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A compendium of DNA-binding specificities of transcription factors in Pseudomonas syringae.

ABSTRACT: Pseudomonas syringae is a Gram-negative and model pathogenic bacterium that causes plant diseases worldwide. Here, we set out to identify binding motifs for all 301 annotated transcription factors (TFs) of P. syringae using HT-SELEX. We successfully identify binding motifs for 100 TFs. We map functional interactions between the TFs and their targets in virulence-associated pathways, and validate many of these interactions and functions using additional methods such as ChIP-seq, electrophoretic mobility shift assay (EMSA), RT-qPCR, and reporter assays. Our work identifies 25 virulence-associated master regulators, 14 of which had not been characterized as TFs before.

SUBMITTER: Fan L

PROVIDER: S-EPMC7532196 | biostudies-literature | 2020 Oct

REPOSITORIES: biostudies-literature

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A compendium of DNA-binding specificities of transcription factors in Pseudomonas syringae.

Fan Ligang L Wang Tingting T Hua Canfeng C Sun Wenju W Li Xiaoyu X Grunwald Lucas L Liu Jingui J Wu Nan N Shao Xiaolong X Yin Yimeng Y Yan Jian J Deng Xin X

Nature communications 20201002 1

Pseudomonas syringae is a Gram-negative and model pathogenic bacterium that causes plant diseases worldwide. Here, we set out to identify binding motifs for all 301 annotated transcription factors (TFs) of P. syringae using HT-SELEX. We successfully identify binding motifs for 100 TFs. We map functional interactions between the TFs and their targets in virulence-associated pathways, and validate many of these interactions and functions using additional methods such as ChIP-seq, electrophoretic m ...[more]

PMID: 33009392

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