Whole genome sequencing of uropathogenic E. coli from Ireland reveals diverse resistance mechanisms and strong correlation with phenotypic (EUCAST) susceptibility testing
In this study, we analysed 57 UPEC isolates from different UTI patients following EUCAST guidelines. A selection of 17 representative strains underwent WGS, phylotyping, MLST, and comparative analysis to connect laboratory susceptibility data with predictive genomics based on key resistance genes and chromosomal mutations in antimicrobial targets. Trimethoprim resistance consistently correlated with dfr genes, with six different alleles detected among the isolates. These dfr genes often coexisted with class 1 integrons, with the most common gene cassette combining dfr and aadA. Furthermore, 52.9% of isolates harboured the ...
Source: Infection, Genetics and Evolution - May 1, 2024 Category: Genetics & Stem Cells Authors: Shane Whelan Francesca Bottacini Colin Buttimer Karen Finn Brigid Lucey Source Type: research
Whole genome sequencing of uropathogenic E. coli from Ireland reveals diverse resistance mechanisms and strong correlation with phenotypic (EUCAST) susceptibility testing
In this study, we analysed 57 UPEC isolates from different UTI patients following EUCAST guidelines. A selection of 17 representative strains underwent WGS, phylotyping, MLST, and comparative analysis to connect laboratory susceptibility data with predictive genomics based on key resistance genes and chromosomal mutations in antimicrobial targets. Trimethoprim resistance consistently correlated with dfr genes, with six different alleles detected among the isolates. These dfr genes often coexisted with class 1 integrons, with the most common gene cassette combining dfr and aadA. Furthermore, 52.9% of isolates harboured the ...
Source: Infection, Genetics and Evolution - May 1, 2024 Category: Genetics & Stem Cells Authors: Shane Whelan Francesca Bottacini Colin Buttimer Karen Finn Brigid Lucey Source Type: research
Whole genome sequencing of uropathogenic E. coli from Ireland reveals diverse resistance mechanisms and strong correlation with phenotypic (EUCAST) susceptibility testing
In this study, we analysed 57 UPEC isolates from different UTI patients following EUCAST guidelines. A selection of 17 representative strains underwent WGS, phylotyping, MLST, and comparative analysis to connect laboratory susceptibility data with predictive genomics based on key resistance genes and chromosomal mutations in antimicrobial targets. Trimethoprim resistance consistently correlated with dfr genes, with six different alleles detected among the isolates. These dfr genes often coexisted with class 1 integrons, with the most common gene cassette combining dfr and aadA. Furthermore, 52.9% of isolates harboured the ...
Source: Infection, Genetics and Evolution - May 1, 2024 Category: Genetics & Stem Cells Authors: Shane Whelan Francesca Bottacini Colin Buttimer Karen Finn Brigid Lucey Source Type: research
Whole genome sequencing of uropathogenic E. coli from Ireland reveals diverse resistance mechanisms and strong correlation with phenotypic (EUCAST) susceptibility testing
In this study, we analysed 57 UPEC isolates from different UTI patients following EUCAST guidelines. A selection of 17 representative strains underwent WGS, phylotyping, MLST, and comparative analysis to connect laboratory susceptibility data with predictive genomics based on key resistance genes and chromosomal mutations in antimicrobial targets. Trimethoprim resistance consistently correlated with dfr genes, with six different alleles detected among the isolates. These dfr genes often coexisted with class 1 integrons, with the most common gene cassette combining dfr and aadA. Furthermore, 52.9% of isolates harboured the ...
Source: Infection, Genetics and Evolution - May 1, 2024 Category: Genetics & Stem Cells Authors: Shane Whelan Francesca Bottacini Colin Buttimer Karen Finn Brigid Lucey Source Type: research
fim3-24/ptxP-3 genotype is associated to whooping cough outbreak in Brazilian Midwest: The selection of Bordetella pertussis strains driven by vaccine immunization
Infect Genet Evol. 2024 Apr 26:105599. doi: 10.1016/j.meegid.2024.105599. Online ahead of print.ABSTRACTWhopping cough (or Pertussis) is an acute infectious respiratory disease caused by Bordetella pertussis bacteria. The disease is highly transmissible and can be fatal in children under two years old. Since the introduction of vaccine immunization in 1940, Pertussis incidence decreased worldwide. In Brazil, the immunization was introduced in 1977 using the whole cell (wP) vaccine. Despite the high vaccination coverage, an unexpected increase in the number of observed Pertussis cases was observed in 2012. In this year, 225...
