PCR-Based Rapid Identification System Using Bridged Nucleic Acids for Detection of Clarithromycin-Resistant Mycobacterium avium-M. intracellulare Complex Isolates

Journal of Clinical Microbiology

Volumn 54, Issue 3, 2016, Pages 699-704

  Hirama, Takashi ^a,b   Shiono, Ayako ^a   Egashira, Hiroshi ^a   Kishi, Etsuko ^a   Hagiwara, Koichi ^a,c   Nakamura, Hidetoshi ^a   Kanazawa, Minoru ^a   Nagata, Makoto ^a  

^a SAITAMA MEDICAL UNIVERSITY   (Japan)

^b HOSPITAL FOR SICK CHILDREN   (Canada)

^c JICHI MEDICAL UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BRIDGED NUCLEIC ACID; CLARITHROMYCIN; NUCLEIC ACID; RNA 23S; UNCLASSIFIED DRUG; ANTIINFECTIVE AGENT;

ADULT; AGED; ANTIBIOTIC RESISTANCE; ARTICLE; BACTERIAL STRAIN; BACTERIUM DETECTION; BACTERIUM ISOLATE; CLINICAL ARTICLE; CONTROLLED STUDY; FEMALE; HUMAN; MALE; MYCOBACTERIUM AVIUM COMPLEX; NONHUMAN; NUCLEIC ACID PROBE; POINT MUTATION; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; CLASSIFICATION; DRUG EFFECTS; GENETICS; MICROBIAL SENSITIVITY TEST; MICROBIOLOGY; MIDDLE AGED; MUTATION; MYCOBACTERIUM AVIUM-INTRACELLULARE INFECTION; POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY; SPUTUM;

ADULT; AGED; ANTI-BACTERIAL AGENTS; CLARITHROMYCIN; DRUG RESISTANCE, BACTERIAL; FEMALE; HUMANS; MALE; MICROBIAL SENSITIVITY TESTS; MIDDLE AGED; MUTATION; MYCOBACTERIUM AVIUM COMPLEX; MYCOBACTERIUM AVIUM-INTRACELLULARE INFECTION; POLYMERASE CHAIN REACTION; RNA, RIBOSOMAL, 23S; SENSITIVITY AND SPECIFICITY; SPUTUM;

EID: 84959546089     PISSN: 00951137     EISSN: 1098660X     Source Type: Journal    
DOI: 10.1128/JCM.02954-15     Document Type: Article

References (29)

