ArticlePhilosophical transactions of the Royal Society of London. Series B, Biological sciences2019
A matter of background: DNA repair pathways as a possible cause for the sparse distribution of CRISPR-Cas systems in bacteria.
Article in Philosophical transactions of the Royal Society of London. Series B, Biological sciences, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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21 citing papers in PubMed, 40 citations in OpenAlex.
- Identification of proteins influencing CRISPR-associated transposases for enhanced genome editing.Science advances · 2026Article
- Search-and-remove genome editing allows selection of cells by DNA sequence.Nature communications · 2025Article
- Conditions for the spread of CRISPR-Cas immune systems into bacterial populations.The ISME journal · 2024Article
- Epistatic interactions between the high pathogenicity island and other iron uptake systems shape Escherichia coli extra-intestinal virulence.Nature communications · 2023Article
- Article
- CRISPR-Cas systems: role in cellular processes beyond adaptive immunity.Folia microbiologica · 2022Review
- In silico optimization of RNA-protein interactions for CRISPR-Cas13-based antimicrobials.Biology direct · 2022Article
- Structural basis for broad anti-phage immunity by DISARM.Nature communications · 2022Article
- The RecD2 helicase balances RecA activities.Nucleic acids research · 2022Article
- Double nicking by RNA-directed Cascade-nCas3 for high-efficiency large-scale genome engineering.Open biology · 2022Article
- Investigating the Genomic Background of CRISPR-Cas Genomes for CRISPR-Based Antimicrobials.Evolutionary bioinformatics online · 2022Article
- Immune lag is a major cost of prokaryotic adaptive immunity during viral outbreaks.Proceedings. Biological sciences · 2021Article
- Causes and Consequences of Bacteriophage Diversification via Genetic Exchanges across Lifestyles and Bacterial Taxa.Molecular biology and evolution · 2021Article
- Comparative CRISPR type III-based knockdown of essential genes in hyperthermophilicRNA biology · 2021Article
- Article
- Review
- Evolutionary classification of CRISPR-Cas systems: a burst of class 2 and derived variants.Nature reviews. Microbiology · 2020Review
- The pan-immune system of bacteria: antiviral defence as a community resource.Nature reviews. Microbiology · 2020Review
- Atypical organizations and epistatic interactions of CRISPRs and cas clusters in genomes and their mobile genetic elements.Nucleic acids research · 2020Article
- Article
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The absence of CRISPR-Cas systems in more than half of the sequenced bacterial genomes is intriguing, because their role in adaptive immunity and their frequent transfer between species should have made them almost ubiquitous, as is the case in Archaea. Here, we investigate the possibility that the success of CRISPR-Cas acquisition by horizontal gene transfer is affected by the interactions of these systems with the host genetic background and especially with components of double-strand break repair systems (DSB-RS). We first described the distribution of systems specialized in the repair of double-strand breaks in Bacteria: homologous recombination and non-homologous end joining. This allowed us to show that such systems are more often positively or negatively correlated with the frequency of CRISPR-Cas systems than random genes of similar frequency. The detailed analysis of these co-occurrence patterns shows that our method identifies previously known cases of mechanistic interactions between these systems. It also reveals other positive and negative patterns of co-occurrence between DSB-RS and CRISPR-Cas systems. Notably, it shows that the patterns of distribution of CRISPR-Cas systems in Proteobacteria are strongly dependent on the epistatic groups including RecBCD and AddAB. Our results suggest that the genetic background plays an important role in the success of adaptive immunity in different bacterial clades and provide insights to guide further experimental research on the interactions between CRISPR-Cas and DSB-RS. This article is part of a discussion meeting issue 'The ecology and evolution of prokaryotic CRISPR-Cas adaptive immune systems'.
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