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Museum genomics: Low-cost and high-accuracy genetic data from historical specimens

Rowe, Kevin C.; Singhal, Sonal; MacManes, Matthew D.; Ayroles, Julien F.; Morelli, Toni Lyn; Rubidge, Emily M.; Bi, Ke; Moritz, Craig

Description

Natural history collections are unparalleled repositories of geographical and temporal variation in faunal conditions. Molecular studies offer an opportunity to uncover much of this variation; however, genetic studies of historical museum specimens typically rely on extracting highly degraded and chemically modified DNA samples from skins, skulls or other dried samples. Despite this limitation, obtaining short fragments of DNA sequences using traditional PCR amplification of DNA has been the...[Show more]

dc.contributor.authorRowe, Kevin C.
dc.contributor.authorSinghal, Sonal
dc.contributor.authorMacManes, Matthew D.
dc.contributor.authorAyroles, Julien F.
dc.contributor.authorMorelli, Toni Lyn
dc.contributor.authorRubidge, Emily M.
dc.contributor.authorBi, Ke
dc.contributor.authorMoritz, Craig
dc.date.accessioned2015-12-13T22:42:44Z
dc.identifier.issn1755-098X
dc.identifier.urihttp://hdl.handle.net/1885/78893
dc.description.abstractNatural history collections are unparalleled repositories of geographical and temporal variation in faunal conditions. Molecular studies offer an opportunity to uncover much of this variation; however, genetic studies of historical museum specimens typically rely on extracting highly degraded and chemically modified DNA samples from skins, skulls or other dried samples. Despite this limitation, obtaining short fragments of DNA sequences using traditional PCR amplification of DNA has been the primary method for genetic study of historical specimens. Few laboratories have succeeded in obtaining genome-scale sequences from historical specimens and then only with considerable effort and cost. Here, we describe a low-cost approach using high-throughput next-generation sequencing to obtain reliable genome-scale sequence data from a traditionally preserved mammal skin and skull using a simple extraction protocol. We show that single-nucleotide polymorphisms (SNPs) from the genome sequences obtained independently from the skin and from the skull are highly repeatable compared to a reference genome.
dc.publisherWiley-Blackwell
dc.sourceMolecular Ecology Resources
dc.subjectKeywords: DNA; animal; article; biological model; chemistry; cluster analysis; DNA sequence; gene library; genetics; genome; hair; high throughput sequencing; information center; isolation and purification; laboratory diagnosis; methodology; molecular genetics; nuc Historical DNA; Natural history collections; Next-generation sequencing; Rattus
dc.titleMuseum genomics: Low-cost and high-accuracy genetic data from historical specimens
dc.typeJournal article
local.description.notesImported from ARIES
local.identifier.citationvolume11
dc.date.issued2011
local.identifier.absfor060302 - Biogeography and Phylogeography
local.identifier.absfor060306 - Evolutionary Impacts of Climate Change
local.identifier.absfor050202 - Conservation and Biodiversity
local.identifier.ariespublicationf5625xPUB7448
local.type.statusPublished Version
local.contributor.affiliationRowe, Kevin C., Museum Victoria
local.contributor.affiliationSinghal, Sonal, University of California
local.contributor.affiliationMacManes, Matthew D., University of California
local.contributor.affiliationAyroles, Julien F., Harvard University
local.contributor.affiliationMorelli, Toni Lyn, University of California
local.contributor.affiliationRubidge, Emily M., University of California
local.contributor.affiliationBi, Ke, University of California
local.contributor.affiliationMoritz, Craig, College of Medicine, Biology and Environment, ANU
local.description.embargo2037-12-31
local.bibliographicCitation.issue6
local.bibliographicCitation.startpage1082
local.bibliographicCitation.lastpage1092
local.identifier.doi10.1111/j.1755-0998.2011.03052.x
dc.date.updated2016-02-24T09:35:06Z
local.identifier.scopusID2-s2.0-80054069357
local.identifier.thomsonID000296421200018
CollectionsANU Research Publications

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