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Int. J. Mol. Sci. 2013, 14(12), 24581-24591; doi:10.3390/ijms141224581
Article

A Simple Strategy for Development of Single Nucleotide Polymorphisms from Non-Model Species and Its Application in Panax

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Received: 12 November 2013 / Revised: 9 December 2013 / Accepted: 13 December 2013 / Published: 17 December 2013
(This article belongs to the Section Biochemistry, Molecular Biology and Biophysics)
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Abstract

Single nucleotide polymorphisms (SNPs) are widely employed in the studies of population genetics, molecular breeding and conservation genetics. In this study, we explored a simple route to develop SNPs from non-model species based on screening the library of single copy nuclear genes (SCNGs). Through application of this strategy in Panax, we identified 160 and 171 SNPs from P. quinquefolium and P. ginseng, respectively. Our results demonstrated that both P. ginseng and P. quinquefolium possessed a high level of nucleotide diversity. The number of haplotype per locus ranged from 1 to 12 for P. ginseng and from 1 to 9 for P. quinquefolium, respectively. The nucleotide diversity of total sites (πT) varied between 0.000 and 0.023 for P. ginseng and 0.000 and 0.035 for P. quinquefolium, respectively. These findings suggested that this approach is well suited for SNP discovery in non-model organisms and is easily employed in standard genetics laboratory studies.
Keywords: conservation genetics; Panax ginseng; Panax quinquefolium; single copy nuclear gene conservation genetics; Panax ginseng; Panax quinquefolium; single copy nuclear gene
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Li, M.R.; Wang, X.F.; Zhang, C.; Wang, H.Y.; Shi, F.X.; Xiao, H.X.; Li, L.F. A Simple Strategy for Development of Single Nucleotide Polymorphisms from Non-Model Species and Its Application in Panax. Int. J. Mol. Sci. 2013, 14, 24581-24591.

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