"Pseudo-Beijing": evidence for convergent evolution in the direct repeat region of Mycobacterium tuberculosis. [PDF]
PLoS ONE, 2011 BackgroundMycobacterium tuberculosis has a global population structure consisting of six main phylogenetic lineages associated with specific geographic regions and human populations. One particular M.
Lukas Fenner +9 more
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A Genome-Wide Screen for Genes Affecting Spontaneous Direct-Repeat Recombination in Saccharomyces cerevisiae [PDF]
G3: Genes, Genomes, Genetics, 2020 Homologous recombination is an important mechanism for genome integrity maintenance, and several homologous recombination genes are mutated in various cancers and cancer-prone syndromes.
Daniele Novarina +6 more
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Epstein-Barr virus DNA. X. Direct repeat within the internal direct repeat of Epstein-Barr virus DNA [PDF]
Journal of Virology, 1981 The 3,360-base-pair internal direct repeat (IR) in Epstein-Barr virus DNA separates the short and long unique DNA domains. IR has a single BamHI site. The juncture between the short unique domain and IR has been mapped by restriction endonucleases and is less than 2,600 nucleotides before the BamHI site in IR.
Andrew Cheung, Elliott Kieff
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CRISPRdigger: detecting CRISPRs with better direct repeat annotations. [PDF]
Sci Rep, 2016 AbstractClustered regularly interspaced short palindromic repeats (CRISPRs) are important genetic elements in many bacterial and archaeal genomes, and play a key role in prokaryote immune systems’ fight against invasive foreign elements. The CRISPR system has also been engineered to facilitate target gene editing in eukaryotic genomes. Using the common
Ge R +6 more
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Recombineering in Streptococcus mutans Using Direct Repeat-Mediated Cloning-Independent Markerless Mutagenesis (DR-CIMM) [PDF]
Frontiers in Cellular and Infection Microbiology, 2017 Studies of the dental caries pathogen Streptococcus mutans have benefitted tremendously from its sophisticated genetic system. As part of our own efforts to further improve upon the S. mutans genetic toolbox, we previously reported the development of the
Shan Zhang +5 more
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Role of direct repeat and stem-loop motifs in mtDNA deletions: cause or coincidence? [PDF]
PLoS ONE, 2012 Deletion mutations within mitochondrial DNA (mtDNA) have been implicated in degenerative and aging related conditions, such as sarcopenia and neuro-degeneration. While the precise molecular mechanism of deletion formation in mtDNA is still not completely
Lakshmi Narayanan Lakshmanan +3 more
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Sequence Analysis of the Direct Repeat Region in Mycobacterium bovis [PDF]
Journal of Clinical Microbiology, 2001 ABSTRACT Spoligotyping is a major tool for molecular typing of Mycobacterium bovis . This technique is based on the polymorphism of spacers that separate direct repeats (DRs) in the M. tuberculosis complex DR region. Numerous M.
Karina Caimi +5 more
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Preferential deletion events in the direct repeat locus of Mycobacterium tuberculosis. [PDF]
J Clin Microbiol, 2011 ABSTRACT The “Harlingen” IS 6110 restriction fragment length polymorphism (RFLP) cluster has linked over 100 tuberculosis cases in The Netherlands since 1993. Four Mycobacterium tuberculosis isolates that were epidemiologically linked to this cluster had different spoligotype ...
Schürch AC +5 more
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Genome-Wide Tool for Sensitive de novo Identification and Visualisation of Interspersed and Tandem Repeats [PDF]
Bioinformatics and Biology InsightsGenomic repeats are functionally ubiquitous structural units found in all genomes. Studying these repeats of different origins is essential for understanding the evolution and adaptation of a given organism.
Ruslan Kalendar, Ulykbek Kairov
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Are mutagenic non D-loop direct repeat motifs in mitochondrial DNA under a negative selection pressure? [PDF]
Nucleic Acids Res, 2015 Lakshmanan LN +3 more
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