Source: Infection, Genetics and Evolution - April 28, 2024 Category: Genetics & Stem Cells Authors: Victor Gomes de Paula Rayane Sarafim de Sousa Rafaella Christina Moreira Rocha da Silva Everton Giovani Alves Alexandre Rodrigues Caetano Patr ícia Ianella Tatiana Amabile de Campos Source Type: research
fim3-24/ptxP-3 genotype is associated to whooping cough outbreak in Brazilian Midwest: The selection of Bordetella pertussis strains driven by vaccine immunization
Infect Genet Evol. 2024 Apr 26:105599. doi: 10.1016/j.meegid.2024.105599. Online ahead of print.ABSTRACTWhopping cough (or Pertussis) is an acute infectious respiratory disease caused by Bordetella pertussis bacteria. The disease is highly transmissible and can be fatal in children under two years old. Since the introduction of vaccine immunization in 1940, Pertussis incidence decreased worldwide. In Brazil, the immunization was introduced in 1977 using the whole cell (wP) vaccine. Despite the high vaccination coverage, an unexpected increase in the number of observed Pertussis cases was observed in 2012. In this year, 225...
Source: Infection, Genetics and Evolution - April 28, 2024 Category: Genetics & Stem Cells Authors: Victor Gomes de Paula Rayane Sarafim de Sousa Rafaella Christina Moreira Rocha da Silva Everton Giovani Alves Alexandre Rodrigues Caetano Patr ícia Ianella Tatiana Amabile de Campos Source Type: research
fim3-24/ptxP-3 genotype is associated to whooping cough outbreak in Brazilian Midwest: The selection of Bordetella pertussis strains driven by vaccine immunization
Infect Genet Evol. 2024 Apr 26:105599. doi: 10.1016/j.meegid.2024.105599. Online ahead of print.ABSTRACTWhopping cough (or Pertussis) is an acute infectious respiratory disease caused by Bordetella pertussis bacteria. The disease is highly transmissible and can be fatal in children under two years old. Since the introduction of vaccine immunization in 1940, Pertussis incidence decreased worldwide. In Brazil, the immunization was introduced in 1977 using the whole cell (wP) vaccine. Despite the high vaccination coverage, an unexpected increase in the number of observed Pertussis cases was observed in 2012. In this year, 225...
Source: Infection, Genetics and Evolution - April 28, 2024 Category: Genetics & Stem Cells Authors: Victor Gomes de Paula Rayane Sarafim de Sousa Rafaella Christina Moreira Rocha da Silva Everton Giovani Alves Alexandre Rodrigues Caetano Patr ícia Ianella Tatiana Amabile de Campos Source Type: research
Molecular epidemiology of HIV among people who inject drugs after the HIV-outbreak in Athens, Greece: Evidence for a 'slow burn' outbreak
CONCLUSIONS: The substantial proportion of clustered infections (93.5%) during 2016-2019 implies a persistent 'slow burn' HIV outbreak among PWID in Athens, suggesting that the outbreak was not successfully eliminated. The consistently high proportion of clustered sequences since the onset of the outbreak suggests the persistence of ongoing HIV-1 transmission attributed to injection practices. Our findings underscore the importance of targeted interventions among PWID, considering the ongoing transmission rate and prolonged time from infection to diagnosis.PMID:38663466 | DOI:10.1016/j.meegid.2024.105597 (Source: Infection...
Source: Infection, Genetics and Evolution - April 25, 2024 Category: Genetics & Stem Cells Authors: Evangelia Georgia Kostaki Sotirios Roussos Anastasia Maria Kefala Stefanos Limnaios Mina Psichogiou Eleni Papachristou Georgios Nikolopoulos Eleni Flountzi Samuel R Friedman Pagona Lagiou Angelos Hatzakis Vana Sypsa Gkikas Magiorkinis Apostolos Beloukas D Source Type: research
Molecular epidemiology of HIV among people who inject drugs after the HIV-outbreak in Athens, Greece: Evidence for a 'slow burn' outbreak
CONCLUSIONS: The substantial proportion of clustered infections (93.5%) during 2016-2019 implies a persistent 'slow burn' HIV outbreak among PWID in Athens, suggesting that the outbreak was not successfully eliminated. The consistently high proportion of clustered sequences since the onset of the outbreak suggests the persistence of ongoing HIV-1 transmission attributed to injection practices. Our findings underscore the importance of targeted interventions among PWID, considering the ongoing transmission rate and prolonged time from infection to diagnosis.PMID:38663466 | DOI:10.1016/j.meegid.2024.105597 (Source: Infection...
