The future of parentage analysis: From microsatellites to SNPs and beyond

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dc.contributor.authorFlanagan SP
dc.contributor.authorJones AG
dc.date.accessioned2020-01-27T20:53:28Z
dc.date.available2020-01-27T20:53:28Z
dc.date.issued2019en
dc.date.updated2019-10-31T02:57:42Z
dc.description.abstract© 2018 John Wiley & Sons Ltd Parentage analysis is a cornerstone of molecular ecology that has delivered fundamental insights into behaviour, ecology and evolution. Microsatellite markers have long been the king of parentage, their hypervariable nature conferring sufficient power to correctly assign offspring to parents. However, microsatellite markers have seen a sharp decline in use with the rise of next-generation sequencing technologies, especially in the study of population genetics and local adaptation. The time is ripe to review the current state of parentage analysis and see how it stands to be affected by the emergence of next-generation sequencing approaches. We find that single nucleotide polymorphisms (SNPs), the typical next-generation sequencing marker, remain underutilized in parentage analysis but are gaining momentum, with 58 SNP-based parentage analyses published thus far. Many of these papers, particularly the earlier ones, compare the power of SNPs and microsatellites in a parentage context. In virtually every case, SNPs are at least as powerful as microsatellite markers. As few as 100–500 SNPs are sufficient to resolve parentage completely in most situations. We also provide an overview of the analytical programs that are commonly used and compatible with SNP data. As the next-generation parentage enterprise grows, a reliance on likelihood and Bayesian approaches, as opposed to strict exclusion, will become increasingly important. We discuss some of the caveats surrounding the use of next-generation sequencing data for parentage analysis and conclude that the future is bright for this important realm of molecular ecology.en
dc.identifier.citationFlanagan SP, Jones AG (2019). The future of parentage analysis: From microsatellites to SNPs and beyond. Molecular Ecology. 28(3). 544-567.en
dc.identifier.doihttps://doi.org/10.1111/mec.14988
dc.identifier.issn0962-1083
dc.identifier.issn1365-294X
dc.identifier.urihttp://hdl.handle.net/10092/17911
dc.languageEnglish
dc.language.isoen
dc.publisherWileyen
dc.subjectBayesian parentageen
dc.subjectIllumina sequencingen
dc.subjectnext-generation sequencingen
dc.subjectparentage assignmenten
dc.subjectpaternity analysisen
dc.subjectRAD-seqen
dc.subjectsibship reconstructionen
dc.subject.anzsrcField of Research::06 - Biological Sciences::0604 - Genetics::060411 - Population, Ecological and Evolutionary Geneticsen
dc.subject.anzsrcFields of Research::31 - Biological sciences::3105 - Genetics::310509 - Genomicsen
dc.titleThe future of parentage analysis: From microsatellites to SNPs and beyonden
dc.typeJournal Articleen
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