Comparison of gene co-expression networks in Pseudomonas aeruginosa and Staphylococcus aureus reveals conservation in some aspects of virulence.
Comparison of gene co-expression networks in Pseudomonas aeruginosa and Staphylococcus aureus reveals conservation in some aspects of virulence.
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DOI：
10.1016/j.gene.2017.10.005
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发表时间：
2018-01
期刊：
影响因子：
3.5
通讯作者：
N. Hosseinkhan;Zaynab Mousavian;A. Masoudi-Nejad
中科院分区：
文献类型：
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作者：
N. Hosseinkhan;Zaynab Mousavian;A. Masoudi-Nejad
铜绿假单胞菌和金黄色葡萄球菌是两种进化遥远的细菌物种，经常从囊性纤维化患者的慢性感染性伤口和严重肺部感染等持续性感染中分离出来。据我们所知，没有全面的基因组规模的共表达研究已经进行了这两个物种，在大多数情况下，只有很少的基因的表达一直是调查的主题。为了研究这两个物种之间的表达保守性水平，利用异质性基因表达数据集，采用加权基因共表达网络分析（WGCNA）方法研究了这两个物种在单物种和跨物种基因组尺度上的共表达模式。单物种共表达网络分析表明，inP.在铜绿假单胞菌中，参与群体感应（QS）、铁摄取、硝酸盐呼吸和III型分泌系统的基因，以及在金黄色葡萄球菌中，与碳代谢、脂肪酸-磷脂代谢和蛋白水解的调节相关的基因代表了在各种实验条件下相当多的共表达。此外，还比较了P. aerodorosaandS. aureus的结果表明，在两个物种中共鉴定出4个共表达的基因模块，共包含318个基因。在检测到的模块中发现了与双组分信号转导系统、小菌落变体（SCVs）形态和蛋白复合物相关的几个基因。我们相信，针对已鉴定的共表达的直链淀粉基因中的关键参与者，将是控制这两种细菌引起的难治性共感染的潜在干预策略。
Pseudomonas aeruginosaandStaphylococcus aureusare two evolutionary distant bacterial species that are frequently isolated from persistent infections such as chronic infectious wounds and severe lung infections in cystic fibrosis patients. To the best of our knowledge no comprehensive genome scale co-expression study has been already conducted on these two species and in most cases only the expression of very few genes has been the subject of investigation. In this study, in order to investigate the level of expressional conservation between these two species, using heterogeneous gene expression datasets the weighted gene co-expression network analysis (WGCNA) approach was applied to study both single and cross species genome scale co-expression patterns of these two species. Single species co-expression network analysis revealed that inP. aeruginosa, genes involved in quorum sensing (QS), iron uptake, nitrate respiration and type III secretion systems and inS. aureus, genes associated with the regulation of carbon metabolism, fatty acid-phospholipids metabolism and proteolysis represent considerable co-expression across a variety of experimental conditions. Moreover, the comparison of gene co-expression networks betweenP. aeruginosaandS. aureuswas led to the identification of four co-expressed gene modules in both species totally consisting of 318 genes. Several genes related to two component signal transduction systems, small colony variants (SCVs) morphotype and protein complexes were found in the detected modules. We believe that targeting the key players among the identified co-expressed orthologous genes will be a potential intervention strategy to control refractory co-infections caused by these two bacterial species.