Transcriptomics

Dataset Information

16

CGH analyses for the Chinese indigenous pig breeds and commercial pig breeds [Agilent]


ABSTRACT: Since CNVs play a vital role in genomic studies, it is an imperative need to develop a comprehensive, more accurate and higher resolution porcine CNV map with practical significance in follow-up CNV functional analyses To detect CNV of pigs, we performed high density aCGH data of diverse pig breeds in the framework of the pig draft genome sequence (Sscrofa10.2) 9 Chinese indigenous pig, one Chinese wild boar and 2 commercial pigs were detected using one pig of Duroc as reference. These 12 animals include 1 wild pig, 2 pigs each from Yorkshire and Landrace as the representatives of modern commercial breeds and 9 unrelated individuals selected from 6 Chinese indigenous breeds (2- Tibetan pig, 2- Diannan small-ear pig, 2-Meishan pig, 1- Min pig, 1-Daweizi pig, and 1-Rongchang pig).

ORGANISM(S): Sus scrofa  

SUBMITTER: Jiying Wang   Jicai Jiang  Huimin Kang  Jianfeng Liu 

PROVIDER: E-GEOD-49299 | ArrayExpress | 2015-06-29

SECONDARY ACCESSION(S): GSE49299PRJNA213577

REPOSITORIES: GEO, ArrayExpress

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Publications

Improved Detection and Characterization of Copy Number Variations Among Diverse Pig Breeds by Array CGH.

Wang Jiying J   Jiang Jicai J   Wang Haifei H   Kang Huimin H   Zhang Qin Q   Liu Jian-Feng JF  

G3 (Bethesda, Md.) 20150422 6


As a major component of genomic variation, copy number variations (CNVs) are considered as promising markers for some phenotypic and economically important traits in domestic animals. Using a custom-designed 1M array CGH (aCGH), we performed CNV discovery in 12 pig samples from one Asian wild boar population, six Chinese indigenous breeds, and two European commercial breeds. In total, we identified 758 CNV regions (CNVRs), covering 47.43 Mb of the pig genome sequence. Of the total porcine genes,  ...[more]