1. Hoefsloot W, Van Ingen J, Andrejak C, Angeby K, Bauriaud R, Bemer P, Beylis N, Boeree MJ, Cacho J, Chihota V, Chimara E, Churchyard G, Cias R, Daza R, Daley CL, Dekhuijzen PNR, Domingo D, Drobniewski F, Esteban J, Fauville-Dufaux M, Folkvardsen DB, Gibbons N, Gómez-Mampaso E, Gonzalez R, Hoffmann H, Hsueh PR, Indra A, Jagielski T, Jamieson F, Jankovic M, Jong E, Keane J, Koh WJ, Lange B, Leao S, Macedo R, Mannsåker T, Marras TK, Maugein J, Milburn HJ, Mlinkó T, Morcillo N, Morimoto K, Papaventsis D, Palenque E, Paez-Peña M, Piersimoni C, Polanová M, Rastogi N, Richter E, et al. 2013. The geographic diversity of nontuberculous mycobacteria isolated from pulmonary samples: An NTM-NET collaborative study. Eur Respir J 42: 1604-1613. http://dx.doi.org/10.1183/09031936.00149212.
2. Marras TK, Daley CL. 2002. Epidemiology of human pulmonary infection with nontuberculous mycobacteria. Clin Chest Med 23:553-567. http://dx.doi.org/10.1016/S0272-5231(02)00019-9.
3. Griffith DE, Aksamit T, Brown-Elliott BA, Catanzaro A, Daley C, Gordin F, Holland SM, Horsburgh R, Huitt G, Iademarco MF, Iseman M, Olivier K, Ruoss S, Von Reyn CF, Wallace RJ, Winthrop K. 2007. An official ATS/IDSA statement: Diagnosis, treatment, and prevention of nontuberculous mycobacterial diseases. Am J Respir Crit Care Med 175: 367-416. http://dx.doi.org/10.1164/rccm.200604-571ST.
4. Wilson DN. 2014. Ribosome-targeting antibiotics and mechanisms of bacterial resistance. Nat Rev Microbiol 12:35-48. http://dx.doi.org/10.1038/nrmicro3155.
5. Schlünzen F, Zarivach R, Harms J, Bashan A, Tocilj A, Albrecht R, Yonath A, Franceschi F. 2001. Structural basis for the interaction of antibiotics with the peptidyl transferase centre in eubacteria. Nature 413: 814-821. http://dx.doi.org/10.1038/35101544.
6. Griffith DE, Brown-Elliott BA, Langsjoen B, Zhang Y, Pan X, Girard W, Nelson K, Caccitolo J, Alvarez J, Shepherd S, Wilson R, Graviss EA, Wallace RJ. 2006. Clinical and molecular analysis of macrolide resistance in Mycobacterium avium complex lung disease.AmJ Respir Crit Care Med 174:928-934. http://dx.doi.org/10.1164/rccm.200603-450OC.
7. Inagaki T, Yagi T, Ichikawa K, Nakagawa T, Moriyama M, Uchiya K, Nikai T, Ogawa K. 2011. Evaluation of a rapid detection method of clarithromycin resistance genes in Mycobacterium avium complex isolates. J Antimicrob Chemother 66:722-729. http://dx.doi.org/10.1093/jac/dkq536.
8. Jamal MA, Maeda S, Nakata N, Kai M, Fukuchi K, Kashiwabara Y. 2000. Molecular basis of clarithromycin-resistance in Mycobacterium avium-intracellulare complex. Tuber Lung Dis 80:1-4. http://dx.doi.org/10.1054/tuld.1999.0227.
9. Clinical and Laboratory Standards Institute. 2012. Susceptibility testing of mycobacteria, nocardiae, and other aerobic actinomycetes; approved standard, 2nd ed. Document M24-A2. Clinical and Laboratory Standards Institute, Wayne, PA.
10. Hirama T, Mogi H, Egashira H, Yamamoto E, Kukisaki S, Hagiwara K, Takei O. 2015. A pressure-driven column-based technique for the efficient extraction of DNA from respiratory samples. Clin Chim Acta 445: 122-126. http://dx.doi.org/10.1016/j.cca.2015.03.023.
11. Hirama T, Yamaguchi T, Miyazawa H, Tanaka T, Hashikita G, Kishi E, Tachi Y, Takahashi S, Kodama K, Egashira H, Yokote A, Kobayashi K, Nagata M, Ishii T, Nemoto M, Tanaka M, Fukunaga K, Morita S, Kanazawa M, Hagiwara K. 2011. Prediction of the pathogens that are the cause of pneumonia by the battlefield hypothesis. PLoS One 6:e24474. http://dx.doi.org/10.1371/journal.pone.0024474.
12. Meier A, Kirschner P, Springer B, Steingrube VA, Brown BA, Wallace RJ, Bottger EC. 1994. Identification of mutations in 23S rRNA gene of clarithromycin-resistant Mycobacterium intracellulare. Antimicrob Agents Chemother 38:381-384. http://dx.doi.org/10.1128/AAC.38.2.381.
13. Miyazawa H, Tanaka T, Nagai Y, Matsuoka M, Sutani A, Udagawa K, Zhang J, Hirama T, Murayama Y, Koyama N. 2008. Peptide nucleic acid-locked nucleic acid polymerase chain reaction clampbased detection test for gefitinib-refractory T790M epidermal growth factor receptor mutation. Cancer Sci 99:595-600. http://dx.doi.org/10.1111/j.1349-7006.2007.00706.x.
