Linkage disequilibrium, persistence of phase, and effective population size in Spanish local beef cattle breeds assessed through a high-density single nucleotide polymorphism chip

Cañas-Álvarez, J. J. ; Mouresan, E. F. ; Varona, L. (Universidad de Zaragoza) ; Díaz, C. ; Molina, A. ; Baro, J. A. ; Altarriba, J. (Universidad de Zaragoza) ; Carabaño, M. J. ; Casellas, J. ; Piedrafita, J.

Resumen: We have used the BovineHD Genotyping BeadChip to obtain high density genotypes (>700, 000 SNP after quality control) from 116 trios in five Spanish local beef cattle breeds. Linkage disequilibrium (LD) was meas- ured through the r2 statistic. Average r2 for adjacent markers in the five breeds were very close, around 0.52, and de- creased with increasing distance between markers, although in long distances some LD remained (0.07 and 0.05 for markers 200 kb and 1000 kb apart, respectively). At all distances the standard deviations were large and the shape of the distribution varied depending upon the marker dis- tance. Average r2 varied also between chromosomes. Pair- wise correlations between the r’s estimated in two breeds at short distances (5 kb) was in the rank of 0.6 – 0.7. Similarly to r2 estimates, this correlation decreased with increasing marker distance.

Idioma: Inglés

DOI: 10.2527/jas.2016-0425

Año: 2016

Publicado en: JOURNAL OF ANIMAL SCIENCE 94, 7 (2016), 2779-2788
ISSN: 0021-8812

Factor impacto JCR: 1.863 (2016)

Categ. JCR: AGRICULTURE, DAIRY & ANIMAL SCIENCE rank: 8 / 57 = 0.14 (2016) - Q1 - T1

Factor impacto SCIMAGO: 1.034 - Animal Science and Zoology (Q1) - Medicine (miscellaneous) (Q1) - Food Science (Q1) - Genetics (Q2)

Financiación: info:eu-repo/grantAgreement/EC/FP7/289592/EU/Next generation European system for cattle improvement and management/GENE2FARM
Financiación: info:eu-repo/grantAgreement/ES/MINECO/AGL2010-15903
Financiación: info:eu-repo/grantAgreement/ES/MINECO/BES-2011-045434

Tipo y forma: Artículo (Versión definitiva)

Área (Departamento): Área Genética (Dpto. Anatom.,Embri.Genét.Ani.)