Source: Infection, Genetics and Evolution - April 25, 2024 Category: Genetics & Stem Cells Authors: Evangelia Georgia Kostaki Sotirios Roussos Anastasia Maria Kefala Stefanos Limnaios Mina Psichogiou Eleni Papachristou Georgios Nikolopoulos Eleni Flountzi Samuel R Friedman Pagona Lagiou Angelos Hatzakis Vana Sypsa Gkikas Magiorkinis Apostolos Beloukas D Source Type: research
Molecular epidemiology of HIV among people who inject drugs after the HIV-outbreak in Athens, Greece: Evidence for a 'slow burn' outbreak
CONCLUSIONS: The substantial proportion of clustered infections (93.5%) during 2016-2019 implies a persistent 'slow burn' HIV outbreak among PWID in Athens, suggesting that the outbreak was not successfully eliminated. The consistently high proportion of clustered sequences since the onset of the outbreak suggests the persistence of ongoing HIV-1 transmission attributed to injection practices. Our findings underscore the importance of targeted interventions among PWID, considering the ongoing transmission rate and prolonged time from infection to diagnosis.PMID:38663466 | DOI:10.1016/j.meegid.2024.105597 (Source: Infection...
Source: Infection, Genetics and Evolution - April 25, 2024 Category: Genetics & Stem Cells Authors: Evangelia Georgia Kostaki Sotirios Roussos Anastasia Maria Kefala Stefanos Limnaios Mina Psichogiou Eleni Papachristou Georgios Nikolopoulos Eleni Flountzi Samuel R Friedman Pagona Lagiou Angelos Hatzakis Vana Sypsa Gkikas Magiorkinis Apostolos Beloukas D Source Type: research
Comparative analysis of the antimicrobial resistance and virulence traits in ESBL-producing-Klebsiella pneumoniae ST307 strains colonizing the gastrointestinal tract and causing a fatal bloodstream infection in a leukemia patient
Infect Genet Evol. 2024 Apr 21:105598. doi: 10.1016/j.meegid.2024.105598. Online ahead of print.ABSTRACTKlebsiella pneumoniae is an opportunistic pathogen that can colonize the gastrointestinal tract (GIT) of humans. The mechanisms underlying the successful translocation of this pathogen to cause extra-intestinal infections remain unknown, although virulence and antimicrobial resistance traits likely play significant roles in the establishment of infections. We investigated K. pneumoniae strains isolated from GIT colonization (strains Kp_FZcol-1, Kp_FZcol-2 and Kp_FZcro-1) and from a fatal bloodstream infection (strain Kp_...
Source: Infection, Genetics and Evolution - April 23, 2024 Category: Genetics & Stem Cells Authors: Luana Boff Humberl ânia de Sousa Duarte Gabriela Bergiante Kraychete Gabriel Taddeucci-Rocha Bianca Diniz Oliveira Rodolpho Mattos Albano Ana Paula D'Alincourt Carvalho-Assef Silvana Vargas Superti Ianick Souto Martins Renata Cristina Pic ão Source Type: research
Comparative analysis of the antimicrobial resistance and virulence traits in ESBL-producing-Klebsiella pneumoniae ST307 strains colonizing the gastrointestinal tract and causing a fatal bloodstream infection in a leukemia patient
Infect Genet Evol. 2024 Apr 21:105598. doi: 10.1016/j.meegid.2024.105598. Online ahead of print.ABSTRACTKlebsiella pneumoniae is an opportunistic pathogen that can colonize the gastrointestinal tract (GIT) of humans. The mechanisms underlying the successful translocation of this pathogen to cause extra-intestinal infections remain unknown, although virulence and antimicrobial resistance traits likely play significant roles in the establishment of infections. We investigated K. pneumoniae strains isolated from GIT colonization (strains Kp_FZcol-1, Kp_FZcol-2 and Kp_FZcro-1) and from a fatal bloodstream infection (strain Kp_...
