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A global metagenomic map of urban microbiomes and antimicrobial resistance

David Danko ¹ Daniela Bezdan ¹ Evan Afshin ¹ Sofia Ahsanuddin ² Chandrima Bhattacharya ¹ Daniel Butler ¹ Kern Rei Chng ³ Daisy Donnellan ¹ Jochen Hecht ⁴ Katelyn Jackson ¹ Katerina Kuchin ¹ Mikhail Karasikov ⁵ Abigail Lyons ¹ Lauren Mak ¹ Dmitry Meleshko ¹ Harun Mustafa ⁵ Beth Mutai ⁴ Russell Neches ⁶ Amanda Ng ³ Olga Nikolayeva ⁷ Tatyana Nikolayeva ⁷ Eileen Png ³ Krista Ryon ¹ Jorge Sanchez ¹ Heba Shaaban ¹ Maria Sierra ¹ Dominique Thomas ¹ Ben Young ¹ Omar Abudayyeh ⁸ Josue Alicea ¹ Malay Bhattacharyya ⁹ Ran Blekhman ¹⁰ Eduardo Castro-Nallar ¹¹ Ana Cañas ¹ Aspassia Chatziefthimiou ¹ Robert Crawford ¹² Francesca de Filippis ¹³ Youping Deng ¹⁴ Christelle Desnues ¹⁵ Emmanuel Dias-Neto ¹⁶ Marius Dybwad ¹⁷ Eran Elhaik ¹⁸ Danilo Ercolini ¹³ Alina Frolova ¹⁹ Dennis Gankin ⁸ Jonathan Gootenberg ⁸ Alexandra Graf ²⁰ David Green ²¹ Iman Hajirasouliha ¹ Jaden J.A. Hastings ¹ Mark Hernandez ²² Gregorio Iraola ²³ Soojin Jang ²⁴ Andre Kahles ⁵ Frank Kelly ²¹ Kaymisha Knights ¹ Nikos Kyrpides ⁶ Paweł Łabaj ²⁵ Patrick K.H. Lee ²⁶ Marcus H.Y. Leung ²⁶ Per Ljungdahl ²⁷ Gabriella Mason-Buck ²¹ Ken Mcgrath ⁷ Cem Meydan ¹ Emmanuel Mongodin ²⁸ Milton Ozorio Moraes ²⁹ Niranjan Nagarajan ³ Marina Nieto-Caballero ²² Houtan Noushmehr ³⁰ Manuela Oliveira ³¹ Stephan Ossowski ³² Olayinka Osuolale ³³ Orhan Özcan ³⁴ David Paez-Espino ⁶ Nicolás Rascovan ³⁵ Hugues Richard ³⁶ Gunnar Rätsch ⁵ Lynn Schriml ²⁸ Torsten Semmler ³⁷ Osman Sezerman ³⁴ Leming Shi ²⁵ Tieliu Shi ³⁸ Rania Siam ³⁹ Le Huu Song ⁴⁰ Haruo Suzuki ⁴¹ Denise Syndercombe Court ²¹ Scott Tighe ⁴² Xinzhao Tong ²⁶ Klas Udekwu ²⁷ Juan Ugalde ⁴³ Brandon Valentine ¹ Dimitar Vassilev ⁴⁴ Elena Vayndorf ⁴⁵ Thirumalaisamy Velavan ⁴⁶ Jun Wu ³⁸ María Zambrano ⁴⁷ Jifeng Zhu ¹ Sibo Zhu ²⁵ Christopher Mason ¹ Gabriela Albuquerque Alex Alexiev Kalyn Ali Lucia Alvarado-Arnez Sarh Aly Jennifer Amachee Maria Amorim Majelia Ampadu Muhammad Al-Fath Amran Nala An Watson Andrew Harilanto Andrianjakarivony Michael Angelov Verónica Antelo Catharine Aquino Álvaro Aranguren Luiza Araujo Hitler Francois Vasquez Arevalo Jenny Arevalo Carme Arnan Lucia Elena Alvarado Arnez Fernanda Arredondo Matthew Arthur Freddy Asenjo Thomas Saw Aung Juliette Auvinet Nuria Aventin Sadaf Ayaz Silva Baburyan Abd-Manaaf Bakere Katrin Bakhl Thais Bartelli Erdenetsetseg Batdelger François Baudon Kevin Becher Carla Bello Médine Benchouaia Hannah Benisty Anne-Sophie Benoiston Joseph Benson Diego Benítez Juliana Bernardes Denis Bertrand Silvia Beurmann Tristan Bitard-Feildel Lucie Bittner Christina Black Guillaume Blanc Brittany Blyther Toni Bode Julia Boeri Bazartseren Boldgiv Kevin Bolzli Alexia Bordigoni Ciro Borrelli Sonia Bouchard Jean-Pierre Bouly Alicia Boyd Gabriela Branco Alessandra Breschi Björn Brindefalk Christian Brion Alan Briones Paulina Buczansla Catherine Burke Aszia Burrell Alina Butova Irvind Buttar Jalia Bynoe Sven Bönigk Kari Bøifot Hiram Caballero Xiao Wen Cai Dayana Calderon Angela Cantillo Miguel Carbajo Alessandra Carbone Anais Cardenas Katerine Carrillo Laurie Casalot Sofia Castro Ana Castro Astred Castro Ana Valeria B. Castro Simone Cawthorne Jonathan Cedillo Salama Chaker Jasna Chalangal Allison Chan Anastasia Chasapi Starr Chatziefthimiou Sreya Ray Chaudhuri Akash Keluth Chavan Francisco Chavez Gregory Chem Xiaoqing Chen Michelle Chen Jenn-Wei Chen Ariel Chernomoretz Allaeddine Chettouh Daisy Cheung Diana Chicas Shirley Chiu Hira Choudhry