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A history of the MetaSUB consortium: Tracking urban microbes around the globe

Ryon KA 1 , Tierney BT 1 , Frolova A 2 , Kahles A 3 , Desnues C 4 , Ouzounis C 5 Show all authors , Gibas C 6 , Bezdan D 7 , Deng Y 8 , He D 9 , Dias-Neto E 10 , Elhaik E 11 , Afshin E 12 , Grills G 13 , Iraola G 14 , Suzuki H 15 , Werner J 16 , Udekwu K 17 , Schriml L 18 , Bhattacharyya M 19 , Oliveira M 20 , Zambrano MM 21 , Hazrin-Chong NH 22 , Osuolale O 23 , Łabaj PP 24 , Tiasse P 24 , Rapuri S 25 , Borras S 26 , Pozdniakova S 26 , Shi T 27 , Sezerman U 28 , Rodo X 26 , Sezer ZH 29 , Mason CE 12

Affiliations 

  • 1 Department of Physiology and Biophysics, Weill Cornell Medicine, New York, NY USA
  • 2 Institute of Molecular Biology and Genetics of NASU, Kyiv, Ukraine
  • 3 ETH Zurich, Zurich, Switzerland
  • 4 Mediterranean Institute of Oceanography, 163 Avenue de Luminy Bâtiment Méditerranée, 13288, Marseille Cedex 9, France
  • 5 Aristotle University of Thessalonica & CERTH, Thessaloniki, Greece
  • 6 University of North Carolina, Charlotte, NC, USA
  • 7 Institute of Medical Genetics and Applied Genomics, University of Tübingen, Tübingen, Germany
  • 8 Department of Quantitative Health Sciences, John A. Burns School of Medicine, University of Hawaii at Manoa, Honolulu, HI 96813, USA
  • 9 University of Copenhagen, Copenhagen, Denmark
  • 10 AC Camargo Cancer Center, Sao Paulo, Brazil
  • 11 Lund University, Lund, Sweden
  • 12 Department of Physiology and Biophysics, Weill Cornell Medicine, New York, NY, USA
  • 13 University of Miami, Miami, FL, USA
  • 14 Institut Pasteur de Montevideo, Mataojo 2020, Montevideo, 11400, Uruguay
  • 15 Keio University, Tokyo, Japan
  • 16 High Performance and Cloud Computing Group, Zentrum für Datenverarbeitung (ZDV), Eberhard Karls University of Tübingen, Tübingen, Germany
  • 17 Department of Medical Sciences, Uppsala University, Uppsala, Sweden
  • 18 University of Maryland School of Medicine, University of Maryland, Baltimore, MD, USA
  • 19 Indian Statistical Institute, Kolkata, India
  • 20 University of Porto, Porto, Portugal
  • 21 Corporación Corpogen, Bogotá, Columbia
  • 22 Universiti Kebangsaan Malaysia, Bangi, Malaysia
  • 23 Elizade University, Ilara-Mokin, Nigeria
  • 24 MCB Jagiellonian University, Kraków, Poland
  • 25 The Community Lab; Los Alamos Makers, Los Alamos, NM 87544, USA
  • 26 Barcelona Institute for Global Health, Rosselló, 132, 708036 Barcelona, Spain
  • 27 East China Normal University, Zhongshan Rd (N), 3663, 200050 Shanghai, Putuo, China
  • 28 Department of Biostatistics, Acibadem University, Istanbul, Turkey
  • 29 University of Tübingen, Tübingen, Germany
iScience, 2022 Nov 18;25(11):104993.
PMID: 36299999 DOI: 10.1016/j.isci.2022.104993

Abstract

The MetaSUB Consortium, founded in 2015, is a global consortium with an interdisciplinary team of clinicians, scientists, bioinformaticians, engineers, and designers, with members from more than 100 countries across the globe. This network has continually collected samples from urban and rural sites including subways and transit systems, sewage systems, hospitals, and other environmental sampling. These collections have been ongoing since 2015 and have continued when possible, even throughout the COVID-19 pandemic. The consortium has optimized their workflow for the collection, isolation, and sequencing of DNA and RNA collected from these various sites and processing them for metagenomics analysis, including the identification of SARS-CoV-2 and its variants. Here, the Consortium describes its foundations, and its ongoing work to expand on this network and to focus its scope on the mapping, annotation, and prediction of emerging pathogens, mapping microbial evolution and antibiotic resistance, and the discovery of novel organisms and biosynthetic gene clusters.

* Title and MeSH Headings from MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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