Integrating genomics, epidemiology and evolution to accelerate tuberculosis eradication

Publications

Peer reviewed articles (20)

Mycobacterium tuberculosis associated with severe tuberculosis evades cytosolic surveillance systems and modulates IL-1β production

Author(s): Jeremy Sousa, Baltazar Cá, Ana Raquel Maceiras, Luisa Simões-Costa, Kaori L. Fonseca, Ana Isabel Fernandes, Angélica Ramos, Teresa Carvalho, Leandro Barros, Carlos Magalhães, Álvaro Chiner-Oms, Henrique Machado, Maria Isabel Veiga, Albel Singh, Rui Pereira, António Amorim, Jorge Vieira, Cristina P. Vieira, Apoorva Bhatt, Fernando Rodrigues, Pedro N. S. Rodrigues, Sebastien Gagneux, António
Published in: Nature Communications, Issue 11/1, 2020, ISSN 2041-1723
DOI: 10.1038/s41467-020-15832-6

Towards next generation diagnostics for tuberculosis: identification of novel molecular targets by large-scale comparative genomics

Author(s): Galo A. Goig; Manuela Torres-Puente; Carla Mariner-Llicer; Luis M. Villamayor; Álvaro Chiner-Oms; Ana Gil-Brusola; Rafa Borrás; Iñaki Comas
Published in: Bioinformatics, Issue 3, 2019, ISSN 1759-6653
DOI: 10.1101/569384

Tuberculosis in Liberia: high multidrug-resistance burden, transmission and diversity modelled by multiple importation events

Author(s): Mariana G. López, John B. Dogba, Manuela Torres-Puente, Galo A. Goig, Miguel Moreno-Molina, Luis M. Villamayor, Simeon Cadmus, Iñaki Comas
Published in: Microbial Genomics, Issue 6/1, 2020, ISSN 2057-5858
DOI: 10.1099/mgen.0.000325

Genomic determinants of speciation and spread of the Mycobacterium tuberculosis complex

Author(s): Á. Chiner-Oms, L. Sánchez-Busó, J. Corander, S. Gagneux, S. R. Harris, D. Young, F. González-Candelas, I. Comas
Published in: Science Advances, Issue 5/6, 2019, Page(s) eaaw3307, ISSN 2375-2548
DOI: 10.1126/sciadv.aaw3307

Cryptic Resistance Mutations Associated With Misdiagnoses of Multidrug-Resistant Tuberculosis

Author(s): Irving Cancino-Muñoz, Miguel Moreno-Molina, Victoria Furió, Galo A Goig, Manuela Torres-Puente, Álvaro Chiner-Oms, Luis M Villamayor, Francisco Sanz, María Remedio Guna-Serrano, Iñaki Comas
Published in: The Journal of Infectious Diseases, Issue 220/2, 2019, Page(s) 316-320, ISSN 0022-1899
DOI: 10.1093/infdis/jiz104

Development and application of affordable SNP typing approaches to genotype Mycobacterium tuberculosis complex strains in low and high burden countries

Author(s): Irving Cancino-Muñoz, Ana Gil-Brusola, Manuela Torres-Puente, Carla Mariner-Llicer, John Dogba, Victor Akinseye, Kehinde Adesokan, Ayi Kwaghe, Francis Ejeh, Simeon Cadmus, Iñaki Comas
Published in: Scientific Reports, Issue 9/1, 2019, ISSN 2045-2322
DOI: 10.1038/s41598-019-51326-2

Population Genomics of Mycobacterium tuberculosis in Ethiopia Contradicts the Virgin Soil Hypothesis for Human Tuberculosis in Sub-Saharan Africa

Author(s): Iñaki Comas, Elena Hailu, Teklu Kiros, Shiferaw Bekele, Wondale Mekonnen, Balako Gumi, Rea Tschopp, Gobena Ameni, R. Glyn Hewinson, Brian D. Robertson, Galo A. Goig, David Stucki, Sebastien Gagneux, Abraham Aseffa, Douglas Young, Stefan Berg
Published in: Current Biology, Issue 25/24, 2015, Page(s) 3260-3266, ISSN 0960-9822
DOI: 10.1016/j.cub.2015.10.061

