Browse
Submit Data
Databases
API
Help

Dataset Information

25 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete mitochondrial genome of the Emei black chicken (Gallus gallus) and its phylogenetic analyses.

ABSTRACT: In this study, the complete mitochondrial genome of Emei black chicken (Gallus gallus) was obtained by using next generation sequencing method. The complete mitogenome sequence is 16,784 bp in length, containing 13 protein-coding genes, two ribosomal RNAs, 22 transfer RNA genes, and one control region. This work provides a valuable genetic resource of data for the Gallus gallus evolution study and contributes to the breeding improvement program of native chicken breeds.

SUBMITTER: Gu J

PROVIDER: S-EPMC7781979 | biostudies-literature |

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Similar Datasets

Complete mitochondrial genome and phylogenetic analysis of Huangshan Black chicken (Gallus gallus).

Project description:In this study, we sequenced the complete mitochondrial genome (mitogenome) of the Huangshan Black chicken (HBC). Results showed that the complete HBC mitogenome was 16,785 bp in size, comprising 22 transfer RNA genes, 2 ribosomal RNA genes, 13 protein-coding genes, and 1 non-coding control region (D-loop). The overall nucleotide composition was 32.5% for C, 30.3% for A, 23.7% for T, and 13.5% for G. Phylogenetic analysis showed that the HBC mitogenome was clustered with Xianju chicken, which belonged to the haplogroup D2. Our results therefore demonstrate that the origin of HBC corresponds to haplogroup D2 distribution and might have at least one maternal lineage originated from Southeast Asia.

| S-EPMC7872527 | biostudies-literature

The complete mitochondrial genome and phylogenetic analysis of the Hetian chicken (Gallus gallus).

Project description:In this study, the complete mitochondrial genome of Hetian chicken (Gallus gallus) was obtained by using next generation sequencing method. The total length of complete mitogenome sequence is 16,784 bp, containing one control region, 2 ribosomal RNAs, 13 protein-coding genes and 22 transfer RNA genes. This work provides a valuable source of data for the study of the evolution of Gallus gallus mitochondrial genome and contributes to Hetian chicken breeding improvement program.

| S-EPMC7782330 | biostudies-literature

Characteristics of the complete mitochondrial genome of Douhua chicken (Gallus gallus) and phylogenetic considerations.

Project description:Douhua chicken is a unique local breed from Anhui Province, China. This study aimed to illustrate the Douhua chicken mitogenome and clarify its phylogenetic status by sequencing and annotating the complete mitochondrial genome using high-throughput sequencing and primer walking. Phylogenetic analysis through the Kimura 2-parameter model indicated the maternal origin of Douhua chicken. The results revealed that the mitochondrial genome is a closed circular molecule (16,785 bp) that consists of 13 protein-coding genes, 22 transfer RNA (tRNA) coding genes, two ribosomal RNA (rRNA) coding genes, and a control region. The base composition of the Douhua chicken mitogenome contains 30.3% A, 23.7% T, 32.5% C, and 13.5% G, and the haplotype and nucleotide diversity values are 0.829 (Hd) and 0.00441 (Pi), respectively. Furthermore, 10 haplotypes of D-loop sequences among 60 Douhua chickens were identified and distributed into four haplogroups (A, C, D, and E). Overall, the result of the present study indicates that Douhua chicken may have originated from Gallus gallus, and this process was influenced by Gallus gallus spadiceus, Gallus gallus murghi, and Gallus gallus bankiva. This study provides novel mitogenome data to support further phylogenetic and taxonomic studies on Douhua chicken. Additionally, the findings of this study will provide deeper insights for identifying the genetic relationships among populations and tracing maternal origins based on phylogenetic considerations for use in studies on the geographic conservation, utilization, and molecular genetics of poultry species.

| S-EPMC10016196 | biostudies-literature

The complete mitochondrial genome of the Dongan black chicken and its phylogenetic analyses.

Project description:Dongan black chicken (Gallus gallus domesticus, DBC) is one of the famous native breed of Hunan province in China. The complete mitochondrial genome sequence plays an important role in the accurate determination of phylogenetic relationships among metazoans. It is the first time that the complete mitochondrial genome sequence of the DBC was reported. The total length of the mtDNA is 16,785 bp, It contains the typical structure, including 22 transfer RNA genes, 2 ribosomal RNA genes, 13 protein-coding genes and 1 non-coding control region (D-loop region). The overall composition of the mtDNA was estimated to be 30.27% for A, 23.78% for T, 32.46% for C, and 13.49% for G. Phylogenetic analyses using N-J computational algorithms showed that the analyzed 21 Galliformes species are divided into four major clades: Phasianidae, Numidiidae, Odontophoridae, and Megapodiidae. In addition, our work confirmed that DBC and Taoyuan chicken (TYC) have a close genetic relationship with fellow tribal members Xuefeng black-boned chicken (XBC) and Huang Lang chicken (HLC). Meanwhile, we also found that DBC and TYC have highly similar genetic relationship. This work will provide an important data set for the study of genetic mechanism of chicken in Hunan province.

| S-EPMC7800344 | biostudies-literature

The complete mitochondrial genome of the Luhua chicken (Gallus gallus).

