Construction and application of a co-expression network in Mycobacterium tuberculosis

被引:23
作者
Jiang, Jun [1 ]
Sun, Xian [1 ]
Wu, Wei [1 ]
Li, Li [1 ]
Wu, Hai [1 ]
Zhang, Lu [1 ]
Yu, Guohua [1 ]
Li, Yao [1 ]
机构
[1] Fudan Univ, Shanghai Engn Res Ctr Ind Microorganisms, Sch Life Sci, State Key Lab Genet Engn, Shanghai 200438, Peoples R China
基金
中国国家自然科学基金;
关键词
GENE-EXPRESSION; HYPOXIC RESPONSE; IN-VITRO; STRESS; METABOLISM; REGULATOR; VIRULENCE; MEMBER; MODEL;
D O I
10.1038/srep28422
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Because of its high pathogenicity and infectivity, tuberculosis is a serious threat to human health. Some information about the functions of the genes in Mycobacterium tuberculosis genome was currently available, but it was not enough to explore transcriptional regulatory mechanisms. Here, we applied the WGCNA (Weighted Gene Correlation Network Analysis) algorithm to mine pooled microarray datasets for the M. tuberculosis H37Rv strain. We constructed a co-expression network that was subdivided into 78 co-expression gene modules. The different response to two kinds of vitro models (a constant 0.2% oxygen hypoxia model and a Wayne model) were explained based on these modules. We identified potential transcription factors based on high Pearson's correlation coefficients between the modules and genes. Three modules that may be associated with hypoxic stimulation were identified, and their potential transcription factors were predicted. In the validation experiment, we determined the expression levels of genes in the modules under hypoxic condition and under overexpression of potential transcription factors (Rv0081, furA (Rv1909c), Rv0324, Rv3334, and Rv3833). The experimental results showed that the three identified modules related to hypoxia and that the overexpression of transcription factors could significantly change the expression levels of genes in the corresponding modules.
引用
收藏
页数:17
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