Multi-locus inference of population structure: a comparison between single nucleotide polymorphisms and microsatellites.
Multi-locus inference of population structure: a comparison between single nucleotide polymorphisms and microsatellites.
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DOI：
10.1038/hdy.2010.21
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发表时间：
2011-01
期刊：
影响因子：
3.8
通讯作者：
Payseur, B. A.
中科院分区：
文献类型：
--
作者：
Haasl, R. J.;Payseur, B. A.
关键词：
Although growing numbers of single nucleotide polymorphisms (SNPs) and microsatellites (short tandem repeat polymorphisms or STRPs) are used to infer population structure, their relative properties in this context remain poorly understood. SNPs and STRPs mutate differently, suggesting multi-locus genotypes at these loci might differ in ability to detect population structure. Here, we use coalescent simulations to measure the power of sets of SNPs and STRPs to identify population structure. To maximize applicability of our results to empirical studies, we focus on the popular STRUCTURE analysis and evaluate the role of several biological and practical factors in the detection of population structure. We find that: (1) fewer unlinked STRPs than SNPs are needed to detect structure at divergence times <0.3 Ne generations; (2) accurate estimation of the number of populations requires many fewer STRPs than SNPs; (3) for both marker types, declines in power due to modest gene flow (Nem=1.0) are largely negated by increasing marker number; (4) variation in the STRP mutational model affects power modestly; (5) SNP haplotypes (θ=1, no recombination) provide power comparable to STRP loci (θ=10); (6) ascertainment schemes that select highly variable STRP or SNP loci increase power to detect structure, though ascertained data may not be suitable to other inference; and (7) when samples are drawn from an admixed population and one parent population, the reduction in power to detect two populations is greater for STRPs than SNPs. These results should assist the design of multi-locus studies to detect population structure in nature.
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影响因子：
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通讯作者：
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影响因子：
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作者：
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影响因子：
3.7
作者：
Hamblin, Martha T.;Warburton, Marilyn L.;Buckler, Edward S.
通讯作者：
Buckler, Edward S.
DOI：
10.1073/pnas.91.8.3166
发表时间：
1994-04-12
影响因子：
11.1
作者：
DIRIENZO, A;PETERSON, AC;FREIMER, NB
通讯作者：
FREIMER, NB