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The LCORL Locus Is under Selection in Large-Sized Pakistani Goat Breeds

Goat domestication and human selection for valued traits have formed diverse breeds with characteristic phenotypes. This process led to the fixation of causative genetic variants controlling breed-specific traits within regions of reduced genetic diversity—so-called “selection signatures”. We previo...

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Autores principales: Saif, Rashid, Henkel, Jan, Jagannathan, Vidhya, Drögemüller, Cord, Flury, Christine, Leeb, Tosso
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7074466/
https://www.ncbi.nlm.nih.gov/pubmed/32033434
http://dx.doi.org/10.3390/genes11020168
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author Saif, Rashid
Henkel, Jan
Jagannathan, Vidhya
Drögemüller, Cord
Flury, Christine
Leeb, Tosso
author_facet Saif, Rashid
Henkel, Jan
Jagannathan, Vidhya
Drögemüller, Cord
Flury, Christine
Leeb, Tosso
author_sort Saif, Rashid
collection PubMed
description Goat domestication and human selection for valued traits have formed diverse breeds with characteristic phenotypes. This process led to the fixation of causative genetic variants controlling breed-specific traits within regions of reduced genetic diversity—so-called “selection signatures”. We previously reported an analysis of selection signatures based on pooled whole-genome sequencing data of 20 goat breeds and bezoar goats. In the present study, we reanalyzed the data and focused on a subset of eight Pakistani goat breeds (Angora, Barbari, Beetal, Dera Din Panah, Kamori, Nachi, Pahari, Teddy). We identified 749 selection signatures based on reduced heterozygosity in these breeds. A search for signatures that are shared across large-sized goat breeds revealed that five medium-to-large-sized Pakistani goat breeds had a common selection signature on chromosome 6 in a region harboring the LCORL gene, which has been shown to modulate height or body size in several mammalian species. Fine-mapping of the region confirmed that all five goat breeds with the selection signature were nearly fixed for the same haplotype in a ~191 kb region spanning positions 37,747,447–37,938,449. From the pool sequencing data, we identified a frame-shifting single base insertion into an isoform-specific exon of LCORL as a potential candidate causal variant mediating the size-increasing effect. If this preliminary result can be confirmed in independent replication studies, genotyping of this variant might be used to improve breeding programs and the selection for stature in goats.
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spelling pubmed-70744662020-03-20 The LCORL Locus Is under Selection in Large-Sized Pakistani Goat Breeds Saif, Rashid Henkel, Jan Jagannathan, Vidhya Drögemüller, Cord Flury, Christine Leeb, Tosso Genes (Basel) Article Goat domestication and human selection for valued traits have formed diverse breeds with characteristic phenotypes. This process led to the fixation of causative genetic variants controlling breed-specific traits within regions of reduced genetic diversity—so-called “selection signatures”. We previously reported an analysis of selection signatures based on pooled whole-genome sequencing data of 20 goat breeds and bezoar goats. In the present study, we reanalyzed the data and focused on a subset of eight Pakistani goat breeds (Angora, Barbari, Beetal, Dera Din Panah, Kamori, Nachi, Pahari, Teddy). We identified 749 selection signatures based on reduced heterozygosity in these breeds. A search for signatures that are shared across large-sized goat breeds revealed that five medium-to-large-sized Pakistani goat breeds had a common selection signature on chromosome 6 in a region harboring the LCORL gene, which has been shown to modulate height or body size in several mammalian species. Fine-mapping of the region confirmed that all five goat breeds with the selection signature were nearly fixed for the same haplotype in a ~191 kb region spanning positions 37,747,447–37,938,449. From the pool sequencing data, we identified a frame-shifting single base insertion into an isoform-specific exon of LCORL as a potential candidate causal variant mediating the size-increasing effect. If this preliminary result can be confirmed in independent replication studies, genotyping of this variant might be used to improve breeding programs and the selection for stature in goats. MDPI 2020-02-05 /pmc/articles/PMC7074466/ /pubmed/32033434 http://dx.doi.org/10.3390/genes11020168 Text en © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Saif, Rashid
Henkel, Jan
Jagannathan, Vidhya
Drögemüller, Cord
Flury, Christine
Leeb, Tosso
The LCORL Locus Is under Selection in Large-Sized Pakistani Goat Breeds
title The LCORL Locus Is under Selection in Large-Sized Pakistani Goat Breeds
title_full The LCORL Locus Is under Selection in Large-Sized Pakistani Goat Breeds
title_fullStr The LCORL Locus Is under Selection in Large-Sized Pakistani Goat Breeds
title_full_unstemmed The LCORL Locus Is under Selection in Large-Sized Pakistani Goat Breeds
title_short The LCORL Locus Is under Selection in Large-Sized Pakistani Goat Breeds
title_sort lcorl locus is under selection in large-sized pakistani goat breeds
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7074466/
https://www.ncbi.nlm.nih.gov/pubmed/32033434
http://dx.doi.org/10.3390/genes11020168
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