title: Comparison between RFLP and MIRU-VNTR genotyping of Mycobacterium tuberculosis strains isolated in Stockholm 2009 to 2011.
abstract: Our aim was to analyze the difference between methods for genotyping of Mycobacterium tuberculosis complex isolates. We collected genotyping results from Restriction Fragment Length Polymorphism (RFLP) and Mycobacterial Interspersed Repetitive Units-Variable Numbers of Tandem Repeat (MIRU-VNTR) in a geographically limited area (Stockholm) during a period of three years. The number and proportion of isolates belonging to clusters was reduced by 45 and 35% respectively when combining the two methods compared with using RFLP or MIRU-VNTR only. The mean size of the clusters was smaller when combining methods and smaller with RFLP compared to MIRU-VNTR. In clusters with confirmed epidemiological links RFLP coincided slightly better than MIRU-VNTR but where there was a difference, the variation in MIRU-VNTR pattern was only in a single locus. In isolates with few IS6110 bands in RFLP, MIRU-VNTR differentiated the isolates more, dividing the RFLP clusters. Since MIRU-VNTR is faster and less labour-intensive it is the method of choice for routine genotyping. In most cases it will be sufficient for epidemiological purposes but true clustering might still be considered if there are epidemiological links and the MIRU-VNTR results differ in only one of its 24 loci.
authors.affiliation: The Public Health Agency of Sweden (former Swedish Institute for Communicable Disease Control), Solna, Sweden; Infectious Diseases Unit, Karolinska University Hospital, Stockholm, Sweden.
authors.forename: Jerker
authors.initials: J
authors.lastname: Jonsson
authors.affiliation: The Public Health Agency of Sweden (former Swedish Institute for Communicable Disease Control), Solna, Sweden.
authors.forename: Sven
authors.initials: S
authors.lastname: Hoffner
authors.affiliation: Department of Communicable Disease Control and Prevention, Stockholm County Council, Stockholm, Sweden.
authors.forename: Ingela
authors.initials: I
authors.lastname: Berggren
authors.affiliation: Infectious Diseases Unit, Karolinska University Hospital, Stockholm, Sweden.
authors.forename: Judith
authors.initials: J
authors.lastname: Bruchfeld
authors.affiliation: The Public Health Agency of Sweden (former Swedish Institute for Communicable Disease Control), Solna, Sweden.
authors.forename: Solomon
authors.initials: S
authors.lastname: Ghebremichael
authors.affiliation: The Public Health Agency of Sweden (former Swedish Institute for Communicable Disease Control), Solna, Sweden.
authors.forename: Alexandra
authors.initials: A
authors.lastname: Pennhag
authors.affiliation: The Public Health Agency of Sweden (former Swedish Institute for Communicable Disease Control), Solna, Sweden.
authors.forename: Ramona
authors.initials: R
authors.lastname: Groenheit
mesh_terms: D000465:Algorithms; D015373:Bacterial Typing Techniques / Q000379:methods*; D016000:Cluster Analysis; D024881:Drug Resistance, Bacterial / Q000235:genetics; D060005:Genotyping Techniques / Q000379:methods*; D006801:Humans; D020071:Interspersed Repetitive Sequences / Q000235:genetics*; D018598:Minisatellite Repeats / Q000235:genetics*; D009169:Mycobacterium tuberculosis / Q000235:genetics* / Q000302:isolation & purification*; D010802:Phylogeny; D012150:Polymorphism, Restriction Fragment Length; D013548:Sweden / Q000453:epidemiology; D014376:Tuberculosis / Q000453:epidemiology / Q000382:microbiology
references.citation: J Clin Microbiol. 2011 Dec;49(12):4173-8
references.pmid: 21998434
references.citation: J Clin Microbiol. 1997 Apr;35(4):907-14
references.pmid: 9157152
references.citation: J Clin Microbiol. 2014 Jan;52(1):164-72
references.pmid: 24172154
references.citation: Emerg Infect Dis. 2002 Aug;8(8):843-9
references.pmid: 12141971
references.citation: J Clin Microbiol. 2013 Apr;51(4):1193-8
references.pmid: 23363841
references.citation: J Clin Microbiol. 2006 Dec;44(12):4498-510
references.pmid: 17005759
references.citation: Microbes Infect. 2008 May;10(6):699-705
references.pmid: 18485780
references.citation: J Clin Microbiol. 2013 Jul;51(7):2427-31
references.pmid: 23658260
references.citation: J Clin Microbiol. 2008 Mar;46(3):1045-9
references.pmid: 18199785
references.citation: J Clin Microbiol. 1991 Nov;29(11):2578-86
references.pmid: 1685494
references.citation: J Clin Microbiol. 1993 Feb;31(2):406-9
references.pmid: 8381814
references.citation: J Clin Microbiol. 2007 Mar;45(3):691-7
references.pmid: 17192416
references.citation: Int J Tuberc Lung Dis. 2008 Feb;12(2):199-204
references.pmid: 18230254
references.citation: J Clin Microbiol. 2008 Oct;46(10):3338-45
references.pmid: 18716230
references.citation: J Clin Microbiol. 2012 Aug;50(8):2660-7
references.pmid: 22675129
references.citation: J Clin Microbiol. 1988 Nov;26(11):2465-6
references.pmid: 3069867
references.citation: J Clin Microbiol. 2004 Sep;42(9):4040-9
references.pmid: 15364987