Applications and efficiencies of the first cat 63K DNA array

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Gandolfi , B , Alhaddad , H , Abdi , M , Bach , L H , Creighton , E K , Davis , B W , Decker , J E , Dodman , N H , Grahn , J C , Grahn , R A , Haase , B , Haggstrom , J , Hamilton , M J , Helps , C R , Kurushima , J D , Lohi , H , Longeri , M , Malik , R , Meurs , K M , Montague , M J , Mullikin , J C , Murphy , W J , Nilson , S M , Pedersen , N C , Peterson , C B , Rusbridge , C , Saif , R , Shelton , G D , Warren , W C , Wasim , M & Lyons , L A 2018 , ' Applications and efficiencies of the first cat 63K DNA array ' , Scientific Reports , vol. 8 , 7024 .

Title: Applications and efficiencies of the first cat 63K DNA array
Author: Gandolfi, Barbara; Alhaddad, Hasan; Abdi, Mona; Bach, Leslie H.; Creighton, Erica K.; Davis, Brian W.; Decker, Jared E.; Dodman, Nicholas H.; Grahn, Jennifer C.; Grahn, Robert A.; Haase, Bianca; Haggstrom, Jens; Hamilton, Michael J.; Helps, Christopher R.; Kurushima, Jennifer D.; Lohi, Hannes; Longeri, Maria; Malik, Richard; Meurs, Kathryn M.; Montague, Michael J.; Mullikin, James C.; Murphy, William J.; Nilson, Sara M.; Pedersen, Niels C.; Peterson, Carlyn B.; Rusbridge, Clare; Saif, Rashid; Shelton, G. Diane; Warren, Wesley C.; Wasim, Muhammad; Lyons, Leslie A.
Contributor organization: Medicum
Research Programme for Molecular Neurology
Hannes Tapani Lohi / Principal Investigator
Veterinary Biosciences
Research Programs Unit
Date: 2018-05-04
Language: eng
Number of pages: 15
Belongs to series: Scientific Reports
ISSN: 2045-2322
Abstract: The development of high throughput SNP genotyping technologies has improved the genetic dissection of simple and complex traits in many species including cats. The properties of feline 62,897 SNPs Illumina Infinium iSelect DNA array are described using a dataset of over 2,000 feline samples, the most extensive to date, representing 41 cat breeds, a random bred population, and four wild felid species. Accuracy and efficiency of the array's genotypes and its utility in performing population-based analyses were evaluated. Average marker distance across the array was 37,741 Kb, and across the dataset, only 1% (625) of the markers exhibited poor genotyping and only 0.35% (221) showed Mendelian errors. Marker polymorphism varied across cat breeds and the average minor allele frequency (MAF) of all markers across domestic cats was 0.21. Population structure analysis confirmed a Western to Eastern structural continuum of cat breeds. Genome-wide linkage disequilibrium ranged from 50-1,500 Kb for domestic cats and 750 Kb for European wildcats (Felis silvestris silvestris). Array use in trait association mapping was investigated under different modes of inheritance, selection and population sizes. The efficient array design and cat genotype dataset continues to advance the understanding of cat breeds and will support monogenic health studies across feline breeds and populations.
Description: Correction, Volume: 8 Article Number: 8746 DOI: 10.1038/s41598-018-26885-5 Published: JUN 4 2018
413 Veterinary science
Peer reviewed: Yes
Rights: cc_by
Usage restriction: openAccess
Self-archived version: publishedVersion

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