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Original Articles
Molecular Typing of Mycobacterium intracellulare Using Pulsed-Field Gel Electrophoresis, Variable-Number Tandem-Repeat Analysis, Mycobacteria Interspersed Repetitive-Unit-Variable-Number Tandem Repeat Typing, and Multilocus Sequence Typing: Molecular Characterization and Comparison of Each Typing Methods
Semi Jeon, Nara Lim, Seungjik Kwon, Taesun Shim, Misun Park, Bum-Joon Kim, Seonghan Kim
Osong Public Health Res Perspect. 2014;5(3):119-130.   Published online June 30, 2014
DOI: https://doi.org/10.1016/j.phrp.2014.04.003
  • 3,209 View
  • 17 Download
  • 8 Crossref
AbstractAbstract PDF
Objectives
Mycobacterium intracellulare is the major causative agent of nontuberculous mycobacteria-related pulmonary infections. The strain typing of M. intracellulare is important for the treatment and control of its infections. We compared the discrimination capacity and effective value of four different molecular typing methods.
Methods
Antibiotic susceptibility testing, hsp65 and rpoB sequencing, pulsed-field gel electrophoresis (PFGE), multilocus sequence typing (MLST), mycobacteria interspersed repetitive-unit-variable-number tandem-repeat analysis (MIRU-VNTR), and VNTR assay targeting 44 M. intracellulare isolates obtained from patients with pulmonary infections were performed.
Results
All the antibiotic susceptibility patterns had no association with the molecular and sequence types tested in this study; however, the molecular and sequence types were related with each other. PFGE gave best results for discriminatory capacity, followed by VNTR, MLST, and MIRU-VNTR.
Conclusion
The high discriminatory power of PFGE, VNTR, and MLST is enough for differentiating between reinfection and relapse, as well as for other molecular epidemiological usages. The MLST could be regarded as a representative classification method, because it showed the clearest relation with the sequence types.

Citations

Citations to this article as recorded by  
  • Differential Genotyping of Mycobacterium avium Complex and Its Implications in Clinical and Environmental Epidemiology
    Jeong-Ih Shin, Sung Jae Shin, Min-Kyoung Shin
    Microorganisms.2020; 8(1): 98.     CrossRef
  • A strategy based on Amplified Fragment Length Polymorphism (AFLP) for routine genotyping of nontuberculous mycobacteria at the clinical laboratory
    Sara Blanco-Conde, Carolina González-Cortés, Ramiro López-Medrano, Juan José Palacios-Gutiérrez, Cristina Diez-Tascón, Teresa Nebreda-Mayoral, María Josefa Sierra-García, Octavio Miguel Rivero-Lezcano
    Molecular Biology Reports.2020; 47(5): 3397.     CrossRef
  • Comparative Evaluation of Band-Based Genotyping Methods for Mycobacterium intracellulare and Its Application for Epidemiological Analysis
    Jeong-Ih Shin, Jong-Hun Ha, Dong-Hae Lee, Jeong-Gyu Choi, Kyu-Min Kim, Seung Jun Lee, Yi Yeong Jeong, Jong Deog Lee, Myunghwan Jung, Seung-Chul Baik, Woo Kon Lee, Hyung-Lyun Kang, Min-Kyoung Shin, Jung-Wan Yoo
    Microorganisms.2020; 8(9): 1315.     CrossRef
  • Pulsed Field Gel Electrophoresis: Past, present, and future
    Lilia Lopez-Canovas, Maximo B. Martinez Benitez, Jose A. Herrera Isidron, Eduardo Flores Soto
    Analytical Biochemistry.2019; 573: 17.     CrossRef
  • Molecular typing of Mycobacterium kansasii using pulsed-field gel electrophoresis and a newly designed variable-number tandem repeat analysis
