Single- and Bayesian Multi-Marker Genome-Wide Association for Haematological Parameters in Pigs
Haematological traits are important traits that show associations with immune and metabolic status, as well as diseases in humans and animals. Mapping genome regions that affect the blood cell traits can contribute to the identification of genomic features useable as biomarkers for immune, disease a...
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| Veröffentlicht in: | PloS one 2016-07, Vol.11 (7), p.e0159212-e0159212 |
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| creator | Ponsuksili, Siriluck Reyer, Henry Trakooljul, Nares Murani, Eduard Wimmers, Klaus |
| description | Haematological traits are important traits that show associations with immune and metabolic status, as well as diseases in humans and animals. Mapping genome regions that affect the blood cell traits can contribute to the identification of genomic features useable as biomarkers for immune, disease and metabolic status. A genome-wide association study (GWAS) was conducted using PorcineSNP60 BeadChips. Single-marker and Bayesian multi-marker approaches were integrated to identify genomic regions and corresponding genes overlapping for both methods. GWAS was performed for haematological traits of 591 German Landrace pig. Heritability estimates for haematological traits were medium to high. In total 252 single SNPs associated with 12 haematological traits were identified (NegLog10 of p-value > 5). The Bayesian multi-marker approach revealed 102 QTL regions across the genome, indicated by 1-Mb windows with contribution to additive genetic variance above 0.5%. The integration of both methods resulted in 24 overlapping QTL regions. This study identified overlapping QTL regions from single- and multi-marker approaches for haematological traits. Identifying candidate genes that affect blood cell traits provides the first step towards the understanding of the molecular basis of haematological phenotypes. |
| doi_str_mv | 10.1371/journal.pone.0159212 |
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This study identified overlapping QTL regions from single- and multi-marker approaches for haematological traits. Identifying candidate genes that affect blood cell traits provides the first step towards the understanding of the molecular basis of haematological phenotypes.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0159212</identifier><identifier>PMID: 27434032</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Agricultural commodities ; Animals ; Autism ; Bayes Theorem ; Bayesian analysis ; Bioindicators ; Biological markers ; Biology ; Biology and Life Sciences ; Biomarkers ; Blood ; Blood cells ; Blood platelets ; Blood Platelets - metabolism ; Chromosome Mapping ; Deoxyribonucleic acid ; DNA ; DNA methylation ; Erythrocytes - metabolism ; Gene mapping ; Genes ; Genetic aspects ; Genetic diversity ; Genetic variance ; Genome-wide association studies ; Genome-Wide Association Study ; Genomes ; Genomics ; Hematologic agents ; Hematology ; Hemodynamics - genetics ; Heritability ; Hogs ; Identification methods ; Immunological diseases ; Insulin ; Insulin-like growth factors ; Kinases ; Leukemia ; Medicine and Health Sciences ; Metabolism ; Open access ; Physiological aspects ; Pigs ; Polymorphism, Single Nucleotide ; Quantitative trait loci ; Quantitative Trait Loci - genetics ; Single-nucleotide polymorphism ; Studies ; Sus scrofa ; Swine ; Swine - blood ; Swine - genetics</subject><ispartof>PloS one, 2016-07, Vol.11 (7), p.e0159212-e0159212</ispartof><rights>COPYRIGHT 2016 Public Library of Science</rights><rights>2016 Ponsuksili et al. 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Mapping genome regions that affect the blood cell traits can contribute to the identification of genomic features useable as biomarkers for immune, disease and metabolic status. A genome-wide association study (GWAS) was conducted using PorcineSNP60 BeadChips. Single-marker and Bayesian multi-marker approaches were integrated to identify genomic regions and corresponding genes overlapping for both methods. GWAS was performed for haematological traits of 591 German Landrace pig. Heritability estimates for haematological traits were medium to high. In total 252 single SNPs associated with 12 haematological traits were identified (NegLog10 of p-value > 5). The Bayesian multi-marker approach revealed 102 QTL regions across the genome, indicated by 1-Mb windows with contribution to additive genetic variance above 0.5%. The integration of both methods resulted in 24 overlapping QTL regions. This study identified overlapping QTL regions from single- and multi-marker approaches for haematological traits. Identifying candidate genes that affect blood cell traits provides the first step towards the understanding of the molecular basis of haematological phenotypes.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>27434032</pmid><doi>10.1371/journal.pone.0159212</doi><tpages>e0159212</tpages><orcidid>https://orcid.org/0000-0002-9523-6790</orcidid><oa>free_for_read</oa></addata></record> |
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| source | Public Library of Science (PLoS) Journals Open Access; MEDLINE; DOAJ Directory of Open Access Journals; EZB-FREE-00999 freely available EZB journals; PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Agricultural commodities Animals Autism Bayes Theorem Bayesian analysis Bioindicators Biological markers Biology Biology and Life Sciences Biomarkers Blood Blood cells Blood platelets Blood Platelets - metabolism Chromosome Mapping Deoxyribonucleic acid DNA DNA methylation Erythrocytes - metabolism Gene mapping Genes Genetic aspects Genetic diversity Genetic variance Genome-wide association studies Genome-Wide Association Study Genomes Genomics Hematologic agents Hematology Hemodynamics - genetics Heritability Hogs Identification methods Immunological diseases Insulin Insulin-like growth factors Kinases Leukemia Medicine and Health Sciences Metabolism Open access Physiological aspects Pigs Polymorphism, Single Nucleotide Quantitative trait loci Quantitative Trait Loci - genetics Single-nucleotide polymorphism Studies Sus scrofa Swine Swine - blood Swine - genetics |
| title | Single- and Bayesian Multi-Marker Genome-Wide Association for Haematological Parameters in Pigs |
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