Stress response regulators identified through genome-wide transcriptome analysis of the (p)ppGpp-dependent response in Rhizobium etli.
Stress response regulators identified through genome-wide transcriptome analysis of the (p)ppGpp-dependent response in Rhizobium etli.
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DOI：
10.1186/gb-2011-12-2-r17
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发表时间：
2011
期刊：
影响因子：
12.3
通讯作者：
Michiels J
中科院分区：
文献类型：
--
作者：
Vercruysse M;Fauvart M;Jans A;Beullens S;Braeken K;Cloots L;Engelen K;Marchal K;Michiels J
警报器(p)ppGpp在营养限制和其他胁迫下介导基因表达的全局重编程，以应对这些不利条件。在大多数细菌中，(p)ppGpp的合成由RelA/SpoT （Rsh）蛋白控制。(p)ppGpp的作用主要在大肠杆菌和几种革兰氏阳性细菌中被表征。在这里，我们报道了首次使用高分辨率瓦片阵列深入分析α-变形菌中的(p) ppgpp -调控子，以更好地了解relA/rsh突变体的多效性胁迫表型。我们比较了etli根瘤菌野生型和rsh（以前是rel）突变体在指数期和固定期的基因表达，确定了许多(p)ppGpp靶点，包括小的非编码rna。834 (p)个ppgpp依赖基因中的大多数在固定期检测到。出乎意料的是，223个基因在早期指数阶段依赖于(p)ppGpp表达，这表明(p)ppGpp在活跃生长过程中的重要性迄今尚未被认识到。此外，我们确定了两个(p) ppgpp依赖的关键调节因子在热应激和氧化应激下的生存和一个被认为参与代谢适应的调节因子，即胞质外功能sigma因子EcfG2/PF00052，转录因子CH00371和丝氨酸蛋白激酶PrkA。(p)ppGpp在黄颡鱼逆境适应中的调控作用是深远的，它在黄颡鱼生长的各个阶段都重定向了基因表达。对缺乏全局调节因子的菌株进行全基因组转录组分析，并显示出多效表型，从而能够识别出控制与应激表型子集相关的基因的更具体的调节因子。这项工作是全面了解α-变形菌中应激反应的调控网络的重要一步。
The alarmone (p)ppGpp mediates a global reprogramming of gene expression upon nutrient limitation and other stresses to cope with these unfavorable conditions. Synthesis of (p)ppGpp is, in most bacteria, controlled by RelA/SpoT (Rsh) proteins. The role of (p)ppGpp has been characterized primarily in Escherichia coli and several Gram-positive bacteria. Here, we report the first in-depth analysis of the (p)ppGpp-regulon in an α-proteobacterium using a high-resolution tiling array to better understand the pleiotropic stress phenotype of a relA/rsh mutant. We compared gene expression of the Rhizobium etli wild type and rsh (previously rel) mutant during exponential and stationary phase, identifying numerous (p)ppGpp targets, including small non-coding RNAs. The majority of the 834 (p)ppGpp-dependent genes were detected during stationary phase. Unexpectedly, 223 genes were expressed (p)ppGpp-dependently during early exponential phase, indicating the hitherto unrecognized importance of (p)ppGpp during active growth. Furthermore, we identified two (p)ppGpp-dependent key regulators for survival during heat and oxidative stress and one regulator putatively involved in metabolic adaptation, namely extracytoplasmic function sigma factor EcfG2/PF00052, transcription factor CH00371, and serine protein kinase PrkA. The regulatory role of (p)ppGpp in R. etli stress adaptation is far-reaching in redirecting gene expression during all growth phases. Genome-wide transcriptome analysis of a strain deficient in a global regulator, and exhibiting a pleiotropic phenotype, enables the identification of more specific regulators that control genes associated with a subset of stress phenotypes. This work is an important step toward a full understanding of the regulatory network underlying stress responses in α-proteobacteria.
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影响因子：
14.9
作者：
Andres Leon E;Ezkurdia I;García B;Valencia A;Juan D
通讯作者：
Juan D
影响因子：
3.6
作者：
Braeken, Kristien;Daniels, Ruth;Michiels, Jan
通讯作者：
Michiels, Jan
DOI：
10.1073/pnas.1631248100
发表时间：
2003-08-19
影响因子：
11.1
作者：
Dahl, JL;Kraus, CN;Barry, CE
通讯作者：
Barry, CE
影响因子：
4.4
作者：
Brockmann-Gretza O;Kalinowski J
通讯作者：
Kalinowski J
影响因子：
3.2
作者：
Aberg, Anna;Fernandez-Vazquez, Jorge;Balsalobre, Carlos
通讯作者：
Balsalobre, Carlos