June 21 was International Swab Day for MetaSUB

June 21 was International Swab Day for the MetaSUB project. MetaSUB stands for “Metagenomics and Metadesign of the Subways and Urban Biomes”, an initiative in which experts together with citizens will study the microbial ecosystems of public transportation systems from all over the world. From the MetaSUB website:

Screen Shot 2016-06-25 at 12.03.55 AMBy developing and testing standards for the field and optimizing methods for urban sample collection, DNA/RNA isolation, taxa characterization, and data visualization, the MetaSUB consortium is pioneering an unprecedented study of urban mass-transit systems and cities around the world. These data will benefit city planners, public health officials, and designers, as well as discovery new species, biological systems, and biosynthetic gene clusters (BGCs), thus enabling an era of more quantified, responsive, and “smarter cities.”

The project is a continuation from the New York Subway Microbiome project, but on a much larger scale. It will collect and analyze samples from 54 major cities all over the world. Read more about MetaSUB in this paper:

The Metagenomics and Metadesign of the Subways and Urban Biomes (MetaSUB) International Consortium inaugural meeting report – The MetaSUB International Consortium – Microbiome (OA)

June 21 was Global City Sampling Day, the official start of the sampling phase project, where many samples were collected with the aid of “citizen scientists”.  Here is a selection of news articles:

‘Global City Sampling Day’ to Launch Weill Cornell Medicine-Led Study of Antimicrobial Resistance Across 54 International Cities – Weill Cornell Medical College

Screen Shot 2016-06-25 at 12.09.10 AMWeill Cornell Medicine is kicking off its groundbreaking international study of antimicrobial resistance with an event called Global City Sampling Day. Spanning six continents, 32 countries and 54 cities, this synchronized event brings together more than 400 people, who are expected to collect about 12,000 samples of DNA, RNA and microbes from surfaces in subways, buses, airports and other well-traveled public meeting spaces.

Global Microbiome Initiative Explores Subways for Drug-Resistance Markers – GenEngNews

Screen Shot 2016-06-24 at 11.42.22 PMMetaSUB Consortium will collect DNA and RNA samples from high-traffic areas in subway systems, buses, and parks in 54 cities worldwide (…) The study seeks insights on the prevalence of pathogens, including antimicrobial resistance, in urban environments–and expands on a 2015 metagenomic portrait of microbes in the New York City subways.

VideoBiologists Study What Kind Of Bacteria Is On New York City Subways – CBS New York

Screen Shot 2016-06-24 at 11.44.58 PMA team of biologists want to know what sort of bacteria is riding on the subways with straphangers. CBS2’s Christine Sloan reported the Weill Cornell Medicine biologists, led by Dr. Chris Mason, took nylon swabs of benches, turnstiles, railings and seats on trains. “The place we got the most bacteria and division of organisms was on wooden seats,” Mason said. “We actually see less on steel surfaces.” The swabbing is part of a global anti-microbial resistance study as 54 cities in 32 countries are collecting DNA and microbes simultaneously. The study is funded by the Gates Foundation.

Scientific study wants to identify all the microbes in subways around the world – Dan Rivoli – NY Daily News

Screen Shot 2016-06-25 at 12.13.08 AMThere are creepy creatures lurking in the subway – and they’re not just rats and insects. Christopher Mason, a geneticist at Weill Cornell Medicine, has been studying the microscopic ecosystem in the subway, already identifying more than 600 varieties of microbes. And on Tuesday he descended below ground again. Equipped with nylon swabs and latex gloves, Mason and his team were back in the subway to swab wooden benches, handrails and train seats to collect microbial material as part of an international expansion of his project, called MetaSub.

Mapping the subway’s microbiome: Barcelona – EurekAlert

Screen Shot 2016-06-24 at 11.37.52 PMBarcelona takes part in the international research project Metasub, which aims to map the microbiome of public transit systems in 54 cities worldwide, including New York, Hong Kong, Paris or Sydney. Scientists at the Centre for Genomic Regulation (CRG) are contributing to this project by providing, processing, and sequencing samples from the Barcelona subway and also by leading the sampling processing working group.

Global Project Uses GIS Cloud for Mapping Pathogens in Public Transit Systems – Directions Magazine

Screen Shot 2016-06-25 at 12.16.35 AMEvery day, hundreds of millions of people around the world use public transit systems without noticing a complex microbiome that is invisible to the naked eye. In more than 50 cities around the world, scientists are working on building a molecular and genetic atlas of these transportation systems in order to establish a worldwide “DNA map” of their microbiomes. Researchers studying these microbiomes as part of the MetaSUB project will use the GIS Cloud Mobile Data Collection app, highlighting the importance of its geospatial component.

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Elisabeth Bik

After receiving my PhD at Utrecht University in The Netherlands, I worked at the Dutch National Institute for Health and the St. Antonius Hospital in Nieuwegein. In 2001, I joined the Department of Microbiology and Immunology at Stanford, where I have worked on the characterization of the human microbiome in thousands of oral, gastric, and intestinal samples. I currently study the microbiome of marine mammals. When I am not in the lab, I can be found working on my blog Microbiome Digest , an almost daily compilation of scientific papers in the rapidly growing microbiome field, or on Twitter at @MicrobiomDigest.