Carl Chrispin Kianna Ciaramella Erika Cifuentes Jake Cohen David Coil Sylvie Collin Colleen Conger Romain Conte Flavia Corsi Cecilia Cossio Ana Costa Delisia Cuebas Bruno D’alessandro Katherine Dahlhausen Aaron Darling Pujita Das Lucinda Davenport Laurent David Natalie Davidson Gargi Dayama Stéphane Delmas Chris Deng Chloé Dequeker Alexandre Desert Monika Devi Felipe Dezem Clara Dias Timothy Ryan Donahoe Sonia Dorado Lashonda Dorsey Valeriia Dotsenko Steven Du Alexandra Dutan Naya Eady Jonathan Eisen Miar Elaskandrany Lennard Epping Juan Escalera-Antezana Cassie Ettinger Iqra Faiz Luice Fan Nadine Farhat Emile Faure Fazlina Fauzi Charlie Feigin Skye Felice Laís Pereira Ferreira Gabriel Figueroa Aubin Fleiss Denisse Flores Jhovana Velasco Flores Marcos A.S. Fonseca Jonathan Foox Juan Carlos Forero Aaishah Francis Kelly French Pablo Fresia Jacob Friedman Jaime Fuentes Josephine Galipon Mathilde Garcia Laura Garcia Catalina García Annie Geiger Samuel Gerner Sonia Ghose Dao Phuong Giang Matías Giménez Donato Giovannelli Dedan Githae Spyridon Gkotzis Liliana Godoy Samantha Goldman Gaston Gonnet Juana Gonzalez Andrea Gonzalez Camila Gonzalez-Poblete Andrew Gray Tranette Gregory Charlotte Greselle Sophie Guasco Juan Guerra Nika Gurianova Wolfgang Haehr Sebastien Halary Felix Hartkopf Arya Hawkins-Zafarnia Nur Hazlin Hazrin-Chong Eric Helfrich Eva Hell Tamera Henry Samuel Hernandez Pilar Lopez Hernandez David Hess-Homeier Lauren Hittle Nghiem Xuan Hoan Aliaksei Holik Chiaki Homma Irene Hoxie Michael Huber Elizabeth Humphries Stephanie Hyland Andrea Hässig Roland Häusler Nathalie Hüsser Robert Petit Badamnyambuu Iderzorig Mizuki Igarashi Shaikh Iqbal Shino Ishikawa Sakura Ishizuka Sharah Islam Riham Islam Kohei Ito Sota Ito Takayuki Ito Tomislav Ivankovic Tomoki Iwashiro Sarah Jackson Joann Jacobs Marisano James Marianne Jaubert Marie-Laure Jerier Esmeralda Jiminez Ayantu Jinfessa Ymke de Jong Hyun Woo Joo Guilllaume Jospin Takema Kajita Affifah Saadah Ahmad Kassim Nao Kato Amrit Kaur Inderjit Kaur Fernanda de Souza Gomes Kehdy Vedbar Khadka Shaira Khan Mahshid Khavari Michelle Ki Gina Kim Hyung Jun Kim Sangwan Kim Ryan King Giuseppe Kolomonaco Ellen Koag Nadezhda Kobko-Litskevitch Maryna Korshevniuk Michael Kozhar Jonas Krebs Nanami Kubota Andrii Kuklin Sheelta Kumar Rachel Kwong Lawrence Kwong Ingrid Lafontaine Juliana Lago Tsoi Ying Lai Elodie Laine Manolo Laiola Olha Lakhneko Isha Lamba Gerardo de Lamotte Romain Lannes Eleonora de Lazzari Madeline Leahy Hyunjung Lee Yunmi Lee Lucy Lee Vincent Lemaire Emily Leong Dagmara Lewandowska Chenhao Li Weijun Liang Moses Lin Priscilla Lisboa Anna Litskevitch Eric Minwei Liu Tracy Liu Mayra Arauco Livia Yui Him Lo Sonia Losim Manon Loubens Jennifer Lu Olexandr Lykhenko Simona Lysakova Salah Mahmoud Sara Abdul Majid Natalka Makogon Denisse Maldonado Krizzy Mallari Tathiane Malta Maliha Mamun Dimitri Manoir German Marchandon Natalia Marciniak Sonia Marinovic Brunna Marques Nicole Mathews Yuri Matsuzaki Vincent Matthys Madelyn May Elias Mccomb Annabelle Meagher Adiell Melamed Wayne Menary Katterinne Mendez Ambar Mendez Irène Mauricette Mendy Irene Meng Ajay Menon Mark Menor Roy Meoded Nancy Merino Karishma Miah Mathilde Mignotte Tanja Miketic Wilson Miranda Athena Mitsios Ryusei Miura Kunihiko Miyake Maria Moccia Natasha Mohan Mohammed Mohsin Karobi Moitra Mauricio Moldes Laura Molina Jennifer Molinet Orgil-Erdene Molomjamts Eftar Moniruzzaman Sookwon Moon Isabelle de Oliveira Moraes Mario Moreno Maritza Mosella Josef Moser Christopher