A history of the MetaSUB consortium: Tracking urban microbes around the globe
Summary: 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 ru...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2022-11-01
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| Series: | iScience |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2589004222012652 |
| _version_ | 1797990549739798528 |
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| author | Krista A. Ryon Braden T. Tierney Alina Frolova Andre Kahles Christelle Desnues Christos Ouzounis Cynthis Gibas Daniela Bezdan Youping Deng Ding He Emmanuel Dias-Neto Eran Elhaik Evan Afshin George Grills Gregorio Iraola Haruo Suzuki Johannes Werner Klas Udekwu Lynn Schriml Malay Bhattacharyya Manuela Oliveira Maria Mercedes Zambrano Nur Hazlin Hazrin-Chong Olayinka Osuolale Paweł P. Łabaj Prisca Tiasse Sampath Rapuri Silvia Borras Sofya Pozdniakova Tieliu Shi Ugur Sezerman Xavier Rodo Zehra Hazal Sezer Christopher E. Mason |
| author_facet | Krista A. Ryon Braden T. Tierney Alina Frolova Andre Kahles Christelle Desnues Christos Ouzounis Cynthis Gibas Daniela Bezdan Youping Deng Ding He Emmanuel Dias-Neto Eran Elhaik Evan Afshin George Grills Gregorio Iraola Haruo Suzuki Johannes Werner Klas Udekwu Lynn Schriml Malay Bhattacharyya Manuela Oliveira Maria Mercedes Zambrano Nur Hazlin Hazrin-Chong Olayinka Osuolale Paweł P. Łabaj Prisca Tiasse Sampath Rapuri Silvia Borras Sofya Pozdniakova Tieliu Shi Ugur Sezerman Xavier Rodo Zehra Hazal Sezer Christopher E. Mason |
| author_sort | Krista A. Ryon |
| collection | DOAJ |
| description | Summary: 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. |
| first_indexed | 2024-04-11T08:37:10Z |
| format | Article |
| id | doaj.art-f1cb844b21cb41f1b5a250cbfad15c5a |
| institution | Directory Open Access Journal |
| issn | 2589-0042 |
| language | English |
| last_indexed | 2024-04-11T08:37:10Z |
| publishDate | 2022-11-01 |
| publisher | Elsevier |
| record_format | Article |
| series | iScience |
| spelling | doaj.art-f1cb844b21cb41f1b5a250cbfad15c5a2022-12-22T04:34:17ZengElsevieriScience2589-00422022-11-012511104993A history of the MetaSUB consortium: Tracking urban microbes around the globeKrista A. Ryon0Braden T. Tierney1Alina Frolova2Andre Kahles3Christelle Desnues4Christos Ouzounis5Cynthis Gibas6Daniela Bezdan7Youping Deng8Ding He9Emmanuel Dias-Neto10Eran Elhaik11Evan Afshin12George Grills13Gregorio Iraola14Haruo Suzuki15Johannes Werner16Klas Udekwu17Lynn Schriml18Malay Bhattacharyya19Manuela Oliveira20Maria Mercedes Zambrano21Nur Hazlin Hazrin-Chong22Olayinka Osuolale23Paweł P. Łabaj24Prisca Tiasse25Sampath Rapuri26Silvia Borras27Sofya Pozdniakova28Tieliu Shi29Ugur Sezerman30Xavier Rodo31Zehra Hazal Sezer32Christopher E. Mason33Department of Physiology and Biophysics, Weill Cornell Medicine, New York, NY USA; Weill Cornell Medicine, New York, NY, USADepartment of Physiology and Biophysics, Weill Cornell Medicine, New York, NY USA; Weill Cornell Medicine, New York, NY, USAInstitute of Molecular Biology and Genetics of NASU, Kyiv, Ukraine; Kyiv Academic University, Kyiv, UkraineETH Zurich, Zurich, SwitzerlandMediterranean Institute of Oceanography, 163 Avenue de Luminy Bâtiment Méditerranée, 13288, Marseille Cedex 9, FranceAristotle University of Thessalonica & CERTH, Thessaloniki, GreeceUniversity of North Carolina, Charlotte, NC, USAInstitute