Comparative Analysis of Mobilizable Genomic Islands

Daccord, Aurélie; Ceccarelli, Daniela; Rodrigue, Sébastien; Burrus, Vincent

doi:10.1128/jb.01985-12

Cited by 35 publications

(42 citation statements)

References 54 publications

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“…Genomic islands (GIs) or chromosomal islands are large DNA sequences specifically present in the genomes of certain bacterial strains but not in the genomes of their most closely related variants (92)(93)(94)(95)(96)(97)(98)(99)(100)(101)(102)(103). They are generally integrated within a bacterial chromosome, but they can also be found on plasmids or in phages.…”

Section: Mobile Elementsmentioning

confidence: 99%

Bacterial Genome Instability

Darmon

Leach

2014

Microbiol Mol Biol Rev

348

289

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SUMMARY Bacterial genomes are remarkably stable from one generation to the next but are plastic on an evolutionary time scale, substantially shaped by horizontal gene transfer, genome rearrangement, and the activities of mobile DNA elements. This implies the existence of a delicate balance between the maintenance of genome stability and the tolerance of genome instability. In this review, we describe the specialized genetic elements and the endogenous processes that contribute to genome instability. We then discuss the consequences of genome instability at the physiological level, where cells have harnessed instability to mediate phase and antigenic variation, and at the evolutionary level, where horizontal gene transfer has played an important role. Indeed, this ability to share DNA sequences has played a major part in the evolution of life on Earth. The evolutionary plasticity of bacterial genomes, coupled with the vast numbers of bacteria on the planet, substantially limits our ability to control disease.

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Section: Mobile Elementsmentioning

confidence: 99%

Bacterial Genome Instability

Darmon

Leach

2014

Microbiol Mol Biol Rev

348

289

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“…4) (50, 66). MGIs range between 18 and 33 kb in size and are found in several bacterial species thriving in aquatic environment, such as Vibrio sp., Alteromonas sp., Pseudoalteromonas, and Methylophaga, with some of them naturally harboring SXT/ R391 ICEs (66,69). MGIs share a small conserved core of four genes and the oriT-like sequence that ensures their basic maintenance and mobilization function.…”

Section: Evolution and Plasticitymentioning

confidence: 99%

“…This checkpoint mechanism likely stabilizes the genomic island in the progeny of the host cell by preventing untimely excision that could result in the loss of the element in a fraction of the cell population after cell division. Besides the four conserved genes, MGIs also carry a cargo of variable genes, most of them coding for diverse type I and type III restriction/ modification systems as well as diverse toxin/antitoxin systems (69).…”

Section: Evolution and Plasticitymentioning

confidence: 99%

“…doi:10.1128/microbiolspec.MDNA3-0008-2014.f4 which promote integration and excision of MGIs. The gene int MGI codes for a tyrosine recombinase which mediates the integration of MGIs into the 3′ end of E. coli's yicC, a gene of unknown function, and its orthologs in all the known natural hosts of MGIs (66,69). Integration of MGIs into the chromosome of a naive host is independent of the co-transfer of an SXT/R391 ICE as int MGI is constitutively expressed at a low level, thereby favoring MGI dissemination regardless of the ability of the ICE to co-establish in the recipient cell (67).…”

Section: Evolution and Plasticitymentioning

confidence: 99%

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Biology of Three ICE Families: SXT/R391, ICE Bs1 , and ICE St1 /ICE St3

Carraro

Burrus

2014

Microbiol Spectr

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Integrative and Conjugative Elements (ICEs) are bacterial mobile genetic elements that play a key role in bacterial genomes dynamics and evolution. ICEs are widely distributed among virtually all bacterial genera. Recent extensive studies have unraveled their high diversity and complexity. The present review depicts the general conserved features of ICEs and describes more precisely three major families of ICEs that have been extensively studied in the past decade for their biology, their evolution and their impact on genomes dynamics. First, the large SXT/R391 family of ICEs disseminates antibiotic resistance genes and drives the exchange of mobilizable genomic islands (MGIs) between many enteric pathogens such as Vibrio cholerae. Second, ICEBs1 of Bacillus subtilis is the most well understood ICE of Gram-positive bacteria, notably regarding the regulation of its dissemination and its initially unforeseen extrachromosomal replication, which could be a common feature of ICEs of both Gram-positive and Gram-negative bacteria. Finally, ICESt1 and ICESt3 of Streptococcus thermophilus are the prototypes of a large family of ICEs widely distributed among various streptococci. These ICEs carry an original regulation module that associates regulators related to those of both SXT/R391 and ICEBs1. Study of ICESt1 and ICESt3 uncovered the cis-mobilization of related genomic islands (CIMEs) by a mechanism called accretion-mobilization, which likely represents a paradigm for the evolution of many ICEs and genomic islands. These three major families of ICEs give a glimpse about ICEs dynamics and their high impact on bacterial adaptation.

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“…Integrative and conjugative elements (ICEs) were primarily defined as MGEs able to excise from a replicon of their bacterial host, self-transfer by conjugation and stably maintain by integration into a replicon of the recipient bacterium (Burrus et al, 2002a). Other integrated MGEs, called mobilizable elements, are not autonomous for their mobility and require a helper functional conjugative element to regain mobility by conjugation (see Bellanger et al, 2014 for review;Carraro et al, 2014a;Daccord et al, 2013;Doublet et al, 2005). Among these, the cis-mobilizable elements (CIMEs) are derived by deletion of conjugation and recombination modules from ICEs, but retain their recombination sites.…”

Section: Introductionmentioning

confidence: 99%

Plasmid-like replication of a minimal streptococcal integrative and conjugative element

et al. 2016

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Integrative and conjugative elements (ICEs) are mobile genetic elements encoding their own excision from a replicon of their bacterial host, transfer by conjugation to a recipient bacterium and reintegration for maintenance. The conjugation, recombination and regulation modules of ICEs of the ICESt3 family are grouped together in a region called the ICE 'core region'. In addition to this core region, elements belonging to this family carry a highly variable region including cargo genes that could be involved in bacterial adaptation or in the maintenance of the element. Although ICEs are a major class of mobile elements through bacterial genomes, the functionality of an element encoding only its excision, transfer, integration and regulation has never been demonstrated experimentally. We engineered MiniICESt3, an artificial ICE derived from ICESt3, devoid of its cargo genes and thus only harbouring the core region. The functionality of this minimal element was assessed. MiniICESt3 was found to be able to excise at a rate of 3.1 %, transfer with a frequency of 1.0610 25 transconjugants per donor cell and stably maintain by site-specific integration into the 39 end of the fda gene, the same as ICESt3. Furthermore, MiniICESt3 was found in ,10 copies per chromosome, this multicopy state likely contributing to its stability for .100 generations even in the absence of selection. Therefore, although ICEs were primarily assumed to only replicate along with the chromosome, our results uncovered extrachromosomal rolling-circle replicating plasmid-like forms of MiniICESt3.

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Comparative Analysis of Mobilizable Genomic Islands

Cited by 35 publications

References 54 publications

Bacterial Genome Instability

Bacterial Genome Instability

Biology of Three ICE Families: SXT/R391, ICE Bs1 , and ICE St1 /ICE St3

Plasmid-like replication of a minimal streptococcal integrative and conjugative element

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