EHEC 2011 outbreak: Scientists publish their prospective genomic characterization

July 20, 2011

Scientists of the Medical Faculty of the University Munster and the University Hospital Munster in collaboration with scientists of the enterprise 'Life Technologies Corporation' were the first to release a draft genome sequence of a German enterohemorrhagic E. coli (EHEC) 2011 outbreak strain on June 3rd. Their in-depth genomic characterization of this outbreak was published on July 20th in the online open access journal PLoS ONE.

Microbiologist Prof. Dr. Dag Harmsen from the Department of in Münster – the corresponding author of this publication - is leading a team responsible for sequencing and conducting the bioinformatics analysis in Münster. "Thanks to the Ion Torrent PGM™ next generation sequencing (NGS) platform we were very quick. In essence this is the first demonstration where NGS was used in real-time for genomic analysis. There have already been some publications using NGS to retrospectively analyze outbreaks, but analysis during an ongoing outbreak had not yet been performed (figure). Basically a new discipline is born, i.e. prospective genomics epidemiology," he explains.

Such rapid sequencing is to be considered a "technical masterpiece, which will have immediate impact on surveillance and diagnostics and most probably in the future also on therapeutics", says Prof. Dr. Wilhelm Schmitz, Dean of the Medical Faculty of the University Münster.

"By comparing the EHEC O104:H4 outbreak genome with a simultaneously sequenced genome of an EHEC O104:H4 isolate from an HUS patient (isolated in Germany in 2001; the HUSEC041 reference strain), we were able to demonstrate that the current outbreak strain was not– as initially suggested - derived from the very similar enteroaggregative E. coli (EAEC) O104:H4 55989 strain but from a yet unknown Shiga toxin-producing O104:H4 progenitor strain", said Dr. Alexander Mellmann of the `National Consulting Laboratory for Hemolytic Uremic Syndrome (HUS) at the Institute of Hygiene, Münster.

The senior author of the study and head of the Institute of Hygiene, Prof. Dr. h.c. Helge Karch, added, "This study underlined the great importance of the long-term storage of historical HUS isolates that were collected by us since 1996 to understand the evolution of highly-pathogenic EHEC ."

Explore further: BGI sequences genome of the deadly E. coli in Germany and reveals new super-toxic strain

More information: Mellmann A*, Harmsen D*, Cummings CA*, Zentz EB, Leopold SR, et al. (2011) Prospective Genomic Characterization of the German Enterohemorrhagic Escherichia coli O104:H4 Outbreak by Rapid Next Generation Sequencing Technology. PLoS ONE 6(7): e22751. doi:10.1371/journal.pone.0022751

Related Stories

Recommended for you

Monkeys in Asia harbor virus from humans, other species

November 19, 2015

When it comes to spreading viruses, bats are thought to be among the worst. Now a new study of nearly 900 nonhuman primates in Bangladesh and Cambodia shows that macaques harbor more diverse astroviruses, which can cause ...

One-step test for hepatitis C virus infection developed

November 14, 2015

UC Irvine Health researchers have developed a cost-effective one-step test that screens, detects and confirms hepatitis C virus (HCV) infections. Dr. Ke-Qin Hu, director of hepatology services, will present findings at the ...

Computer model reveals deadly route of Ebola outbreak

November 10, 2015

Using a novel statistical model, a research team led by Columbia University's Mailman School of Public Health mapped the spread of the 2014-2015 Ebola outbreak in Sierra Leone, providing the most detailed picture to date ...


Please sign in to add a comment. Registration is free, and takes less than a minute. Read more

Click here to reset your password.
Sign in to get notified via email when new comments are made.