of Medical Genetics and Applied Genomics, University of Tübingen, Tübingen, Germany; GermanyNGS Competence Center Tübingen (NCCT), University of Tübingen, Tübingen, Germany; yuri GmbH, Meckenbeuren, GermanyDepartment of Quantitative Health Sciences, John A. Burns School of Medicine, University of Hawaii at Manoa, Honolulu, HI 96813, USAUniversity of Copenhagen, Copenhagen, DenmarkAC Camargo Cancer Center, Sao Paulo, BrazilLund University, Lund, SwedenDepartment of Physiology and Biophysics, Weill Cornell Medicine, New York, NY, USAUniversity of Miami, Miami, FL, USAInstitut Pasteur de Montevideo, Mataojo 2020, Montevideo, 11400, UruguayKeio University, Tokyo, JapanHigh Performance and Cloud Computing Group, Zentrum für Datenverarbeitung (ZDV), Eberhard Karls University of Tübingen, Tübingen, GermanyDepartment of Medical Sciences, Uppsala University, Uppsala, SwedenUniversity of Maryland School of Medicine, University of Maryland, Baltimore, MD, USAIndian Statistical Institute, Kolkata, IndiaUniversity of Porto, Porto, PortugalCorporación Corpogen, Bogotá, ColumbiaUniversiti Kebangsaan Malaysia, Bangi, MalaysiaElizade University, Ilara-Mokin, NigeriaMCB Jagiellonian University, Kraków, PolandMCB Jagiellonian University, Kraków, PolandThe Community Lab; Los Alamos Makers, Los Alamos, NM 87544, USABarcelona Institute for Global Health, Rosselló, 132, 708036 Barcelona, SpainBarcelona Institute for Global Health, Rosselló, 132, 708036 Barcelona, SpainEast China Normal University, Zhongshan Rd (N), 3663, 200050 Shanghai, Putuo, ChinaDepartment of Biostatistics, Acibadem University, Istanbul, TurkeyBarcelona Institute for Global Health, Rosselló, 132, 708036 Barcelona, SpainUniversity of Tübingen, Tübingen, GermanyDepartment of Physiology and Biophysics, Weill Cornell Medicine, New York, NY, USA; WorldQuant Initiative for Quantitative Prediction, New York, NY, USA; Corresponding authorSummary: 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.http://www.sciencedirect.com/science/article/pii/S2589004222012652 |
| spellingShingle | Krista A. Ryon Braden T. Tierney Alina Frolova Andre Kahles Christelle Desnues Christos Ouzounis Cynthis Gibas Daniela Bezdan Youping Deng Ding He Emmanuel Dias-Neto Eran Elhaik Evan Afshin George Grills Gregorio Iraola Haruo Suzuki Johannes Werner Klas Udekwu Lynn Schriml Malay Bhattacharyya Manuela Oliveira Maria Mercedes Zambrano Nur Hazlin Hazrin-Chong Olayinka Osuolale Paweł P. Łabaj Prisca Tiasse Sampath Rapuri Silvia Borras Sofya Pozdniakova Tieliu Shi Ugur Sezerman Xavier Rodo Zehra Hazal Sezer Christopher E. Mason A history of the MetaSUB consortium: Tracking urban microbes around the globe iScience |
| title | A history of the MetaSUB consortium: Tracking urban microbes around the globe |
| title_full | A history of the MetaSUB consortium: Tracking urban microbes around the globe |
| title_fullStr | A history of the MetaSUB consortium: Tracking urban microbes around the globe |
| title_full_unstemmed | A history of the MetaSUB consortium: Tracking urban microbes around the globe |
| title_short | A history of the MetaSUB consortium: Tracking urban microbes around the globe |
| title_sort | history of the metasub consortium tracking urban microbes around the globe |
| url | http://www.sciencedirect.com/science/article/pii/S2589004222012652 |
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