CRISPR-Cas analysis (Archaea)

Knowledge graph centered on CRISPR-Cas analysis (Archaea) with 20 nodes and 51 connections. Top connected: Atriplex canescens, Bacteria, Borgs are giant genetic elements with potential to, metagenome-assembled genome, gene coalescence.

Method synopsis

Verification of host-pathogen relationships using CRISPR spacer targeting combined with phylogenetic analysis and taxonomic profiling to identify archaeal hosts of Borg elements.

Synthesized from method descriptions across 1 paper using this protocol.

Procedure as described in the canonical source

Steps below were extracted from the paper that introduces this protocol — Borgs are giant genetic elements with potential to expand metabolic capacity (2022), Nature. Implementations in other papers (listed below) may differ.

1. CRISPR-Cas analysis
   Searched for CRISPR repeats and spacers using CRISPRDetect. Compared spacer sequences against Borg genome sequences to identify targeting relationships.
   Quantities: Identified CRISPR systems in Methanoperedens genomes with spacers matching Borg sequencesDuration: Not specifiedConditions: Computational analysis
   Equipment: CRISPRDetect

Typical Equipment

• computational analysis software

Output Measurements

• host-Borg associations
• phylogenetic relationships
• taxonomic profiles

Papers Using This Protocol (2)

Species Studied With This Protocol