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The difference of gene expression for live or dead BbrY associated mice.

ABSTRACT: To confirm epithelial gene expression of the large intestine after inoculation of dead (heat-treatment) or live Bifidobacterium probiotic strain (BbrY) we have employed whole genome microarray expression profiling. The epithelial cells were released from dead or live BbrY associated mice 3 or 28 days after association and GF mice with HANKS including EDTA and Hepes and treated by TRI-zol reagent. It was confirmed that the live BbrY associated mice were affected epithelial gene expression much more than dead cell feeding by K-means clustering and the functional categories.

ORGANISM(S): Mus musculus

PROVIDER: GSE16021 | GEO | 2015/08/30

SECONDARY ACCESSION(S): PRJNA115449

REPOSITORIES: GEO

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Project description:Yunnan Province, China is thought to be the original source of biovar Orientalis of Yersinia pestis, the causative agent of the third plague pandemic that has spread globally since the end of the 19th century. Although encompassing a large area of natural plague foci, Y. pestis strains have rarely been found in live rodents during surveillance in Yunnan, and most isolates are from rodent corpses and their fleas. In 2017, 10 Y. pestis strains were isolated from seven live rodents and three fleas in Heqing County (HQ) of Yunnan. These strains were supposed to have low virulence to local rodents Eothenomys miletus and Apodemus chevrieri because the rodents were healthy and no dead animals were found in surrounding areas, as had occurred in previous epizootic disease. We performed microscopic and biochemical examinations of the isolates,and compared their whole-genome sequences and transcriptome with those of 10 high virulence Y. pestis strains that were isolated from the adjacent city (Lijiang). We analyzed the phenotypic, genomic, and transcriptomic characteristics of live rodent isolates. The isolates formed a previously undefined monophyletic branch of Y. pestis that was named 1.IN5. Six SNPs, two indels, and one copy number variation were detected between live rodent isolates and the high virulence neighbors. No obvious functional consequence of these variations was found according to the known annotation information. Among the genes that were differentially expressed between the live rodent isolates and their high virulence neighbors, we detected five iron transfer-related genes that were significantly up-regulated in live rodent isolates compared with high virulence isolates (|log2 (FC) | >1, p.adjust <0.05), indicating these genes may be related to the low-virulence phenotype. The novel genotype of Y. pestis reported here provides further insights into the evolution and spread of plague as well as clues that may help to decipher the virulence mechanism of this notorious pathogen.

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The difference of gene expression for live or dead BbrY associated mice.

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