Draft Genome Sequence of Mycobacterium brumae ATCC 51384

Author(s): Giuseppe D'Auria, Eduard Torrents, Marina Luquin, Iñaki Comas, Esther Julián
Published in: Genome Announcements, Issue 4/2, 2016, Page(s) e00237-16, ISSN 2169-8287
DOI: 10.1128/genomeA.00237-16

Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages

Author(s): David Stucki, Daniela Brites, Leïla Jeljeli, Mireia Coscolla, Qingyun Liu, Andrej Trauner, Lukas Fenner, Liliana Rutaihwa, Sonia Borrell, Tao Luo, Qian Gao, Midori Kato-Maeda, Marie Ballif, Matthias Egger, Rita Macedo, Helmi Mardassi, Milagros Moreno, Griselda Tudo Vilanova, Janet Fyfe, Maria Globan, Jackson Thomas, Frances Jamieson, Jennifer L Guthrie, Adwoa Asante-Poku, Dorothy Yeboah-Manu, Edd
Published in: Nature Genetics, Issue 48/12, 2016, Page(s) 1535-1543, ISSN 1061-4036
DOI: 10.1038/ng.3704

Urgent Implementation in a Hospital Setting of a Strategy To Rule Out Secondary Cases Caused by Imported Extensively Drug-Resistant Mycobacterium tuberculosis Strains at Diagnosis

Author(s): Laura Pérez-Lago, Miguel Martínez-Lirola, Sergio García, Marta Herranz, Igor Mokrousov, Iñaki Comas, Llúcia Martínez-Priego, Emilio Bouza, Darío García-de-Viedma
Published in: Journal of Clinical Microbiology, Issue 54/12, 2016, Page(s) 2969-2974, ISSN 0095-1137
DOI: 10.1128/JCM.01718-16

A standardised method for interpreting the association between mutations and phenotypic drug resistance in Mycobacterium tuberculosis

Author(s): Paolo Miotto, Belay Tessema, Elisa Tagliani, Leonid Chindelevitch, Angela M. Starks, Claudia Emerson, Debra Hanna, Peter S. Kim, Richard Liwski, Matteo Zignol, Christopher Gilpin, Stefan Niemann, Claudia M. Denkinger, Joy Fleming, Robin M. Warren, Derrick Crook, James Posey, Sebastien Gagneux, Sven Hoffner, Camilla Rodrigues, Iñaki Comas, David M. Engelthaler, Megan Murray, David Alland, Leen Ri
Published in: European Respiratory Journal, Issue 50/6, 2017, Page(s) 1701354, ISSN 0903-1936
DOI: 10.1183/13993003.01354-2017

A novel strategy based on genomics and specific PCR reveals how a multidrug-resistant Mycobacterium tuberculosis strain became prevalent in Equatorial Guinea 15 years after its emergence

Author(s): L. Pérez-Lago, S. Izco, M. Herranz, G. Tudó, M. Carcelén, I. Comas, O. Sierra, J. González-Martín, M.J. Ruiz-Serrano, J. Eyene, E. Bouza, D. García de Viedma
Published in: Clinical Microbiology and Infection, Issue 23/2, 2017, Page(s) 92-97, ISSN 1198-743X
DOI: 10.1016/j.cmi.2016.10.006

The Troika Host–Pathogen–Extrinsic Factors in Tuberculosis: Modulating Inflammation and Clinical Outcomes

Author(s): Helder Novais Bastos, Nuno S. Osório, Sebastien Gagneux, Iñaki Comas, Margarida Saraiva
Published in: Frontiers in Immunology, Issue 8, 2018, ISSN 1664-3224
DOI: 10.3389/fimmu.2017.01948

Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing

Author(s): CRyPTIC Consortium and the 100,000 Genomes Project, Allix-Béguec C, Arandjelovic I, Bi L, Beckert P, Bonnet M, Bradley P, Cabibbe AM, Cancino-Muñoz I, Caulfield MJ, Chaiprasert A, Cirillo DM, Clifton DA, Comas I, Crook DW, De Filippo MR, de Neeling H, Diel R, Drobniewski FA, Faksri K, Farhat MR, Fleming J, Fowler P, Fowler TA, Gao Q, Gardy J, Gascoyne-Binzi D, Gibertoni-Cruz AL, Gil-Brusola A, G
Published in: New England Journal of Medicine, Issue 379/15, 2018, Page(s) 1403-1415, ISSN 0028-4793
DOI: 10.1056/NEJMoa1800474

