PMID- 30541452 OWN - NLM STAT- MEDLINE DCOM- 20190314 LR - 20200225 IS - 1471-2164 (Electronic) IS - 1471-2164 (Linking) VI - 19 IP - 1 DP - 2018 Dec 12 TI - Screening of Streptococcus Suis serotype 2 resistance genes with GWAS and transcriptomic microarray analysis. PG - 907 LID - 10.1186/s12864-018-5339-9 [doi] LID - 907 AB - BACKGROUND: Swine streptococcosis has caused great economic loss in the swine industry, and the major pathogen responsible for this disease is Streptococcus Suis serotype 2 (SS2). Disease resistance breeding is a fundamental way of resolving this problem. With the development of GWAS and transcriptomic microarray technology, we now have powerful research tools to identify SS2 resistance genes. RESULTS: In this research, we generated an F(2) generation of SS2 resistant C57BL/6 and SS2 susceptive A/J mice. With the F(2) generation of these two mice strains and GWAS analysis, we identified 286 significant mouse genome SNPs sites associated with the SS2 resistance trait. Gene expression profiles for C57BL/6 and A/J were analyzed under SS2 infection pressure by microarray. In total, 251 differentially expressed genes were identified between these two mouse strains during SS2 infection. After combining the GWAS and gene expression profile data, we located two genes that were significantly associated with SS2 resistance, which were the UBA domain containing 1 gene (Ubac1) and Epsin 1 gene (Epn 1). GO classification and over-representation analysis revealed nine up-regulated related to immune function, which could potentially be involved in the C57BL/6 SS2 resistance trait. CONCLUSION: This is the first study to use both SNP chip and gene express profile chip for SS2 resistance gene identification in mouse, and these results will contribute to swine SS2 resistance breeding. FAU - Ma, Zhe AU - Ma Z AD - MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, 210095, China. AD - Ministry of Agriculture Key Laboratory of Animal Bacteriology, Nanjing, 210095, China. AD - Jiangsu Co-innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, 225009, China. FAU - Zhu, Haodan AU - Zhu H AD - Jiangsu Academy Agricultural Sciences, Nanjing, 210095, China. FAU - Su, Yiqi AU - Su Y AD - MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, 210095, China. AD - Ministry of Agriculture Key Laboratory of Animal Bacteriology, Nanjing, 210095, China. FAU - Meng, Yu AU - Meng Y AD - MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, 210095, China. AD - Ministry of Agriculture Key Laboratory of Animal Bacteriology, Nanjing, 210095, China. FAU - Lin, Huixing AU - Lin H AD - MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, 210095, China. AD - Ministry of Agriculture Key Laboratory of Animal Bacteriology, Nanjing, 210095, China. AD - Jiangsu Co-innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, 225009, China. FAU - He, Kongwang AU - He K AD - Jiangsu Academy Agricultural Sciences, Nanjing, 210095, China. FAU - Fan, Hongjie AU - Fan H AD - MOE Joint International Research Laboratory of Animal Health and Food Safety, College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, 210095, China. fhj@njau.edu.cn. AD - Ministry of Agriculture Key Laboratory of Animal Bacteriology, Nanjing, 210095, China. fhj@njau.edu.cn. AD - Jiangsu Co-innovation Center for Prevention and Control of Important Animal Infectious Diseases and Zoonoses, Yangzhou, 225009, China. fhj@njau.edu.cn. LA - eng GR - 2014ZX0800946B/the National Transgenic Major Program/ GR - 31772746, 31302093, 31272581/the National Natural Science Foundation of China/ GR - 2016YFD0501607/the National Key Research and Development Program/ GR - 201403054/Special Fund for Agro-scientific Research in the Public Interest/ GR - BK20130676/the Natural Science Foundation of Jiangsu Province/ GR - KYZ201630/the Key Project of Independent Innovation of the Fundamental Research Fund for the Central Universities of Nanjing Agricultural University/ GR - BE2013433/the Jiangsu Province Science and Technology Support Program/ GR - PAPD/the Priority Academic Program Development of Jiangsu Higher Education Institutions/ GR - 201706855039/China Scholarship Council/ PT - Journal Article DEP - 20181212 PL - England TA - BMC Genomics JT - BMC genomics JID - 100965258 RN - 0 (Adaptor Proteins, Vesicular Transport) RN - 0 (epsin) RN - EC 2.3.2.23 (Ubiquitin-Protein Ligase Complexes) SB - IM MH - Adaptor Proteins, Vesicular Transport/genetics MH - Animals MH - Disease Resistance/*genetics MH - Female MH - Gene Expression Profiling/*methods MH - Genome MH - *Genome-Wide Association Study MH - Male MH - Mice MH - Mice, Inbred C57BL MH - Oligonucleotide Array Sequence Analysis MH - Polymorphism, Single Nucleotide MH - Serogroup MH - Streptococcal Infections/genetics/mortality/veterinary MH - Streptococcus suis/metabolism/*pathogenicity MH - Survival Rate MH - *Transcriptome MH - Ubiquitin-Protein Ligase Complexes/genetics PMC - PMC6292034 OTO - NOTNLM OT - Genome-wide association study OT - Resistance genes OT - Streptococcus suis serotype 2 OT - Transcriptome analysis COIS- ETHICS APPROVAL AND CONSENT TO PARTICIPATE: The research was performed in accordance with regulations of the Institutional Animal Care and Use Committee at the Nanjing Agricultural University, College of Veterinary Medicine. The Science and Technology Agency of Jiangsu Province approved the protocol. The approval ID is SYXK (SU) 2010-0005. CONSENT FOR PUBLICATION: Not applicable. COMPETING INTERESTS: The authors declare that they have no competing interests. PUBLISHER'S NOTE: Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations. EDAT- 2018/12/14 06:00 MHDA- 2019/03/15 06:00 PMCR- 2018/12/12 CRDT- 2018/12/14 06:00 PHST- 2018/02/20 00:00 [received] PHST- 2018/11/29 00:00 [accepted] PHST- 2018/12/14 06:00 [entrez] PHST- 2018/12/14 06:00 [pubmed] PHST- 2019/03/15 06:00 [medline] PHST- 2018/12/12 00:00 [pmc-release] AID - 10.1186/s12864-018-5339-9 [pii] AID - 5339 [pii] AID - 10.1186/s12864-018-5339-9 [doi] PST - epublish SO - BMC Genomics. 2018 Dec 12;19(1):907. doi: 10.1186/s12864-018-5339-9.