Hauser Samantha S, Athrey Giridhar, Leberg Paul L
Department of Biology University of Louisiana at Lafayette Lafayette Louisiana USA.
Faculty of Ecology and Evolutionary Biology Texas A&M University College Station Texas USA.
Ecol Evol. 2021 Oct 25;11(22):15800-15814. doi: 10.1002/ece3.8250. eCollection 2021 Nov.
Comparisons of microsatellites and single-nucleotide polymorphisms (SNPs) have found that SNPs outperform microsatellites in population genetic analyses, questioning the continued utility of microsatellites in population and landscape genetics. Yet, highly polymorphic markers may be of value in species that have reduced genetic variation. This study repeated previous analyses that used microsatellites with SNPs developed from ddRAD sequencing in the black-capped vireo source-sink system. SNPs provided greater resolution of genetic diversity, population differentiation, and migrant detection but could not reconstruct parentage relationships due to insufficient heterozygosities. The biological inferences made by both sets of markers were similar: asymmetrical gene flow from source sites to the remaining sink sites. With the landscape genetic analyses, we found different results between the two molecular markers, but associations of the top environmental features (riparian, open habitat, agriculture, and human development) with dispersal estimates were shared between marker types. Despite the higher precision of SNPs, we find that microsatellites effectively uncover population processes and patterns and are superior for parentage analyses in this species with reduced genetic diversity. This study illustrates the continued applicability and relevance of microsatellites in population genetic research.
对微卫星和单核苷酸多态性（SNP）的比较发现，在群体遗传分析中SNP的表现优于微卫星，这引发了对微卫星在群体和景观遗传学中持续实用性的质疑。然而，高度多态性的标记物对于遗传变异减少的物种可能具有价值。本研究重复了之前在黑顶绿鹃源 - 汇系统中使用微卫星与从ddRAD测序开发的SNP进行的分析。SNP在遗传多样性、群体分化和迁徙检测方面提供了更高的分辨率，但由于杂合度不足无法重建亲子关系。两组标记物得出的生物学推断相似：从源地到其余汇地的不对称基因流动。通过景观遗传分析，我们在两种分子标记物之间发现了不同的结果，但两种标记物类型在顶级环境特征（河岸、开阔栖息地、农业和人类发展）与扩散估计的关联方面是一致的。尽管SNP具有更高的精度，但我们发现微卫星能有效地揭示群体过程和模式，并且在这个遗传多样性降低的物种中进行亲子分析时更具优势。本研究说明了微卫星在群体遗传研究中的持续适用性和相关性。
