Genomic Analysis of CRISPR Systems

Analysis of CRISPR‐positive complete genomes and high‐quality assemblies was performed to better characterize the genomic context surrounding the cas gene sets and/or CRISPR arrays. High‐quality assemblies with at least 4 kb flanking the cas gene sets were considered. These regions were annotated by Prokka (https://github.com/tseemann/prokka) (Seemann, 2014 (link)). Synteny was established by either the Mauve algorithm (http://darlinglab.org/mauve/mauve.html) (Darling et al., 2010 (link)) or visual inspection of annotated proteins.

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Scrascia M., Roberto R., D'Addabbo P., Ahmed Y., Porcelli F., Oliva M., Calia C., Marzella A, & Pazzani C. (2023). Bioinformatic survey of CRISPR loci across 15 Serratia species. MicrobiologyOpen, 12(2), e1339.

Publication 2023

Crispr Crispr arrays Gene Genomic Proteins Synteny

Corresponding Organization : University of Bari Aldo Moro

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Variable analysis

independent variables

Analyzed CRISPR-positive complete genomes and high-quality assemblies

dependent variables

Genomic context surrounding the cas gene sets and/or CRISPR arrays

control variables

High-quality assemblies with at least 4 kb flanking the cas gene sets

controls

No specific controls mentioned

Annotations

Based on most similar protocols

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