Wednesday 16 April, 2014

Scientists sequence two new strains from E. coli outbreak in Germany

Published On: Sun, Jun 12th, 2011 | Bioinformatics | By BioNews

Two isolates from the current E. coli (Escherichia coli) outbreak in Germany have been sequenced and analyzed in laboratories.

Both strains are now available from Virginia Bioinformatics Institute”s (VBI”s) Pathosystems Resource Integration Center (PATRIC).

In the rush to save lives, many laboratories are analyzing these genomes and providing data to the research community.

The two genomes have been annotated with Rapid Annotation using Subsystem Technology (RAST), making them consistent with the 184 E. coli genomes and the total 2,865 bacterial genomes available at PATRIC.

The proteins conserved across all E. coli have been used to generate a preliminary phylogenetic tree that is based on 166640 characters across 527 genes in 354 taxa.

This tree shows that the two new strains are most closely related to the pathogenic, enteroaggregative strain 559899, which may give additional insight into its origin.

“The PATRIC team is working around the clock to help the scientific community address this emergency. Analyses such as these provide insights into the origin of highly pathogenic strains and potential response strategies,” said Bruno Sobral, PATRIC”s principal investigator.

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