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dc.contributor.authorWright, Belinda
dc.contributor.authorMorris, Katrina
dc.contributor.authorGrueber, Catherine E.
dc.contributor.authorWillet, Cali E.
dc.contributor.authorGooley, Rebecca
dc.contributor.authorHogg, Carolyn J.
dc.contributor.authorO’Meally, Denis
dc.contributor.authorHamede, Rodrigo
dc.contributor.authorJones, Menna
dc.contributor.authorWade, Claire
dc.contributor.authorBelov, Katherine
dc.date.accessioned2020-08-20
dc.date.available2020-08-20
dc.date.issued2015-01-01en_AU
dc.identifier.urihttps://hdl.handle.net/2123/23142
dc.description.abstractBackground: The Tasmanian devil (Sarcophilus harrisii) has undergone a recent, drastic population decline due to the highly contagious devil facial tumor disease. The tumor is one of only two naturally occurring transmissible cancers and is almost inevitably fatal. In 2006 a disease-free insurance population was established to ensure that the Tasmanian devil is protected from extinction. The insurance program is dependent upon preserving as much wild genetic diversity as possible to maximize the success of subsequent reintroductions to the wild. Accurate genotypic data is vital to the success of the program to ensure that loss of genetic diversity does not occur in captivity. Until recently, microsatellite markers have been used to study devil population genetics, however as genetic diversity is low in the devil and potentially decreasing in the captive population, a more sensitive genotyping assay is required. Methods: Utilising the devil reference genome and whole genome re-sequencing data, we have identified polymorphic regions for use in a custom genotyping assay. These regions were amplified using PCR and sequenced on the Illumina MiSeq platform to refine a set a markers to genotype the Tasmanian devil insurance population. Results: We have developed a set of single nucleotide polymorphic (SNP) markers, assayed by amplicon sequencing, that provide a high-throughput method for monitoring genetic diversity and assessing familial relationships among devils. To date we have used a total of 267 unique SNPs within both putatively neutral and functional loci to genotype 305 individuals in the Tasmanian devil insurance population. We have used these data to assess genetic diversity in the population as well as resolve the parentage of 21 offspring. Conclusions: Our molecular data has been incorporated with studbook management practices to provide more accurate pedigree information and to inform breeding recommendations. The assay will continue to be used to monitor the genetic diversity of the insurance population of Tasmanian devils with the aim of reducing inbreeding and maximizing success of reintroductions to the wild.en_AU
dc.language.isoenen_AU
dc.publisherBMC ( Commercial Publisher)en_AU
dc.relation.ispartofBMC Genomicsen_AU
dc.rightsCreative Commons Attribution-NonCommercial-ShareAlike 4.0en_AU
dc.subjectCaptive Population Management Sequencingen_AU
dc.titleDevelopment of a SNP-based assay for measuring genetic diversity in the Tasmanian devil insurance populationen_AU
dc.typeArticleen_AU
dc.subject.asrc0502 Environmental Science and Managementen_AU
dc.subject.asrc0604 Geneticsen_AU
dc.identifier.doi10.1186/s12864-015-2020-4
dc.relation.arcLP140100508
usyd.facultySeS faculties schools::Faculty of Scienceen_AU
usyd.departmentSydney Institute of Veterinary Scienceen_AU
usyd.citation.volume16en_AU
usyd.citation.spage791en_AU
workflow.metadata.onlyNoen_AU


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