Distribution and characteristics of SGI1/PGI2 genomic island from Proteus strains in China

Xiao, Tao; Dai, Hongyue; Lu, Binghuai; Li, Zhenpeng; Cai, Hongyan; Huang, Zhenzhou; Kan, Biao; Wang, Duochun

doi:10.1016/j.meegid.2019.02.027

Cited by 10 publications

(2 citation statements)

References 45 publications

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“…( 28 ) to test the role of sgaDC is not available, and its original host not associated with a specific strain of S. enterica serovar Typhimurium ( 28 , 67 ). The Genbank nucleotide database contains only four sequences identified as SGI1-C in clinical strains of P. mirabilis from China, including strain CA150323 (Genbank MH990679 ) used here as the reference ( 68 ). SGI1-PmBRI, identified in the clinical isolate P. mirabilis PmBRI from France (Genbank JX089582.1 ), is strikingly similar to SGI1-C from China ( 14 ).…”

Section: Resultsmentioning

confidence: 99%

Crucial role ofSalmonellagenomic island 1 master activator in the parasitism of IncC plasmids

Durand

Huguet

Rivard

et al. 2021

Nucleic Acids Research

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IncC conjugative plasmids and the multiple variants of Salmonella Genomic Island 1 (SGI1) are two functionally interacting families of mobile genetic elements commonly associated with multidrug resistance in the Gammaproteobacteria. SGI1 and its siblings are specifically mobilised in trans by IncC conjugative plasmids. Conjugative transfer of IncC plasmids is activated by the plasmid-encoded master activator AcaCD. SGI1 carries five AcaCD-responsive promoters that drive the expression of genes involved in its excision, replication, and mobilisation. SGI1 encodes an AcaCD homologue, the transcriptional activator complex SgaCD (also known as FlhDCSGI1) that seems to recognise and activate the same SGI1 promoters. Here, we investigated the relevance of SgaCD in SGI1′s lifecycle. Mating assays revealed the requirement for SgaCD and its IncC-encoded counterpart AcaCD in the mobilisation of SGI1. An integrative approach combining ChIP-exo, Cappable-seq, and RNA-seq confirmed that SgaCD activates each of the 18 AcaCD-responsive promoters driving the expression of the plasmid transfer functions. A comprehensive analysis of the activity of the complete set of AcaCD-responsive promoters of SGI1 and the helper IncC plasmid was performed through reporter assays. qPCR and flow cytometry assays revealed that SgaCD is essential to elicit the excision and replication of SGI1 and destabilise the helper IncC plasmid.

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Section: Resultsmentioning

confidence: 99%

Crucial role ofSalmonellagenomic island 1 master activator in the parasitism of IncC plasmids

Durand

Huguet

Rivard

et al. 2021

Nucleic Acids Research

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“…Multiple alignments of nucleotide sequences, including the 37 fully characterized backbones to date and the uncharacterized GIs retained for this study, was performed using the online MAFFT software version 7 available at the Japanese Computational Biology Research Center (CBRC) 3 . The 37 known SGI1-REs included 18 SGI1 variants: SGI1 ( Boyd et al, 2001 ), SGI1-K1 ( Levings et al, 2007 ), SGI2 ( Levings et al, 2008 ), SGI1-V ( Siebor and Neuwirth, 2011 ) recently renamed SGI-V ( de Curraize et al, 2020a ), SGI1- Pm MAT ( Siebor and Neuwirth, 2013 ), SGI1-B2 and SGI1-Z ( Lei et al, 2015 ), SGI1-L ( Schultz et al, 2017 ), SGI1- Pm 2CHAMA ( de Curraize et al, 2018 ), SGI1- Pm JN40 ( Bie et al, 2018 ), SGI1B- Ec 1 ( Cummins et al, 2019 ), SGI1- Pm SC1111 ( Wang et al, 2019 ), SGI1- Pm CA11 ( Xiao et al, 2019 ), SGI0 ( de Curraize et al, 2020a ), SGI1-LK1 ( de Curraize et al, 2020b ), SGI1- Vc 2CHAMA and VGI ( Cummins et al, 2020 ), and SGI1-XJ9S ( Lei et al, 2020a ); 3 PGI1 variants: PGI1- Pm ESC ( Siebor et al, 2016 ), the PGI1 variant of Salmonella enterica Heidelberg SL476 named here PGI1-SL476 ( Siebor and Neuwirth, 2014 ), and PGI1- Pm PEL ( Girlich et al, 2015 ); 3 PGI2 variants: PGI2 ( Lei et al, 2018 ), PGI2- Ec -2, and KGI ( Cummins et al, 2020 ); and 12 AGI1 variants belonging to 5 lineages: AGI1 ( Hamidian et al, 2015 ), AGI1-A (renamed AGI2), AGI1-B and AGI1-C (renamed AGI3) ( Siebor et al, 2019 ; Siebor and Neuwirth, 2020 ), AGI1 variants of Escherichia coli MOD1-EC6520, K. pneumoniae k1781 (AGI4), of 3 Salmonella [ S . Agona 24.H.04 (AGI4), S .…”

