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

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

doi:10.1016/j.isci.2022.104993

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

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^*

^*Corresponding author for this work

School of Life Sciences

Department of Physiology and Biophysics
Cornell University
NASU - Institute of Molecular Biology and Genetics
Kyiv Academic University
Swiss Federal Institute of Technology Zurich
Swiss Institute of Bioinformatics
Université de la Méditerranée
Aristotle University of Thessaloniki
University of North Carolina at Charlotte
Institute of Medical Genetics and Applied Genomics
University of Tübingen
Yuri GmbH
Department of Quantitative Health Sciences
University of Hawai'i at Mānoa
University of Copenhagen
Hospital A.C. Camargo
Lund University
University of Miami
Institut Pasteur Montevideo
Keio University
High Performance and Cloud Computing Group
Department of Medical Sciences
Uppsala University
University of Maryland, Baltimore
Indian Statistical Institute
University of Porto
Corporación Corpogen Research Center
Universiti Kebangsaan Malaysia
Elizade University
Jagiellonian University in Kraków
The Community Lab;
Los Alamos Makers
Rosselló
Department of Biostatistics
Acibadem Mehmet Ali Aydinlar Universitesi
WorldQuant Initiative for Quantitative Prediction

Research output: Contribution to journal › Comment/debate

23 Scopus citations

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.

Original language	English
Article number	104993
Journal	iScience
Volume	25
Issue number	11
DOIs	https://doi.org/10.1016/j.isci.2022.104993
State	Published - 18 Nov 2022

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10.1016/j.isci.2022.104993

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Ryon, K. A., Tierney, B. T., Frolova, A., Kahles, A., Desnues, C., Ouzounis, C., Gibas, C., Bezdan, D., Deng, Y., He, D., Dias-Neto, E., Elhaik, E., Afshin, E., Grills, G., Iraola, G., Suzuki, H., Werner, J., Udekwu, K., Schriml, L., ... Mason, C. E. (2022). A history of the MetaSUB consortium: Tracking urban microbes around the globe. iScience, 25(11), Article 104993. https://doi.org/10.1016/j.isci.2022.104993

@article{c93873dc779f47359a50ddf55ce4a12a,

title = "A history of the MetaSUB consortium: Tracking urban microbes around the globe",

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.",

author = "Ryon, \{Krista A.\} and Tierney, \{Braden T.\} and Alina Frolova and Andre Kahles and Christelle Desnues and Christos Ouzounis and Cynthis Gibas and Daniela Bezdan and Youping Deng and Ding He and Emmanuel Dias-Neto and Eran Elhaik and Evan Afshin and George Grills and Gregorio Iraola and Haruo Suzuki and Johannes Werner and Klas Udekwu and Lynn Schriml and Malay Bhattacharyya and Manuela Oliveira and Zambrano, \{Maria Mercedes\} and Hazrin-Chong, \{Nur Hazlin\} and Olayinka Osuolale and {\L}abaj, \{Pawe{\l} P.\} and Prisca Tiasse and Sampath Rapuri and Silvia Borras and Sofya Pozdniakova and Tieliu Shi and Ugur Sezerman and Xavier Rodo and Sezer, \{Zehra Hazal\} and Mason, \{Christopher E.\}",

note = "Publisher Copyright: {\textcopyright} 2022 The Authors",

year = "2022",

month = nov,

day = "18",

doi = "10.1016/j.isci.2022.104993",

language = "英语",

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Ryon, KA, Tierney, BT, Frolova, A, Kahles, A, Desnues, C, Ouzounis, C, Gibas, C, Bezdan, D, Deng, Y, He, D, Dias-Neto, E, Elhaik, E, Afshin, E, Grills, G, Iraola, G, Suzuki, H, Werner, J, Udekwu, K, Schriml, L, Bhattacharyya, M, Oliveira, M, Zambrano, MM, Hazrin-Chong, NH, Osuolale, O, Łabaj, PP, Tiasse, P, Rapuri, S, Borras, S, Pozdniakova, S, Shi, T, Sezerman, U, Rodo, X, Sezer, ZH & Mason, CE 2022, 'A history of the MetaSUB consortium: Tracking urban microbes around the globe', iScience, vol. 25, no. 11, 104993. https://doi.org/10.1016/j.isci.2022.104993

TY - JOUR

T1 - A history of the MetaSUB consortium

T2 - Tracking urban microbes around the globe

AU - Ryon, Krista A.

AU - Tierney, Braden T.

AU - Frolova, Alina

AU - Kahles, Andre

AU - Desnues, Christelle

AU - Ouzounis, Christos

AU - Gibas, Cynthis

AU - Bezdan, Daniela

AU - Deng, Youping

AU - He, Ding

AU - Dias-Neto, Emmanuel

AU - Elhaik, Eran

AU - Afshin, Evan

AU - Grills, George

AU - Iraola, Gregorio

AU - Suzuki, Haruo

AU - Werner, Johannes

AU - Udekwu, Klas

AU - Schriml, Lynn

AU - Bhattacharyya, Malay

AU - Oliveira, Manuela

AU - Zambrano, Maria Mercedes

AU - Hazrin-Chong, Nur Hazlin

AU - Osuolale, Olayinka

AU - Łabaj, Paweł P.

AU - Tiasse, Prisca

AU - Rapuri, Sampath

AU - Borras, Silvia

AU - Pozdniakova, Sofya

AU - Shi, Tieliu

AU - Sezerman, Ugur

AU - Rodo, Xavier

AU - Sezer, Zehra Hazal

AU - Mason, Christopher E.

PY - 2022/11/18

Y1 - 2022/11/18

N2 - 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.

AB - 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.

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DO - 10.1016/j.isci.2022.104993

M3 - 评论/辩论

AN - SCOPUS:85140077958

SN - 2589-0042

VL - 25

JO - iScience

JF - iScience

IS - 11

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ER -

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

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