Intra-chromosomal estimates of inbreeding and coancestry in the Spanish Holstein cattle population

Kleinman Ruiz, D. and Villanueva, B. and Fernández, J. and Toro Ibañez, Miguel Angel and García Cortés, Luis Alberto and Rodríguez Ramilo, Silvia Teresa (2016). Intra-chromosomal estimates of inbreeding and coancestry in the Spanish Holstein cattle population. "Livestock Science", v. 185 ; pp. 38-42. ISSN 1871-1413. https://doi.org/10.1016/j.livsci.2016.01.002.

Description

Title: Intra-chromosomal estimates of inbreeding and coancestry in the Spanish Holstein cattle population
Author/s:
  • Kleinman Ruiz, D.
  • Villanueva, B.
  • Fernández, J.
  • Toro Ibañez, Miguel Angel
  • García Cortés, Luis Alberto
  • Rodríguez Ramilo, Silvia Teresa
Item Type: Article
Título de Revista/Publicación: Livestock Science
Date: March 2016
ISSN: 1871-1413
Volume: 185
Subjects:
Faculty: E.T.S. de Ingeniería Agronómica, Alimentaria y de Biosistemas (UPM)
Department: Producción Agraria
Creative Commons Licenses: Recognition - No derivative works - Non commercial

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Abstract

In recent years, inbreeding and coancestry are being estimated from genome-wide molecular information using a large number of SNPs. Molecular inbreeding and coancestry can be calculated for the whole genome or for particular regions of the genome. In this study, genome-based inbreeding and coancestry were estimated per chromosome and at intra-chromosomal level in a group of Holstein animals genotyped with the Illumina BovineSNP50 BeadChip. After applying filtering criteria, the genomic dataset included 36,693 autosomal SNPs and 10,569 animals. Genome-based inbreeding and coancestry at intra-chromosomal level were calculated using sliding windows of approximately 5 Mb. The results showed differential patterns of inbreeding and coancestry on specific chromosome regions. These patterns provide a more detailed picture of genetic diversity that could be used, for example, for the detection of regions with low levels of genetic diversity that require a specific genetic management in conservation programmes.

Funding Projects

TypeCodeAcronymLeaderTitle
Government of SpainCGL2012-39861-C02-02UnspecifiedUnspecifiedEstimación del impacto de la selección y la consanguinidad sobre la diversidad genética utilizando herramientas genómicas

More information

Item ID: 46097
DC Identifier: http://oa.upm.es/46097/
OAI Identifier: oai:oa.upm.es:46097
DOI: 10.1016/j.livsci.2016.01.002
Official URL: http://www.sciencedirect.com/science/article/pii/S1871141316300026
Deposited by: Memoria Investigacion
Deposited on: 05 Jun 2017 17:40
Last Modified: 20 Mar 2019 18:54
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