MIRU-VNTRplus statistics

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Protocols

MIRU-VNTRplus specifications

Information


Unique identifier OMICS_24291
Name MIRU-VNTRplus
Alternative name Mycobacterial Interspersed Repetitive-Unit-Variable-Number Tandem-Repeat plus
Software type Application/Script
Interface Web user interface
Restrictions to use None
Input data A single user strain.
Input format FASTA
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Thomas Weniger

Publications for Mycobacterial Interspersed Repetitive-Unit-Variable-Number Tandem-Repeat plus

MIRU-VNTRplus citations

 (74)
call_split

Genetic diversity of drug and multidrug resistant Mycobacterium tuberculosis circulating in Veracruz, Mexico

2018
PLoS One
PMCID: 5854261
PMID: 29543819
DOI: 10.1371/journal.pone.0193626
call_split See protocol

[…] Genotypes were expressed as numerical codes representing the number of MIRU-VNTR for each locus. Lineages were individually identified using the similarity search module [] of the database MIRU-VNTRplus (http://www.miru-vntrplus.org/MIRU/index.faces)[].The tree polar arrangement was realized by the FigTree program (Tree Figure Drawing Tool Version 1.4.3. http://tree.bio.ed.ac.uk/softwar […]

library_books

Molecular Characterization of Mycobacterium avium subsp. hominissuis of Two Groups of Lymph Nodes, Being Intradermal Tuberculin or Interferon Gamma Test Positive and Negative, Isolated from Swiss Cattle at Slaughter

2018
PMCID: 5844927
PMID: 29556502
DOI: 10.3389/fvets.2018.00032

[…] Genetic strain lineages were predicted using online tools available from MIRU-VNTRplus website (). A dendrogram based on 20 VNTR loci was generated using the unweighted pair group method using arithmetic averages (UPGMA) algorithm.Variable number of tandem repeat data from […]

call_split

Genetic diversity and potential routes of transmission of Mycobacterium bovis in Mozambique

2018
PLoS Negl Trop Dis
PMCID: 5772998
PMID: 29346413
DOI: 10.1371/journal.pntd.0006147
call_split See protocol

[…] In order to evaluate relatedness of the spoligotype and VNTR patterns of the different samples we generated a dendogram using the UPGMA algorithm using the tool provided on the site http://www.miru-vntrplus.org/. The spoligotype patterns of the respective isolates were entered into the Mbovis.org database. In this database each unique spoligotype pattern is named by 'SB' followed by a four […]

library_books

Convergent evolution and topologically disruptive polymorphisms among multidrug resistant tuberculosis in Peru

2017
PLoS One
PMCID: 5744980
PMID: 29281674
DOI: 10.1371/journal.pone.0189838

[…] onfirmed using principal component analysis. Clades were named using the corresponding MIRU-VNTR and spoligotype independently by the Institut Pasteur Guadeloupe according to published protocols (www.miru-vntrplus.org and www.pasteur-guadeloupe.fr:8081/SITVIT_ONLINE) []. Ancestral state reconstruction was undertaken using maximum parsimony, likelihood and Bayesian approaches. […]

library_books

Molecular analysis of pyrazinamide resistance in Mycobacterium tuberculosis in Vietnam highlights the high rate of pyrazinamide resistance associated mutations in clinical isolates

2017
PMCID: 5658769
PMID: 29018250
DOI: 10.1038/emi.2017.73

[…] sed to investigate genotypic diversity and clustering in the selected M. tuberculosis samples. A neighbor-joining based phylogenetic tree was built from DSW distances using MIRU-VNTR plus (http://www.miru-vntrplus.org/) (). Isolates were classified as ‘unknown’ when their spoligotypes could not be identified in the SITVITWEB database and when the 24-MIRU-VNTR typing could not classify them into a […]

library_books

Evolutionary pathway analysis and unified classification of East Asian lineage of Mycobacterium tuberculosis

2017
Sci Rep
PMCID: 5569047
PMID: 28835627
DOI: 10.1038/s41598-017-10018-5

[…] o the standard spoligotyping scheme). The Beijing genotype can also be identified based on phylogenetic analysis of the high-resolution 24 VNTR loci within the context of known reference strains (www.MIRU-VNTRplus.org).The Beijing family was long believed to be a homogeneous group of strains, first of all based on the similarity of their IS6110-RFLP profiles (see representative examples in ref. ), […]

Citations

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MIRU-VNTRplus institution(s)
Department of Periodontology, University Hospital Munster, Munster, Germany; Molecular Mycobacteriology, Forschungszentrum Borstel, Borstel, Germany; CIIL – Center for Infection and Immunity of Lille INSERM U 1019, CNRS UMR 8204 Univ Lille Nord de France, Institut Pasteur de Lille, France
MIRU-VNTRplus funding source(s)
Supported by German Federal Ministry of Education and Research in the framework of the Network Zoonoses (grant number 01KI07124) and PathoGenomikPlus Network (grant number 0313801J).

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