Age-based partitioning of individual genomic inbreeding levels in Belgian Blue cattle.

ABSTRACT:

Background

Inbreeding coefficients can be estimated either from pedigree data or from genomic data, and with genomic data, they are either global or local (when the linkage map is used). Recently, we developed a new hidden Markov model (HMM) that estimates probabilities of homozygosity-by-descent (HBD) at each marker position and automatically partitions autozygosity in multiple age-related classes (based on the length of HBD segments). Our objectives were to: (1) characterize inbreeding with our model in an intensively selected population such as the Belgian Blue Beef (BBB) cattle breed; (2) compare the properties of the model at different marker densities; and (3) compare our model with other methods.

Results

When using 600 K single nucleotide polymorphisms (SNPs), the inb

SUBMITTER: Sole M 

PROVIDER: S-EPMC5741860 | biostudies-literature | 2017 Dec

REPOSITORIES: biostudies-literature