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Additional file 1: of Screening of Streptococcus Suis serotype 2 resistance genes with GWAS and transcriptomic microarray analysis

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posted on 12.12.2018, 05:00 by Zhe Ma, Haodan Zhu, Yiqi Su, Yu Meng, Huixing Lin, Kongwang He, Hongjie Fan
Figure S1. Breeding scheme used to generate F2 mice. Since the fertility of C57BL/6 female mice is higher than A/J female mice, we chose C57BL/6 female mice and A/J male mice as parents to generate F1 progeny. To avoid inbreeding, F1 male mice were mated with F1 female mice from a different group to generate the F2 mice. Figure S2. Overall strategy for identifying genes associated with resistance to S. suis in swine. Flow chart of the strategy for identifying S. suis resistant genes in swine through gene expression profiling and SNP genotyping chip. Figure S3. Population structure analyzed from PCA values. Principal component values (C1, C2 and C3) were obtained through PLINK1.09 and used to correct population structure. Each point stands for a sample in the plots. Although points are concentrated in (A) and (B), and scattered in (C), none formed into several clusters in the three plots, showing the genetic background was consistent in F2 mice. Figure S4. Q-Q plot of F2 susceptible samples and F2 resistant samples. The plot showed deviation between expected P-values and observed P-values. Each point stands for a SNP. Points on the diagonal of coordinate were considered as non-influential to SS2 susceptibility, while points deviating from the diagonal might be associated with the trait. (PDF 594 kb)


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