Global analysis of the HrpL regulon in the plant pathogen Pseudomonas syringae pv. tomato DC3000 reveals new regulon members with diverse functions.
Global analysis of the HrpL regulon in the plant pathogen Pseudomonas syringae pv. tomato DC3000 reveals new regulon members with diverse functions.
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DOI：
10.1371/journal.pone.0106115
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发表时间：
2014
期刊：
影响因子：
3.7
通讯作者：
Cartinhour SW
中科院分区：
文献类型：
--
作者：
Lam HN;Chakravarthy S;Wei HL;BuiNguyen H;Stodghill PV;Collmer A;Swingle BM;Cartinhour SW
III型分泌系统（T3SS）在革兰氏阴性植物病原体丁香假单胞菌pv的毒力中是必需的。番茄DC3000。另一种sigma因子HrpL通过启动子序列直接调节T3SS基因的表达，通常被称为“hrp启动子”。尽管在DC3000中已经对HrpL调控子进行了广泛的研究，但尚不清楚是否还有其他调控子成员被发现。为了系统地搜索hrp调节基因，我们使用染色质免疫沉淀结合高通量测序（ChIP-Seq）和大量mRNA测序（RNA-Seq）来鉴定hrp结合位点和可能的hrp启动子。分析恢复了73个感兴趣的位点，包括20个代表新的hrp启动子的位点。新的启动子位于一组不同基因的上游，这些基因编码潜在的调节因子、酶和假设的蛋白质。PSPTO_5633是唯一一个新的HrpL调控子成员，它可能是一个效应子，现在被指定为HopBM1。在DC3000或ΔhopQ1-1背景下，PSPTO_5633、PSPTO_0371、PSPTO_2130、PSPTO_2691、PSPTO_2696、PSPTO_3331和PSPTO_5240等其他几个新调控子的缺失不影响产生的菌株的过敏反应或植物生长。许多新的HrpL调控子成员似乎与T3SS无关，其中一些同源物可以在许多非致病性细菌中鉴定出来。随着20个新的hrp启动子的鉴定，HrpL调控子成员的列表接近饱和，很可能包括所有DC3000效应子。
The type III secretion system (T3SS) is required for virulence in the gram-negative plant pathogen Pseudomonas syringae pv. tomato DC3000. The alternative sigma factor HrpL directly regulates expression of T3SS genes via a promoter sequence, often designated as the “hrp promoter.” Although the HrpL regulon has been extensively investigated in DC3000, it is not known whether additional regulon members remain to be found. To systematically search for HrpL-regulated genes, we used chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-Seq) and bulk mRNA sequencing (RNA-Seq) to identify HrpL-binding sites and likely hrp promoters. The analysis recovered 73 sites of interest, including 20 sites that represent new hrp promoters. The new promoters lie upstream of a diverse set of genes encoding potential regulators, enzymes and hypothetical proteins. PSPTO_5633 is the only new HrpL regulon member that is potentially an effector and is now designated HopBM1. Deletions in several other new regulon members, including PSPTO_5633, PSPTO_0371, PSPTO_2130, PSPTO_2691, PSPTO_2696, PSPTO_3331, and PSPTO_5240, in either DC3000 or ΔhopQ1-1 backgrounds, do not affect the hypersensitive response or in planta growth of the resulting strains. Many new HrpL regulon members appear to be unrelated to the T3SS, and orthologs for some of these can be identified in numerous non-pathogenic bacteria. With the identification of 20 new hrp promoters, the list of HrpL regulon members is approaching saturation and most likely includes all DC3000 effectors.
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影响因子：
6.7
作者：
Baltrus DA;Nishimura MT;Romanchuk A;Chang JH;Mukhtar MS;Cherkis K;Roach J;Grant SR;Jones CD;Dangl JL
通讯作者：
Dangl JL
DOI：
10.1073/pnas.0409660102
发表时间：
2005-02-15
影响因子：
11.1
作者：
Chang, JH;Urbach, JM;Dangl, JL
通讯作者：
Dangl, JL
DOI：
10.1073/pnas.1731982100
发表时间：
2003-09-02
影响因子：
11.1
作者：
Buell, CR;Joardar, V;Collmer, A
通讯作者：
Collmer, A
模因套件：用于发现和搜索的工具。
影响因子：
14.9
作者：
Bailey TL;Boden M;Buske FA;Frith M;Grant CE;Clementi L;Ren J;Li WW;Noble WS
通讯作者：
Noble WS
影响因子：
3.5
作者：
Badel, JL;Shimizu, R;Collmer, A
通讯作者：
Collmer, A