    Zofia Bakuła, Anna Brzostek, Paulina Borówka, Anna Żaczek, Izabela Szulc-Kiełbik, Agata Podpora, Paweł Parniewski, Dominik Strapagiel, Jarosław Dziadek, Małgorzata Proboszcz, Jacek Bielecki, Jakko van Ingen, Tomasz Jagielski
    Scientific Reports.2018;[Epub]     CrossRef
  • Mycobacterium paraintracellulare sp. nov., for the genotype INT-1 of Mycobacterium intracellulare
    So-Young Lee, Byoung-Jun Kim, Hong Kim, Yu-Seop Won, Che Ok Jeon, Joseph Jeong, Seon Ho Lee, Ji-Hun Lim, Seung-Heon Lee, Chang Ki Kim, Yoon-Hoh Kook, Bum-Joon Kim
    International Journal of Systematic and Evolution.2016; 66(8): 3132.     CrossRef
  • Methodological and Clinical Aspects of the Molecular Epidemiology of Mycobacterium tuberculosis and Other Mycobacteria
    Tomasz Jagielski, Alina Minias, Jakko van Ingen, Nalin Rastogi, Anna Brzostek, Anna Żaczek, Jarosław Dziadek
    Clinical Microbiology Reviews.2016; 29(2): 239.     CrossRef
  • Genetic diversity of clinical Mycobacterium avium subsp. hominissuis and Mycobacterium intracellulare isolates causing pulmonary diseases recovered from different geographical regions
    Kazuya Ichikawa, Jakko van Ingen, Won-Jung Koh, Dirk Wagner, Max Salfinger, Takayuki Inagaki, Kei-ichi Uchiya, Taku Nakagawa, Kenji Ogawa, Kiyofumi Yamada, Tetsuya Yagi
    Infection, Genetics and Evolution.2015; 36: 250.     CrossRef
A Comparison of Subtyping Methods for Differentiating Salmonella enterica Serovar Enteritidis Isolates Obtained from Food and Human Sources
Ji-Yeon Hyeon, Jung-Whan Chon, Jun-Ho Park, Moo-Sang Kim, Young-Hee Oh, In-Soo Choi, Kun-Ho Seo
Osong Public Health Res Perspect. 2013;4(1):27-33.   Published online February 28, 2013
DOI: https://doi.org/10.1016/j.phrp.2012.12.005
  • 3,206 View
  • 22 Download
  • 21 Crossref
AbstractAbstract PDF
Purpose: To evaluate the abilities of these subtyping methods, we distinguished Salmonella Enteritidis (S. Enteritidis) isolated from food products and human clinical samples between 2009 and 2010 in Seoul using five subtyping methods.
Methods
We determined the subtypes of 20 S. Enteritidis isolates from food and human sources using phage typing, antimicrobial susceptibility, pulsed-field gel electrophoresis (PFGE), repetitive sequence-based PCR (rep-PCR), and multi-locus sequence typing (MLST).
Results
A total of 20 tested isolates were differentiated into six antimicrobial susceptibility patterns, three different phage types, four different PFGE profiles, seven rep-PCR patterns, and one MLST type. Food isolates were considerably more susceptible to antibiotics than human isolates. We were best able to discriminate among S. Enteritidis isolates using rep-PCR, and obtained the highest Simpson’s diversity index of 0.82, whereas other methods produced indices that were less than 0.71. PFGE pattern appeared to be more related to antimicrobial resistance and phage types of S. Enteritidis isolates than rep-PCR. MLST revealed identical alleles in all isolates at all seven loci examined, indicating no resolution.
Conclusion
The results of this study suggest that rep-PCR provided the best discriminatory power for phenotypically similar S. Enteritidis isolates of food and human origins, whereas the discriminatory ability of MLST may be problematic because of the high sequence conservation of the targeted genes.

