Estimation of inbreeding in Ethiopia goats using runs of homozygosity

Wilson Nandolo, Maria Wurzinger, Gábor Mészáros, Curt van Tassell, Timothy Gondwe, Henry Mulindwa, Doreen Lamuno, Tesfaye Getachew, Solomon Abegaz Guangul, Heather Huson, Jennifer Woodward-Greene, Aynalem Haile, Johann Sölkner

Abstract


Received: 2016-07-14 | Accepted: 2016-07-28 | Available online: 2017-03-31
http://dx.doi.org/10.15414/afz.2017.20.01.10–12

This study was carried out to estimate the inbreeding levels in Abergelle, Gumuz, Keffa and Woytoguji goats in Ethiopia from genomic information. A total of 161 animals (53 Abergelle, 39 Gumuz, 31 Keffa and 38 Woytoguji) were genotyped using the Illumina 50K SNP chip. Runs of homozygosity were computed at cut-offs of 1MB, 2MB, 4MB, 8MB and 16MB, using cgaTOH Analysis & Clustering Suite, Version 1.0.1. The estimated levels of inbreeding based on runs of homozygosity greater than 1MB were 0.0210, 0.0209, 0.0502 and 0.0199 for Abergelle, Gumuz, Keffa and Woytoguji, respectively. The results suggest that inbreeding levels are low in the four breeds, although relatively higher in the Keffa breed than in the other three breeds. Suitable strategies may need to be implemented for reducing inbreeding when designing breeding programmes for the Keffa goats.

This study was carried out to estimate the inbreeding levels in Abergelle, Gumuz, Keffa and Woytoguji goats in Ethiopia from genomic information. A total of 161 animals (53 Abergelle, 39 Gumuz, 31 Keffa and 38 Woytoguji) were genotyped using the Illumina 50K SNP chip. Runs of homozygosity were computed at cut-offs of 1MB, 2MB, 4MB, 8MB and 16MB, using cgaTOH Analysis & Clustering Suite, Version 1.0.1. The estimated levels of inbreeding based on runs of homozygosity greater than 1MB were 0.0210, 0.0209, 0.0502 and 0.0199 for Abergelle, Gumuz, Keffa and Woytoguji, respectively. The results suggest that inbreeding levels are low in the four breeds, although relatively higher in the Keffa breed than in the other three breeds. Suitable strategies may need to be implemented for reducing inbreeding when designing breeding programmes for the Keffa goats.

Keywords: goats, genome, inbreeding, runs of homozygosity

References

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