On the effect of alkaline pH and cofactor availability in the conformational and oligomeric state of<i>Escherichia coli</i>glutamate decarboxylase

Giovannercole, Fabio; Mérigoux, C.; Zamparelli, Carlotta; Verzili, Daniela; Grassini, Gaia; Buckle, Malcolm; Vachette, Patrice; Biase, Daniela De

doi:10.1093/protein/gzw076

Cited by 7 publications

(6 citation statements)

References 41 publications

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“…terC, encoding a tellurium iron resistance protein [27]. The gad gene, facilitating survival in acidic environments, and the traT gene, which encodes protections, along with iss, sitA, and hra genes being associated with urinary tract infection, were also prevalent [28,29]. Importantly, the distribution of predominant VFs varied signi cantly among the prevailing clones, highlighting the intricate relationship between genetic backgrounds and virulence traits [30].…”

Section: Discussionmentioning

confidence: 99%

Epidemiological and genomic characteristics of global blaNDM-carrying Escherichia coli

Xia,

Yan,

Liu

et al. 2024

Preprint

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Background Escherichia. coli is the most frequent host for New Delhi metallo-β-lactamase (NDM) which hydrolyzes almost all β-lactams except aztreonam. The worldwide spread of blaNDM-carrying E. coli heavily threatens public health. Objective This study aimed to explore the global genomic epidemiology of blaNDM- carrying E. coli isolates, providing information for preventing the dissemination of such strains. Methods Global E. coli genomes were downloaded from NCBI database and blaNDM was detected using BLASTP. Per software was used to extract meta information on hosts, resources, collection data, and countries of origin from GenBank. The sequence types (STs) and distribution of antimicrobial resistance gene (ARG) were analyzed by CLC Workbench; Plasmid replicons, serotypes and virulence genes (VFs) were analyzed by submitting the genomes to the websites. Statistical analyses were performed to access the relationships among ARGs and plasmid replicons. Results Until March 2023, 1,774 out of 33,055 isolates collected during 2003–2022 were found to contain blaNDM in total. Among them, 15 blaNDM variants were found with blaNDM-5 (74.1%) being most frequent, followed by blaNDM-1 (16.6%) and blaNDM-9 (4.6%). Among the 213 ARGs identified, 27 blaCTX-M and 39 blaTEM variants were found with blaCTX-M-15 (n = 438, 24.7%) and blaTEM-1B (n = 1092, 61.6%) being the most frequent ones, respectively. In addition, 546 (30.8%) plasmids mediated ampC genes, 508 (28.6%) exogenously acquired 16S rRNA methyltransferase encoding genes and 262 (14.8%) mcr were also detected. Among the 232 distinct STs, ST167 (17.2%) were the most prevalent. As for plasmids, more than half of isolates contained IncFII, IncFIB and IncX3. The VF terC, gad, traT and iss as well as the serotypes O101:H9 (n = 231, 13.0%), O8:H9 (n = 115, 6.5%) and O9:H30 (n = 99, 5.6%) were frequently observed. Conclusions The study delves into the intricate relationship between plasmid types, virulence factors, and ARGs, which provides valuable insights for clinical treatment and public health interventions, and serves as a critical resource for guiding future research, surveillance, and implementation of effective strategies to address the challenges posed by blaNDM-carrying E. coli. The findings underscore the urgent need for sustained global collaboration, surveillance efforts, and antimicrobial stewardship to mitigate the impact of these highly resistant strains on public health.

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Section: Discussionmentioning

confidence: 99%

Epidemiological and genomic characteristics of global blaNDM-carrying Escherichia coli

Xia,

Yan,

Liu

et al. 2024

Preprint

View full text Add to dashboard Cite

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“…terC , encoding a tellurium iron resistance protein [ 27 ]. The gad gene, facilitating survival in acidic environments, and the traT gene, which encodes protections, along with iss , sitA , and hra genes being associated with urinary tract infection, were also prevalent [ 28 , 29 ]. Importantly, the distribution of predominant VFs varied significantly among the prevailing clones, highlighting the intricate relationship between genetic backgrounds and virulence traits [ 30 ].…”

Section: Discussionmentioning

confidence: 99%

Epidemiological and genomic characteristics of global blaNDM-carrying Escherichia coli

