Beyond to the Stable: Role of the Insertion Sequences as Epidemiological Descriptors in Corynebacterium striatum

Leyton-Carcaman, Benjamín; Abanto, Michel

doi:10.3389/fmicb.2022.806576

Cited by 3 publications

(3 citation statements)

References 62 publications

(76 reference statements)

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“…All IS families in our strains were reported previously in Corynebacterium striatum isolates [63,66]. In this species, IS110, IS30, IS21, and especially IS3 and IS256 families were associated with antimicrobial resistance [63,66]. The association of IS families with antimicrobial resistance was also verified for other Corynebacterium species, including C. diphtheriae (IS3) and Corynebacterium jeikeium (IS3 and IS256) [66].…”

Section: Discussionsupporting

confidence: 80%

“…Among those, IS3, one of the largest IS families widely distributed in nature [66], had the highest number of copies in the C. rouxii strains. All IS families in our strains were reported previously in Corynebacterium striatum isolates [63,66]. In this species, IS110, IS30, IS21, and especially IS3 and IS256 families were associated with antimicrobial resistance [63,66].…”

Section: Discussionsupporting

confidence: 74%

“…A particular bacterial genome can present different types of IS in a wide range of copy numbers. They can move within the genome and be horizontally transferred as part of other mobile elements, such as phages and plasmids, and they can affect the genome structure and gene expression [63][64][65]. Presently, seven IS families were found in C. rouxii genomes (IS110, IS21, IS256, IS3, IS30, IS5 and ISL3).…”

Section: Discussionmentioning

confidence: 99%

See 2 more Smart Citations

First Pangenome of Corynebacterium rouxii, a Potentially Toxigenic Species of Corynebacterium diphtheriae Complex

Prates,

Araújo,

Sousa

et al. 2024

Bacteria

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Corynebacterium rouxii is one of the recently described species of the Corynebacterium diphtheriae complex. As this species can potentially infect different hosts and harbor the tox gene, producing diphtheria toxin, we present its first pangenomic analysis in this work. A total of fifteen genomes deposited in online databases were included. After confirming the taxonomic position of the isolates by genomic taxonomy, the genomes were submitted to genomic plasticity, gene synteny, and pangenome prediction analyses. In addition, virulence and antimicrobial resistance genes were investigated. Finally, epidemiological data were obtained through molecular typing, clustering, and phylogenetic analysis. Our data demonstrated genetic diversity within the species with low synteny. However, the gene content is extensively conserved, and the pangenome is composed of 2606 gene families, of which 1916 are in the core genome and 80 are related to unique genes. Prophages, insertion sequences, and genomic islands were found. A type I-E CRISPR-Cas system was also detected. Besides the tox gene, determinants involved in adhesion and iron acquisition and two putative antimicrobial resistance genes were predicted. These findings provide valuable insight about this species’ pathogenicity, evolution, and diversity. In the future, our data can contribute to different areas, including vaccinology and epidemiology.

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Section: Discussionsupporting

confidence: 80%

Section: Discussionsupporting

confidence: 74%

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

First Pangenome of Corynebacterium rouxii, a Potentially Toxigenic Species of Corynebacterium diphtheriae Complex

Prates,

Araújo,

Sousa

et al. 2024

Bacteria

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The pan-genome of the emerging multidrug-resistant pathogen Corynebacterium striatum

Jesus

Ramos

Rocha

et al. 2022

Funct Integr Genomics

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Corynebacterium striatum, a common constituent of the human skin microbiome, is now considered an emerging multidrug-resistant pathogen of immunocompromised and chronically ill patients. However, little is known about the molecular mechanisms in the transition from colonization to the multidrugresistant (MDR) invasive phenotype in clinical isolates. This study performed a comprehensive pangenomic analysis of C. striatum, including isolates from 'normal skin microbiome' and from MDR infections, to gain insights into genetic factors contributing to pathogenicity and multidrug resistance in this species. For this, three novel genome sequences were obtained from clinical isolates of C. striatum of patients from Brazil, and other 24 complete or draft C. striatum genomes were retrieved from GenBank, including the ATCC6940 isolate from the Human Microbiome Project. Analysis of C. striatum strains demonstrated the presence of an open pan-genome (α = 0.852803) containing 3,816 gene families, including 15 antimicrobial resistance (AMR) genes and 32 putative virulence factors. The core and accessory genomes included 1,297 and 1,307 genes, respectively. The identi ed AMR genes are primarily associated with resistance to aminoglycosides and tetracyclines. Of these, 66.6% are present in genomic islands, and four AMR genes, including aac(6')-ib7, are located in a class 1-integron. In conclusion, our data indicated that C. striatum possesses genomic characteristics favorable to the invasive phenotype, with high genomic plasticity, a robust genetic arsenal for iron acquisition, and important virulence determinants and AMR genes present in mobile genetic elements.

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Pangenome analysis of Corynebacterium striatum: insights into a neglected multidrug-resistant pathogen

Nageeb,

Hetta

2023

BMC Microbiol

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Background Over the past two decades, Corynebacterium striatum has been increasingly isolated from clinical cultures with most isolates showing increased antimicrobial resistance (AMR) to last resort agents. Advances in the field of pan genomics would facilitate the understanding of the clinical significance of such bacterial species previously thought to be among commensals paving the way for identifying new drug targets and control strategies. Methods We constructed a pan-genome using 310 genome sequences of C. striatum. Pan-genome analysis was performed using three tools including Roary, PIRATE, and PEPPAN. AMR genes and virulence factors have been studied in relation to core genome phylogeny. Genomic Islands (GIs), Integrons, and Prophage regions have been explored in detail. Results The pan-genome ranges between a total of 5253–5857 genes with 2070 − 1899 core gene clusters. Some antimicrobial resistance genes have been identified in the core genome portion, but most of them were located in the dispensable genome. In addition, some well-known virulence factors described in pathogenic Corynebacterium species were located in the dispensable genome. A total of 115 phage species have been identified with only 44 intact prophage regions. Conclusion This study presents a detailed comparative pangenome report of C. striatum. The species show a very slowly growing pangenome with relatively high number of genes in the core genome contributing to lower genomic variation. Prophage elements carrying AMR and virulence elements appear to be infrequent in the species. GIs appear to offer a prominent role in mobilizing antibiotic resistance genes in the species and integrons occur at a frequency of 50% in the species. Control strategies should be directed against virulence and resistance determinants carried on the core genome and those frequently occurring in the accessory genome.

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Beyond to the Stable: Role of the Insertion Sequences as Epidemiological Descriptors in Corynebacterium striatum

Cited by 3 publications

References 62 publications

First Pangenome of Corynebacterium rouxii, a Potentially Toxigenic Species of Corynebacterium diphtheriae Complex

First Pangenome of Corynebacterium rouxii, a Potentially Toxigenic Species of Corynebacterium diphtheriae Complex

The pan-genome of the emerging multidrug-resistant pathogen Corynebacterium striatum

Pangenome analysis of Corynebacterium striatum: insights into a neglected multidrug-resistant pathogen

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