Genotyping single nucleotide polymorphisms (SNPs) across species in Old World Monkeys
Bibliographic Data
| ID | 21079071 |
|---|---|
| Authors | Ripan S Malhi (0000-0002-1484-0292, University of Illinois Urbana-Champaign, corresponding author), Jessica Satkoski Trask (University of California, Davis), Milena R Shattuck (University of Illinois Urbana-Champaign), Milena Shattuck, Jesse Johnson, Jesse W Johnson (University of Illinois Urbana-Champaign), Debrapriyo Chakraborty (Tata Institute of Fundamental Research), Sree Kanthaswamy (0000-0003-4503-6886, University of California, Davis), Uma Ramakrishnan (0000-0002-5370-5966, Tata Institute of Fundamental Research), David Glenn Smith (0000-0001-7858-3785, University of California, Davis) |
| Year | 2011 |
| Volume | 73 |
| Issue | 10 |
| Pages | 1031-1040 |
| Publication date | 2011-10-01 |
| Open Access | Yes |
| Type | ARTICLE |
| Venue | American Journal of Primatology (JOURNAL) |
| Journal identifiers | ISSN: 0275-2565 • E-ISSN: 1098-2345 |
| Publisher | Wiley (PUBLISHER • GB) |
| DOI | 10.1002/ajp.20969 |
| PMID | 21630301 |
| OpenAlex | W2125245888 |
| Language | EN |
| Citations received | 1 |
| References cited | 17 |
The development of DNA markers is becoming increasingly useful in the field of primatology for studies on paternity, population history, and biomedical research. In this study, we determine the efficacy of using cross‐species amplification to identify single nucleotide polymorphisms (SNPs) in closely related species. The DNA of 93 individuals representing seven Old World Monkey species was analyzed to identify SNPs using cross‐species amplification and genotyping. The loci genotyped were 653 SNPs identified and validated in rhesus macaques. Of the 653 loci analyzed, 27% were estimated to be polymorphic in the samples studied. SNPs identified at the same locus among different species (coincident SNPs) were found in six of the seven species studied with longtail macaques exhibiting the highest number of coincident SNPs (84). The distribution of coincident SNPs among species is not biased based on proximity to genes in the samples studied. In addition, the frequency of coincident SNPs is not consistent with expectations based on their phylogenetic relationships. This study demonstrates that cross‐species amplification and genotyping using the Illumina Golden Gate Array is a useful method to identify a large number of SNPs in closely related species, although issues with ascertainment bias may limit the type of studies where this method can be applied. Am. J. Primatol. 73:1031–1040, 2011. © 2011 Wiley‐Liss, Inc
Biology · Evolutionary biology · Gene · Genotype · Genotyping · Phylogenetic tree · Population · Single-nucleotide polymorphism · SNP genotyping · Amphibian and Reptile Biology · Genomics and Phylogenetic Studies · Medicine · Primate Behavior and Ecology · Genetics
| Citations per year | 0.1 |
|---|---|
| Citation span | 2016 - 2016 (1) |
| Highly cited | No |