Characterisation of the complete mitochondrial genome, genetic diversity and maternal origin of Huainan Partridge chicken

Zang, He; Wang, Y; Yang, Huixian; He, Peimin; Pan, Saichao; Zhao, Geng; Jin, Sihua

doi:10.1080/00071668.2020.1855628

Cited by 3 publications

(2 citation statements)

References 36 publications

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“…SNPs have been used for genomewide analysis to assess the conservation status and the genomic variability of Italian chicken breeds [22] as well as to understand genetic structures of these (indigenous, commercial, gamecock, and wild ancestral chicken) breeds under different selection pressure [23]. Furthermore, mitogenome sequences have been utilized to assess hereditary divergence between 22 Asian native breeds and seven native Indian chicken breeds [24], to investigate phylogenetic evolution and genetic diversity of Tibetan chicken [25], Tosa-Jidori of Japan [26], Huainan Partridge [27], and Huangshan Black [28] chickens of China. However, microsatellites and DNA barcodes still accepted as markers of choice because they are technically less demanding and cost-effective in evaluation.…”

Section: Discussionmentioning

confidence: 99%

Genetic diversity among two native Indian chicken populations using cytochrome c oxidase subunit I and cytochrome b DNA barcodes

et al. 2021

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Background and Aim: India has large varieties (recognized, unrecognized) of native chickens (Desi) scattered throughout the country, managed under scavenging system different from commercial chicken breeds. However, they are less investigated for genetic diversity they harbor. The present study was planned to evaluate genetic diversity among two native chicken populations of North Gujarat (proposed Aravali breed) and South Gujarat (Ankleshwar breed). Aravali chicken, a distinct population with unique characters different from the registered chicken breeds of India is under process to be registered as a new chicken breed of Gujarat, India. Materials and Methods: Two mitochondrial markers, namely, cytochrome c oxidase subunit I (COX I) and cytochrome b (Cyt b) genes were studied across 10 birds from each population. Methodology included sample collection (blood), DNA isolation (manual), polymerase chain reaction amplification of mitochondrial genes, Sanger sequencing, and purification followed by data analysis using various softwares. Results: Haplotype analysis of the COX I gene unveiled a total eight and three haplotypes from the Aravali and Ankleshwar populations, respectively, with haplotype diversity (Hd) of 92.70 % for the Aravali and 34.50% for the Ankleshwar breed. Haplotype analysis of the Cyt b gene revealed a total of four haplotypes from the Aravali population with 60% Hd and no polymorphism in Ankleshwar breed. The phylogenetic analysis uncovered Red Jungle Fowl and Gray Jungle Fowl as prime roots for both populations and all domestic chicken breeds. Conclusion: Study findings indicated high genetic variability in Aravali chicken populations with COX I mitochondrial marker being more informative for evaluating genetic diversity in chickens.

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Section: Discussionmentioning

confidence: 99%

Genetic diversity among two native Indian chicken populations using cytochrome c oxidase subunit I and cytochrome b DNA barcodes

et al. 2021

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“…Unlike other chicken populations, a considerable part of the MH population (41.71%) belong to haplogroup B, showing characteristics that are different from those of other chicken breeds. In addition, maternal lineage sharing has been reported among different indigenous chicken breeds in various geographical locations [52][53][54]. Among the eight flocks studied, clades A and E were found to be in common, indicating a common origin.…”

Section: Discussionmentioning

confidence: 87%

Studying Genetic Diversity and Relationships between Mountainous Meihua Chickens Using Mitochondrial DNA Control Region

Ran

Zhu

Zhao

et al. 2023

Genes

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The Mountainous Meihua chicken is a unique regional germplasm resource from Tongjiang County, Bazhong City, China, but its genetic structure and evolutionary relationships with other native chicken breeds in the Sichuan region remain unclear. Here, we analyzed a total of 469 sequences, including 199 Mountainous Meihua chicken sequences generated in this study, together with 30 sequences representing 13 clades and 240 sequences from seven different Sichuan local chicken breeds downloaded from NCBI. These sequences were further used to analyze genetic diversity, patterns of population differentiation, and phylogenetic relationships between groups. We show that Mountainous Meihua chicken mtDNA sequences have high haplotypic and nucleotide diversity (0.876 and 0.012, respectively) and with a T bias that is suggestive of good breeding potential. Phylogenetic analysis showed that Mountainous Meihua chickens belong to clades A, B, E, and G and have a low affinity to other chicken breeds, with a moderate degree of differentiation. A non-significant Tajima’s D indicates that no demographic expansions occurred in the past. Finally, the four maternal lineages identified in Mountainous Meihua chicken showed unique genetic characteristics.

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

Jin

Jia

Jiang

et al. 2023

Journal of Animal Science

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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 indicate 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 provide 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.

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Characterisation of the complete mitochondrial genome, genetic diversity and maternal origin of Huainan Partridge chicken

Cited by 3 publications

References 36 publications

Genetic diversity among two native Indian chicken populations using cytochrome c oxidase subunit I and cytochrome b DNA barcodes

Genetic diversity among two native Indian chicken populations using cytochrome c oxidase subunit I and cytochrome b DNA barcodes

Studying Genetic Diversity and Relationships between Mountainous Meihua Chickens Using Mitochondrial DNA Control Region

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

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