Section: Methodsmentioning

confidence: 99%

Overview of Salmonella Genomic Island 1-Related Elements Among Gamma-Proteobacteria Reveals Their Wide Distribution Among Environmental Species

Siébor

Neuwirth

2022

Front. Microbiol.

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The aim of this study was to perform an in silico analysis of the available whole-genome sequencing data to detect syntenic genomic islands (GIs) having homology to Salmonella genomic island 1 (SGI1), analyze the genetic variations of their backbone, and determine their relatedness. Eighty-nine non-redundant SGI1-related elements (SGI1-REs) were identified among gamma-proteobacteria. With the inclusion of the thirty-seven backbones characterized to date, seven clusters were identified based on integrase homology: SGI1, PGI1, PGI2, AGI1 clusters, and clusters 5, 6, and 7 composed of GIs mainly harbored by waterborne or marine bacteria, such as Vibrio, Shewanella, Halomonas, Idiomarina, Marinobacter, and Pseudohongiella. The integrase genes and the backbones of SGI1-REs from clusters 6 and 7, and from PGI1, PGI2, and AGI1 clusters differed significantly from those of the SGI1 cluster, suggesting a different ancestor. All backbones consisted of two parts: the part from attL to the origin of transfer (oriT) harbored the DNA recombination, transfer, and mobilization genes, and the part from oriT to attR differed among the clusters. The diversity of SGI1-REs resulted from the recombination events between GIs of the same or other families. The oriT appeared to be a high recombination site. The multi-drug resistant (MDR) region was located upstream of the resolvase gene. However, most SGI1-REs in Vibrio, Shewanella, and marine bacteria did not harbor any MDR region. These strains could constitute a reservoir of SGI1-REs that could be potential ancestors of SGI1-REs encountered in pathogenic bacteria. Furthermore, four SGI1-REs did not harbor a resolvase gene and therefore could not acquire an integron. The presence of mobilization genes and AcaCD binding sites indicated that their conjugative transfer could occur with helper plasmids. The plasticity of SGI1-REs contributes to bacterial adaptation and evolution. We propose a more relevant classification to categorize SGI1-REs into different clusters based on their integrase gene similarity.

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Two multidrug-resistant Proteus mirabilis clones carrying extended spectrum beta-lactamases revealed in a single hospital department by whole genome sequencing

Karpenko,

Shelenkov,

Petrova

et al. 2024

Heliyon

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Distribution and characteristics of SGI1/PGI2 genomic island from Proteus strains in China

Cited by 10 publications

References 45 publications

Crucial role ofSalmonellagenomic island 1 master activator in the parasitism of IncC plasmids

Crucial role ofSalmonellagenomic island 1 master activator in the parasitism of IncC plasmids

Overview of Salmonella Genomic Island 1-Related Elements Among Gamma-Proteobacteria Reveals Their Wide Distribution Among Environmental Species

Two multidrug-resistant Proteus mirabilis clones carrying extended spectrum beta-lactamases revealed in a single hospital department by whole genome sequencing

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