Scientia Agricultura Sinica ›› 2012, Vol. 45 ›› Issue (19): 4075-4083.doi: 10.3864/j.issn.0578-1752.2012.19.020

• ANIMAL SCIENCE·RESOURCE INSECT • Previous Articles     Next Articles

Genome-Wide Association Study and Positional Candidate Gene Analysis on Age at Puberty of Gilts

 LI  Ping-Hua, LI  Jie, YANG  Zhu-Qing, ZHANG  Zhi-Yan, YANG  Bin, CHEN  Cong-Ying   

  1. 1.江西农业大学动物生物技术国家重点实验室培育基地，南昌 330045
  • Received:2012-02-20 Online:2012-10-01 Published:2012-06-13

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Abstract: 【Objective】Isolation and characterization of the causative gene or molecular marker for age at puberty will contribute to the selection and breeding of sows.【Method】The materials used in this study were F2 gilts from a white Duroc × Erhualian F2 resource population. F0, F1 and 316 well phenotyped F2 gilts were genotyped with Illumina porcine 60K SNP chip. Genome-wide association study (GWAS) and linkage and linkage-disequilibrium analysis (LDLA) were carried out to detect SNPs or haplotypes that were significantly associated with age at puberty of gilts. The associations of 3 SNPs within two candidate genes of Lin-28 Homolog B (LIN28B) and Trans-membrane Protein 38B (TMEM38B) with age at puberty of gilts were evaluated by standard association test, marker-assisted association test and F-drop test.【Result】The results from GWAS showed that the ASGA0032316 was the most significant SNP that was associated with age at puberty. It is located at 33.07 Mb of pig chromosome 7 (SSC7)  and exactly within the intron region of RAB23. At the same instant, several significant SNPs were also detected on chromosomes 1, 6, 12, 15 and 17. The results from LDLA analysis showed that all haplotypes that were associated with age at puberty at genome-wide significance level were located on SSC7. The most significant haplotype was located at 38.39-38.47 Mb and within the intergenic region of F1RVR7 and ZFAND3. In association analyses of positional candidate genes, although 3 SNPs from LIN28B and TMEM38B were significantly associated with age at puberty in standard association test (P＜0.05), it was not achieved significance level both in the marker-assisted association test and F-drop test (P＞0.05). 【Conclusion】The SNP and haplotype that were most significantly associated with age at puberty of gilts was detected on SSC7. Several other significantly associated SNPs were also detected on chromosomes 1, 6, 12, 15 and 17. The results from association tests suggested that LIN28B or TMEM38B gene on SSC1 is not the quantitative trait gene for age at puberty, or more SNPs from two genes need to be further analyzed.

Key words: age at puberty of gilts, genome-wide association study, linkage and linkage-disequilibrium analysis, positional candidate gene

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