The German Shorthair Pointer Dog Breed (Canis lupus familiaris): Genomic Inbreeding and Variability
SIMPLE SUMMARY: In order to protect domestic animals’ biodiversity, a deep knowledge of the genomic makeup is required. The authors describe the genomic architecture of the German Short Hair Pointer breed and analyze the inbreeding levels under a genomic and a genealogic perspective. Twenty-four dog...
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ftpubmed:oai:pubmedcentral.nih.gov:7143860 2023-05-15T15:51:09+02:00 The German Shorthair Pointer Dog Breed (Canis lupus familiaris): Genomic Inbreeding and Variability Boccardo, Antonio Marelli, Stefano Paolo Pravettoni, Davide Bagnato, Alessandro Busca, Giuseppe Achille Strillacci, Maria Giuseppina 2020-03-17 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7143860/ http://www.ncbi.nlm.nih.gov/pubmed/32192001 https://doi.org/10.3390/ani10030498 en eng MDPI http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7143860/ http://www.ncbi.nlm.nih.gov/pubmed/32192001 http://dx.doi.org/10.3390/ani10030498 © 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/). CC-BY Article Text 2020 ftpubmed https://doi.org/10.3390/ani10030498 2020-04-19T00:28:14Z SIMPLE SUMMARY: In order to protect domestic animals’ biodiversity, a deep knowledge of the genomic makeup is required. The authors describe the genomic architecture of the German Short Hair Pointer breed and analyze the inbreeding levels under a genomic and a genealogic perspective. Twenty-four dogs from Italy were genotyped and analyzed jointly with 10 dogs from USA, whose genotypes were available from a published research. The authors investigated the genomic structural variation of the breed using runs of homozygosity—the direct measurement of the proportion of homozygous DNA, i.e., genomic inbreeding. Some traits clearly revealed the selection objectives addressed in the breed. The results describe a low inbred population with quite good levels of genetic variability. ABSTRACT: The German Shorthaired Pointer (GSHP) is a breed worldwide known for its hunting versatility. Dogs of this breed are appreciated as valuable companions, effective trackers, field trailers and obedience athletes. The aim of the present work is to describe the genomic architecture of the GSHP breed and to analyze inbreeding levels under a genomic and a genealogic perspective. A total of 34 samples were collected (24 Italian, 10 USA), and the genomic and pedigree coefficients of inbreeding have been calculated. A total of 3183 runs of homozygosity (ROH) across all 34 dogs have been identified. The minimum and maximum number of Single Nucleotide Polymorphisms (SNPs) defining all ROH are 40 and 3060. The mean number of ROH for the sample was 93.6. ROH were found on all chromosomes. A total of 854 SNPs (TOP_SNPs) defined 11 ROH island regions (TOP_ROH), in which some gene already associated with behavioral and morphological canine traits was annotated. The proportion of averaged observed homozygotes estimated on total number of SNPs was 0.70. The genomic inbreeding coefficient based on ROH was 0.17. The mean inbreeding based on genealogical information resulted 0.023. The results describe a low inbred population with quite a good level of ... Text Canis lupus PubMed Central (PMC) Animals 10 3 498 |
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Article Boccardo, Antonio Marelli, Stefano Paolo Pravettoni, Davide Bagnato, Alessandro Busca, Giuseppe Achille Strillacci, Maria Giuseppina The German Shorthair Pointer Dog Breed (Canis lupus familiaris): Genomic Inbreeding and Variability |
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SIMPLE SUMMARY: In order to protect domestic animals’ biodiversity, a deep knowledge of the genomic makeup is required. The authors describe the genomic architecture of the German Short Hair Pointer breed and analyze the inbreeding levels under a genomic and a genealogic perspective. Twenty-four dogs from Italy were genotyped and analyzed jointly with 10 dogs from USA, whose genotypes were available from a published research. The authors investigated the genomic structural variation of the breed using runs of homozygosity—the direct measurement of the proportion of homozygous DNA, i.e., genomic inbreeding. Some traits clearly revealed the selection objectives addressed in the breed. The results describe a low inbred population with quite good levels of genetic variability. ABSTRACT: The German Shorthaired Pointer (GSHP) is a breed worldwide known for its hunting versatility. Dogs of this breed are appreciated as valuable companions, effective trackers, field trailers and obedience athletes. The aim of the present work is to describe the genomic architecture of the GSHP breed and to analyze inbreeding levels under a genomic and a genealogic perspective. A total of 34 samples were collected (24 Italian, 10 USA), and the genomic and pedigree coefficients of inbreeding have been calculated. A total of 3183 runs of homozygosity (ROH) across all 34 dogs have been identified. The minimum and maximum number of Single Nucleotide Polymorphisms (SNPs) defining all ROH are 40 and 3060. The mean number of ROH for the sample was 93.6. ROH were found on all chromosomes. A total of 854 SNPs (TOP_SNPs) defined 11 ROH island regions (TOP_ROH), in which some gene already associated with behavioral and morphological canine traits was annotated. The proportion of averaged observed homozygotes estimated on total number of SNPs was 0.70. The genomic inbreeding coefficient based on ROH was 0.17. The mean inbreeding based on genealogical information resulted 0.023. The results describe a low inbred population with quite a good level of ... |
format |
Text |
author |
Boccardo, Antonio Marelli, Stefano Paolo Pravettoni, Davide Bagnato, Alessandro Busca, Giuseppe Achille Strillacci, Maria Giuseppina |
author_facet |
Boccardo, Antonio Marelli, Stefano Paolo Pravettoni, Davide Bagnato, Alessandro Busca, Giuseppe Achille Strillacci, Maria Giuseppina |
author_sort |
Boccardo, Antonio |
title |
The German Shorthair Pointer Dog Breed (Canis lupus familiaris): Genomic Inbreeding and Variability |
title_short |
The German Shorthair Pointer Dog Breed (Canis lupus familiaris): Genomic Inbreeding and Variability |
title_full |
The German Shorthair Pointer Dog Breed (Canis lupus familiaris): Genomic Inbreeding and Variability |
title_fullStr |
The German Shorthair Pointer Dog Breed (Canis lupus familiaris): Genomic Inbreeding and Variability |
title_full_unstemmed |
The German Shorthair Pointer Dog Breed (Canis lupus familiaris): Genomic Inbreeding and Variability |
title_sort |
german shorthair pointer dog breed (canis lupus familiaris): genomic inbreeding and variability |
publisher |
MDPI |
publishDate |
2020 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7143860/ http://www.ncbi.nlm.nih.gov/pubmed/32192001 https://doi.org/10.3390/ani10030498 |
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Canis lupus |
genre_facet |
Canis lupus |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7143860/ http://www.ncbi.nlm.nih.gov/pubmed/32192001 http://dx.doi.org/10.3390/ani10030498 |
op_rights |
© 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/). |
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CC-BY |
op_doi |
https://doi.org/10.3390/ani10030498 |
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Animals |
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498 |
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1766386210494742528 |