Source: Infection, Genetics and Evolution - April 23, 2024 Category: Genetics & Stem Cells Authors: Luana Boff Humberl ânia de Sousa Duarte Gabriela Bergiante Kraychete Gabriel Taddeucci-Rocha Bianca Diniz Oliveira Rodolpho Mattos Albano Ana Paula D'Alincourt Carvalho-Assef Silvana Vargas Superti Ianick Souto Martins Renata Cristina Pic ão Source Type: research
Comparative analysis of the antimicrobial resistance and virulence traits in ESBL-producing-Klebsiella pneumoniae ST307 strains colonizing the gastrointestinal tract and causing a fatal bloodstream infection in a leukemia patient
Infect Genet Evol. 2024 Apr 21:105598. doi: 10.1016/j.meegid.2024.105598. Online ahead of print.ABSTRACTKlebsiella pneumoniae is an opportunistic pathogen that can colonize the gastrointestinal tract (GIT) of humans. The mechanisms underlying the successful translocation of this pathogen to cause extra-intestinal infections remain unknown, although virulence and antimicrobial resistance traits likely play significant roles in the establishment of infections. We investigated K. pneumoniae strains isolated from GIT colonization (strains Kp_FZcol-1, Kp_FZcol-2 and Kp_FZcro-1) and from a fatal bloodstream infection (strain Kp_...
Source: Infection, Genetics and Evolution - April 23, 2024 Category: Genetics & Stem Cells Authors: Luana Boff Humberl ânia de Sousa Duarte Gabriela Bergiante Kraychete Gabriel Taddeucci-Rocha Bianca Diniz Oliveira Rodolpho Mattos Albano Ana Paula D'Alincourt Carvalho-Assef Silvana Vargas Superti Ianick Souto Martins Renata Cristina Pic ão Source Type: research
KPC-2-producing Enterobacterales from ready-to-eat food to hospitalized patients
Infect Genet Evol. 2024 Apr 19:105596. doi: 10.1016/j.meegid.2024.105596. Online ahead of print.ABSTRACTFoodstuffs are a well-documented source of multidrug-resistant bacteria, and hospitalized patients are usually susceptible to hospital infections owing to their immune status. Therefore, this study aimed to investigate the presence of beta-lactamase-producing Enterobacterales in ready-to-eat foods consumed by hospitalized patients. For this purpose, 51 vegetable and meat samples were collected over 2 months and analyzed. Enterobacterales isolates were identified and subjected to antimicrobial susceptibility testing, foll...
Source: Infection, Genetics and Evolution - April 21, 2024 Category: Genetics & Stem Cells Authors: Bianca Lara Ven âncio de Godoy Marlon do Valle Barroso Yasmin Fontoura de Azeredo Louren ção Let ícia Kellen de Andrade Vit ória Gabriela Tosta Rodrigues Caroline Atu í Ana Caroline do Valle Ta ís Paulino Ferreira Mara Corr êa Lelles Nogueira Tiag Source Type: research
Novel clades of tick-borne pathogenic nairoviruses in Europe
Infect Genet Evol. 2024 Apr 16;121:105593. doi: 10.1016/j.meegid.2024.105593. Online ahead of print.ABSTRACTMembers of the Orthonairovirus genus (family Nairoviridae) include many tick-borne viruses of significant human and animal health impact, with several recently-documented pathogenic viruses lacking sufficient epidemiological information. We screened 215 adult ticks of seven species collected in Bulgaria, Georgia, Latvia and Poland for orthonairoviruses, followed by nanopore sequencing (NS) for genome characterization. Initial generic amplification revealed Sulina virus (SULV, Orthonairovirus sulinaense), for which an...
Source: Infection, Genetics and Evolution - April 18, 2024 Category: Genetics & Stem Cells Authors: Koray Ergunay Brian P Bourke Drew D Reinbold-Wasson Laura Caicedo-Quiroga Nataliya Vaydayko Giorgi Kirkitadze Tamar Chunashvili Cynthia L Tucker Yvonne-Marie Linton Source Type: research
