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A Joint analysis to identify loci underlying variation in nematode resistance in three European sheep populations

Riggio, Valentina and Pong-Wong, Ricardo and Sallé, G. and Usai, Mario Graziano and Casu, Salvatore and Moreno, C.R. and Matika, Oswald and Bishop, Stephen C. (2014) A Joint analysis to identify loci underlying variation in nematode resistance in three European sheep populations. Journal of animal breeding and genetics, Vol. 131 (6), p. 426-436. ISSN 0931-2668. eISSN 1439-0388. Article.

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DOI: 10.1111/jbg.12071

Abstract

Gastrointestinal nematode infections are one of the main health/economic issues in sheep industries, worldwide. Indicator traits for resistance such as faecal egg count (FEC) are commonly used in genomic studies; however, published results are inconsistent among breeds. Meta (or joint)-analysis is a tool for aggregating information from multiple independent studies. The aim of this study was to identify loci underlying variation in FEC, as an indicator of nematode resistance, in a joint analysis using data from three populations (Scottish Blackface, Sarda × Lacaune and Martinik Black-Belly × Romane), genotyped with the ovine 50k SNP chip. The trait analysed was the average animal effect for Strongyles and Nematodirus FEC data. Analyses were performed with regional heritability mapping (RHM), fitting polygenic effects with either the whole genomic relationship matrix or matrices excluding the chromosome being interrogated. Across-population genomic covariances were set to zero. After quality control, 4123 animals and 38 991 SNPs were available for the analysis. RHM identified genome-wide significant regions on OAR4, 12, 14, 19 and 20, with the latter being the most significant. The OAR20 region is close to the major histocompatibility complex, which has often been proposed as a functional candidate for nematode resistance. This region was significant only in the Sarda × Lacaune population. Several other regions, on OAR1, 3, 4, 5, 7, 12, 19, 20 and 24, were significant at the suggestive level.

Item Type:Article
ID Code:10572
Status:Published
Refereed:Yes
Uncontrolled Keywords:Joint analysis, nematode resistance, regional heritability mapping, sheep, SNP
Subjects:Area 07 - Scienze agrarie e veterinarie > AGR/19 Zootecnica speciale
Divisions:002 Altri enti e centri di ricerca del Nord Sardegna > AGRIS Sardegna, Olmedo > Dipartimento per la ricerca nelle produzioni animali > Settore genetica e biotecnologie
Publisher:Blackwell / Wiley
ISSN:0931-2668
eISSN:1439-0388
Copyright Holders:© 2014 The Authors
Deposited On:08 Jan 2015 13:45

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