Insights into Genetic Diversity, Runs of Homozygosity and Heterozygosity-Rich Regions in Maremmana Semi-Feral Cattle Using Pedigree and Genomic Data

Autor: Roberta Ciampolini, Gennaro Catillo, Gabriele Senczuk, Salvatore Mastrangelo, Filippo Biscarini
Přispěvatelé: Biscarini F., Mastrangelo S., Catillo G., Senczuk G., Ciampolini R.
Rok vydání: 2020
Předmět:
Candidate gene
Maremmana
Genomic relationship
inbreeding
heterozygosity-rich regions
pedigree relationships
Biology
Runs of Homozygosity
maremmana cattle
Genome
Article
semi-feral cattle
Loss of heterozygosity
Settore AGR/17 - Zootecnica Generale E Miglioramento Genetico
runs of homozygosity
genomic relationships
lcsh:Zoology
Genomic relationships
Heterozygosity-rich regions
Inbreeding
Maremmana cattle
Pedigree relationships
Runs of homozygosity
lcsh:QL1-991
Genetic diversity
lcsh:Veterinary medicine
General Veterinary
business.industry
genetic diversity
biology.organism_classification
ROH islands
TheoryofComputation_MATHEMATICALLOGICANDFORMALLANGUAGES
Evolutionary biology
lcsh:SF600-1100
Pedigree relationship
Animal Science and Zoology
Livestock
business
Heterozygosity-rich region
linkage disequilibrium
effective population size
Zdroj: Animals (Basel) 10 (2020). doi:10.3390/ani10122285
info:cnr-pdr/source/autori:Filippo Biscarini, Salvatore Mastrangelo, Gennaro Catillo, Gabriele Senczuk and Roberta Ciampolini/titolo:Insights into Genetic Diversity, Runs of Homozygosity and Heterozygosity-Rich Regions in Maremmana Semi-Feral Cattle Using Pedigree and Genomic Data/doi:10.3390%2Fani10122285/rivista:Animals (Basel)/anno:2020/pagina_da:/pagina_a:/intervallo_pagine:/volume:10
Animals : an Open Access Journal from MDPI
Animals
Volume 10
Issue 12
Animals, Vol 10, Iss 2285, p 2285 (2020)
ISSN: 2076-2615
DOI: 10.3390/ani10122285
Popis: Semi-feral local livestock populations, like Maremmana cattle, are the object of renewed interest for the conservation of biological diversity and the preservation and exploitation of unique and potentially relevant genetic material. The aim of this study was to estimate genetic diversity parameters in semi-feral Maremmana cattle using both pedigree- and genomic-based approaches (FIS and FROH), and to detect regions of homozygosity (ROH) and heterozygosity (ROHet) in the genome. The average heterozygosity estimates were in the range reported for other cattle breeds (HE=0.261, HO=0.274). Pedigree-based average inbreeding (F) was estimated at 4.9%. The correlation was low between F and genomic-based approaches (r=0.03 with FIS, r=0.21 with FROH), while it was higher between FIS and FROH (r=0.78). The low correlation between F and FROH coefficients may be the result of the limited pedigree depth available for the animals involved in this study. The ROH islands identified in Maremmana cattle included candidate genes associated with climate adaptation, carcass traits or the regulation of body weight, fat and energy metabolism. The ROHet islands contained candidate genes associated with nematode resistance and reproduction traits in livestock. The results of this study confirm that genome-based measures like FROH may be useful estimators of individual autozygosity, and may provide insights on pedigree-based inbreeding estimates in cases when animals&rsquo
pedigree data are unavailable, thus providing a more detailed picture of the genetic diversity.
Databáze: OpenAIRE
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