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Genetic Population Structure of Macridiscus multifarius (Mollusca: Bivalvia) on the Basis of Mitochondrial Markers: Strong Population Structure in a Species with a Short Planktonic Larval Stage.

Ye YY, Wu CW, Li JJ - PLoS ONE (2015)

Bottom Line: High level and significant FST values were obtained among the different localities on the basis of either COI (FST = 0.100-0.444, p < 0.05) or 12S rRNA (FST = 0.199-0.742, p < 0.05) gene, indicating a high degree of genetic differentiation among the populations.FST values were significant but weak for the ND1 gene because it is highly conservative.Our study unraveled the extant population genetic structure of M. multifarius and explained the strong population structure of a species with a short planktonic larval stage species; this information could be useful for fishery management measures, including artificial breeding and conservation.

View Article: PubMed Central - PubMed

Affiliation: National Engineering Research Center of Maricultural Facilities of China, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, China.

ABSTRACT
The clam Macridiscus multifarius with a planktonic larval stage of about 10 days is an ecologically and economically important species in the coastal regions of China. In this study, 3 mt-DNA markers (COI, 12S rRNA, and ND1) were used to investigate the population structure and demography of wild M. multifarius populations in 3 coastal localities of the East China Sea (ZS and ZP populations) and Beibu Gulf in the South China Sea (BH population). Sequences of 685 bp in COI, 350 bp in 12S rRNA, and 496 bp in ND1 were determined. High level and significant FST values were obtained among the different localities on the basis of either COI (FST = 0.100-0.444, p < 0.05) or 12S rRNA (FST = 0.199-0.742, p < 0.05) gene, indicating a high degree of genetic differentiation among the populations. FST values were significant but weak for the ND1 gene because it is highly conservative. The median-joining network suggested an obvious genetic differentiation between ZS and BH populations, and the finding is consistent with the results of our demographic analyses using the unweighted pair group method with arithmetic mean. Our study unraveled the extant population genetic structure of M. multifarius and explained the strong population structure of a species with a short planktonic larval stage species; this information could be useful for fishery management measures, including artificial breeding and conservation.

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Molecular phylogenetic trees for M. multifarius by using UPGMA based on COI (A), 12S rRNA (B), and NDI (C) gene sequence data using bootstrap test.Figures before population codes, which are behind the haplotypes, indicate that the number of individuals from the population belongs to the haplotype. All haplotypes are clustered in 1 branch, and the analyzed samples of M. multifarius are monophyletic with respect to the 3 out-groups: V. philippinarum (NC 003354.1), P. undulata (NC 016891.1), and P. amabilis (NC 016889.1) (100% bootstrap support).
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pone.0146260.g003: Molecular phylogenetic trees for M. multifarius by using UPGMA based on COI (A), 12S rRNA (B), and NDI (C) gene sequence data using bootstrap test.Figures before population codes, which are behind the haplotypes, indicate that the number of individuals from the population belongs to the haplotype. All haplotypes are clustered in 1 branch, and the analyzed samples of M. multifarius are monophyletic with respect to the 3 out-groups: V. philippinarum (NC 003354.1), P. undulata (NC 016891.1), and P. amabilis (NC 016889.1) (100% bootstrap support).

Mentions: The phylogenetic relationship of M. multifarius among the haplotypes was determined using COI, 12S rRNA, and ND1 genes of Venerupis philippinarum (NC 003354.1), Paphia undulata (NC 016891.1), and Paphia amabilis (NC 016889.1) as the out-groups (Fig 3). The 3 UPGMA trees showed that most of the haplotypes were weakly associated (less than 50% bootstrap support) or unresolved, which was possibly due to low nucleotide differences among them. Haplotypes of the 3 genes were clustered into 2 obvious branches. Furthermore, the 3 UPGMA trees (COI, 12S rRNA, and ND1 gene) consistently showed the same results: M. multifarius clustered (bootstrap 98, 96, and 99, respectively) with V. philippinarum and then clustered with the branch comprising P. undulata and P. amabilis.


