Rapid diagnosis of tuberculosis. Detection of drug resistance mechanisms

2015 Bloemberg, 2015, Acquired resistance to bedaquiline and delamanid in therapy for tuberculosis, N Engl J Med, 373, 1986, 10.1056/NEJMc1505196 Siddiqi, 1985, Interlaboratory drug susceptibility testing Mycobacterium tuberculosis by radiometric procedure and two conventional methods, J Clin Microbiol, 22, 2332, 10.1128/jcm.22.6.919-923.1985 Canetti, 1963, Mesure de la sensibilité du bacille tuberculeux aux drugues antibacillaires par la méthode des proportions, Rev Tuber, 27, 217 Guerrero A, Martín N, Moreno S, Nogales MC. Diagnóstico microbiológico de las infecciones por micobacterias. Procedimientos en microbiología clínica cap. 9. Recomendaciones SEIMC 1999. Available at: https://www.seimc.org/contenidos/. 2016 Boyle, 2015 Brosch, 2002, A new evolutionary scenario for the Mycobacterium tuberculosis complex, Proc Natl Acad Sci U S A, 99, 3684, 10.1073/pnas.052548299 Behr, 1999, Transmission of Mycobacterium tuberculosis from patients smear-negative for acid-fast bacilli, Lancet, 353, 444, 10.1016/S0140-6736(98)03406-0 Scorpio, 1996, Mutations in pncA, a gene encoding pyrazinamidase/nicotinamidase, cause resistance to the antituberculous drug pyrazinamide in tubercle bacillus, Nat Med, 2, 662, 10.1038/nm0696-662 Gonzalo-Asensio, 2014, Evolutionary history of tuberculosis shaped by conserved mutations in the PhoPR virulence regulator, Proc Natl Acad Sci U S A, 111, 11491, 10.1073/pnas.1406693111 Comas, 2013, Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans, Nat Genet, 45, 1176, 10.1038/ng.2744 Cabal, 2014, Single nucleotide polymorphism (SNP) analysis used for the phylogeny of the Mycobacterium tuberculosis complex based on a pyrosequencing assay, BMC Microbiol, 14, 21, 10.1186/1471-2180-14-21 Bouakaze, 2010, Identification and genotyping of Mycobacterium tuberculosis complex species by use of a SNaPshot Minisequencing-based assay, J Clin Microbiol, 48, 1758, 10.1128/JCM.02255-09 Homolka, 2012, High resolution discrimination of clinical Mycobacterium tuberculosis complex strains based on single nucleotide polymorphisms, PLoS ONE, 7, e39855, 10.1371/journal.pone.0039855 Huard, 2006, Novel genetic polymorphisms that further delineate the phylogeny of the Mycobacterium tuberculosis complex, J Bacteriol, 12, 4271, 10.1128/JB.01783-05 Dippenaar, 2015, Whole genome sequence analysis of Mycobacterium suricattae, Tuberculosis (Edinb), 95, 682, 10.1016/j.tube.2015.10.001 World Health Organization, 2015 Shah, 2016, Lateral flow urine lipoarabinomannan assay for detecting active tuberculosis in HIV-positive adults, Cochrane Database Syst Rev, 10.1002/14651858.CD011420.pub2 Portevin, 2014, Assessment of the novel T-cell activation marker-tuberculosis assay for diagnosis of active tuberculosis in children: a prospective proof-of-concept study, Lancet Infect Dis, 14, 931, 10.1016/S1473-3099(14)70884-9 McNerney, 2005, Mycobacteriophage and their application to disease control, J Appl Microbiol, 99, 223, 10.1111/j.1365-2672.2005.02596.x Alcaide, 2011, Advances in rapid diagnosis of tuberculosis disease and anti-tuberculous drug resistance, Enferm Infecc Microbiol Clin, 29, 34, 10.1016/S0213-005X(11)70016-7 World Health Organization, 2016 Eigner, 2013, Evaluation of the fluorotype MTB assay for the rapid and reliable detection of Mycobacterium tuberculosis in respiratory tract specimens, Clin Lab, 59, 1179, 10.7754/Clin.Lab.2013.121209 2011 Mediavilla-Gradolph, 2015, Use of MALDI-TOF MS for identification of nontuberculous Mycobacterium species isolated from clinical specimens, Biomed Res Int, 2015, 854078, 10.1155/2015/854078 Zhang, 2015, Mechanisms of drug resistance in Mycobacterium tuberculosis: update 2015, Int J Tuberc Lung Dis, 19, 1276, 10.5588/ijtld.15.0389 Piccaro, 