Postdoctoral positions in engineering the microbiome – Cornell University

The Brito Lab at Cornell University in Ithaca, NY works in the area of systems biology of the human microbiome. We are looking for talented postdocs to fill two open positions for postdoctoral researchers interested in investigating mechanistic linkages between microbes and human health outcomes. Postdoctoral candidates can have an experimental or computational background, or both. One of …

Superbugs Phone Game and Longitude Prize Competition #Resistance

This looks pretty cool Source: Superbugs | Longitude Prize From their site Destroy deadly bacteria and keep humanity’s precious antibiotics working for as long as you can in this free, fast-paced, and addictive action game. The story of this casual, real-time puzzle game comes straight from today’s headlines: The rise of superbugs, resistant bacteria which …

New paper of interest on antibiotic resistance genes in 4 CA cities but dangerous PR from UCLA

This new paper may be of interest: Source: Disparate Antibiotic Resistance Gene Quantities Revealed across 4 Major Cities in California: A Survey in Drinking Water, Air, and Soil at 24 Public Parks – ACS Omega (ACS Publications) Abstract: Widespread prevalence of multidrug and pandrug-resistant bacteria has prompted substantial concern over the global dissemination of antibiotic …

Dirty money: interesting data but unclear what implications are

OK.  So money has microbes on it.  Not surprising.  And when people find out such information they frequently go overboard in the germophobia. See for example these stories from over the years 1999: Filthy Lucre – Paper Money As A Vector Of Disease 2010: Dirty money 1: Expect germs 2010: How Bad Are Germs on Money 2012: …

Job: antibiotic resistance in 100k TB genomes

Hi All I’d just like to highlight a job we are advertising, to lead the bioinformatic (sequence+variation) analysis of 100,000 M tuberculosis genomes which we are sequencing (WGS), ~50,000 of which will be phenotyped for 12 drugs, and the remainder for some subset. Note the deadline is very soon – Monday 6th March! This project …

Investigating the antibiotic resistome of rural and peri-urban Latin America

For many years, efforts to profile the antibiotic resistome of the human gut focused exclusively on two extremes of human society: Western, industrialized cities and remote hunter-gatherers. While these studies were undoubtedly important, they overlooked the majority of the world’s population, which exists somewhere between the two extremes. Indeed, three-quarters of the world’s population lives …

From genomes to phenotypes: Traitar, the microbial trait analyzer

There is an increasing number of studies with a large number genomes recovered from isolate, metagenome, or single cell sequencing. To bridge the gap between the available genome sequences and available phenotype information, we have developed Traitar, a bioinformatics software to phenotype bacteria based on their genome sequence (see workflow below) . Traitar includes phenotype models for …

A must read from Reuters on the closed access world of superbug infections #terrifying

Vague rules give healthcare providers leeway in deciding when, or even whether, to report clusters of infections. And when they do, the public rarely knows. This is a really really big deal. We desperately need to be more open about antibiotic resistant bugs and any outbreaks of them.  Kudos to Reuters and Deborah J. Nelson, David Rohde, …

Koala Poop Microbiome Class: Week 10, Antibiotic Resistance Measurements

Since this was the last week of the quarter, we didn’t require the students to blog as in the previous 9 weeks.  Also, mostly we recapped what had happened in the class and discussed various assignments.  But the students did measure the antibiotic resistance of their strains, and we also had a powerful demonstration of …

Koala Poop Microbiome Class: Week 9, Antibiotic Resistance

(This blog post was prepared by students enrolled in the Koala Poop Microbiome Class in the Fall of 2016 at UC Davis) This week we focused on antibiotic sensitivity on the individual bacteria that were identified last week. The day before class, the bacteria that we have been working with all quarter were recultured in …