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Updated: Aug 22, 2025

Genotyping Single Nucleotide Polymorphisms in the Mitochondrial Genome by Pyrosequencing
Published on: February 10, 2023
Mitochondrial genome and phylogenetic analysis of Chaohu duck
Yuqing Jia1, Guiru Qiu2, Chengcheng Cao2
1College of Animal Science and Technology, Anhui Agricultural University, Hefei 230036, China; Anhui Provincial Key Laboratory of Local Animal Genetic Resources Conservation and Bio-breeding, Hefei 230036, China.
Abstract:
A complete mitochondrial genome sequence is important for the accurate determination of phylogenetic relationships. Chaohu duck is a dominant native breed in Anhui Province, China. We aimed to ascertain the complete mitochondrial genome sequence of Chaohu duck via high-throughput sequencing and primer walking. Phylogenetic analysis of Chaohu duck was performed following Kimura 2-parameter model. The total length of the mitogenome was 16,597 bp, and comprised 29.2 %A, 22.2 % T, 32.8 % C, and 15.8 % G. It included 2 ribosomal RNA genes, 13 protein-coding genes, 22 transfer RNA genes and a control region (D-loop). Furthermore, the haplotype diversity and nucleotide diversity values were 0.9028(Hd) and 0.01162(Pi) respectively. This indicates that Chaohu duck has high population diversity. Twenty-two haplotypes were identified in sixty Chaohu ducks which were divided into two haplogroups. Therefore, we inferred that Chaohu duck may originate from Anas platyrhynchos, and was influenced by Anas poecilorhyncha during evolution. Our results provide mitochondrial genome information for further studies on Chaohu ducks and lays a foundation for germplasm resources conservation.
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