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CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats
TLDR
CRISPRFinder is described, a web service offering tools to detect CRISPRs including the shortest ones including one or two motifs, define DRs and extract spacers, and get the flanking sequences to determine the leader.
The CRISPRdb database and tools to display CRISPRs and to generate dictionaries of spacers and repeats
TLDR
It is hoped that availability of a public database, regularly updated and which can be queried on the web will help in further dissecting and understanding CRISPR structure and flanking sequences evolution.
CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins
TLDR
The program includes an improved CRISPR array detection tool facilitating expert validation based on a rating system, prediction ofCRISPR orientation and a Cas protein detection and typing tool updated to match the latest classification scheme of these systems.
CRISPR elements in Yersinia pestis acquire new repeats by preferential uptake of bacteriophage DNA, and provide additional tools for evolutionary studies.
TLDR
The authors have sequenced a total of 109 alleles of the three Y. pestis CRISPRs and they describe 29 new spacers, most being specific to one isolate, and it appears that addition of new motifs to a common ancestral element is the most frequent event.
Genotyping of Bacillus anthracis strains based on automated capillary 25-loci Multiple Locus Variable-Number Tandem Repeats Analysis
TLDR
Owing to the upgrading achieved here, precise genotyping can now be produced either by automated capillary electrophoresis, or by the more accessible but slower and for some markers slightly less accurate agarose gel methodology.
The hepatitis B virus
DNA recombinant technology has radically changed hepatitis B virus (HBV) virology. The genetic organization, transcription and replication of the virus are basically understood, structures of
CRISPR elements in Yersinia pestis acquire new repeats by preferential uptake of bacteriophage DNA, and provide additional tools for evolutionary studies.
TLDR
The authors have sequenced a total of 109 alleles of the three Y. pestis CRISPRs and they describe 29 new spacers, most being specific to one isolate, and it appears that addition of new motifs to a common ancestral element is the most frequent event.
Identification of Variable-Number Tandem-Repeat Loci in Leptospira interrogans Sensu Stricto
TLDR
A novel PCR-based method for typing L. interrogans serovar Lai type strain 5660 was evaluated and seven VNTR loci were found to be powerful markers forSerovar identification, epidemiology, and phylogenetic studies of L. interrogatedans.
Clinical characteristics of the smooth tubercle bacilli 'Mycobacterium canettii' infection suggest the existence of an environmental reservoir.
TLDR
Smooth tubercle bacilli could be misidentified as non-tuberculous mycobacteria and appear to be limited to the Horn of Africa and their characteristics are consistent with the existence of non-human sources of infection.
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