Mycobacterial Interspersed Repetitive-Unit–Variable-Number Tandem-Repeat (MIRU-VNTR) Genotyping of Mycobacterium intracellulare for Strain Comparison with Establishment of a PCR-Based Database

Iakhiaeva, Elena; McNulty, Steven G.; Elliott, Barbara A.; Falkinham, Joseph O.; Williams, Myra D.; Vasireddy, Ravikiran; Wilson, Rebecca W.; Turenne, Christine Y.; Wallace, Richard J.

doi:10.1128/jcm.02443-12

Cited by 38 publications

(45 citation statements)

References 27 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Studies have shown the ability of VNTR analysis to meet the criteria for discrimination from the closely related species M. intracellulare (11)(12)(13), and preliminary studies have shown VNTR analysis to be feasible with M. avium (8,9). Thus, we undertook a study on the use of VNTR analysis in the clinical setting of U.S. patients with nodular bronchiectasis and M. avium.…”

Section: Methodsmentioning

confidence: 99%

“…For patients with suspected microbiological relapse, current isolates were compared to previous isolates stored at Ϫ70°C or stored in their original broth culture vials at room temperature following primary isolation. Sputum cultures from patients had been submitted to and processed by the clinical mycobacteriology laboratory as described previously (3,4,12). Sputum isolates from three recent studies (20; R. J. Wallace, Jr., unpublished data) comparing patient and household water MAC isolates (5) were also included.…”

Section: Methodsmentioning

confidence: 99%

“…PFGE was performed as described previously, using the restriction enzymes XbaI and AseI (3,4,12). Isolates from the same patient were compared and classified as indistinguishable, closely related, possibly related, or unrelated on the basis of differences in band number and position, using methods originally described by Tenover et al for bacterial outbreaks and then modified for MAC (4,12,25). Strains in the first three categories were considered clonal.…”

Section: Methodsmentioning

confidence: 99%

“…Such studies include the use of mycobacterial interspersed repetitive unit (MIRU) loci (8) and M. avium tandem-repeat (MATR) loci (some of which recognize the same tandem repeat) (9). VNTR analysis has been used for strain comparisons and population studies of other species of mycobacteria, including M. intracellulare, Mycobacterium ulcerans, and Mycobacterium tuberculosis (8)(9)(10)(11)(12)(13)(14)(15)(16)(17)(18). Studies on the use of VNTR analysis for M. intracellulare isolates were reported from Japan and France in 2009 and 2010 (11,13), respectively, and from the United States in 2013 (12).…”

mentioning

confidence: 99%

“…VNTR analysis has been used for strain comparisons and population studies of other species of mycobacteria, including M. intracellulare, Mycobacterium ulcerans, and Mycobacterium tuberculosis (8)(9)(10)(11)(12)(13)(14)(15)(16)(17)(18). Studies on the use of VNTR analysis for M. intracellulare isolates were reported from Japan and France in 2009 and 2010 (11,13), respectively, and from the United States in 2013 (12). Similar studies on the use of VNTR analysis for M. avium isolates have also been reported, but none of those studies evaluated isolates from the United States (9,15,18).…”

mentioning

confidence: 99%

See 4 more Smart Citations

Variable-Number Tandem-Repeat Analysis of Respiratory and Household Water Biofilm Isolates of “Mycobacterium avium subsp. hominissuis” with Establishment of a PCR Database

et al. 2016

Self Cite

View full text Add to dashboard Cite

d"Mycobacterium avium subsp. hominissuis" is an important cause of pulmonary disease. It is acquired from environmental sources, but there is no methodology for large population studies. We evaluated the potential of variable-number tandemrepeat (VNTR) analysis. Clinical and household biofilm M. avium isolates underwent molecular identification. Testing for IS901 was done to separate M. avium subsp. avium from M. avium subsp. hominissuis. VNTR types were defined using VNTR loci, and subtyping was performed using 3= hsp65 and internal transcribed spacer (ITS) sequencing. Forty-nine VNTR types and eight subtypes of M. avium subsp. hominissuis (IS901 negative) were identified among 416 isolates of M. avium from 121 patients and 80 biofilm sites. Of those types, 67% were found only among patient isolates, 11% only among household water isolates, and 23% among both. Of 13 VNTR types that included >4 patients, the majority (61.5%) represented geographic clustering (same city). Most VNTR types with multiple patients belonged to the same 3= hsp65 sequence code (sequevar). A total of 44 isolates belonging to four M. avium subsp. hominissuis VNTR types (8%), including three with the rare Mav-F ITS sequence and 0/8 subspecies, produced amplicons with IS901 PCR primers. By sequencing, all 44 amplicons were not IS901 but ISMav6, which was recently observed in Japan but had not been previously described among U.S. isolates. VNTR analysis of M. avium subsp. hominissuis isolates is easier and faster than pulsed-field gel electrophoresis. Seven VNTR loci separated 417 isolates into 49 types. No isolates of M. avium subsp. avium were identified. The distributions of the VNTR copy numbers, the allelic diversity, and the low prevalence of ISMav6 differed from the findings for respiratory isolates reported from Japan. The species "Mycobacterium avium subsp. hominissuis" is an important cause of chronic lung disease in the setting of bronchiectasis and disseminated disease in patients with AIDS. The species is acquired from environmental sources, with recent studies focusing on household water. It is present worldwide, with all areas of the United States (especially the southern United States) being considered high-risk areas for the disease.Efforts to compare isolates of M. avium have been difficult. Three subspecies are currently recognized, namely, M. avium subsp. avium, M. avium subsp. paratuberculosis, and M. avium subsp. silvaticum. A fourth subspecies, M. avium subsp. hominissuis (including human isolates), has also been proposed (1, 2). IS901 is present in all isolates of M. avium subsp. avium but is not present in isolates of M. avium subsp. hominissuis (1); this difference has been used to separate the two subspecies (1, 2). Strain comparisons within M. avium (as well as with other members of the Mycobacterium avium complex [MAC], especially Mycobacterium intracellulare) have most frequently utilized pulsed-field gel electrophoresis (PFGE) (3, 4), which is expensive, technically difficult, time-consuming, and useful only fo...

show abstract