Identification of genome-wide copy number variations among diverse pig breeds using SNP genotyping arrays.
Copy number variations (CNVs) are important forms of genetic variation complementary to SNPs, and can be considered as promising markers for some phenotypic and economically important traits or diseases susceptibility in domestic animals. In the present study, we performed a genome-wide CNV identifi...
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2013-01-01
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| Series: | PLoS ONE |
| Online Access: | https://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23935880/?tool=EBI |
| _version_ | 1818458801797332992 |
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| author | Jiying Wang Haifei Wang Jicai Jiang Huimin Kang Xiaotian Feng Qin Zhang Jian-Feng Liu |
| author_facet | Jiying Wang Haifei Wang Jicai Jiang Huimin Kang Xiaotian Feng Qin Zhang Jian-Feng Liu |
| author_sort | Jiying Wang |
| collection | DOAJ |
| description | Copy number variations (CNVs) are important forms of genetic variation complementary to SNPs, and can be considered as promising markers for some phenotypic and economically important traits or diseases susceptibility in domestic animals. In the present study, we performed a genome-wide CNV identification in 14 individuals selected from diverse populations, including six types of Chinese indigenous breeds, one Asian wild boar population, as well as three modern commercial foreign breeds. We identified 63 CNVRs in total, which covered 9.98 Mb of polymorphic sequence and corresponded to 0.36% of the genome sequence. The length of these CNVRs ranged from 3.20 to 827.21 kb, with an average of 158.37 kb and a median of 97.85 kb. Functional annotation revealed these identified CNVR have important molecular function, and may play an important role in exploring the genetic basis of phenotypic variability and disease susceptibility among pigs. Additionally, to confirm these potential CNVRs, we performed qPCR for 12 randomly selected CNVRs and 8 of them (66.67%) were confirmed successfully. CNVs detected in diverse populations herein are essential complementary to the CNV map in the pig genome, which provide an important resource for studies of genomic variation and the association between various economically important traits and CNVs. |
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| format | Article |
| id | doaj.art-462ccbc0a6734e7db45869f9e6e3c3f1 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-14T23:04:14Z |
| publishDate | 2013-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
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| spelling | doaj.art-462ccbc0a6734e7db45869f9e6e3c3f12022-12-21T22:44:23ZengPublic Library of Science (PLoS)PLoS ONE1932-62032013-01-0187e6868310.1371/journal.pone.0068683Identification of genome-wide copy number variations among diverse pig breeds using SNP genotyping arrays.Jiying WangHaifei WangJicai JiangHuimin KangXiaotian FengQin ZhangJian-Feng LiuCopy number variations (CNVs) are important forms of genetic variation complementary to SNPs, and can be considered as promising markers for some phenotypic and economically important traits or diseases susceptibility in domestic animals. In the present study, we performed a genome-wide CNV identification in 14 individuals selected from diverse populations, including six types of Chinese indigenous breeds, one Asian wild boar population, as well as three modern commercial foreign breeds. We identified 63 CNVRs in total, which covered 9.98 Mb of polymorphic sequence and corresponded to 0.36% of the genome sequence. The length of these CNVRs ranged from 3.20 to 827.21 kb, with an average of 158.37 kb and a median of 97.85 kb. Functional annotation revealed these identified CNVR have important molecular function, and may play an important role in exploring the genetic basis of phenotypic variability and disease susceptibility among pigs. Additionally, to confirm these potential CNVRs, we performed qPCR for 12 randomly selected CNVRs and 8 of them (66.67%) were confirmed successfully. CNVs detected in diverse populations herein are essential complementary to the CNV map in the pig genome, which provide an important resource for studies of genomic variation and the association between various economically important traits and CNVs.https://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23935880/?tool=EBI |
| spellingShingle | Jiying Wang Haifei Wang Jicai Jiang Huimin Kang Xiaotian Feng Qin Zhang Jian-Feng Liu Identification of genome-wide copy number variations among diverse pig breeds using SNP genotyping arrays. PLoS ONE |
| title | Identification of genome-wide copy number variations among diverse pig breeds using SNP genotyping arrays. |
| title_full | Identification of genome-wide copy number variations among diverse pig breeds using SNP genotyping arrays. |
| title_fullStr | Identification of genome-wide copy number variations among diverse pig breeds using SNP genotyping arrays. |
| title_full_unstemmed | Identification of genome-wide copy number variations among diverse pig breeds using SNP genotyping arrays. |
| title_short | Identification of genome-wide copy number variations among diverse pig breeds using SNP genotyping arrays. |
| title_sort | identification of genome wide copy number variations among diverse pig breeds using snp genotyping arrays |
| url | https://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23935880/?tool=EBI |
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