Abundance and prevalence of ESBL coding genes in patients undergoing first line eradication therapy for Helicobacter pylori

Simple item page
dc.contributor.authorGudra, Dita
dc.contributor.authorSilamikelis, Ivars
dc.contributor.authorPjalkovskis, Janis
dc.contributor.authorDanenberga, Ilva
dc.contributor.authorPupola, Darta
dc.contributor.authorSkenders, Girts
dc.contributor.authorUstinova, Maija
dc.contributor.authorMegnis, Kaspars
dc.contributor.authorLeja, Marcis
dc.contributor.authorVangravs, Reinis
dc.contributor.authorFridmanis, Davids
dc.date.accessioned2024-04-10T13:15:01Z
dc.date.available2024-04-10T13:15:01Z
dc.date.issued2023-08
dc.descriptionPublisher Copyright: © 2023 Gudra et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
dc.description.abstractThe spread of extended-spectrum beta-lactamases (ESBLs) in nosocomial and community-acquired enterobacteria is an important challenge for clinicians due to the limited therapeutic options for infections that are caused by these organisms. Here, we developed a panel of ESBL coding genes, evaluated the abundance and prevalence of ESBL encoding genes in patients undergoing H. pylori eradication therapy, and summarized the effects of eradication therapy on functional profiles of the gut microbiome. To assess the repertoire of known beta lactamase (BL) genes, they were divided into clusters according to their evolutionary relation. Primers were designed for amplification of cluster marker regions, and the efficiency of this amplification panel was assessed in 120 fecal samples acquired from 60 patients undergoing H. pylori eradication therapy. In addition, fecal samples from an additional 30 patients were used to validate the detection efficiency of the developed ESBL panel. The presence for majority of targeted clusters was confirmed by NGS of amplification products. Metagenomic sequencing revealed that the abundance of ESBL genes within the pool of microorganisms was very low. The global relative abundances of the ESBL-coding gene clusters did not differ significantly among treatment states. However, at the level of each cluster, classical ESBL producers such as Klebsiella sp. for blaOXY (p = 0.0076), Acinetobacter sp. for blaADC (p = 0.02297) and others, differed significantly with a tendency to decrease compared to the pre- and post-eradication states. Only 13 clusters were common across all three datasets, suggesting a patient-specific distribution profile of ESBL-coding genes. The number of AMR genes detected in the post-eradication state was higher than that in the pre-eradication state, which could be attributed, at least in part, to the therapy. This study demonstrated that the ESBL screening panel was effective in targeting ESBL-coding gene clusters from bacterial DNA and that minor differences exist in the abundance and prevalence of ESBL-coding gene levels before and after eradication therapy.en
dc.description.statusPeer reviewed
dc.format.extent2265074
dc.identifier.citationGudra, D, Silamikelis, I, Pjalkovskis, J, Danenberga, I, Pupola, D, Skenders, G, Ustinova, M, Megnis, K, Leja, M, Vangravs, R & Fridmanis, D 2023, 'Abundance and prevalence of ESBL coding genes in patients undergoing first line eradication therapy for Helicobacter pylori', PloS one, vol. 18, e0289879. https://doi.org/10.1371/journal.pone.0289879
dc.identifier.doi10.1371/journal.pone.0289879
dc.identifier.issn1932-6203
dc.identifier.urihttps://dspace.rsu.lv/jspui/handle/123456789/15428
dc.identifier.urlhttp://www.scopus.com/inward/record.url?scp=85167673641&partnerID=8YFLogxK
dc.language.isoeng
dc.relation.ispartofPloS one
dc.rightsinfo:eu-repo/semantics/openAccess
dc.subject3.1 Basic medicine
dc.subject3.2 Clinical medicine
dc.subject1.1. Scientific article indexed in Web of Science and/or Scopus database
dc.subjectGeneral
dc.titleAbundance and prevalence of ESBL coding genes in patients undergoing first line eradication therapy for Helicobacter pylorien
dc.type/dk/atira/pure/researchoutput/researchoutputtypes/contributiontojournal/article

Files

Original bundle
Now showing 1 - 1 of 1
No Thumbnail Available
Name:
journal.pone.0289879.pdf
Size:
2.16 MB
Format:
Adobe Portable Document Format
Download

Collections

Research outputs from Pure / Zinātniskās darbības rezultāti no ZDIS Pure