Molecular phylogeny of three subspecies of common carp Cyprinus carpio, based on sequence analysis of cytochrome b and control region of mtDNA

Zhou, Jianfeng; Wu, Qingping; Wang, Zhiwei; Ye, Y.

doi:10.1111/j.1439-0469.2004.00266.x

Cited by 37 publications

(30 citation statements)

References 18 publications

(33 reference statements)

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“…Kohlmann et al (2003) using the same mitochondrial DNA markers supported the previous clustering as these genetic markers revealed two haplotype groups: European/Central Asian (C. c. carpio) and East/South-East Asian (C. c. haematopterus). This has also been supported by subsequent sequence analysis of cyt b and D-loop of mtDNA, which showed at least two distinct subspecies C. c. carpio and C. c. haematopterus (Zhou et al 2004). Our results are therefore in general agreement with previous reconstructions.…”

Section: Discussionmentioning

confidence: 61%

Genetic characterization of common carp (Cyprinus carpio) populations from Greece using mitochondrial DNA sequences

et al. 2009

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Wild common carp from two lakes and two rivers in Greece were genetically characterized with sequencing analysis of two mitochondrial DNA segments: cytochrome b (1119 bp) and D-loop (646 bp). A total of 9 variable singleton sites and 7 unique haplotypes were detected. A common haplotype was found in three out of the four populations examined, which seems to be the ancestral one and represents the European origin of common carp from Greece. This haplotype could be also justified by the introductions reported with individuals belonging to the Central European race, into many natural habitats in Greece. Limited genetic variation -in Evros and Aliakmonas populations -could be due to bottleneck effects and small effective population sizes, whereas the different haplotypes found in Lake Volvi could represent different common carp stocks. Values of sequence divergence among Greek haplotypes ranged from 0.0006 to 0.0023. The Neighbour-Joining (NJ) phylogenetic tree constructed based on the combined sequences, reveals that the populations of common carp from Greece belong to the European group of populations -which is highly divergent from the South East-Asia cluster -and to the subspecies Cyprinus carpio carpio.

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Section: Discussionmentioning

confidence: 61%

Genetic characterization of common carp (Cyprinus carpio) populations from Greece using mitochondrial DNA sequences

et al. 2009

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“…The remaining units (B, C, D, and E) were separately nested within the Eurasian clade. 7 haplotypes (LXY024, 007, 019, 023, 005, 008) of unit C, and two haplotypes (LXY013, 017) of unit E were all identical to 12 haplotypes of Cyprinus cyprinus haematopterus in Zhou et al (2004). Strangely, the haplotype from Lake Xingyun in unit D (LXY006) was identical to the haplotypes from Europe, and haplotypes of unit B (LXY015, 018) were nested within the Vietnam clade.…”

Section: Molecular Analysismentioning

confidence: 86%

“…In order to make an effective conservation plan for native carp in Lake Xingyun, more research is needed on the hybridization of native and non-native carp, as well as the current state of native carp populations. Zhou et al (2004) …”

Section: Origins Of the Non-native Haplotypesmentioning

confidence: 97%

“…The nine D-loop sequences published in Froufe et al (2002) were excluded as they were too short (565 bp) to reconstruct their phylogenetic relationship reliably. The 69 previously published partial sequences (Chang et al 1994;Zhou et al 2003Zhou et al , 2004Thai et al 2004;Mabuchi et al 2005Mabuchi et al , 2006Mabuchi et al , 2008 included all of the main geographical strains in Eurasia (see Sect. ''Appendix'').…”

Section: Phylogenetic Analysis Of Haplotypesmentioning

confidence: 99%

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Non-native carp of the genus Cyprinus in Lake Xingyun, China, as revealed by morphology and mitochondrial DNA analysis

Yang

2010

Biol Invasions

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Lake Xingyun is a major body of water in Yunnan Province, China. Previous investigations suggested that the lake contained native populations of carp of the genus Cyprinus, but it is believed that these native populations disappeared due to overfishing. However, one or more Cyprinus species are currently abundant in Lake Xingyun but their identity and origin are unclear. To determine if the existing Cyprinus population is indeed non-native, we compared the morphologies of fish (n = 62) recently captured (2007) to museum preserved Cyprinus collected in the lake in the 1960s. In addition, we conducted mitochondrial DNA analyses of Cyprinus (n = 65) recently taken from the lake and found 28 haplotypes. The genetics of the lake's sample were compared to Cyprinus from a wide range of other locations within and outside China. Together with previously published Japanese and Eurasian haplotypes, phylogenetic analysis demonstrated 28 haplotypes and these were classified into five different units. One of the five units included 16 closely related haplotypes that formed a monophyletic group apart from the Eurasian clade. Given their monophyly that included 3 native carp haplotypes, haplotypes from this unit were thought to originate from the native strain of Lake Xingyun. Furthermore, combining this with result from morphological analysis, it was concluded that these haplotypes were likely hybrid carp. Conversely, haplotypes from the other 4 units nested into the Eurasian clade. Their phylogenetic affinities to Eurasian lineages indicated that these haplotypes were domesticated strains introduced from other parts of China, Vietnam and Europe. These conclusions were supported by historical records on introduction. This study revealed that almost all carp from current Lake Xingyun may be originated from hybrid strains and domesticated strains introduced from Eurasia.

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“…However, only partial mtDNA sequences were used in most studies because of budget and technology concerns. The cytochrome c oxidase subunit II, cytochrome b (Cyt b), and the displacement loop (D-loop) regions are the most commonly used sequences for phylogenetic analyses (Kohlmann and Kersten 2013;Zhou et al 2004b). However, different genes and regions in the mitogenome have various evolutionary rates, which may generate significant differences during phylogenetic analyses.…”

Section: Introductionmentioning

confidence: 99%

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

Dong

Wang

et al. 2015

Mar Biotechnol

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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.

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Molecular phylogeny of three subspecies of common carp Cyprinus carpio, based on sequence analysis of cytochrome b and control region of mtDNA

Cited by 37 publications

References 18 publications

Genetic characterization of common carp (Cyprinus carpio) populations from Greece using mitochondrial DNA sequences

Genetic characterization of common carp (Cyprinus carpio) populations from Greece using mitochondrial DNA sequences

Non-native carp of the genus Cyprinus in Lake Xingyun, China, as revealed by morphology and mitochondrial DNA analysis

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

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