes and a control region. The length of the 13 PCGs and the coded proteins is the same in all three species, and the start and stop codons are conserved. The non-coding regions include the L-strand origin of replication, with the same sequence of 35 bp, and the control region, which varies between 896 bp and 930 bp in length. The control region includes three domains (Domains I, II and III) with extended termination-associated sequences (ETAS-1 and ETAS-2) in Domain I. Domain II and Domain III include five (CSB-B, C, D, E and F) and three (CSB-1, CSB-2, and CSB-3) conserved sequence blocks, respectively. Phylogenetic reconstructions using the mitochondrial genomes of all the available Microtus species and one representative species from another genus of the Arvicolinae subfamily reproduced the established phylogenetic relationships for all the Arvicolinae genera that were analyzed.

| S-EPMC7696944 | biostudies-literature

The complete mitochondrial genome of the common vole, Microtus arvalis (Rodentia: Arvicolinae).

Project description:The common vole, Microtus arvalis belongs to the genus Microtus in the subfamily Arvicolinae. In this study, the complete mitochondrial genome of M. arvalis was recovered using shotgun sequencing and an iterative mapping approach using three related species. Phylogenetic analyses using the sequence of 21 arvicoline species place the common vole as a sister species to the East European vole (Microtus levis), but as opposed to previous results we find no support for the recognition of the genus Neodon within the subfamily Arvicolinae, as this is, as well as the genus Lasiopodomys, found within the Microtus genus.

| S-EPMC7800005 | biostudies-literature

The complete mitochondrial genome of the Tamarisk gerbil, Meriones tamariscinus (Rodentia: Muridae).

Project description:The complete mitochondrial genome of the Tamarisk jird, Meriones tamariscinus, was sequenced. The 16,389bp genome contains 37 genes, typical for rodent mitogenomes, including 22 tRNA genes, 2 rRNA genes, and 13 protein-coding genes. The total GC content of the mitochondrial genome is 36.8%, with a base composition of 34.0% A, 24.5% C, 12.3% G, and 29.2% T. The phylogenetic analysis showed that M. tamariscinus was classified in the genus Meriones, Muridae.

| S-EPMC7800061 | biostudies-literature

Complete mitochondrial genome of Perny's long-nosed squirrel Dremomys pernyi (Rodentia: Sciuridae).

Project description:The complete mitochondrial genome of Perny's long-nosed squirrel (Dremomys pernyi) was firstly sequenced and characterized. The genome was 16,573 bp in length, and its composition and arrangement of genes were analogous to other rodents. The sequences of 13 protein-coding genes were used to construct phylogenetic tree for D. pernyi and other 13 sciurid species available on GenBank. To date, this is the first species whose complete mitochondrial genome sequence was sequenced in genus Dremomys. Our results will provide information for further molecular studies.

| S-EPMC7800828 | biostudies-literature