Naslov
The impact of high density SNP chip on the estimation of genomic inbreeding in cattle

Autori
Ferenčaković, Maja ; Curik, Ino ; Soelkner, Johann

Vrsta, podvrsta i kategorija rada
Sažeci sa skupova, sažetak, znanstveni

Izvornik
Book of Abstracts of the 47th Croatian & 7th International Symposium on Agriculture / Milan Pospišil - Zagreb : Agronomski fakultet Sveučilišta u Zagrebu, 2012

ISBN
978-953-7878-02-3

Skup
47th Croatian & 7th International Symposium on Agriculture

Mjesto i datum
Opatija, Hrvatska, 13.02.2012. - 17.02.2012

Vrsta sudjelovanja
Predavanje

Vrsta recenzije
Međunarodna recenzija

Ključne riječi
inbreeding; genomic data; ROH; SNP chip density

Sažetak
Runs of homozygosity (ROH) were recently proposed as genomic estimate of inbreeding that accounts for stochastic variation. In addition ROHs provide inference of more remote inbreeding than estimates obtained from pedigree. We analyzed impact of SNP chip density [Illumina Bovine 50k SNP chip (ld) versus Illumina Bovine HD 770k SNP chip (hd)] on the inbreeding estimates calculated for 115 Tyrolean Grey bulls. Inbreeding was calculated for whole pedigree (FpedT), for five generation pedigree (Fped5), and from five ROH lengths (k>1Mb, k>2Mb, k>4Mb, k>8Mb, k>16Mb) for both SNP chips (FldROHk & FhdROHk ). We found low FpedT and Fped5 (means of 2.2% and 1.4%) while FldROH1 and FhdROH1 gave identical value of 8.1% indicating ancient inbreeding which we were not able to detect using pedigree. For other segment lengths FhdROHk gives higher mean levels of inbreeding than FldROHk with similar variances.

Izvorni jezik
Engleski

Znanstvena područja
Poljoprivreda (agronomija), Biotehnologija

POVEZANOST RADA