The Pseudomonas aeruginosa transcriptome in planktonic cultures and static biofilms using RNA sequencing.
The Pseudomonas aeruginosa transcriptome in planktonic cultures and static biofilms using RNA sequencing.
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DOI：
10.1371/journal.pone.0031092
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发表时间：
2012
期刊：
影响因子：
3.7
通讯作者：
Häussler S
中科院分区：
文献类型：
--
作者：
Dötsch A;Eckweiler D;Schniederjans M;Zimmermann A;Jensen V;Scharfe M;Geffers R;Häussler S
在这项研究中，我们评估了基因表达如何不同的成熟铜绿假单胞菌生物膜，而不是通过使用RNA测序技术，从而产生定量和定性的信息的转录组的增殖细胞。尽管与指数生长期后期培养物相反，在稳定期和生物膜培养物两者中一致地调节大比例的基因，但是总体生物膜基因表达模式明显不同，表明生物膜不仅仅是稳定期的表面附着细胞。大量被发现是生物膜特异性的基因参与适应微需氧生长条件，抑制第三型分泌和细胞外基质成分的产生。此外，我们发现许多小RNA的差异调节，其中大部分类似于在稳定期培养物和生物膜。RNA-seq数据的定性分析揭示了超过3000个推定的转录起始位点（TSS）。通过使用cDNA末端的快速扩增（5′-RACE），我们证实了与pqsABCDE操纵子相关的三个不同TSS的存在，两个在pqsA的启动子中，一个在第二个基因pqsB的上游。总之，这项研究报告了第一个采用RNA测序技术对铜绿假单胞菌进行的转录组研究，并提供了对定量和定性转录组的见解，包括铜绿假单胞菌生物膜中小RNA的表达。
In this study, we evaluated how gene expression differs in mature Pseudomonas aeruginosa biofilms as opposed to planktonic cells by the use of RNA sequencing technology that gives rise to both quantitative and qualitative information on the transcriptome. Although a large proportion of genes were consistently regulated in both the stationary phase and biofilm cultures as opposed to the late exponential growth phase cultures, the global biofilm gene expression pattern was clearly distinct indicating that biofilms are not just surface attached cells in stationary phase. A large amount of the genes found to be biofilm specific were involved in adaptation to microaerophilic growth conditions, repression of type three secretion and production of extracellular matrix components. Additionally, we found many small RNAs to be differentially regulated most of them similarly in stationary phase cultures and biofilms. A qualitative analysis of the RNA-seq data revealed more than 3000 putative transcriptional start sites (TSS). By the use of rapid amplification of cDNA ends (5′-RACE) we confirmed the presence of three different TSS associated with the pqsABCDE operon, two in the promoter of pqsA and one upstream of the second gene, pqsB. Taken together, this study reports the first transcriptome study on P. aeruginosa that employs RNA sequencing technology and provides insights into the quantitative and qualitative transcriptome including the expression of small RNAs in P. aeruginosa biofilms.
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影响因子：
5.7
作者：
Lee J;Attila C;Cirillo SL;Cirillo JD;Wood TK
通讯作者：
Wood TK
影响因子：
3.2
作者：
Coleman, James P.;Hudson, L. Lynn;Pesci, Everett C.
通讯作者：
Pesci, Everett C.
DOI：
10.1038/nrmicro2199
发表时间：
2009-09
期刊：
Nature reviews. Microbiology
影响因子：
--
作者：
通讯作者：
--
影响因子：
4.4
作者：
Gonzalez, Nicolas;Heeb, Stephan;Valverde, Claudio;Kay, Elisabeth;Reimmann, Cornelia;Junier, Thomas;Haas, Dieter
通讯作者：
Haas, Dieter
影响因子：
3.2
作者：
Beenken, KE;Dunman, PM;Smeltzer, MS
通讯作者：
Smeltzer, MS