Show simple item record

dc.contributor.authorMeredith, Brian K.
dc.contributor.authorBerry, Donagh P.
dc.contributor.authorKearney, Francis
dc.contributor.authorFinlay, Emma K.
dc.contributor.authorFahey, Alan G.
dc.contributor.authorBradley, Daniel G.
dc.contributor.authorLynn, David J.
dc.date.accessioned2015-05-27T11:51:17Z
dc.date.available2015-05-27T11:51:17Z
dc.date.issued2013-11-06
dc.identifier.citationMeredith BK, Berry DP, Kearney F, Finlay EK, Fahey AG, Bradley DG and Lynn DJ (2013) A genome-wide association study for somatic cell score using the Illumina high-density bovine beadchip identifies several novel QTL potentially related to mastitis susceptibility. Front. Genet. 4:229. doi: 10.3389/fgene.2013.00229en_GB
dc.identifier.issn1664-8021
dc.identifier.urihttp://hdl.handle.net/11019/801
dc.descriptionpeer-revieweden_GB
dc.description.abstractMastitis is an inflammation-driven disease of the bovine mammary gland that occurs in response to physical damage or infection and is one of the most costly production-related diseases in the dairy industry worldwide. We performed a genome-wide association study (GWAS) to identify genetic loci associated with somatic cell score (SCS), an indicator trait of mammary gland inflammation. A total of 702 Holstein-Friesian bulls were genotyped for 777,962 single nucleotide polymorphisms (SNPs) and associated with SCS phenotypes. The SCS phenotypes were expressed as daughter yield deviations (DYD) based on a large number of progeny performance records. A total of 138 SNPs on 15 different chromosomes reached genome-wide significance (corrected p-value ≤ 0.05) for association with SCS (after correction for multiple testing). We defined 28 distinct QTL regions and a number of candidate genes located in these QTL regions were identified. The most significant association (p-value = 1.70 × 10−7) was observed on chromosome 6. This QTL had no known genes annotated within it, however, the Ensembl Genome Browser predicted the presence of a small non-coding RNA (a Y RNA gene) in this genomic region. This Y RNA gene was 99% identical to human RNY4. Y RNAs are a rare type of non-coding RNA that were originally discovered due to their association with the autoimmune disease, systemic lupus erythematosus. Examining small-RNA sequencing (RNAseq) data being generated by us in multiple different mastitis-pathogen challenged cell-types has revealed that this Y RNA is expressed (but not differentially expressed) in these cells. Other QTL regions identified in this study also encoded strong candidate genes for mastitis susceptibility. A QTL region on chromosome 13, for example, was found to contain a cluster of β-defensin genes, a gene family with known roles in innate immunity. Due to the increased SNP density, this study also refined the boundaries for several known QTL for SCS and mastitis.en_GB
dc.description.sponsorshipThis material is based upon works supported by the Science Foundation Ireland under Grant No.[09/IN.1/B2642].We also acknowledge funding provided for this project through the Teagasc Walsh Fellowship scheme and Teagasc RMIS6018 as well as the Irish Department of Agriculture, Food and the Marine Research Stimulus Fund(11/S/112).en_GB
dc.language.isoenen_GB
dc.publisherFrontiers Media SAen_GB
dc.relation.ispartofseriesFrontiers in Genetics;vol 4
dc.subjectGWASen_GB
dc.subjectMastitisen_GB
dc.subjectSNPen_GB
dc.subjectSomatic Cell Scoreen_GB
dc.subjectHolstein-Friesianen_GB
dc.titleA genome-wide association study for somatic cell score using the Illumina high-density bovine beadchip identifies several novel QTL potentially related to mastitis susceptibilityen_GB
dc.typeArticleen_GB
dc.identifier.rmisMKAB-0201-6408
dc.identifier.doihttp://dx.doi.org/10.3389/fgene.2013.00229
dc.contributor.sponsorScience Foundation Ireland
dc.contributor.sponsorTeagasc Walsh Fellowship Programme
dc.contributor.sponsorDepartment of Agriculture, Food and the Marine
dc.contributor.sponsorGrantNumber09/IN.1/B2642
dc.contributor.sponsorGrantNumberRSF 11/S/112
refterms.dateFOA2018-01-12T08:21:18Z


Files in this item

Thumbnail
Name:
fgene-04-00229 Meredith etal.pdf
Size:
1.012Mb
Format:
PDF

This item appears in the following Collection(s)

Show simple item record