Nov 1, 2018

CasLocusAnno: a web-based server for annotating Cas loci and their corresponding (sub)types

BioRxiv : the Preprint Server for Biology
Chuan DongFeng-Biao Guo

Abstract

CRISPR-Cas systems are prevalent in bacterial and archaeal genomes, and these systems provide a powerful adaptive immune system against predation by phages and other mobile genetic elements (MGEs). They also contribute to other functions, such as gene regulation in prokaryotic organisms. Determining Cas proteins and Cas loci can help mine Cas proteins and facilitate the identification of Cas-associated accessory proteins. Therefore, the purpose of this work is to develop a web-based server, CasLocusAnno, to annotate Cas proteins and Cas loci and to classify them according to (sub)type based on a previous study. CasLocusAnno can annotate Cas proteins and Cas loci and assign their (sub)types within ~28 seconds for whole protein sequence submissions, with protein sequence numbers ranging from ~30 to ~10500. Comparison with Makarova et al's benchmark data demonstrates that CasLocusAnno can accurately identify Cas loci and (sub)types. In addition, CasLocusAnno can identify Cas proteins with higher accuracy and a lower additional prediction rate (APR) than two excellent software programs, CRISPRCasFinder and MacSyFinder. The domain alignment of a Cas protein can be easily browsed in the annotation results. Our server can be freely ac...Continue Reading

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Mentioned in this Paper

Computer Software
Study
Immune System
Genome, Archaeal
Calcium-binding protein-2
GE fusion protein, mouse
CRISPR-Cas Systems
Bacteriophages
CRISPR-Cas Loci
Clustered Regularly Interspaced Short Palindromic Repeats

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