PHAST, PHASTER and PHASTEST: Tools for finding prophage in bacterial genomes
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چکیده
منابع مشابه
PHASTER: a better, faster version of the PHAST phage search tool
PHASTER (PHAge Search Tool - Enhanced Release) is a significant upgrade to the popular PHAST web server for the rapid identification and annotation of prophage sequences within bacterial genomes and plasmids. Although the steps in the phage identification pipeline in PHASTER remain largely the same as in the original PHAST, numerous software improvements and significant hardware enhancements ha...
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Of the plethora of bioinformatical tools available, some useful tools that allow complete genome sequences to be compared are described here. Comparisons of genome length, base composition, gene density, numbers of tRNA and rRNA genes, and codon usage can provide useful biological insights. Examples are provided of a Genome Atlas plot, to summarize many features of a single genome, and a BLAST ...
متن کاملPHAST: A Fast Phage Search Tool
PHAge Search Tool (PHAST) is a web server designed to rapidly and accurately identify, annotate and graphically display prophage sequences within bacterial genomes or plasmids. It accepts either raw DNA sequence data or partially annotated GenBank formatted data and rapidly performs a number of database comparisons as well as phage 'cornerstone' feature identification steps to locate, annotate ...
متن کاملHeat induction of prophage phi 105 in Bacillus subtilis: replication of the bacterial and bacteriophage genomes.
A temperature-inducible mutant of temperate Bacillus bacteriophage phi105 was isolated and used to lysogenize a thymine-requiring strain of Bacillus subtilis 168. Synthesis of phage and bacterial deoxyribonucleic acid (DNA) was studied by sucrose gradient centrifugation and density equilibrium centrifugation of DNA extracted from induced bacteria. The distribution of DNA in the gradients was me...
متن کاملProfile of Eight Prophage Sequences Present in the Genomes of Different Acinetobacter baumannii Strains
ABSTRACT Background and Objective: Prophage sequences are major contributors to interstrain variations within the same bacterial species. Acinetobacter baumannii is a gram-negative bacterium that causes a wide range of nosocomial infections, especially in intensive care unit inpatients. Prophage sequences constitute a considerable proporti...
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ژورنال
عنوان ژورنال: Briefings in Bioinformatics
سال: 2017
ISSN: 1467-5463,1477-4054
DOI: 10.1093/bib/bbx121