Pathogenicity Factors of Genomic Islands in Intestinal and Extraintestinal Escherichia coli

M Desvaux, G Dalmasso, R Beyrouthy… - Frontiers in …, 2020 - frontiersin.org
Escherichia coli is a versatile bacterial species that includes both harmless commensal
strains and pathogenic strains found in the gastrointestinal tract in humans and warm …

The organization of the bacterial genome

EPC Rocha - Annual review of genetics, 2008 - annualreviews.org
Many bacterial cellular processes interact intimately with the chromosome. Such interplay is
the major driving force of genome structure or organization. Interactions take place at …

Chromosome position effects on gene expression in Escherichia coli K-12

JA Bryant, LE Sellars, SJW Busby… - Nucleic acids …, 2014 - academic.oup.com
In eukaryotes, the location of a gene on the chromosome is known to affect its expression,
but such position effects are poorly understood in bacteria. Here, using Escherichia coli K …

The systemic imprint of growth and its uses in ecological (meta) genomics

S Vieira-Silva, EPC Rocha - PLoS genetics, 2010 - journals.plos.org
Microbial minimal generation times range from a few minutes to several weeks. They are
evolutionarily determined by variables such as environment stability, nutrient availability …

The replication-related organization of bacterial genomes

EPC Rocha - Microbiology, 2004 - microbiologyresearch.org
The replication of the chromosome is among the most essential functions of the bacterial cell
and influences many other cellular mechanisms, from gene expression to cell division. Yet …

Nucleoid-associated proteins shape chromatin structure and transcriptional regulation across the bacterial kingdom

HM Amemiya, J Schroeder, PL Freddolino - Transcription, 2021 - Taylor & Francis
Genome architecture has proven to be critical in determining gene regulation across almost
all domains of life. While many of the key components and mechanisms of eukaryotic …

Replication‐associated gene dosage effects shape the genomes of fast‐growing bacteria but only for transcription and translation genes

E Couturier, EPC Rocha - Molecular microbiology, 2006 - Wiley Online Library
The bidirectional replication of bacterial genomes leads to transient gene dosage effects.
Here, we show that such effects shape the chromosome organisation of fast‐growing …

Genomic sequencing and methylation analysis by ligation mediated PCR

GP Pfeifer, SD Steigerwald, PR Mueller, B Wold… - Science, 1989 - science.org
Genomic sequencing permits studies of in vivo DNA methylation and protein-DNA
interactions, but its use has been limited because of the complexity of the mammalian …

Organization of the bacterial chromosome

S Krawiec, M Riley - Microbiological Reviews, 1990 - Am Soc Microbiol
Recent progress in studies on the bacterial chromosome is summarized. Although the
greatest amount of information comes from studies on Escherichia coli, reports on studies of …

Optimized gene expression from bacterial chromosome by high-throughput integration and screening

TE Saleski, MT Chung, DN Carruthers… - Science …, 2021 - science.org
Chromosomal integration of recombinant genes is desirable compared with expression from
plasmids due to increased stability, reduced cell-to-cell variability, and elimination of the …