A5042124702- Bacterial Genetics and Biotechnology
- RNA and protein synthesis mechanisms
- Bacteriophages and microbial interactions
- CRISPR and Genetic Engineering
- Escherichia coli research studies
- DNA and Nucleic Acid Chemistry
- Genomics and Chromatin Dynamics
- Antibiotic Resistance in Bacteria
- DNA Repair Mechanisms
- Genomics and Phylogenetic Studies
- Enzyme Structure and Function
- RNA Interference and Gene Delivery
- Amino Acid Enzymes and Metabolism
- Cancer Research and Treatments
- Wastewater Treatment and Nitrogen Removal
- RNA Research and Splicing
- RNA modifications and cancer
- Microbial Metabolic Engineering and Bioproduction
- Viral gastroenteritis research and epidemiology
- Genetics, Bioinformatics, and Biomedical Research
- Viral Infectious Diseases and Gene Expression in Insects
- Hemoglobin structure and function
- Microbial Community Ecology and Physiology
- Molecular Biology Techniques and Applications
- Advanced biosensing and bioanalysis techniques
University of Birmingham
2015-2024
Google (United Kingdom)
2016
In-Q-Tel
2012
University of Ljubljana
2009
University of Nottingham
2008
Oxford Gene Technology (United Kingdom)
2005
University of Sheffield
2004
Institut Pasteur
1979-2003
University of Massachusetts Chan Medical School
1998
National Institute of Genetics
1994-1997
In eukaryotes, the location of a gene on chromosome is known to affect its expression, but such position effects are poorly understood in bacteria. Here, using Escherichia coli K-12, we demonstrate that expression reporter cassette, comprised model E. lac promoter driving gfp, varies by ∼300-fold depending precise chromosome. At some positions, was more than 3-fold higher at natural locus, whereas several other locations, cassette completely silenced: effectively overriding local control....
The Escherichia coli chromosome is condensed into an ill-defined structure known as the nucleoid. Nucleoid-associated DNA-binding proteins are involved in maintaining this and mediating compaction. We have exploited chromatin immunoprecipitation high-density microarrays to study binding of three such proteins, FIS, H-NS IHF, across E.coli genome vivo. Our results show that distribution these biased intergenic parts genome, profiles overlap. Hence some targets associated with combinations...
Chromatin immunoprecipitation and high-density microarrays have been used to monitor the distribution of global transcription regulator Escherichia coli cAMP-receptor protein (CRP) RNA polymerase along E. chromosome. Our results identify targets occupied by CRP genes transcribed in vivo. Many loci binding are at known regulated promoters. However, our show that also interacts with thousands weaker sites across whole chromosome this "background" can be as a probe for organization within...
Cells of Escherichia coli growing on sugars that result in catabolite repression or amino acids feed into glycolysis undergo a metabolic switch associated with the production and utilization acetate. As they divide exponentially, these cells excrete acetate via phosphotransacetylase-acetate kinase pathway. begin transition to stationary phase, instead resorb acetate, activate it acetyl coenzyme A (acetyl-CoA) by means enzyme acetyl-CoA synthetase (Acs) utilize generate energy biosynthetic...
The effects of a number mutations in the E.coli cyclic AMP receptor protein (CRP) have been determined by monitoring vivo expression and vitro open complex formation at two semi-synthetic promoters that are totally CRP-dependent. At one promoter CRP-blnding site is centred around 41.5 base pairs upstream from transcription start whilst other it 61.5 upstream. CRP mutation E171K reduces both H159L renders inactive: neither stops binding either promoter. K52N K52Q reverse effect ‘reeducate’ to...
Homologous recombination mediated by the λ-Red genes is a common method for making chromosomal modifications in Escherichia coli. Several protocols have been developed that differ mechanisms which DNA, carrying regions homologous to chromosome, are delivered into cell. A technique electroporate linear DNA fragments cells. Alternatively, generated vivo digestion of donor plasmid with nuclease does not cleave host genome. In both cases gene products recombine carried on chromosome. We...
The Escherichia coli RutR protein is the master regulator of genes involved in pyrimidine catabolism.Here we have used chromatin immunoprecipitation combination with DNA microarrays to measure binding across chromosome exponentially growing E. cells.Twenty RutR-binding targets were identified and analysis these generated a consensus logo for binding.Complementary vitro assays showed high-affinity 16 20 targets, four low-affinity lacking predicted key determinants.Surprisingly, most are...
Significance Enterohemorrhagic Escherichia coli (EHEC) is a foodborne pathogen that can cause bloody diarrhea and hemolytic uremic syndrome, which lead to severe clinical complications such as kidney failure. The main factors triggering disease are well known include type 3 secreted effectors, adhesins, Shiga toxins. Much less about how these induced in response the environmental transition bacteria experience during transfer into passage through host. We show here although positive...
Summary The DNA sequence of the regulatory region and structural gene, nrfA , for cytochrome C 552 Escherichia coli K‐12 have been reported. We now established that is first gene in a seven‐gene operon, designated nrf at least five which are essential formate‐dependent nitrite reduction to ammonia. This operon terminates just upstream previously sequenced gltP encoding sodium‐independent, glutamate aspartate transporter. Expression lac fused nrfA, nrfE or nrfG regulated by oxygen repression,...
Transcription activation at Class II CAP‐dependent promoters provides a paradigm for understanding how single activator molecule can make multiple interactions with the transcription machinery, each interaction being responsible specific mechanistic consequence. At promoters, DNA target site CAP is centred near position −42, overlapping and replacing −35 determinant binding of RNA polymerase (RNAP). requires two distinct components. The first component ‘anti‐inhibition,’ overcoming an...