Differential Distribution of Type II CRISPR-Cas Systems in Agricultural and Nonagricultural Campylobacter coli and Campylobacter jejuni Isolates Correlates with Lack of Shared Environments

Genome Biology and Evolution
Bruce M PearsonArnoud H M van Vliet

Abstract

CRISPR (clustered regularly interspaced palindromic repeats)-Cas (CRISPR-associated) systems are sequence-specific adaptive defenses against phages and plasmids which are widespread in prokaryotes. Here we have studied whether phylogenetic relatedness or sharing of environmental niches affects the distribution and dissemination of Type II CRISPR-Cas systems, first in 132 bacterial genomes from 15 phylogenetic classes, ranging from Proteobacteria to Actinobacteria. There was clustering of distinct Type II CRISPR-Cas systems in phylogenetically distinct genera with varying G+C%, which share environmental niches. The distribution of CRISPR-Cas within a genus was studied using a large collection of genome sequences of the closely related Campylobacter species Campylobacter jejuni (N = 3,746) and Campylobacter coli (N = 486). The Cas gene cas9 and CRISPR-repeat are almost universally present in C. jejuni genomes (98.0% positive) but relatively rare in C. coli genomes (9.6% positive). Campylobacter jejuni and agricultural C. coli isolates share the C. jejuni CRISPR-Cas system, which is closely related to, but distinct from the C. coli CRISPR-Cas system found in C. coli isolates from nonagricultural sources. Analysis of the genomic po...Continue Reading

References

Apr 1, 1996·Journal of Bacteriology·N R Mattatall, K E Sanderson
Apr 16, 2002·Molecular Microbiology·Ruud JansenLeo M Schouls
Jun 3, 2004·Genome Research·Gavin E CrooksSteven E Brenner
Mar 24, 2007·Science·Rodolphe BarrangouPhilippe Horvath
Apr 20, 2007·Genome Biology·Victor KuninPhilip Hugenholtz
Jun 1, 2007·Nucleic Acids Research·Ibtissem GrissaChristine Pourcel
Sep 12, 2007·Bioinformatics·M A LarkinD G Higgins
Dec 11, 2007·Journal of Bacteriology·Philippe HorvathRodolphe Barrangou
Dec 11, 2007·Journal of Bacteriology·Hélène DeveauSylvain Moineau
Apr 12, 2008·Science·Samuel K SheppardMartin C J Maiden
Jul 19, 2008·International Journal of Food Microbiology·Philippe HorvathRodolphe Barrangou
Aug 16, 2008·Science·Stan J J BrounsJohn van der Oost
Dec 20, 2008·Science·Luciano A Marraffini, Erik J Sontheimer
Jan 20, 2009·Journal of Bacteriology·Esther J GaasbeekFimme J van der Wal
Feb 4, 2009·Proceedings of the National Academy of Sciences of the United States of America·Gregory E SimsSung-Hou Kim
Mar 30, 2010·Nature Reviews. Microbiology·Simon J LabrieSylvain Moineau
Nov 5, 2010·Nature·Josiane E GarneauSylvain Moineau
Dec 15, 2010·BMC Bioinformatics·Keith A Jolley, Martin C J Maiden
Apr 2, 2011·Nature·Elitza DeltchevaEmmanuelle Charpentier
May 10, 2011·Nature Reviews. Microbiology·Kira S MakarovaEugene V Koonin
Feb 18, 2012·Nature·Blake WiedenheftJennifer A Doudna
Mar 14, 2012·Clinical Infectious Diseases : an Official Publication of the Infectious Diseases Society of America·Clarence C TamUNKNOWN IID2 Study Executive Committee
Jun 30, 2012·Science·Martin JinekEmmanuelle Charpentier
Aug 21, 2012·Cell Host & Microbe·Ariel D Weinberger, Michael S Gilmore
Aug 23, 2012·PloS One·Alfonso H MagadánSylvain Moineau
Sep 5, 2012·European Journal of Clinical Microbiology & Infectious Diseases : Official Publication of the European Society of Clinical Microbiology·R LouwenA van Belkum
Jan 3, 2013·Molecular Ecology·Samuel K SheppardDaniel Falush
Jan 3, 2013·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Vincent P RichardsMichael J Stanhope
Feb 27, 2013·RNA Biology·Eugene V Koonin, Kira S Makarova
Feb 28, 2013·BMC Evolutionary Biology·Anne Kupczok, Jonathan P Bollback
Mar 16, 2013·RNA Biology·Ambarish BiswasChris M Brown
Mar 28, 2013·Environmental Microbiology·Richard A StablerBrendan W Wren
Apr 9, 2013·RNA Biology·Krzysztof ChylinskiEmmanuelle Charpentier
Apr 16, 2013·Nature·Timothy R SampsonDavid S Weiss

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Citations

Jul 12, 2018·RNA Biology·Te-Yuan Chyou, Chris M Brown
Aug 16, 2018·Frontiers in Microbiology·Anna MaikovaOlga Soutourina
Sep 1, 2017·Genome Biology and Evolution·William G MillerKen J Forbes
Jan 13, 2019·Archives of Microbiology·Julian A SchusterMatthias A Ehrmann
Aug 10, 2021·Antimicrobial Agents and Chemotherapy·Quentin JehannePhilippe Lehours

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Methods Mentioned

BETA
PCR

Software Mentioned

Prokka
Phylip
gnTanaaT
Weblogo
Mega
CRISPRfinder
PlotLY
Figtree
MIST
BLAST ( Basic Local Alignment Search Tool

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