Citations

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  • Genomic and phylogenetic analysis of Salmonella enterica serovar Enteritidis strains linked to multiple outbreaks in Brazil
    Guojie Cao, Maria Balkey, Qing Jin, Eric Brown, Marc Allard, Adma Nadja Ferreira de Melo, Geany Targino de Souza Pedrosa, Tereza Cristina Rocha Moreira de Oliveira, Marciane Magnani, Dumitru Macarisin
    Letters in Applied Microbiology.2023;[Epub]     CrossRef
  • Phenotypic and Genotypic Characterization of Salmonella Isolates Recovered from Foods Linked to Human Salmonellosis Outbreaks in Minas Gerais State, Brazil
    Leandro L. Faula, Monica M. O.P. Cerqueira, Jovita E. G.C. Madeira, Marcelo R. Souza, Fernando N. Souza, Gláucia C.S. Amancio
    Journal of Food Protection.2022; 85(1): 142.     CrossRef
  • Comparison of conventional molecular and whole-genome sequencing methods for subtyping Salmonella enterica serovar Enteritidis strains from Tunisia
    Boutheina Ksibi, Sonia Ktari, Houcemeddine Othman, Kais Ghedira, Sonda Maalej, Basma Mnif, Mohamed salah Abbassi, Laetitia Fabre, Faouzia Rhimi, Simon Le Hello, Adnene Hammami
    European Journal of Clinical Microbiology & Infect.2021; 40(3): 597.     CrossRef
  • Molecular characterisation of antimicrobial resistance determinants and class 1 integrons of Salmonella enterica subsp. enterica serotype Enteritidis strains from retail food in China
    Yu Li, Xiaojuan Yang, Jumei Zhang, Shiyuan Yang, Shuhong Zhang, Moutong Chen, Liang Xue, Yu Ding, Haiyan Zeng, Qihui Gu, Youxiong Zhang, Xianhu Wei, Juan Wang, Qingping Wu
    Food Control.2021; 128: 108191.     CrossRef
  • Molecular ty­ping of cephalosporin resistant serovars of Salmonella enterica from poultry and farm animals
    A. Rafati Zomorodi, M. Rad, Gh. R. Hashemitabar, H. Salimizand
    BULGARIAN JOURNAL OF VETERINARY MEDICINE.2020; 23(2): 178.     CrossRef
  • Molecular characterization of Salmonella isolates recovered from slaughtered poultry in Trinidad
    Nitu Kumar, Krishna Mohan, Karla Georges, Francis Dziva, Abiodun A. Adesiyun
    Journal of Food Processing and Preservation.2020;[Epub]     CrossRef
  • Effectiveness of BOX-PCR in Differentiating Genetic Relatedness amongSalmonella entericaSerotype 4,[5],12:i:- Isolates from Hospitalized Patients and Minced Pork Samples in Northern Thailand
    Kritchai Poonchareon, Chaiwat Pulsrikarn, Narong Nuanmuang, Phichaya Khamai
    International Journal of Microbiology.2019; 2019: 1.     CrossRef
  • A common Salmonella Enteritidis sequence type from poultry and human gastroenteritis in Ibagué, Colombia
    Luz Clemencia Fandiño, Noel Verjan
    Biomédica.2019; 39: 50.     CrossRef
  • Distribution and Molecular Characterization of Campylobacter Species at Different Processing Stages in Two Poultry Processing Plants
    Soo-Kyoung Lee, Hyun-Jung Park, Jin-Hee Lee, Jong-Soo Lim, Kun-Ho Seo, Eun-Jeong Heo, Young-Jo Kim, Sung-Hwan Wee, Jin-San Moon
    Foodborne Pathogens and Disease.2017; 14(3): 141.     CrossRef
  • Molecular Characterization of Salmonella from Beef Carcasses and Fecal Samples from an Integrated Feedlot and Abattoir in Mexico
    Diana Ayala, Kendra Nightingale, Claudia Narvaez-Bravo, Mindy M. Brashears
    Journal of Food Protection.2017; 80(12): 1964.     CrossRef
  • Repetitive sequence-based PCR fingerprinting and the relationship of antimicrobial-resistance characteristics and corresponding genes among Salmonella strains from pig production
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PHRP : Osong Public Health and Research Perspectives