Project description:The Luhua chicken is one of the excellent Chinese local chicken breeds. The first complete mitochondrial genome of Luhua chicken was assembled by using next generation sequencing method. The complete mitogenome contains one control region, 2 ribosomal RNAs, 13 protein-coding genes and 22 transfer RNA genes. This work provides a valuable resource for the mitochondrial research and contributes to genetic improvement of domestic chicken.

| S-EPMC7783154 | biostudies-literature

Characterization and phylogenetic analysis of the complete mitochondrial genome in Xiaoxiang chicken (Gallus gallus domesticus).

Project description:Xiaoxiang chicken (Gallus gallus domesticus) is one of the native breeds in the Southeastern of Guizhou province, China. The complete mitochondrial genome sequence of Xiaoxiang chicken (small-sized breed chicken) was obtained for the first time. The mitogenome is 16,784 bp in length, and it contained a D-loop region, two rRNA genes, 13 protein-coding genes, and 22 tRNA genes. A neighbour-joining phylogenetic tree was structured based on the D-loop, which indicated that the Red junglefowl was the direct ancestor of Xiaoxiang chicken, and both were closed to the Silky chicken and Dongan black chicken.

| S-EPMC7748485 | biostudies-literature

Mitochondrial genome and phylogenetic analysis of Gaojiao chicken (Gallus gallus).

Project description:In this study, the complete mitochondrial genome of Gaojiao chicken (Gallus gallus) was sequenced using samples collected from Puding county of Guizhou province, China. The mitogenome of Gaojiao chicken is 16,786 bp in length, and it contained 22 transfer RNA (tRNA) genes, 2 ribosomal RNA (rRNA) genes, 13 protein-coding genes (PCGs), and a control region (D-loop), the overall base nucleotide compositions encoded are 30.27% A, 32.52% C, 13.49% G, and 23.72% T. The phylogenetic tree was constructed using neighbor-joining (N-J) method, which indicated that the Gaojiao chicken has the close relationship with Nandan chicken, Daweishan chicken, Wuding chicken, and Guangxi three-buff chicken.

| S-EPMC7782253 | biostudies-literature

The complete mitochondrial genome of Huainan partridge chicken (Gallus gallus).

Project description:Huainan Partridge chicken is one of the indigenous chicken breeds in China. In this study, the first complete mitochondrial DNA (mtDNA) sequence of Huainan Partridge chicken had been obtained using PCR amplification, sequencing and assembling. The mitogenome of Huainan Partridge chicken is 16785 bp in length, including a control region (D-loop), 13 protein-coding genes, 22 transfer genes and 2 ribosomal genes. The base composition of the complete mtDNA sequence is 30.27% for A, 23.73% for T, 13.50%for G, 32.50% for C. This study will provide reference for the phylogenetic analysis of Huainan Partridge chicken.

| S-EPMC7832493 | biostudies-literature

Complete mitochondrial genome of the Longsheng Feng chicken (Gallus gallus).

Project description:In this study, the complete mitochondrial genome of Longsheng Feng chicken (Gallus gallus) was obtained by using a next-generation sequencing method for the first time. The complete mitochondrial genome sequence of Longsheng Feng chicken contains 2 ribosomal RNAs, 13 protein-coding genes, 22 transfer RNA genes and one control region. This work provides valuable genetic data for chicken mitochondrial researches and phylogenetic studies of domestic chickens.

| S-EPMC7781991 | biostudies-literature

Next-generation sequencing of the complete mitochondrial genome of the Nixi chicken (Gallus gallus).

Project description:Nixi chicken is a type of Tibetan chickens who lives at high altitudes in China. In this study, we reported the first complete mitochondrial genome of Nixi chicken by using a next-generation sequencing method. The assembled complete mitogenome contains one control region, 2 ribosomal RNAs, 13 protein-coding genes and 22 transfer RNA genes. Our work provides a valuable source of data for the study of the evolution of the Gallus gallus mitochondrial genome and contributes to the Nixi chicken breeding improvement program.

| S-EPMC7781923 | 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