2014, Rifampin induces hydroxyl radical formation in Mycobacterium tuberculosis, Antimicrob Agents Chemother, 58, 7527, 10.1128/AAC.03169-14 Telenti, 1993, Detection of rifampicin-resistance mutations in Mycobacterium tuberculosis, Lancet, 341, 647, 10.1016/0140-6736(93)90417-F Comas, 2011, Whole-genome sequencing of rifampicin-resistant Mycobacterium tuberculosis strains identifies compensatory mutations in RNA polymerase genes, Nat Genet, 44, 106e10 Casali, 2014, Evolution and transmission of drug resistant tuberculosis in a Russian population, Nat Genet, 46, 279, 10.1038/ng.2878 Meftahi, 2016, Evidence for the critical role of a secondary site rpoB mutation in the compensatory evolution and successful transmission of an MDR tuberculosis outbreak strain, J Antimicrob Chemother, 71, 324, 10.1093/jac/dkv345 Ocheretina, 2014, Correlation between genotypic and phenotypic testing for resistance to rifampin in Mycobacterium tuberculosis clinical isolates in Haiti: investigation of cases with discrepant susceptibility results, PLoS ONE, 9, e9056, 10.1371/journal.pone.0090569 Andres, 2014, Occurrence of rpoB mutations in isoniazid-resistant but rifampin-susceptible Mycobacterium tuberculosis isolates from Germany, Antimicrob Agents Chemother, 58, 590, 10.1128/AAC.01752-13 Zhang, 1992, The catalase-peroxidase gene and isoniazid resistance of Mycobacterium tuberculosis, Nature, 358, 591, 10.1038/358591a0 Banerjee, 1994, inhA, a gene encoding a target for isoniazid and ethionamide in Mycobacterium tuberculosis, Science, 263, 227, 10.1126/science.8284673 Sherman, 1996, Compensatory ahpC gene expression in isoniazid-resistant Mycobacterium tuberculosis, Science, 272, 1641, 10.1126/science.272.5268.1641 Zhang, 2003, Mode of action of pyrazinamide: disruption of Mycobacterium tuberculosis membrane transport and energetics by pyrazinoic acid, J Antimicrob Chemother, 52, 790, 10.1093/jac/dkg446 Ramaswamy, 2000, Molecular genetic analysis of nucleotide polymorphisms associated with ethambutol resistance in human isolates of Mycobacterium tuberculosis, Antimicrob Agents Chemother, 44, 326, 10.1128/AAC.44.2.326-336.2000 Aubry, 2006, Novel gyrase mutations in quinolone-resistant and -hypersusceptible clinical isolates of Mycobacterium tuberculosis: functional analysis of mutant enzymes, Antimicrob Agents Chemother, 50, 104, 10.1128/AAC.50.1.104-112.2006 Palomino, 2014, Drug resistance mechanisms in Mycobacterium tuberculosis, Antibiotics, 3, 317, 10.3390/antibiotics3030317 Mathys, 2009, Molecular genetics of para-aminosalicylic acid resistance in clinical isolates and spontaneous mutants of Mycobacterium tuberculosis, Antimicrob Agents Chemother, 53, 2100, 10.1128/AAC.01197-08 Sandgren, 2009, Tuberculosis drug resistance mutation database, PLoS Med, 6, e1000002, 10.1371/journal.pmed.1000002 Alcaide, 2016, Métodos de determinación de sensibilidad a los antimicrobianos en micobacterias, Enferm Infecc Microbiol Clin Zhang, 2009, Mechanism of drug resistance in Mycobacterium tuberculosis, Int J Tuberc Lung Dis, 13, 1320 Causse, 2015, New Anyplex™ II MTB/MDR/XDR kit for detection of resistance mutations in MT cultures, Int J Tuberc Lung Dis, 19, 1542, 10.5588/ijtld.15.0235 Steingart, 2014, Xpert® MTB/RIF assay for pulmonary tuberculosis and rifampicin resistance in adults, Cochrane Database Syst Rev, 1 Herráez, 2016, Estudio de coste-efectividad del diagnóstico microbiológico de tuberculosis mediante geneX-perB/RIF®, Enferm Infecc Microbiol Clin Papaventsis, 2017, Whole genome sequencing of Mycobacterium tuberculosis for detection of drug resistance: a systematic review, Clin Microbiol Infect, 23, 61, 10.1016/j.cmi.2016.09.008 Coll, 2015, Rapid determination of anti-tuberculosis drug resistance from whole-genome sequences, Genome Med, 27, 51, 10.1186/s13073-015-0164-0