A comprehensive genome-wide scan detects genomic regions related to local adaptation and climate resilience in Mediterranean domestic sheep
Abstract Background The management of farm animal genetic resources and the adaptation of animals to climate change will probably have major effects on the long-term sustainability of the livestock sector. Genomic data harbour useful relevant information that needs to be harnessed for effectively ma...
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2021
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oai:doaj.org-article:0c472726fe54441496a2ac7a13ccbea62021-12-05T12:18:32ZA comprehensive genome-wide scan detects genomic regions related to local adaptation and climate resilience in Mediterranean domestic sheep10.1186/s12711-021-00682-71297-9686https://doaj.org/article/0c472726fe54441496a2ac7a13ccbea62021-12-01T00:00:00Zhttps://doi.org/10.1186/s12711-021-00682-7https://doaj.org/toc/1297-9686Abstract Background The management of farm animal genetic resources and the adaptation of animals to climate change will probably have major effects on the long-term sustainability of the livestock sector. Genomic data harbour useful relevant information that needs to be harnessed for effectively managing genetic resources. In this paper, we report the genome characterization of the highly productive Mediterranean Chios dairy sheep and focus on genetic diversity measures related with local adaptation and selection and the genetic architecture of animal resilience to weather fluctuations as a novel adaptative trait linked to climate change. Results We detected runs of homozygosity (ROH) and heterozygosity (ROHet) that revealed multiple highly homozygous and heterozygous hotspots across the Chios sheep genome. A particularly highly homozygous region was identified on chromosome 13 as a candidate of directional genetic selection associated with milk traits, which includes annotated genes that were previously shown to be linked to local adaptation to harsh environmental conditions. Favourable heterozygosity related with a potentially protective role against livestock diseases and enhanced overall fitness was revealed in heterozygous-rich regions on sheep chromosomes 3, 10, 13 and 19. Furthermore, genomic analyses were conducted on sheep resilience phenotypes that display changes in milk production in response to weather variation. Sheep resilience to heat stress was a significantly heritable trait (h2 = 0.26) and genetically antagonistic to milk production. Genome-wide association and regional heritability mapping analyses revealed novel genomic markers and regions on chromosome 5 that were significantly associated with sheep resilience to climate change. Subsequently, an annotation analysis detected a set of genes on chromosome 5 that were associated with olfactory receptor complexes that could participate in heat stress mitigation through changes in respiration rate and respiratory evaporation. Other genes were grouped in previously reported biological processes relevant to livestock heat dissipation, including stress and immune response. Conclusions Our results may contribute to the optimal management of sheep genetic resources and inform modern selective breeding programmes that aim at mitigating future environmental challenges towards sustainable farming, while better balancing animal adaptation and productivity. Our results are directly relevant to the studied breed and the respective environmental conditions; however, the methodology may be extended to other livestock species of interest.Valentina TsartsianidouEnrique Sánchez-MolanoVanessa Varvara KapsonaZoitsa BasdagianniDimitrios ChatziplisGeorgios ArsenosAlexandros TriantafyllidisGeorgios BanosBMCarticleAnimal cultureSF1-1100GeneticsQH426-470DEENFRGenetics Selection Evolution, Vol 53, Iss 1, Pp 1-17 (2021) |
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DOAJ |
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DE EN FR |
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Animal culture SF1-1100 Genetics QH426-470 |
| spellingShingle |
Animal culture SF1-1100 Genetics QH426-470 Valentina Tsartsianidou Enrique Sánchez-Molano Vanessa Varvara Kapsona Zoitsa Basdagianni Dimitrios Chatziplis Georgios Arsenos Alexandros Triantafyllidis Georgios Banos A comprehensive genome-wide scan detects genomic regions related to local adaptation and climate resilience in Mediterranean domestic sheep |
| description |
Abstract Background The management of farm animal genetic resources and the adaptation of animals to climate change will probably have major effects on the long-term sustainability of the livestock sector. Genomic data harbour useful relevant information that needs to be harnessed for effectively managing genetic resources. In this paper, we report the genome characterization of the highly productive Mediterranean Chios dairy sheep and focus on genetic diversity measures related with local adaptation and selection and the genetic architecture of animal resilience to weather fluctuations as a novel adaptative trait linked to climate change. Results We detected runs of homozygosity (ROH) and heterozygosity (ROHet) that revealed multiple highly homozygous and heterozygous hotspots across the Chios sheep genome. A particularly highly homozygous region was identified on chromosome 13 as a candidate of directional genetic selection associated with milk traits, which includes annotated genes that were previously shown to be linked to local adaptation to harsh environmental conditions. Favourable heterozygosity related with a potentially protective role against livestock diseases and enhanced overall fitness was revealed in heterozygous-rich regions on sheep chromosomes 3, 10, 13 and 19. Furthermore, genomic analyses were conducted on sheep resilience phenotypes that display changes in milk production in response to weather variation. Sheep resilience to heat stress was a significantly heritable trait (h2 = 0.26) and genetically antagonistic to milk production. Genome-wide association and regional heritability mapping analyses revealed novel genomic markers and regions on chromosome 5 that were significantly associated with sheep resilience to climate change. Subsequently, an annotation analysis detected a set of genes on chromosome 5 that were associated with olfactory receptor complexes that could participate in heat stress mitigation through changes in respiration rate and respiratory evaporation. Other genes were grouped in previously reported biological processes relevant to livestock heat dissipation, including stress and immune response. Conclusions Our results may contribute to the optimal management of sheep genetic resources and inform modern selective breeding programmes that aim at mitigating future environmental challenges towards sustainable farming, while better balancing animal adaptation and productivity. Our results are directly relevant to the studied breed and the respective environmental conditions; however, the methodology may be extended to other livestock species of interest. |
| format |
article |
| author |
Valentina Tsartsianidou Enrique Sánchez-Molano Vanessa Varvara Kapsona Zoitsa Basdagianni Dimitrios Chatziplis Georgios Arsenos Alexandros Triantafyllidis Georgios Banos |
| author_facet |
Valentina Tsartsianidou Enrique Sánchez-Molano Vanessa Varvara Kapsona Zoitsa Basdagianni Dimitrios Chatziplis Georgios Arsenos Alexandros Triantafyllidis Georgios Banos |
| author_sort |
Valentina Tsartsianidou |
| title |
A comprehensive genome-wide scan detects genomic regions related to local adaptation and climate resilience in Mediterranean domestic sheep |
| title_short |
A comprehensive genome-wide scan detects genomic regions related to local adaptation and climate resilience in Mediterranean domestic sheep |
| title_full |
A comprehensive genome-wide scan detects genomic regions related to local adaptation and climate resilience in Mediterranean domestic sheep |
| title_fullStr |
A comprehensive genome-wide scan detects genomic regions related to local adaptation and climate resilience in Mediterranean domestic sheep |
| title_full_unstemmed |
A comprehensive genome-wide scan detects genomic regions related to local adaptation and climate resilience in Mediterranean domestic sheep |
| title_sort |
comprehensive genome-wide scan detects genomic regions related to local adaptation and climate resilience in mediterranean domestic sheep |
| publisher |
BMC |
| publishDate |
2021 |
| url |
https://doaj.org/article/0c472726fe54441496a2ac7a13ccbea6 |
| work_keys_str_mv |
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