Mozsary Amanda Muehlbauer Oasima Muner Muntaha Munia Naimah Munim Maureen Muscat Tatjana Mustac Cristina Muñoz Francesca Nadalin Areeg Naeem Dorottya Nagy-Szakal Mayuko Nakagawa Ashanti Narce Masaki Nasu Irene González Navarrete Hiba Naveed Bryan Nazario Narasimha Rao Nedunuri Thomas Neff Aida Nesimi Wan Chiew Ng Synti Ng Gloria Nguyen Elsy Ngwa Agier Nicolas Pierre Nicolas Abdollahi Nika Hosna Noorzi Avigdor Nosrati Diana Nunes Kathryn O’brien Niamh O’hara Gabriella Oken Rantimi Olawoyin Javier Quilez Oliete Kiara Olmeda Tolulope Oluwadare Itunu Oluwadare Nils Ordioni Jenessa Orpilla Jacqueline Orrego Melissa Ortega Princess Osma Israel Osuolale Oluwatosin Osuolale Mitsuki Ota Francesco Oteri Yuya Oto Rachid Ounit Christos Ouzounis Subhamitra Pakrashi Rachel Paras Coral Pardo-Este Young-Ja Park Paulina Pastuszek Suraj Patel Jananan Pathmanathan Andrea Patrignani Manuel Perez Ante Peros Sabrina Persaud Anisia Peters Adam Phillips Lisbeth Pineda Melissa Pizzi Alma Plaku Alketa Plaku Brianna Pompa-Hogan María Gabriela Portilla Leonardo Posada Max Priestman Bharath Prithiviraj Sambhawa Priya Phanthira Pugdeethosal Catherine Pugh Benjamin Pulatov Angelika Pupiec Kyrylo Pyrshev Tao Qing Saher Rahiel Savlatjon Rahmatulloev Kannan Rajendran Aneisa Ramcharan Adan Ramirez-Rojas Shahryar Rana Prashanthi Ratnanandan Timothy Read Hubert Rehrauer Renee Richer Alexis Rivera Michelle Rivera Alessandro Robertiello Courtney Robinson Paula Rodríguez Nayra Aguilar Rojas Paul Roldán Anyelic Rosario Sandra Roth Maria Ruiz Stephen Eduard Boja Ruiz Kaitlan Russell Mariia Rybak Thais Sabedot Mahfuza Sabina Ikuto Saito Yoshitaka Saito Gustavo Adolfo Malca Salas Cecilia Salazar Kaung Myat San Khaliun Sanchir Ryan Sankar Paulo Thiago de Souza Santos Zulena Saravi Kai Sasaki Yuma Sato Masaki Sato Seisuke Sato Ryo Sato Kaisei Sato Nowshin Sayara Steffen Schaaf Oli Schacher Anna-Lena Schinke Ralph Schlapbach Christian Schori Jason Schriml Felipe Segato Felipe Sepulveda Marianna Serpa Paola de Sessions Juan Severyn Maheen Shakil Sarah Shalaby Aliyah Shari Hyenah Shim Hikaru Shirahata Yuh Shiwa Ophélie da Silva Jordana Silva Gwenola Simon Shaleni Singh Kasia Sluzek Rebecca Smith Eunice So Núria Andreu Somavilla Yuya Sonohara Nuno Rufino de Sousa Camila Souza Jason Sperry Nicolas Sprinsky Stefan Stark Antonietta La Storia Kiyoshi Suganuma Hamood Suliman Jill Sullivan Arif Asyraf Md Supie Chisato Suzuki Sora Takagi Fumie Takahara Naoya Takahashi Kou Takahashi Tomoki Takeda Isabella Takenaka Soma Tanaka Anyi Tang Yuk Man Tang Emilio Tarcitano Andrea Tassinari Mahdi Taye Alexis Terrero Eunice Thambiraja Antonin Thiébaut Sade Thomas Andrew Thomas Yuto Togashi Takumi Togashi Anna Tomaselli Masaru Tomita Itsuki Tomita Oliver Toth Nora Toussaint Jennifer Tran Catalina Truong Stefan Tsonev Kazutoshi Tsuda Takafumi Tsurumaki Michelle Tuz Yelyzaveta Tymoshenko Carmen Urgiles Mariko Usui Sophie Vacant Laura Vann Fabienne Velter Valeria Ventorino Patricia Vera-Wolf Riccardo Vicedomini Michael Suarez-Villamil Sierra Vincent Renee Vivancos-Koopman Andrew Wan Cindy Wang Tomoro Warashina Ayuki Watanabe Samuel Weekes Johannes Werner David Westfall Lothar Wieler Michelle Williams Silver Wolf Brian Wong Yan Ling Wong Tyler Wong Rasheena Wright Tina Wunderlin Ryota Yamanaka Jingcheng Yang Hirokazu Yano George Yeh Olena Yemets Tetiana Yeskova Shusei Yoshikawa Laraib Zafar Yang Zhang Shu Zhang Amy Zhang Yuanting Zheng Stas Zubenko Natasha Abdullah Marcos Abraao Adel Ait-Hamlat ⁴⁸ Muhammad Afaq Faisal Al-Quaddoomi Ireen Alam

