Unknown,Transcriptomics,Genomics,Proteomics

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Nitrogen regulatory protein C couples nitrogen stress response and stringent response in nitrogen starved Escherichia coli.


ABSTRACT: We show that NtrC couples the Ntr stress response and stringent response in N starved E. coli, which appears to be a conserved adaptive strategy employed by many bacteria to manage conditions of nutritional adversity. N starved Escherichia coli initiate the nitrogen regulation (Ntr) stress response as an adaptive mechanism to scavenge for alternative N sources. The Ntr stress response requires the global transcriptional regulator nitrogen regulatory protein C (NtrC). We discovered that the transcription of relA, the key gene responsible for the synthesis of the major effector nucleotide alamorne of the bacterial stringent response, guanosine pentaphosphate (ppGpp), is positively regulated by NtrC in N starved E. coli. we addressed Ntr stress response-ppGpp alarmone links and mapped the genome-wide binding targets of NtrC in E. coli during N starvation using chromatin immunoprecipitation (ChIP) followed by high-throughput sequencing (ChIP-seq) to gain insight into the NtrC-dependent gene networks. To identify candidate genome regions that are preferentially associated with NtrC, we introduced an in-frame fusion encoding three repeats of the FLAG epitope to the 3-prime end of glnG in E. coli strain NCM3722, a prototrophic E. coli K-12 strain.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Escherichia coli str. K-12 substr. MG1655

SUBMITTER: Barton Geraint 

PROVIDER: E-MTAB-2211 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Nitrogen stress response and stringent response are coupled in Escherichia coli.

Brown Daniel R DR   Barton Geraint G   Pan Zhensheng Z   Buck Martin M   Wigneshweraraj Sivaramesh S  

Nature communications 20140620


Assimilation of nitrogen is an essential process in bacteria. The nitrogen regulation stress response is an adaptive mechanism used by nitrogen-starved Escherichia coli to scavenge for alternative nitrogen sources and requires the global transcriptional regulator NtrC. In addition, nitrogen-starved E. coli cells synthesize a signal molecule, guanosine tetraphosphate (ppGpp), which serves as an effector molecule of many processes including transcription to initiate global physiological changes, c  ...[more]

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