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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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ChAP-chip analysis of Hha binding regions in wild type and hnsstpA E. coli cells

ABSTRACT: The analysis of the distribution of Hha binding regions (His-Hha were expressed from pQE plasmid) on E. coli chromosome in E. coli W3110 (wild type) and hns/stpA mutant cells.

ORGANISM(S): Escherichia coli

SUBMITTER: Taku Oshima

PROVIDER: E-MEXP-3813 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Functions of the Hha and YdgT proteins in transcriptional silencing by the nucleoid proteins, H-NS and StpA, in Escherichia coli.

Ueda Takeshi T Takahashi Hiroki H Uyar Ebru E Ishikawa Shu S Ogasawara Naotake N Oshima Taku T

DNA research : an international journal for rapid publication of reports on genes and genomes 20130329 3

The Hha and YdgT proteins are suggested to modulate the expression of horizontally acquired genes by interacting with H-NS and StpA, which play central roles in the transcriptional silencing of such genes. However, it is also possible that Hha/YdgT repress gene expression independently of H-NS/StpA, as we have not fully understood the molecular mechanism through which Hha/YdgT modulate H-NS/StpA activity. To gain further insight into the basic functions of Hha/YdgT, we analysed the impact of hha ...[more]

PMID: 23543115

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ChIP-chip analysis for H-NS binding sites in wild type and hhaydgT cells

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Comparative genomic hybridization of Streptococcus suis strains - part 2

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Project description:Coordination of chromosome segregation and cytokinesis is crucial for efficient cell proliferation. In Bacillus subtilis the nucleoid occlusion protein Noc protects chromosomes by associating with the chromosome and preventing cell division in its vicinity. Using protein localization, ChAP-on-Chip and bioinformatics, we have identified a consensus Noc-binding DNA sequence (NBS), and show that Noc is targeted to about 70 discrete regions scattered around the chromosome, though absent from a large region around the replication terminus. Purified Noc bound specifically to an NBS in vitro. NBSs inserted near the replication terminus bound Noc-YFP and caused a delay in cell division. An autonomous plasmid carrying an NBS recruited Noc-YFP and conferred a severe Noc-dependent inhibition of cell division. This shows that Noc is a potent inhibitor of division but that its activity is strictly localized by interaction with NBS sites in vivo. We propose that Noc not only serves as a spatial regulator of cell division to protect the nucleoid, but also a timing device with an important role in the co-ordination of chromosome segregation and cell division.

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ChAP-chip by array of Bacillus subtilis to obtain genome-wide profiles of AbrB and Abh

Project description:Genome-wide binding profiles of AbrB and Abh was determined by use of ChAP (chromatin affinity purification)-chip method, modified method of ChIP-chip. Genetic modification was undertaken to abrB and abh genes to translationally fuse 2HC (coding sequence of twelve histidine and chitin binding domain) at the 3' ends to express AbrB-2HC and Abh-2HC proteins respectively.

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2011-04-10 | E-MEXP-3056 | biostudies-arrayexpress

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2011-09-15 | E-MEXP-3360 | biostudies-arrayexpress

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