1 Weill Cornell Medicine [New York]

2 MSSM - Icahn School of Medicine at Mount Sinai [New York]

3 GIS - Genome Institute of Singapore

4 CRG - Centre for Genomic Regulation [Barcelona]

5 ETH Zürich - Eidgenössische Technische Hochschule - Swiss Federal Institute of Technology [Zürich]

6 LBNL - Lawrence Berkeley National Laboratory [Berkeley]

7 AUTRES

8 MIT - Massachusetts Institute of Technology

9 Indian Statistical Institute [Kolkata]

10 University of Minnesota System

11 UNAB - Universidad Andrés Bello [Santiago]

12 California State University [Sacramento]

13 University of Naples Federico II

14 University of Hawaii

15 MIO - Institut méditerranéen d'océanologie

16 Medical Genomics Group

17 FFI - Norwegian Defence Research Establishment

18 Lund University [Lund]

19 Institute of Molecular Biology and Genetics of National Academy of Sciences of Ukraine

20 University of Vienna [Vienna]

21 King‘s College London

22 University of Colorado [Boulder]

23 Institut Pasteur de Montevideo

24 Institut Pasteur Korea - Institut Pasteur de Corée

25 Fudan University [Shanghai]

26 CUHK - City University of Hong Kong [Hong Kong]

27 Stockholm University

28 University of Maryland School of Medicine

29 FIOCRUZ - Fundação Oswaldo Cruz

30 USP - Universidade de São Paulo = University of São Paulo

31 IPATIMUP - Instituto de Patologia e Imunologia Molecular da Universidade do Porto

32 BIST - Barcelona Institute of Science and Technology

33 Elizade University

34 Acibadem Mehmet Ali Aydınlar University

35 Paléogénomique microbienne - Microbial paleogenomics

36 SU - Sorbonne Université

37 RKI - Robert Koch Institute [Berlin]

38 ECNU - East China Normal University [Shangaï]

39 Cairo University

40 Vietnamese-German Center for Medical Research

41 Keio University

42 Université du Vermont

43 Universidad del Desarrollo

44 Софийски университет = Sofia University

45 UAF - University of Alaska [Fairbanks]

46 Universitätsklinikum Tübingen - University Hospital of Tübingen

47 Corporación Corpogen-Research Center

48 LCQB - Biologie Computationnelle et Quantitative = Laboratory of Computational and Quantitative Biology

Keywords : built Environment metagenome global health antimicrobial resistance microbiome NGS shotgun sequencing de novo assembly BGC AMR

Document type :

Journal articles

Domain :

Environmental Sciences / Biodiversity and Ecology

Life Sciences [q-bio] / Microbiology and Parasitology

Life Sciences [q-bio] / Biodiversity

Complete list of metadata

https://hal-amu.archives-ouvertes.fr/hal-03357730
Contributor : Christelle Desnues Connect in order to contact the contributor
Submitted on : Wednesday, October 6, 2021 - 5:47:32 PM
Last modification on : Wednesday, November 30, 2022 - 1:24:05 PM
Long-term archiving on: : Friday, January 7, 2022 - 7:44:21 PM

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