Development and validation of a SNP-based assay for inferring the genetic ancestry of rhesus macaques (Macaca mulatta)

Sreetharan Kanthaswamy, Zachary Johnson, Jessica Satkoski Trask, David G. Smith, Ranjani Ramakrishnan, Jason Bahk, Jillian Ng, Roger Wiseman, H. Michael Kubisch, Eric J. Vallender, Jeffrey Rogers, Betsy Ferguson

Research output: Contribution to journalArticle

14 Citations (Scopus)

Abstract

Rhesus macaques (Macaca mulatta) are an important primate model species in several areas of biomedical research. The wide geographic distribution of this species has led to significant genetic differentiation among local and regional populations. These regional differences can be important factors in the selection of the most appropriate subjects for particular research studies, as animals from different populations can respond differently to the same experimental treatment. Consequently, it is valuable to confirm the ancestry of individual rhesus monkeys from geographically distinct populations. Using DNA samples obtained from rhesus macaques from six National Primate Research Centers, we tested a set of 384 potential ancestry informative single nucleotide polymorphisms (SNPs) and identified a final panel of 91 SNPs that can reliably distinguish Indian-origin from Chinese-origin rhesus monkeys. This genetic test can be used to determine the ancestral origin of animals and to detect individuals that are hybrids between these two regional populations. To demonstrate use of the SNP panel, we investigated the ancestry of 480 animals from the Yerkes NPRC (YNPRC) for which the colony records were insufficient to clearly establish ancestry. Three of the YNPRC animals tested were determined to be hybrids. This SNP ancestry tool will be useful to researchers, colony managers, and others who wish to evaluate the ancestral origin of individual rhesus macaques, and therefore will facilitate more effective and efficient use of these animals in biomedical research.

Original languageEnglish (US)
Pages (from-to)1105-1113
Number of pages9
JournalAmerican Journal of Primatology
Volume76
Issue number11
DOIs
StatePublished - Nov 1 2014
Externally publishedYes

Fingerprint

Macaca mulatta
ancestry
single nucleotide polymorphism
polymorphism
assay
animal
assays
primate
biomedical research
animals
animal research
genetic differentiation
geographical distribution
managers
Primates
DNA
researchers
animal models
genetic variation
testing

Keywords

  • Ancestry
  • Genetic management
  • Rhesus

ASJC Scopus subject areas

  • Animal Science and Zoology
  • Ecology, Evolution, Behavior and Systematics

Cite this

Development and validation of a SNP-based assay for inferring the genetic ancestry of rhesus macaques (Macaca mulatta). / Kanthaswamy, Sreetharan; Johnson, Zachary; Trask, Jessica Satkoski; Smith, David G.; Ramakrishnan, Ranjani; Bahk, Jason; Ng, Jillian; Wiseman, Roger; Kubisch, H. Michael; Vallender, Eric J.; Rogers, Jeffrey; Ferguson, Betsy.

In: American Journal of Primatology, Vol. 76, No. 11, 01.11.2014, p. 1105-1113.

Research output: Contribution to journalArticle

Kanthaswamy, S, Johnson, Z, Trask, JS, Smith, DG, Ramakrishnan, R, Bahk, J, Ng, J, Wiseman, R, Kubisch, HM, Vallender, EJ, Rogers, J & Ferguson, B 2014, 'Development and validation of a SNP-based assay for inferring the genetic ancestry of rhesus macaques (Macaca mulatta)', American Journal of Primatology, vol. 76, no. 11, pp. 1105-1113. https://doi.org/10.1002/ajp.22290
Kanthaswamy, Sreetharan ; Johnson, Zachary ; Trask, Jessica Satkoski ; Smith, David G. ; Ramakrishnan, Ranjani ; Bahk, Jason ; Ng, Jillian ; Wiseman, Roger ; Kubisch, H. Michael ; Vallender, Eric J. ; Rogers, Jeffrey ; Ferguson, Betsy. / Development and validation of a SNP-based assay for inferring the genetic ancestry of rhesus macaques (Macaca mulatta). In: American Journal of Primatology. 2014 ; Vol. 76, No. 11. pp. 1105-1113.
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