Tandem Repeat Loci
Implementation of a Consensus Set of Hypervariable Mycobacterial Interspersed Repetitive Unit–Variable Number Tandem Repeat Loci in Mycobacterium tuberculosis Molecular Epidemiology
... Interestingly, for some of the clusters (n ⫽ 10), we did not Received 3 November 2015 Accepted 21 November 2015 Accepted manuscript posted online 9 December 2015 Citation Trovato A, Tafaj S, Battaglia S, Alagna R, Bardhi ...
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Identification of Variable Number Tandem Repeat Loci in Leptospira interrogans Sensu Stricto
... 44 loci were analyzed by PCR for their variability in size due to the presence of variable-number tandem repeats ...VNTR loci were found to be powerful markers for serovar identification, ...
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Mycobacterium tuberculosis Beijing Genotype in Russia: in Search of Informative Variable Number Tandem Repeat Loci
... number tandem-repeat (VNTR) typing using 24 loci of a newly proposed format and three hypervariable (HV) loci (QUB-3232, VNTR-3820, and ...VNTR loci were monomorphic, while five ...
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Diversity of Variable Number Tandem Repeat Loci in Shigella Species Isolated From Pediatric Patients
... VNTR loci have various degrees of variability, they are useful molecular markers for phylogenetic and evolutio- nary study of bacterial ...VNTR loci for phylogenetic analysis of 916 ...VNTR loci for ...
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Diversity of nuclear short tandem repeat loci in representative sample of North-eastern Bosnian and Herzegovina population
... short tandem repeat (STR) loci with PowerPlex tm 16 ...STR loci PowerPlex tm 16 kit detected 17 samples determined as rare allelic variants or ...different loci, and are: in locus ...
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Allele frequency data of 21 autosomal short tandem repeat loci in Mesan and Basra provinces in South Iraq
... tested loci were 71%, 72%, 74% and 77% for the CSF1PO, D3S1357, D8S1179 and D5S818 loci respectively and 80%, 81% and 88% for the vWA, THO1 and D16S539 loci respec- tively, and ranged from 90% to ...
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Population Genetic Analysis of Haplotypes Based on 17 Short Tandem Repeat Loci on Y Chromosome in Population Sample from Eastern Croatia
... The Y chromosome is much smaller than the X chromo- some and is largely composed of repeating sequences (1). It makes up only about 2% of the total haploid genome and spans approximately 60 Mb. The non-recombining ...
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DNA Fingerprinting of Salmonella enterica subsp enterica Serovar Typhimurium with Emphasis on Phage Type DT104 Based on Variable Number of Tandem Repeat Loci
... of tandem repeats make them intrinsically prone to a higher degree of genetic variability, and in a genetically ho- mogenous pathogen like DT104, it is possible that only such repeated regions have had the time to ...
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Proposal of a Consensus Set of Hypervariable Mycobacterial Interspersed Repetitive Unit–Variable Number Tandem Repeat Loci for Subtyping of Mycobacterium tuberculosis Beijing Isolates
... hypervariable loci, as compiled from all previous relevant studies, as well as their technical appli- cability and interlaboratory reproducibility compared to the stan- dard 24-locus ...variable loci ...
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Genotyping of present-day and historical Geobacillus species isolates from milk powders by high-resolution melt analysis of multiple variable-number tandem-repeat loci
... variable-number tandem-repeat (VNTR) analysis (MLVA) in conjunction with high-resolution melt analysis (MLV-HRMA) and compared to the currently used method, random- ized amplified polymorphic DNA PCR ...
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Molecular Typing of Mycobacterium abscessus Based on Tandem Repeat Polymorphism
... two tandem-repeat loci to distinguish Mycobacte- rium abscessus from other mycobacterial species and discrimi- nated Mycobacterium abscessus, Mycobacterium massiliense, and Mycobacterium bolletii by ...
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Multilocus Variable Number Tandem Repeat Typing of Mycobacterium ulcerans
... nine loci can therefore be considered as a first promising step towards the potential use of VNTRs as markers for molecular epide- miological studies of BU within given geographic ...of loci most likely ...
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Autosomal short tandem repeat genetic variation of the Basques in Spain
... Statistical analysis Allele frequencies were estimated using the gene count- ing method. Expected heterozygosity under Hardy-Wein- berg equilibrium was estimated by the method of Guo and Thompson (86), and locus-by-locus ...
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Characterization of a Tandem Repeat Polymorphism in Legionella pneumophila and Its Use for Genotyping
... pneumophila. For this reason, we have not investigated all the minisatellite loci identified with the Tandem Repeat Finder software. The availability of sequence data for another strain (possibly L. ...
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Identification and Characterization of Variable Number Tandem Repeat Markers for Typing of Brucella spp
... of tandem repeats that might facilitate the devel- opment of an MLVA ...octameric repeat (the “HOOF-Prints” assay) was described ...these loci could make it difficult to assign isolates to one of the ...
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Multiple Locus Variable Number Tandem Repeat Analysis for Typing of Staphylococcus epidermidis
... five repeat loci (Se1 to Se5) for MLVA resulted in a high discriminatory capacity ...four repeat loci (Se1 to Se4) resulted in a highly similar clustering of isolates while slightly decreasing ...
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Genetic variation and population structure of Botswana populations as identified with AmpFLSTR Identifiler short tandem repeat (STR) loci
... Algee-Hewitt 63 found that markers with high individual identifiability also possess high population identifiably and that CODIS loci contain higher ancestry information than randomly chosen STRs. This study has ...
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Tandem genotypes: robust detection of tandem repeat expansions from long DNA reads
... pathogenic repeat expansions ...human repeat expansions from careful alignments of long but error-prone (PacBio and nanopore) reads to a reference ...700,000 tandem repeats in whole genome sequencing ...
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Tandem repeat-containing MITEs in the clam Donax trunculus
... of tandem repeats can also be present within nonautonomous miniature inverted repeat transposable elements ...core repeat variants, distinctive by diagnostic ...core repeat copy number. Each ...
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The impact of short tandem repeat variation on gene expression.
... other repeat lengths also show distinct patterns of nucleosome positioning (Extended Data ...total repeat number and total length in bp, respectively, based on the sequence present in ...STR repeat ...
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