Genetic Population Structure of Macridiscus multifarius (Mollusca: Bivalvia) on the Basis of Mitochondrial Markers: Strong Population Structure in a Species with a Short Planktonic Larval Stage.

Ye YY, Wu CW, Li JJ - PLoS ONE (2015)

Molecular phylogenetic trees for M. multifarius by using UPGMA based on COI (A), 12S rRNA (B), and NDI (C) gene sequence data using bootstrap test.Figures before population codes, which are behind the haplotypes, indicate that the number of individuals from the population belongs to the haplotype. All haplotypes are clustered in 1 branch, and the analyzed samples of M. multifarius are monophyletic with respect to the 3 out-groups: V. philippinarum (NC 003354.1), P. undulata (NC 016891.1), and P. amabilis (NC 016889.1) (100% bootstrap support).
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4697803&req=5

pone.0146260.g003: Molecular phylogenetic trees for M. multifarius by using UPGMA based on COI (A), 12S rRNA (B), and NDI (C) gene sequence data using bootstrap test.Figures before population codes, which are behind the haplotypes, indicate that the number of individuals from the population belongs to the haplotype. All haplotypes are clustered in 1 branch, and the analyzed samples of M. multifarius are monophyletic with respect to the 3 out-groups: V. philippinarum (NC 003354.1), P. undulata (NC 016891.1), and P. amabilis (NC 016889.1) (100% bootstrap support).
Mentions: The phylogenetic relationship of M. multifarius among the haplotypes was determined using COI, 12S rRNA, and ND1 genes of Venerupis philippinarum (NC 003354.1), Paphia undulata (NC 016891.1), and Paphia amabilis (NC 016889.1) as the out-groups (Fig 3). The 3 UPGMA trees showed that most of the haplotypes were weakly associated (less than 50% bootstrap support) or unresolved, which was possibly due to low nucleotide differences among them. Haplotypes of the 3 genes were clustered into 2 obvious branches. Furthermore, the 3 UPGMA trees (COI, 12S rRNA, and ND1 gene) consistently showed the same results: M. multifarius clustered (bootstrap 98, 96, and 99, respectively) with V. philippinarum and then clustered with the branch comprising P. undulata and P. amabilis.

Bottom Line: High level and significant FST values were obtained among the different localities on the basis of either COI (FST = 0.100-0.444, p < 0.05) or 12S rRNA (FST = 0.199-0.742, p < 0.05) gene, indicating a high degree of genetic differentiation among the populations.FST values were significant but weak for the ND1 gene because it is highly conservative.Our study unraveled the extant population genetic structure of M. multifarius and explained the strong population structure of a species with a short planktonic larval stage species; this information could be useful for fishery management measures, including artificial breeding and conservation.

View Article: PubMed Central - PubMed

Affiliation: National Engineering Research Center of Maricultural Facilities of China, College of Marine Science and Technology, Zhejiang Ocean University, Zhoushan, China.

ABSTRACT
The clam Macridiscus multifarius with a planktonic larval stage of about 10 days is an ecologically and economically important species in the coastal regions of China. In this study, 3 mt-DNA markers (COI, 12S rRNA, and ND1) were used to investigate the population structure and demography of wild M. multifarius populations in 3 coastal localities of the East China Sea (ZS and ZP populations) and Beibu Gulf in the South China Sea (BH population). Sequences of 685 bp in COI, 350 bp in 12S rRNA, and 496 bp in ND1 were determined. High level and significant FST values were obtained among the different localities on the basis of either COI (FST = 0.100-0.444, p < 0.05) or 12S rRNA (FST = 0.199-0.742, p < 0.05) gene, indicating a high degree of genetic differentiation among the populations. FST values were significant but weak for the ND1 gene because it is highly conservative. The median-joining network suggested an obvious genetic differentiation between ZS and BH populations, and the finding is consistent with the results of our demographic analyses using the unweighted pair group method with arithmetic mean. Our study unraveled the extant population genetic structure of M. multifarius and explained the strong population structure of a species with a short planktonic larval stage species; this information could be useful for fishery management measures, including artificial breeding and conservation.

Show MeSH
Related in: MedlinePlus