Mycobacterium tuberculosis Acquires Limited Genetic Diversity in Prolonged Infections, Reactivations and Transmissions Involving Multiple Hosts

Author(s): Marta Herranz, Ilva Pole, Iveta Ozere, Álvaro Chiner-Oms, Miguel Martínez-Lirola, Felipe Pérez-García, Paloma Gijón, María Jesús Ruiz Serrano, Laura Clotet Romero, Oscar Cuevas, Iñaki Comas, Emilio Bouza, Laura Pérez-Lago, Darío García-de-Viedma
Published in: Frontiers in Microbiology, Issue 8, 2018, ISSN 1664-302X
DOI: 10.3389/fmicb.2017.02661

Gene expression models based on a reference laboratory strain are poor predictors of Mycobacterium tuberculosis complex transcriptional diversity

Author(s): Álvaro Chiner-Oms, Fernando González-Candelas, Iñaki Comas
Published in: Scientific Reports, Issue 8/1, 2018, ISSN 2045-2322
DOI: 10.1038/s41598-018-22237-5

Integrating standardized whole genome sequence analysis with a global Mycobacterium tuberculosis antibiotic resistance knowledgebase

Author(s): Matthew Ezewudo, Amanda Borens, Álvaro Chiner-Oms, Paolo Miotto, Leonid Chindelevitch, Angela M. Starks, Debra Hanna, Richard Liwski, Matteo Zignol, Christopher Gilpin, Stefan Niemann, Thomas Andreas Kohl, Robin M. Warren, Derrick Crook, Sebastien Gagneux, Sven Hoffner, Camilla Rodrigues, Iñaki Comas, David M. Engelthaler, David Alland, Leen Rigouts, Christoph Lange, Keertan Dheda, Rumina Hasan,
Published in: Scientific Reports, Issue 8/1, 2018, ISSN 2045-2322
DOI: 10.1038/s41598-018-33731-1

In-Depth Characterization and Functional Analysis of Clonal Variants in a Mycobacterium tuberculosis Strain Prone to Microevolution

Author(s): Yurena Navarro, Laura Pérez-Lago, Marta Herranz, Olalla Sierra, Iñaki Comas, Javier Sicilia, Emilio Bouza, Darío García de Viedma
Published in: Frontiers in Microbiology, Issue 8, 2017, ISSN 1664-302X
DOI: 10.3389/fmicb.2017.00694

New Genome-Wide Algorithm Identifies Novel In-Vivo Expressed Mycobacterium Tuberculosis Antigens Inducing Human T-Cell Responses with Classical and Unconventional Cytokine Profiles

Author(s): Mariateresa Coppola, Krista E. van Meijgaarden, Kees L. M. C. Franken, Susanna Commandeur, Gregory Dolganov, Igor Kramnik, Gary K. Schoolnik, Inaki Comas, Ole Lund, Corine Prins, Susan J. F. van den Eeden, Gro E. Korsvold, Fredrik Oftung, Annemieke Geluk, Tom H. M. Ottenhoff
Published in: Scientific Reports, Issue 6/1, 2016, ISSN 2045-2322
DOI: 10.1038/srep37793

High-resolution mapping of tuberculosis transmission: Whole genome sequencing and phylogenetic modelling of a cohort from Valencia Region, Spain

Author(s): Yuanwei Xu, Irving Cancino-Muñoz, Manuela Torres-Puente, Luis M. Villamayor, Rafael Borrás, María Borrás-Máñez, Montserrat Bosque, Juan J. Camarena, Ester Colomer-Roig, Javier Colomina, Isabel Escribano, Oscar Esparcia-Rodríguez, Ana Gil-Brusola, Concepción Gimeno, Adelina Gimeno-Gascón, Bárbara Gomila-Sard, Damiana González-Granda, Nieves Gonzalo-Jiménez, María Remedio Guna-Serrano,
Published in: PLOS Medicine, Issue 16/10, 2019, Page(s) e1002961, ISSN 1549-1676
DOI: 10.1371/journal.pmed.1002961

Book chapters (1)

Genomic epidemiology of tuberculosis

Author(s): Iñaki Comas
Published in: 2017, Page(s) 79-93
DOI: 10.1007/978-3-319-64371-7_4

Monographic books (1)

Evolutionary Biology

Author(s): Pierre Pontarotti
Published in: 2016
DOI: 10.1007/978-3-319-41324-2