Evolution of horizontal transmission in antimicrobial resistance plasmids

Dimitriu, Tatiana

doi:10.1099/mic.0.001214

Cited by 32 publications

(19 citation statements)

References 140 publications

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“…Carbapenem-resistant infections secondary to Enterobacterales or P. aeruginosa are of serious clinical worldwide concern, because the antimicrobial clinical treatment options are limited due to harbor resistance mechanisms inherent to many antibiotic classes [18]. Gram-negative bacteria are promiscuous microorganisms capable of sharing information mostly located in plasmids [19]. Epidemiological information has been kept relevant for many years in order to satisfy WHO recommendations regarding to the research of antimicrobial resistance [20].…”

Section: Discussionmentioning

confidence: 99%

Comparison of Lateral Flow Immunochromatography and Phenotypic Assays to PCR for the Detection of Carbapenemase-Producing Gram-Negative Bacteria, a Multicenter Experience in Mexico

et al. 2023

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The identification of carbapenemase-producing Enterobacterales and Pseudomonas aeruginosa is important for treating and controlling hospital infections. The recommended methods for their identification require a long waiting time, technical training, and expertise. Lateral flow immunoassays such as NG-Test CARBA 5® overcome these needs. We analyzed 84 clinical isolates of carbapenem-resistant Enterobacterales and P. aeruginosa from four different hospitals in a two-year period. Antimicrobial resistance patterns were confirmed with the broth dilution method. Evaluation of KPC, VIM, NDM, IMP, and OXA-48-like enzymes was performed and compared to NG-Test CARBA 5 and phenotypic assays. Enterobacterales represented 69% of isolates and P. aeruginosa represented 31%. Carbapenemase-producing strains were 51 (88%) of Enterobacterales and 23 (88.4%) of P. aeruginosa; 20 (34%) and 23 (88%) were Class B ß-lactamases, respectively. The NG-Test CARBA 5® assay for Enterobacterales showed high sensitivity (98%), specificity (100%), and PPV (100%); however, it did not for P. aeruginosa. The Kappa concordance coefficient was 0.92 for Enterobacterales and 0.52 for P. aeruginosa. NG-Test CARBA 5® is a fast and easy-to-use assay. In Enterobacterales, we found excellent agreement in our comparison with molecular tests. Despite the low agreement in P. aeruginosa, we suggest that this test could be used as a complementary tool.

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Section: Discussionmentioning

confidence: 99%

Comparison of Lateral Flow Immunochromatography and Phenotypic Assays to PCR for the Detection of Carbapenemase-Producing Gram-Negative Bacteria, a Multicenter Experience in Mexico

et al. 2023

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“…Also in bovine ETEC strains, a wide variety of multi-replicon IncF-base plasmids were identified ( Mainil et al, 1992 ). Even though the high diversity of conjugative plasmids is worrying, horizontal transmission of MGEs is often blocked due to the presence of existing incompatible plasmids in the bacterial recipient ( Dimitriu, 2022 ). This mechanism is also referred to as entry exclusion which results in inefficient conjugation during consecutive conjugation rounds ( Garcillán-Barcia and de la Cruz, 2008 ).…”

Section: Discussionmentioning

confidence: 99%

Virotyping and genetic antimicrobial susceptibility testing of porcine ETEC/STEC strains and associated plasmid types

et al. 2023

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IntroductionEnterotoxigenic Escherichia coli (ETEC) infections are the most common cause of secretory diarrhea in suckling and post-weaning piglets. For the latter, Shiga toxin-producing Escherichia coli (STEC) also cause edema disease. This pathogen leads to significant economic losses. ETEC/STEC strains can be distinguished from general E. coli by the presence of different host colonization factors (e.g., F4 and F18 fimbriae) and various toxins (e.g., LT, Stx2e, STa, STb, EAST-1). Increased resistance against a wide variety of antimicrobial drugs, such as paromomycin, trimethoprim, and tetracyclines, has been observed. Nowadays, diagnosing an ETEC/STEC infection requires culture-dependent antimicrobial susceptibility testing (AST) and multiplex PCRs, which are costly and time-consuming.MethodsHere, nanopore sequencing was used on 94 field isolates to assess the predictive power, using the meta R package to determine sensitivity and specificity and associated credibility intervals of genotypes associated with virulence and AMR.ResultsGenetic markers associated with resistance for amoxicillin (plasmid-encoded TEM genes), cephalosporins (ampC promoter mutations), colistin (mcr genes), aminoglycosides (aac(3) and aph(3) genes), florfenicol (floR), tetracyclines (tet genes), and trimethoprim-sulfa (dfrA genes) could explain most acquired resistance phenotypes. Most of the genes were plasmid-encoded, of which some collocated on a multi-resistance plasmid (12 genes against 4 antimicrobial classes). For fluoroquinolones, AMR was addressed by point mutations within the ParC and GyrA proteins and the qnrS1 gene. In addition, long-read data allowed to study the genetic landscape of virulence- and AMR-carrying plasmids, highlighting a complex interplay of multi-replicon plasmids with varying host ranges.ConclusionOur results showed promising sensitivity and specificity for the detection of all common virulence factors and most resistance genotypes. The use of the identified genetic hallmarks will contribute to the simultaneous identification, pathotyping, and genetic AST within a single diagnostic test. This will revolutionize future quicker and more cost-efficient (meta)genomics-driven diagnostics in veterinary medicine and contribute to epidemiological studies, monitoring, tailored vaccination, and management.

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“…Plasmids have been a major focus of microbiology not only for their biotechnological applications to molecular biology [12][13][14][15] but also for their role in the evolution and dissemination of genes for antibiotic resistance 16,17 , which is a growing global public health concern 18 . However, outside the spotlight lie a group of plasmids that appear to lack genetic functions of interest and that do not contain genes encoding obvious beneficial functions to their hosts 19,20 .…”

Section: Introductionmentioning

confidence: 99%

A highly conserved and globally prevalent cryptic plasmid is among the most numerous mobile genetic elements in the human gut

Fogarty

Schechter

Lolans

et al. 2023

Preprint

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Plasmids are extrachromosomal genetic elements that often encode fitness enhancing features. However, many bacteria carry 'cryptic' plasmids that do not confer clear beneficial functions. We identified one such cryptic plasmid, pBI143, which is ubiquitous across industrialized gut microbiomes, and is 14 times as numerous as crAssphage, currently established as the most abundant genetic element in the human gut. The majority of mutations in pBI143 accumulate in specific positions across thousands of metagenomes, indicating strong purifying selection. pBI143 is monoclonal in most individuals, likely due to the priority effect of the version first acquired, often from one's mother. pBI143 can transfer between Bacteroidales and although it does not appear to impact bacterial host fitness in vivo, can transiently acquire additional genetic content. We identified important practical applications of pBI143, including its use in identifying human fecal contamination and its potential as an inexpensive alternative for detecting human colonic inflammatory states.

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Evolution of horizontal transmission in antimicrobial resistance plasmids

Cited by 32 publications

References 140 publications

Comparison of Lateral Flow Immunochromatography and Phenotypic Assays to PCR for the Detection of Carbapenemase-Producing Gram-Negative Bacteria, a Multicenter Experience in Mexico

Comparison of Lateral Flow Immunochromatography and Phenotypic Assays to PCR for the Detection of Carbapenemase-Producing Gram-Negative Bacteria, a Multicenter Experience in Mexico

Virotyping and genetic antimicrobial susceptibility testing of porcine ETEC/STEC strains and associated plasmid types

A highly conserved and globally prevalent cryptic plasmid is among the most numerous mobile genetic elements in the human gut

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