REBASE—a database for DNA restriction and modification: enzymes, genes and genomes
TLDR
REBASE is a comprehensive and fully curated database of information about the components of restriction-modification (RM) systems that contains fully referenced information about recognition and cleavage sites for both restriction enzymes and methyltransferases as well as commercial availability, methylation sensitivity, crystal and sequence data.Abstract:
REBASE is a comprehensive and fully curated database of information about the components of restriction-modification (RM) systems. It contains fully referenced information about recognition and cleavage sites for both restriction enzymes and methyltransferases as well as commercial availability, methylation sensitivity, crystal and sequence data. All genomes that are completely sequenced are analyzed for RM system components, and with the advent of PacBio sequencing, the recognition sequences of DNA methyltransferases (MTases) are appearing rapidly. Thus, Type I and Type III systems can now be characterized in terms of recognition specificity merely by DNA sequencing. The contents of REBASE may be browsed from the web http://rebase.neb.com and selected compilations can be downloaded by FTP (ftp.neb.com). Monthly updates are also available via email.read more
Citations
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Expression and purification of the modification-dependent restriction enzyme BisI and its homologous enzymes
TL;DR: More than 156 BisI homologs are found in >60 bacterial genera, indicating that these enzymes are widespread in bacteria, and may play an important biological function in restricting pre-modified phage DNA.
Journal ArticleDOI
Pseudomonas stutzeri as an alternative host for membrane proteins.
TL;DR: Pseudomonas stutzeri is an alternative production host for membrane proteins with success rates comparable to E. coli and increases the success rate for highly produced proteins.
Journal ArticleDOI
Recent advances in computational epigenetics
Heather J. Ruskin,Ana Barat +1 more
TL;DR: This work is licensed under the Creative Commons Attribution – Non Commercial (unported, v3.0) License and incorporated into the Terms (https://www.dovepress.com/terms.php) by accessing the work.
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Acquisition of genomic elements were pivotal for the success of Escherichia coli ST410.
TL;DR: The global ST410 population producing carbapenemases is dominated by the ST410-B2 and B3 subclades with varied geographical distribution that requires ongoing genomic surveillance.
Journal ArticleDOI
Transcriptome analyses of cells carrying the Type II Csp231I restriction-modification system reveal cross-talk between two unrelated transcription factors: C protein and the Rac prophage repressor.
TL;DR: This study characterized the unexpected phenotype of Escherichia coli cells, which manifested as extensive cell filamentation triggered by acquiring the Csp231I R–M system from Citrobacter sp.
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