Genome-wide association study identifies 22 new loci for body dimension and body weight traits in a White Duroc×Erhualian F intercross population
Objective Growth-related traits are important economic traits in the swine industry. However, the genetic mechanism of growth-related traits is little known. The aim of this study was to screen the candidate genes and molecular markers associated with body dimension and body weight traits in pigs. M...
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Asian-Australasian Association of Animal Production Societies
2017-08-01
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| Series: | Asian-Australasian Journal of Animal Sciences |
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| Online Access: | http://www.ajas.info/upload/pdf/ajas-30-8-1066.pdf |
| _version_ | 1811263211583832064 |
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| author | Jiuxiu Ji Lisheng Zhou Yuanmei Guo Lusheng Huang Junwu Ma |
| author_facet | Jiuxiu Ji Lisheng Zhou Yuanmei Guo Lusheng Huang Junwu Ma |
| author_sort | Jiuxiu Ji |
| collection | DOAJ |
| description | Objective Growth-related traits are important economic traits in the swine industry. However, the genetic mechanism of growth-related traits is little known. The aim of this study was to screen the candidate genes and molecular markers associated with body dimension and body weight traits in pigs. Methods A genome-wide association study (GWAS) on body dimension and body weight traits was performed in a White Duroc×Erhualian F2 intercross by the illumina PorcineSNP60K Beadchip. A mixed linear model was used to assess the association between single nucleotide polymorphisms (SNPs) and the phenotypes. Results In total, 611 and 79 SNPs were identified significantly associated with body dimension traits and body weight respectively. All SNPs but 62 were located into 23 genomic regions (quantitative trait loci, QTLs) on 14 autosomal and X chromosomes in Sus scrofa Build 10.2 assembly. Out of the 23 QTLs with the suggestive significance level (5×10−4), three QTLs exceeded the genome-wide significance threshold (1.15×10−6). Except the one on Sus scrofa chromosome (SSC) 7 which was reported previously all the QTLs are novel. In addition, we identified 5 promising candidate genes, including cell division cycle 7 for abdominal circumference, pleiomorphic adenoma gene 1 and neuropeptides B/W receptor 1 for both body weight and cannon bone circumference on SSC4, phosphoenolpyruvate carboxykinase 1, and bone morphogenetic protein 7 for hip circumference on SSC17. Conclusion The results have not only demonstrated a number of potential genes/loci associated with the growth-related traits in pigs, but also laid a foundation for studying the genes’ role and further identifying causative variants underlying these loci. |
| first_indexed | 2024-04-12T19:41:55Z |
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| issn | 1011-2367 1976-5517 |
| language | English |
| last_indexed | 2024-04-12T19:41:55Z |
| publishDate | 2017-08-01 |
| publisher | Asian-Australasian Association of Animal Production Societies |
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| series | Asian-Australasian Journal of Animal Sciences |
| spelling | doaj.art-386ebcb7e5bc4a6ab90f41226d81feae2022-12-22T03:19:04ZengAsian-Australasian Association of Animal Production SocietiesAsian-Australasian Journal of Animal Sciences1011-23671976-55172017-08-013081066107310.5713/ajas.16.067923692Genome-wide association study identifies 22 new loci for body dimension and body weight traits in a White Duroc×Erhualian F intercross populationJiuxiu Ji0Lisheng Zhou1Yuanmei Guo2Lusheng Huang3Junwu Ma4 National Key Laboratory for Pig Genetic Improvement and Production Technology, Jiangxi Agricultural University, Nanchang 330045, China National Key Laboratory for Pig Genetic Improvement and Production Technology, Jiangxi Agricultural University, Nanchang 330045, China National Key Laboratory for Pig Genetic Improvement and Production Technology, Jiangxi Agricultural University, Nanchang 330045, China National Key Laboratory for Pig Genetic Improvement and Production Technology, Jiangxi Agricultural University, Nanchang 330045, China National Key Laboratory for Pig Genetic Improvement and Production Technology, Jiangxi Agricultural University, Nanchang 330045, ChinaObjective Growth-related traits are important economic traits in the swine industry. However, the genetic mechanism of growth-related traits is little known. The aim of this study was to screen the candidate genes and molecular markers associated with body dimension and body weight traits in pigs. Methods A genome-wide association study (GWAS) on body dimension and body weight traits was performed in a White Duroc×Erhualian F2 intercross by the illumina PorcineSNP60K Beadchip. A mixed linear model was used to assess the association between single nucleotide polymorphisms (SNPs) and the phenotypes. Results In total, 611 and 79 SNPs were identified significantly associated with body dimension traits and body weight respectively. All SNPs but 62 were located into 23 genomic regions (quantitative trait loci, QTLs) on 14 autosomal and X chromosomes in Sus scrofa Build 10.2 assembly. Out of the 23 QTLs with the suggestive significance level (5×10−4), three QTLs exceeded the genome-wide significance threshold (1.15×10−6). Except the one on Sus scrofa chromosome (SSC) 7 which was reported previously all the QTLs are novel. In addition, we identified 5 promising candidate genes, including cell division cycle 7 for abdominal circumference, pleiomorphic adenoma gene 1 and neuropeptides B/W receptor 1 for both body weight and cannon bone circumference on SSC4, phosphoenolpyruvate carboxykinase 1, and bone morphogenetic protein 7 for hip circumference on SSC17. Conclusion The results have not only demonstrated a number of potential genes/loci associated with the growth-related traits in pigs, but also laid a foundation for studying the genes’ role and further identifying causative variants underlying these loci.http://www.ajas.info/upload/pdf/ajas-30-8-1066.pdfPigGenome-wide Association Study (GWAS)Candidate GeneBody DimensionBody Weight |
| spellingShingle | Jiuxiu Ji Lisheng Zhou Yuanmei Guo Lusheng Huang Junwu Ma Genome-wide association study identifies 22 new loci for body dimension and body weight traits in a White Duroc×Erhualian F intercross population Asian-Australasian Journal of Animal Sciences Pig Genome-wide Association Study (GWAS) Candidate Gene Body Dimension Body Weight |
| title | Genome-wide association study identifies 22 new loci for body dimension and body weight traits in a White Duroc×Erhualian F intercross population |
| title_full | Genome-wide association study identifies 22 new loci for body dimension and body weight traits in a White Duroc×Erhualian F intercross population |
| title_fullStr | Genome-wide association study identifies 22 new loci for body dimension and body weight traits in a White Duroc×Erhualian F intercross population |
| title_full_unstemmed | Genome-wide association study identifies 22 new loci for body dimension and body weight traits in a White Duroc×Erhualian F intercross population |
| title_short | Genome-wide association study identifies 22 new loci for body dimension and body weight traits in a White Duroc×Erhualian F intercross population |
| title_sort | genome wide association study identifies 22 new loci for body dimension and body weight traits in a white duroc erhualian f intercross population |
| topic | Pig Genome-wide Association Study (GWAS) Candidate Gene Body Dimension Body Weight |
| url | http://www.ajas.info/upload/pdf/ajas-30-8-1066.pdf |
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