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Genetic applications of an inverse polymerase chain reaction.
The feasibility of IPCR is shown by amplifying the sequences that flank an IS1 element in the genome of a natural isolate of Escherichia coli.
Lateral gene transfer and the nature of bacterial innovation
Unlike eukaryotes, which evolve principally through the modification of existing genetic information, bacteria have obtained a significant proportion of their genetic diversity through the…
Sex and virulence in Escherichia coli: an evolutionary perspective
The evolution of virulence is linked to bacterial sex because rates of evolution have accelerated in pathogenic lineages, culminating in highly virulent organisms whose genomic contents are altered frequently by increased rates of homologous recombination.
Methods of multilocus enzyme electrophoresis for bacterial population genetics and systematics
- R. Selander, D. Caugant, H. Ochman, J. Musser, M. N. Gilmour, T. Whittam
- Medicine, BiologyApplied and Environmental Microbiology
- 1 May 1986
Methodes d'extraction d'enzymes, d'electrophorese en gel et de coloration specifique des enzymes utilisees pour etudier la variation genetique chez Escherichia coli et d'autres bacteries. Les…
Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates.
- V. Kunin, A. Engelbrektson, H. Ochman, P. Hugenholtz
- BiologyEnvironmental Microbiology
- 1 September 2009
It is found that 16S rDNA diversity is grossly overestimated unless relatively stringent read quality filtering and low clustering thresholds are applied, and stringent quality-based trimming of 16S pyrotags and clustering threshold no greater than 97% identity should be used to avoid overestimates of the rare biosphere.
Molecular archaeology of the Escherichia coli genome.
It is found that 755 of 4,288 ORFs have been introduced into the E. coli genome in at least 234 lateral transfer events since this species diverged from the Salmonella lineage 100 million years ago.
Standard reference strains of Escherichia coli from natural populations
A set of 72 reference strains of Escherichia coli isolated from a variety of hosts and geographical locations are established and are representative of the range of genotypic variation in the species as a whole.
Amelioration of Bacterial Genomes: Rates of Change and Exchange
Estimates of amelioration times indicate that the entire Escherichia coli chromosome contains more than 600 kb of horizontally transferred, protein-coding DNA, which predicts that the E. coli and Salmonella enterica lineages have each gained and lost more than 3 megabases of novel DNA since their divergence.
Identification of a pathogenicity island required for Salmonella survival in host cells.
- H. Ochman, F. C. Soncini, F. Solomon, E. Groisman
- BiologyProceedings of the National Academy of Sciences…
- 23 July 1996
The "pathogenicity island" harboring the spi genes may encode the virulence determinants that set Salmonella apart from other enteric pathogens.