Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis

Coll, F. et al. (2018) Genome-wide analysis of multi- and extensively drug-resistant Mycobacterium tuberculosis. Nature Genetics, 50(2), pp. 307-316. (doi: 10.1038/s41588-017-0029-0) (PMID:29358649)

Abstract

To characterize the genetic determinants of resistance to antituberculosis drugs, we performed a genome-wide association study (GWAS) of 6,465 Mycobacterium tuberculosis clinical isolates from more than 30 countries. A GWAS approach within a mixed-regression framework was followed by a phylogenetics-based test for independent mutations. In addition to mutations in established and recently described resistance-associated genes, novel mutations were discovered for resistance to cycloserine, ethionamide and para-aminosalicylic acid. The capacity to detect mutations associated with resistance to ethionamide, pyrazinamide, capreomycin, cycloserine and para-aminosalicylic acid was enhanced by inclusion of insertions and deletions. Odds ratios for mutations within candidate genes were found to reflect levels of resistance. New epistatic relationships between candidate drug-resistance-associated genes were identified. Findings also suggest the involvement of efflux pumps (drrA and Rv2688c) in the emergence of resistance. This study will inform the design of new diagnostic tests and expedite the investigation of resistance and compensatory epistatic mechanisms.

• Item Type: Articles
• Status: Published
• Refereed: Yes
• Glasgow Author(s) Enlighten ID: Crampin, Professor Mia
• Authors: Coll, F., Phelan, J., Hill-Cawthorne, G. A., Nair, M. B., Mallard, K., Ali, S., Abdallah, A. M., Alghamdi, S., Alsomali, M., Ahmed, A. O., Portelli, S., Oppong, Y., Alves, A., Bessa, T. B., Campino, S., Caws, M., Chatterjee, A., Crampin, A. C., Dheda, K., Furnham, N., Glynn, J. R., Grandjean, L., Minh Ha, D., Hasan, R., Hasan, Z., Hibberd, M. L., Joloba, M., Jones-López, E. C., Matsumoto, T., Miranda, A., Moore, D. J., Mocillo, N., Panaiotov, S., Parkhill, J., Penha, C., Perdigão, J., Portugal, I., Rchiad, Z., Robledo, J., Sheen, P., Shesha, N. T., Sirgel, F. A., Sola, C., Oliveira Sousa, E., Streicher, E. M., Helden, P. V., Viveiros, M., Warren, R. M., McNerney, R., Pain, A., and Clark, T. G.
• College/School: College of Medical Veterinary and Life Sciences > School of Health & Wellbeing > Public Health
• Journal Name: Nature Genetics
• Publisher: Nature Publishing Group
• ISSN: 1061-4036
• ISSN (Online): 1546-1718
• Published Online: 22 January 2018
• Copyright Holders: Copyright © 2018 Nature America Inc., part of Springer Nature
• First Published: First published in Nature Genetics 50(2): 307-316
• Publisher Policy: Reproduced in accordance with the publisher copyright policy