Abstract
Molecular diagnostics and genotyping of pathogens have become indispensable tools in clinical microbiology and disease surveillance. For isolates of the Mycobacterium tuberculosis complex (MTBC, causative agents of tuberculosis), multilocus variable number tandem repeat analysis (MLVA) targeting mycobacterial interspersed repetitive units (MIRU) has been internationally adopted as the new standard, portable, reproducible, and discriminatory typing method. Here, we review new sets of specialized web based bioinformatics tools that have become available for analyzing MLVA data especially in combination with other, complementary genotyping markers (polyphasic analysis). Currently, there are only two databases available that are not restricted to store one kind of genotyping data only, namely SITVIT/SpolDB4 and MIRU-VNTRplus. SITVIT/SpolDB4 (http://www.pasteur-guadeloupe.fr:8081/SITVITDemo) contains spoligotyping data from a large number of strains of diverse origin. However, besides options to query the data, the actual version of SITVIT/SpolDB4 offers no functionality for more complex analysis e.g. tree-based analysis. In comparison, the MIRU-VNTRplus web application (http://www.miru-vntrplus.org), represents a freely accessible ...Continue Reading
References
Jul 18, 1995·Proceedings of the National Academy of Sciences of the United States of America·D B GoldsteinM W Feldman
Sep 2, 1997·Proceedings of the National Academy of Sciences of the United States of America·S SreevatsanJ M Musser
Mar 14, 2002·Proceedings of the National Academy of Sciences of the United States of America·R BroschS T Cole
Oct 15, 2003·Trends in Microbiology·Rachel Urwin, Martin C J Maiden
Feb 16, 2006·Proceedings of the National Academy of Sciences of the United States of America·Sebastien GagneuxPeter M Small
Sep 29, 2006·Journal of Clinical Microbiology·Philip SupplyDick van Soolingen
Dec 29, 2006·Journal of Clinical Microbiology·Mara Cardoso OelemannPhilip Supply
Nov 6, 2007·Clinical Microbiology and Infection : the Official Publication of the European Society of Clinical Microbiology and Infectious Diseases·A van BelkumUNKNOWN European Society of Clinical Microbiology and Infectious Diseases (ESCMID) Study Group on Epidemiological Markers (ESGEM)
Sep 8, 2007·Biochimie·Ibtissem GrissaGilles Vergnaud
Feb 1, 2008·Journal of Clinical Microbiology·Caroline Allix-BéguecPhilip Supply
Jun 25, 2009·Seminars in Hematology·Lulette Tricia C Bravo, Gary W Procop
May 12, 2010·Nucleic Acids Research·Thomas WenigerDag Harmsen
Aug 13, 2010·Journal of Clinical Microbiology·Stefan NiemannYi-Wei Tang
Dec 15, 2010·BMC Bioinformatics·Keith A Jolley, Martin C J Maiden
Citations
Feb 6, 2013·PloS One·Bright VargheseSahal Al-Hajoj
Jul 25, 2015·The Indian Journal of Medical Research·Srinidhi Desikan, Sujatha Narayanan
Jul 17, 2015·Tuberculosis Research and Treatment·Minwuyelet MaruAbraham Aseffa
Nov 28, 2012·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Dan ZhangYu Pang
Jul 2, 2014·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Memona YasminChristophe Sola
Oct 23, 2016·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Kiatichai FaksriRick Twee-Hee Ong
Dec 15, 2015·Journal of Clinical Microbiology·Alberto TrovatoDaniela Maria Cirillo
Jan 2, 2016·American Journal of Health-system Pharmacy : AJHP : Official Journal of the American Society of Health-System Pharmacists·Brian Thomas HocumKristine Ashcraft
Nov 27, 2020·Genome Medicine·Patrick BeckertStefan Niemann
Nov 5, 2019·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·R Zach AandahlMark M Tanaka
Oct 22, 2019·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Thierry CochardFranck Biet