14. Hirama T, Minezaki S, Yamaguchi T, Kishi E, Kodama K, Egashira H, Kobayashi K, Nagata M, Ishii T, Nemoto M, Tanaka M, Fukunaga K, Kanazawa M, Hagiwara K. 2014. HIRA-TAN: A real-time PCR-based system for the rapid identification of causative agents in pneumonia. Respir Med 108:395. http://dx.doi.org/10.1016/j.rmed.2013.11.018.
15. Imanishi T, Obika S. 2002. BNAs: Novel nucleic acid analogs with a bridged sugar moiety. Chem Commun (Camb.) 16:1653-1659.
16. Rahman SA, Seki S. 2008. Design, synthesis, and properties of 2=,4=-BNANC: A bridged nucleic acid analogue. J Am Chem Soc 130:4886-4896. http://dx.doi.org/10.1021/ja710342q.
17. Tanaka E, Kimoto T, Tsuyucuchi K, Watanabe I, Matsumoto H, Niimi A, Suzuki K, Murayama T, Amitani R, Kuze F. 1999. Effect of clarithromycin regimen for Mycobacterium avium complex pulmonary disease. Am J Respir Crit Care Med 160:866-872. http://dx.doi.org/10.1164/ajrccm.160.3.9811086.
18. Hansen LH, Mauvais P, Douthwaite S. 1999. The macrolide-ketolide antibiotic binding site is formed by structures in domains II and V of 23S ribosomal RNA. Mol Microbiol 31:623-631. http://dx.doi.org/10.1046/j.1365-2958.1999.01202.x.
19. Dam M, Douthwaite S, Tenson T, Mankin AS. 1996. Mutations in domain II of 23 S rRNA facilitate translation of a 23 S rRNA-encoded pentapeptide conferring erythromycin resistance. J Mol Biol 259:1-6. http://dx.doi.org/10.1006/jmbi.1996.0296.
20. Morozumi M, Hasegawa K, Kobayashi R, Inoue N, Iwata S, Kuroki H, Kawamura N, Nakayama E, Tajima T, Shimizu K, Ubukata K. 2005. Emergence of macrolide-resistant Mycoplasma pneumoniae with a 23S rRNA gene mutation. Antimicrob Agents Chemother 49:2302-2306. http://dx.doi.org/10.1128/AAC.49.6.2302-2306.2005.
21. Versalovic J, Shortridge D, Kibler K, Griffy MV, Beyer J, Flamm RK, Tanaka SK, Graham DY, Go MF. 1996. Mutations in 23S rRNA are associated with clarithromycin resistance in Helicobacter pylori. Antimicrob Agents Chemother 40:477-480.
22. Nash KA, Inderlied CB. 1995. Genetic basis of macrolide resistance in Mycobacterium avium isolated from patients with disseminated disease. Antimicrob Agents Chemother 39:2625-2630. http://dx.doi.org/10.1128/AAC.39.12.2625.
23. Meier a. Heifets L, Wallace RJ, Zhang Y, Brown BA, Sander P, Böttger EC. 1996. Molecular mechanisms of clarithromycin resistance in Mycobacterium avium: Observation of multiple 23S rDNA mutations in a clonal population. J Infect Dis 174:354-360. http://dx.doi.org/10.1093/infdis/174.2.354.
24. Qvist T, Pressler T, Thomsen VO, Skov M, Iversen M, Katzenstein TL. 2013. Nontuberculous mycobacterial disease is not a contraindication to lung transplantation in patients with cystic fibrosis: A retrospective analysis in a Danish patient population. Transplant Proc 45:342-345. http://dx.doi.org/10.1016/j.transproceed.2012.02.035.
25. Knoll BM, Kappagoda S, Gill RR, Goldberg HJ, Boyle K, Baden LR, Fuhlbrigge AL, Marty FM. 2012. Non-tuberculous mycobacterial infection among lung transplant recipients: A 15-year cohort study. Transpl Infect Dis 14:452-460. http://dx.doi.org/10.1111/j.1399-3062 .2012.00753.x.
26. Lobo LJ, Noone PG. 2014. Respiratory infections in patients with cystic fibrosis undergoing lung transplantation. Lancet Respir Med 2:73-82. http://dx.doi.org/10.1016/S2213-2600(13)70162-0.
27. Fujita M, Kajiki A, Tao Y, Miyazaki M, Ouchi H, Harada E, Ikegame S, Matsumoto T, Uchino J, Watanabe K, Nakanishi Y. 2012. The clinical efficacy and safety of a fluoroquinolone-containing regimen for pulmonary MAC disease. J Infect Chemother 18:146-151. http://dx.doi.org/10.1007/s10156-011-0303-5.
28. Jo K-W, Kim S, Lee JY, Lee S-D, Kim WS, Kim DS, Shim TS. 2014. Treatment outcomes of refractory MAC pulmonary disease treated with drugs with unclear efficacy. J Infect Chemother 20:602-606. http://dx.doi.org/10.1016/j.jiac.2014.05.010.
29. Jarand J, Davis JP, Cowie RL, Field SK, Fisher DA. Long term follow up of Mycobacterium avium complex lung disease in patients treated with regimens including clofazimine and/or rifampin. Chest, in press.