Xia,

Yan,

Liu

et al. 2024

Ann Clin Microbiol Antimicrob

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Background Escherichia. coli is the most frequent host for New Delhi metallo-β-lactamase (NDM) which hydrolyzes almost all β-lactams except aztreonam. The worldwide spread of blaNDM-carrying E. coli heavily threatens public health. Objective This study aimed to explore the global genomic epidemiology of blaNDM- carrying E. coli isolates, providing information for preventing the dissemination of such strains. Methods Global E. coli genomes were downloaded from NCBI database and blaNDM was detected using BLASTP. Per software was used to extract meta information on hosts, resources, collection data, and countries of origin from GenBank. The sequence types (STs) and distribution of antimicrobial resistance gene (ARG) were analyzed by CLC Workbench; Plasmid replicons, serotypes and virulence genes (VFs) were analyzed by submitting the genomes to the websites. Statistical analyses were performed to access the relationships among ARGs and plasmid replicons. Results Until March 2023, 1,774 out of 33,055 isolates collected during 2003–2022 were found to contain blaNDM in total. Among them, 15 blaNDM variants were found with blaNDM-5 (74.1%) being most frequent, followed by blaNDM-1 (16.6%) and blaNDM-9 (4.6%). Among the 213 ARGs identified, 27 blaCTX-M and 39 blaTEM variants were found with blaCTX-M-15 (n = 438, 24.7%) and blaTEM-1B (n = 1092, 61.6%) being the most frequent ones, respectively. In addition, 546 (30.8%) plasmids mediated ampC genes, 508 (28.6%) exogenously acquired 16 S rRNA methyltransferase encoding genes and 262 (14.8%) mcr were also detected. Among the 232 distinct STs, ST167 (17.2%) were the most prevalent. As for plasmids, more than half of isolates contained IncFII, IncFIB and IncX3. The VF terC, gad, traT and iss as well as the serotypes O101:H9 (n = 231, 13.0%), O8:H9 (n = 115, 6.5%) and O9:H30 (n = 99, 5.6%) were frequently observed. Conclusions The study delves into the intricate relationship between plasmid types, virulence factors, and ARGs, which provides valuable insights for clinical treatment and public health interventions, and serves as a critical resource for guiding future research, surveillance, and implementation of effective strategies to address the challenges posed by blaNDM-carrying E. coli. The findings underscore the urgent need for sustained global collaboration, surveillance efforts, and antimicrobial stewardship to mitigate the impact of these highly resistant strains on public health.

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“…Additionally, iss (increased serum survival) is a virulence gene commonly found in avian pathogenic E. coli; it is associated with the virulence of E. coli and is known to cause colibacillosis in poultry [49]. Furthermore, sitA is epidemiologically associated with avian pathogenic E. coli [50], and gad encodes glutamate decarboxylase, the structural component of the major acid resistance system that protects E. coli from strong acid stress (pH < 3), typically encountered in the mammalian gastrointestinal tract [51]. Considering that CRECs mainly colonize the host intestine, the high prevalence of these VFs among CRECs suggests that they have a lower potential to cause human disease.…”

Section: Discussionmentioning

confidence: 99%

Genomic characteristics of clinical carbapenem-resistant Escherichia coli isolates in a tertiary hospital, 2013–2021

Xie

Han

et al. 2023

Preprint

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Background: Genomic characterization of carbapenem-resistant Escherichia coli (CREC) isolates is necessary to understand its transmission and implement infection control measures, given its potential threat to public health. Method：A total of 100 CREC isolates collected from 2013–2021 at a Nanjing tertiary hospital were analyzed using whole-genome sequencing (WGS). The distribution of resistant determinants (RTs), virulence factors (VFs), multi-locus sequence type (MLST), and FimH types was determined. Furthermore, a phylogenetic tree was constructed to investigate the genetic relationships. Result:All CREC strains (n=100) carried at least one carbapenem hydrolyzing ß-lactamase (CHßL)-encoding gene, with blaNDM (n=83, 83.0%) being the most common. Multiple RTs were detected with blaCTX (n=83, 83.0%) and blaTEM (n=78, 78.0%) being the most dominant ones. MLST identified 37 distinct STs, with ST167 (n=18, 18.0%) and ST410 (n=13, 13.0%) being the most predominant clones. Multiple plasmid replicons were found. The strains displayed 64 different virulence factors, with terC (n=98, 98.0%) and traT (n=76, 76.0%) being the most frequent. Genetic diversity was observed between the 100 CREC isolates, with clonal dissemination of ST167, ST361, ST2179, ST410, and ST131 being observed. Conclusion: The prevalence of blaNDM-5, a major blaCHßLs, is concerning due to its distribution of various co-carried resistance genes and their potential to spread through multiple plasmid replicons. The isolates exhibit genetic diversity based on STs, Fim typing, serotyping, and phylogenetic tree analysis. ST167, ST361, ST2179, ST410, and ST131 are linked to clonal dissemination, highlighting the need for effective infection control measures to prevent their spread.

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On the effect of alkaline pH and cofactor availability in the conformational and oligomeric state ofEscherichia coliglutamate decarboxylase

Cited by 7 publications

References 41 publications

Epidemiological and genomic characteristics of global blaNDM-carrying Escherichia coli

Epidemiological and genomic characteristics of global blaNDM-carrying Escherichia coli

Epidemiological and genomic characteristics of global blaNDM-carrying Escherichia coli

Genomic characteristics of clinical carbapenem-resistant Escherichia coli isolates in a tertiary hospital, 2013–2021

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