A refined panel of 42 microsatellite loci to universally genotype catarrhine primates

Ecology and Evolution

Julia Fischer¹  Franziska Trede¹  Dietmar Zinner¹  Oliver Schülke²  Julia Ostner²  Andrew Jesse Connell³  James Stranks⁴  Christian Roos⁴  Niels Kil⁴ 

[1] Cognitive Ethology Laboratory German Primate Center Leibniz Institute for Primate Research Göttingen Germany;Department of Behavioral Ecology University of Göttingen Göttingen Germany;Department of Microbiology Perelman School of Medicine University of Pennsylvania Philadelphia PA USA;Primate Genetics Laboratory German Primate Center Leibniz Institute for Primate Research Göttingen Germany;

关键词: apes;    genotyping‐by‐sequencing;    high‐throughput sequencing;    Old World monkeys;    simple tandem repeats;   

DOI  :  10.1002/ece3.7069

来源: DOAJ

【 摘 要 】

Abstract Microsatellite genotyping is an important genetic method for a number of research questions in biology. Given that the traditional fragment length analysis using polyacrylamide gel or capillary electrophoresis has several drawbacks, microsatellite genotyping‐by‐sequencing (GBS) has arisen as a promising alternative. Although GBS mitigates many of the problems of fragment length analysis, issues with allelic dropout and null alleles often remain due to mismatches in primer binding sites and unnecessarily long PCR products. This is also true for GBS in catarrhine primates where cross‐species amplification of loci (often human derived) is common. We therefore redesigned primers for 45 microsatellite loci based on 17 available catarrhine reference genomes. Next, we tested them in singleplex and different multiplex settings in a panel of species representing all major lineages of Catarrhini and further validated them in wild Guinea baboons (Papio papio) using fecal samples. The final panel of 42 microsatellite loci can efficiently be amplified with primers distributed into three amplification pools. With our microsatellite panel, we provide a tool to universally genotype catarrhine primates via GBS from different sample sources in a cost‐ and time‐efficient way, with higher resolution, and comparability among laboratories and species.

【 授权许可】

Unknown