Application of single nucleotide polymorphisms to non-model species: a technical review

Single nucleotide polymorphisms (SNPs) have gained wide use in humans and model species and are becoming the marker of choice for applications in other species. Technology that was developed for work in model species may provide useful tools for SNP discovery and genotyping in non-model organisms. H...

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Bibliographic Details
Published in:Molecular ecology resources 2010-11, Vol.10 (6), p.915-934
Main Authors: GARVIN, M.R, SAITOH, K, GHARRETT, A.J
Format: Article
Language:English
Subjects:
ascertainment bias
DEco-TILLING
Genotyping
linkage disequilibrium
Markers
next-generation sequencing
Nucleotides
population genetics
Single-nucleotide polymorphism
SNP
Species
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Summary:Single nucleotide polymorphisms (SNPs) have gained wide use in humans and model species and are becoming the marker of choice for applications in other species. Technology that was developed for work in model species may provide useful tools for SNP discovery and genotyping in non-model organisms. However, SNP discovery can be expensive, labour intensive, and introduce ascertainment bias. In addition, the most efficient approaches to SNP discovery will depend on the research questions that the markers are to resolve as well as the focal species. We discuss advantages and disadvantages of several past and recent technologies for SNP discovery and genotyping and summarize a variety of SNP discovery and genotyping studies in ecology and evolution.
ISSN:1755-0998
1755-098X
1755-0998
DOI:10.1111/j.1755-0998.2010.02891.x