Endonuclease V digestion for SNP discovery and marker development in South African white rhinoceros (Ceratotherium simum)

Christiaan  Labuschagne; Antoinette Kotze; J. Paul Grobler; Desire Dalton

doi:10.1007/s12686-014-0358-6

Endonuclease V digestion for SNP discovery and marker development in South African white rhinoceros (Ceratotherium simum)

Christiaan Labuschagne, Antoinette Kotze, J. Paul Grobler, Desire Dalton

SHLS Life Sciences

Research output: Contribution to journal › Article › peer-review

Abstract

Single nucleotide polymorphism (SNP) markers are a promising new tool that can be used to study
evolutionary processes, population genetic parameters,
forensic cases and parentage. However, application of SNP
marker analysis to wildlife has been limited, due to the lack
of available sequence data in non-model organisms. Here,
we describe a simple, rapid and cost effective method to
isolate candidate SNPs in non-model organisms using the
commercially available Endonuclease V enzyme. In a first
application of this method, this SNP isolation strategy
resulted in the identification of 12 new SNPs for white
rhinoceros (Ceratotherium simum). This species has low
reported genetic variability and has suffered severe bottlenecks over the last 150 years. Developed SNP markers
in white rhinoceros could be used to define the genetic
mating system of this species, for forensic applications and
to determine population structure and variability when
other markers prove problematic.

Original language	English
Pages (from-to)	53-56
Journal	Conservation Genetics Resources
Volume	71
DOIs	https://doi.org/10.1007/s12686-014-0358-6
Publication status	Published - 22 Oct 2014

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title = "Endonuclease V digestion for SNP discovery and marker development in South African white rhinoceros (Ceratotherium simum)",

abstract = "Single nucleotide polymorphism (SNP) markers are a promising new tool that can be used to studyevolutionary processes, population genetic parameters,forensic cases and parentage. However, application of SNPmarker analysis to wildlife has been limited, due to the lackof available sequence data in non-model organisms. Here,we describe a simple, rapid and cost effective method toisolate candidate SNPs in non-model organisms using thecommercially available Endonuclease V enzyme. In a firstapplication of this method, this SNP isolation strategyresulted in the identification of 12 new SNPs for whiterhinoceros (Ceratotherium simum). This species has lowreported genetic variability and has suffered severe bottlenecks over the last 150 years. Developed SNP markersin white rhinoceros could be used to define the geneticmating system of this species, for forensic applications andto determine population structure and variability whenother markers prove problematic.",

author = "Christiaan Labuschagne and Antoinette Kotze and Grobler, {J. Paul} and Desire Dalton",

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T1 - Endonuclease V digestion for SNP discovery and marker development in South African white rhinoceros (Ceratotherium simum)

AU - Labuschagne, Christiaan

AU - Kotze, Antoinette

AU - Grobler, J. Paul

AU - Dalton, Desire

PY - 2014/10/22

Y1 - 2014/10/22

N2 - Single nucleotide polymorphism (SNP) markers are a promising new tool that can be used to studyevolutionary processes, population genetic parameters,forensic cases and parentage. However, application of SNPmarker analysis to wildlife has been limited, due to the lackof available sequence data in non-model organisms. Here,we describe a simple, rapid and cost effective method toisolate candidate SNPs in non-model organisms using thecommercially available Endonuclease V enzyme. In a firstapplication of this method, this SNP isolation strategyresulted in the identification of 12 new SNPs for whiterhinoceros (Ceratotherium simum). This species has lowreported genetic variability and has suffered severe bottlenecks over the last 150 years. Developed SNP markersin white rhinoceros could be used to define the geneticmating system of this species, for forensic applications andto determine population structure and variability whenother markers prove problematic.

AB - Single nucleotide polymorphism (SNP) markers are a promising new tool that can be used to studyevolutionary processes, population genetic parameters,forensic cases and parentage. However, application of SNPmarker analysis to wildlife has been limited, due to the lackof available sequence data in non-model organisms. Here,we describe a simple, rapid and cost effective method toisolate candidate SNPs in non-model organisms using thecommercially available Endonuclease V enzyme. In a firstapplication of this method, this SNP isolation strategyresulted in the identification of 12 new SNPs for whiterhinoceros (Ceratotherium simum). This species has lowreported genetic variability and has suffered severe bottlenecks over the last 150 years. Developed SNP markersin white rhinoceros could be used to define the geneticmating system of this species, for forensic applications andto determine population structure and variability whenother markers prove problematic.

U2 - 10.1007/s12686-014-0358-6

DO - 10.1007/s12686-014-0358-6

M3 - Article

SN - 1877-7252

VL - 71

SP - 53

EP - 56

JO - Conservation Genetics Resources

JF - Conservation Genetics Resources

ER -

Endonuclease V digestion for SNP discovery and marker development in South African white rhinoceros (Ceratotherium simum)

Abstract

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