| Title: |
Diversity, functional classification and genotyping of SHV β-lactamases in Klebsiella pneumoniae |
| Authors: |
Tsang, KK; Lam, MMC; Wick, RR; Wyres, KL; Bachman, M; Baker, S; Barry, K; Brisse, S; Campino, S; Chiaverini, A; Cirillo, DM; Clark, T; Corander, J; Corbella, M; Cornacchia, A; Cuénod, A; D'Alterio, N; Di Marco, F; Donado-Godoy, P; Egli, A; Farzana, R; Feil, EJ; Fostervold, A; Gorrie, CL; Hassan, B; Hetland, MAK; Hoa, LNM; Hoi, LT; Howden, B; Ikhimiukor, OO; Jenney, AWJ; Kaspersen, H; Khokhar, F; Leangapichart, T; Ligowska-Marzęta, M; Löhr, IH; Long, SW; Mathers, AJ; McArthur, AG; Nagaraj, G; Oaikhena, AO; Okeke, IN; Perdigão, J; Parikh, H; Pham, MH; Pomilio, F; Raffelsberger, N; Rakotondrasoa, A; Kumar, KLR; Roberts, LW; Rodrigues, C; Samuelsen, Ø; Sands, K; Sassera, D; Seth-Smith, H; Shamanna, V; Sherry, NL; Sia, S; Spadar, A; Stoesser, N; Sunde, M; Sundsfjord, A; Thach, PN; Thomson, NR; Thorpe, HA; Torok, ME; Trang, VD; Trung, NV; Vornhagen, J; Walsh, T; Warne, B; Wilson, H; Wright, GD; Holt, KE; KlebNET-Gsp Amr Genotype-Phenotype Group |
| Publisher Information: |
Microbiology Society |
| Publication Year: |
2024 |
| Collection: |
The University of Melbourne: Digital Repository |
| Description: |
Interpreting the phenotypes of bla SHV alleles in Klebsiella pneumoniae genomes is complex. Whilst all strains are expected to carry a chromosomal copy conferring resistance to ampicillin, they may also carry mutations in chromosomal bla SHV alleles or additional plasmid-borne bla SHV alleles that have extended-spectrum β-lactamase (ESBL) activity and/or β-lactamase inhibitor (BLI) resistance activity. In addition, the role of individual mutations/a changes is not completely documented or understood. This has led to confusion in the literature and in antimicrobial resistance (AMR) gene databases [e.g. the National Center for Biotechnology Information (NCBI) Reference Gene Catalog and the β-lactamase database (BLDB)] over the specific functionality of individual sulfhydryl variable (SHV) protein variants. Therefore, the identification of ESBL-producing strains from K. pneumoniae genome data is complicated. Here, we reviewed the experimental evidence for the expansion of SHV enzyme function associated with specific aa substitutions. We then systematically assigned SHV alleles to functional classes (WT, ESBL and BLI resistant) based on the presence of these mutations. This resulted in the re-classification of 37 SHV alleles compared with the current assignments in the NCBI's Reference Gene Catalog and/or BLDB (21 to WT, 12 to ESBL and 4 to BLI resistant). Phylogenetic and comparative genomic analyses support that (i) SHV-1 (encoded by bla SHV-1) is the ancestral chromosomal variant, (ii) ESBL- and BLI-resistant variants have evolved multiple times through parallel substitution mutations, (iii) ESBL variants are mostly mobilized to plasmids and (iv) BLI-resistant variants mostly result from mutations in chromosomal bla SHV. We used matched genome-phenotype data from the KlebNET-GSP AMR Genotype-Phenotype Group to identify 3999 K. pneumoniae isolates carrying one or more bla SHV alleles but no other acquired β-lactamases to assess genotype-phenotype relationships for bla SHV. This collection includes human, animal ... |
| Document Type: |
article in journal/newspaper |
| Language: |
English |
| ISSN: |
2057-5858 |
| Relation: |
https://hdl.handle.net/11343/359049 |
| Availability: |
https://hdl.handle.net/11343/359049 |
| Rights: |
https://creativecommons.org/licenses/by/4.0 ; CC BY |
| Accession Number: |
edsbas.D6469B6 |
| Database: |
BASE |