Genomic inbreeding and selection signatures in the local dairy breed Icelandic Cattle
Summary Icelandic Cattle is the only dairy cattle breed native to Iceland. It currently numbers ca. 26 000 breeding females. We used 50k genotypes of over 8000 Icelandic Cattle to estimate genomic and pedigree‐based inbreeding and to detect selection signatures using the integrated haplotype score....
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Online Access: | http://dx.doi.org/10.1111/age.13058 https://onlinelibrary.wiley.com/doi/pdf/10.1111/age.13058 https://onlinelibrary.wiley.com/doi/full-xml/10.1111/age.13058 |
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crwiley:10.1111/age.13058 2024-06-09T07:47:11+00:00 Genomic inbreeding and selection signatures in the local dairy breed Icelandic Cattle Gautason, E. Schönherz, A. A. Sahana, G. Guldbrandtsen, B. 2021 http://dx.doi.org/10.1111/age.13058 https://onlinelibrary.wiley.com/doi/pdf/10.1111/age.13058 https://onlinelibrary.wiley.com/doi/full-xml/10.1111/age.13058 en eng Wiley http://onlinelibrary.wiley.com/termsAndConditions#vor Animal Genetics volume 52, issue 3, page 251-262 ISSN 0268-9146 1365-2052 journal-article 2021 crwiley https://doi.org/10.1111/age.13058 2024-05-16T14:27:53Z Summary Icelandic Cattle is the only dairy cattle breed native to Iceland. It currently numbers ca. 26 000 breeding females. We used 50k genotypes of over 8000 Icelandic Cattle to estimate genomic and pedigree‐based inbreeding and to detect selection signatures using the integrated haplotype score. We used 47 Icelandic bulls genotyped with a 770k SNP chip to estimate LD decay for comparison with other Nordic dairy cattle breeds. We detected ROHs on the autosomes and computed ROH‐based autosomal inbreeding coefficients. Average inbreeding coefficients according to pedigree and ROHs were 0.0621 and 0.101. Effective population sizes for the years 2009–2017 according to pedigree, ROHs, genomic relationship matrix, excess of homozygosity and individual increase in inbreeding were 81, 65, 60, 58 and 92 respectively. We identified three regions and six candidate genes that showed a signature of selection according to the integrated haplotype score ( P < 0.05) on chromosomes 1, 16 and 23. The LD structure of Icelandic Cattle is shaped by a long period of isolation and a small founder population. The estimate of LD at distances closer than 0.3 Mb is lower in Icelandic Cattle than in Danish Jersey, but is higher than in Danish Holstein and Red Nordic Dairy Cattle breeds. Our findings show that inbreeding rates in Icelandic Cattle currently are sustainable according to FAO guidelines, and our results do not indicate severe historical inbreeding. Article in Journal/Newspaper Iceland Wiley Online Library Animal Genetics 52 3 251 262 |
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English |
description |
Summary Icelandic Cattle is the only dairy cattle breed native to Iceland. It currently numbers ca. 26 000 breeding females. We used 50k genotypes of over 8000 Icelandic Cattle to estimate genomic and pedigree‐based inbreeding and to detect selection signatures using the integrated haplotype score. We used 47 Icelandic bulls genotyped with a 770k SNP chip to estimate LD decay for comparison with other Nordic dairy cattle breeds. We detected ROHs on the autosomes and computed ROH‐based autosomal inbreeding coefficients. Average inbreeding coefficients according to pedigree and ROHs were 0.0621 and 0.101. Effective population sizes for the years 2009–2017 according to pedigree, ROHs, genomic relationship matrix, excess of homozygosity and individual increase in inbreeding were 81, 65, 60, 58 and 92 respectively. We identified three regions and six candidate genes that showed a signature of selection according to the integrated haplotype score ( P < 0.05) on chromosomes 1, 16 and 23. The LD structure of Icelandic Cattle is shaped by a long period of isolation and a small founder population. The estimate of LD at distances closer than 0.3 Mb is lower in Icelandic Cattle than in Danish Jersey, but is higher than in Danish Holstein and Red Nordic Dairy Cattle breeds. Our findings show that inbreeding rates in Icelandic Cattle currently are sustainable according to FAO guidelines, and our results do not indicate severe historical inbreeding. |
format |
Article in Journal/Newspaper |
author |
Gautason, E. Schönherz, A. A. Sahana, G. Guldbrandtsen, B. |
spellingShingle |
Gautason, E. Schönherz, A. A. Sahana, G. Guldbrandtsen, B. Genomic inbreeding and selection signatures in the local dairy breed Icelandic Cattle |
author_facet |
Gautason, E. Schönherz, A. A. Sahana, G. Guldbrandtsen, B. |
author_sort |
Gautason, E. |
title |
Genomic inbreeding and selection signatures in the local dairy breed Icelandic Cattle |
title_short |
Genomic inbreeding and selection signatures in the local dairy breed Icelandic Cattle |
title_full |
Genomic inbreeding and selection signatures in the local dairy breed Icelandic Cattle |
title_fullStr |
Genomic inbreeding and selection signatures in the local dairy breed Icelandic Cattle |
title_full_unstemmed |
Genomic inbreeding and selection signatures in the local dairy breed Icelandic Cattle |
title_sort |
genomic inbreeding and selection signatures in the local dairy breed icelandic cattle |
publisher |
Wiley |
publishDate |
2021 |
url |
http://dx.doi.org/10.1111/age.13058 https://onlinelibrary.wiley.com/doi/pdf/10.1111/age.13058 https://onlinelibrary.wiley.com/doi/full-xml/10.1111/age.13058 |
genre |
Iceland |
genre_facet |
Iceland |
op_source |
Animal Genetics volume 52, issue 3, page 251-262 ISSN 0268-9146 1365-2052 |
op_rights |
http://onlinelibrary.wiley.com/termsAndConditions#vor |
op_doi |
https://doi.org/10.1111/age.13058 |
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Animal Genetics |
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52 |
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3 |
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251 |
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262 |
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1801378133358673920 |