A simple strategy for development of single nucleotide polymorphisms from non-model species and its application in Panax.
A simple strategy for development of single nucleotide polymorphisms from non-model species and its application in Panax.
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非模式物种单核苷酸多态性开发的简单策略及其在三七中的应用
DOI：
10.3390/ijms141224581
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发表时间：
2013-12-17
影响因子：
5.6
通讯作者：
Li LF
中科院分区：
文献类型：
--
作者：
Li MR;Wang XF;Zhang C;Wang HY;Shi FX;Xiao HX;Li LF
单核苷酸多态性（Single nucleotide polymorphisms, SNPs）广泛应用于群体遗传学、分子育种和保守遗传学的研究中。在这项研究中，我们探索了一种基于筛选单拷贝核基因（scng）文库的非模式物种单核苷酸多态性的简单途径。将该策略应用于西洋参和西洋参中，分别鉴定出160个和171个snp。结果表明，人参和西洋参具有较高的核苷酸多样性。人参和西洋参的单倍型数量分别为1 ~ 12个和1 ~ 9个。人参和西洋参的总位点核苷酸多样性（πT）分别在0.000 ~ 0.023和0.000 ~ 0.035之间。这些发现表明，这种方法非常适合于在非模式生物中发现SNP，并且很容易用于标准遗传学实验室研究。
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.
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影响因子：
14.9
作者：
Benson DA;Cavanaugh M;Clark K;Karsch-Mizrachi I;Ostell J;Pruitt KD;Sayers EW
通讯作者：
Sayers EW
影响因子：
4.4
作者：
Howe GT;Yu J;Knaus B;Cronn R;Kolpak S;Dolan P;Lorenz WW;Dean JF
通讯作者：
Dean JF
影响因子：
4.1
作者：
Lee, C;Wen, J
通讯作者：
Wen, J
影响因子：
3.4
作者：
Duarte, Jill M.;Wall, P. Kerr;dePamphilis, Claude W.
通讯作者：
dePamphilis, Claude W.
影响因子：
7.7
作者：
Clemento, A. J.;Abadia-Cardoso, A.;Garza, J. C.
通讯作者：
Garza, J. C.