Phylogeny and Evolution of Multiple Common Carp (Cyprinus carpio L.) Populations Clarified by Phylogenetic Analysis Based on Complete Mitochondrial Genomes

Chuanju Dong, Jian Xu, Baosen Wang, Jianxin Feng, Z. Jeney, Xiaowen Sun, Peng Xu

Research output: Contribution to journalArticle

10 Citations (Scopus)

Abstract

Common carp (Cyprinus carpio L.) is one of the oldest, most widely farmed commercially important freshwater fish in the world. However, many undetermined phylogenetic relationships and origins of common carp lineages remain, which are obstacles to conservation and genetic breeding of this species. Phylogenetic analyses based on molecular tools are helpful to distinguish the origin of species, understand and clarify their evolutionary history, and provide a genetic basis for selective breeding. In this study, we demonstrated a method to extract complete mitochondrial genome sequences from whole-genome resequencing data using the Illumina platform. The complete mitochondrial genome sequences of 26 individuals representing nine strains were obtained and subjected to a phylogenetic analysis. We reconstructed the phylogenetic topologies of the nine strains and analyzed the haplotypes. Results from both analyses suggested that the genome sequences belonged to two distinct subspecies from Europe and East Asia. We also estimated the time of divergence of the nine strains, which was up to 100 KYA. The phylogenetic results clarified the breeding history of Songpu mirror carp and suggest that this species may be hybrid of paternal European mirror carp and maternal Xingguo red carp. The results also support a previous hypothesis that koi may have originated from or have close ancestry with Oujiang color carp in China.

Original languageEnglish
Pages (from-to)565-575
Number of pages11
JournalMarine Biotechnology
Volume17
Issue number5
DOIs
Publication statusPublished - Oct 21 2015

Fingerprint

Mitochondrial Genome
Carps
Phylogeny
Cyprinus carpio
phylogeny
genome
phylogenetics
Population
carp
breeding
koi
selective breeding
Breeding
history
History
selection methods
Genome
East Asia
freshwater fish
ancestry

Keywords

  • Common carp
  • Cyt b
  • D-loop
  • Mitochondrial genome
  • Phylogenetics

ASJC Scopus subject areas

  • Aquatic Science
  • Biotechnology

Cite this

Phylogeny and Evolution of Multiple Common Carp (Cyprinus carpio L.) Populations Clarified by Phylogenetic Analysis Based on Complete Mitochondrial Genomes. / Dong, Chuanju; Xu, Jian; Wang, Baosen; Feng, Jianxin; Jeney, Z.; Sun, Xiaowen; Xu, Peng.

In: Marine Biotechnology, Vol. 17, No. 5, 21.10.2015, p. 565-575.

Research output: Contribution to journalArticle

Dong, Chuanju ; Xu, Jian ; Wang, Baosen ; Feng, Jianxin ; Jeney, Z. ; Sun, Xiaowen ; Xu, Peng. / Phylogeny and Evolution of Multiple Common Carp (Cyprinus carpio L.) Populations Clarified by Phylogenetic Analysis Based on Complete Mitochondrial Genomes. In: Marine Biotechnology. 2015 ; Vol. 17, No. 5. pp. 565-575.
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