The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.
A genomic surveillance framework and genotyping tool for Klebsiella pneumoniae and its related species complex
Open accessAbstract
Klebsiella pneumoniae is a leading cause of antimicrobial-resistant (AMR) healthcare-associated infections, neonatal sepsis and community-acquired liver abscess, and is associated with chronic intestinal diseases. Its diversity and complex population structure pose challenges for analysis and interpretation of K. pneumoniae genome data. Here we introduce Kleborate, a tool for analysing genomes of K. pneumoniae and its associated species complex, which consolidates interrogation of key features of proven clinical importance. Kleborate provides a framework to support genomic surveillance and epidemiology in research, clinical and public health settings. To demonstrate its utility we apply Kleborate to analyse publicly available Klebsiella genomes, including clinical isolates from a pan-European study of carbapenemase-producing Klebsiella, highlighting global trends in AMR and virulence as examples of what could be achieved by applying this genomic framework within more systematic genomic surveillance efforts. We also demonstrate the application of Kleborate to detect and type K. pneumoniae from gut metagenomes.
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Magiorakos, A.-P., Srinivasan, A., Carey, R. B., Carmeli, Y., Falagas, M. E., Giske, C. G., Harbarth, S., Hindler, J. F., Kahlmeter, G., Olsson-Liljequist, B., et al. (2012) · Clinical Microbiology and Infection · doi:10.1111/j.1469-0691.2011.03570.x · Cited by 14,449
Mash: fast genome and metagenome distance estimation using MinHash
Ondov, B. D., Treangen, T. J., Melsted, P., Mallonee, A. B., Bergman, N. H., Koren, S., & Phillippy, A. M. (2016) · Genome biology · doi:10.1186/s13059-016-0997-x · Cited by 3,373
Escherichia coli Induces DNA Double-Strand Breaks in Eukaryotic Cells
Nougayrède, J.-P., Homburg, S., Taieb, F., Boury, M., Brzuszkiewicz, E., Gottschalk, G., Buchrieser, C., Hacker, J., Dobrindt, U., & Oswald, E. (2006) · Science · doi:10.1126/science.1127059 · Cited by 1,188
Russo, T. A., Olson, R., MacDonald, U., Beanan, J., & Davidson, B. A. (2015) · Infection and Immunity · doi:10.1128/iai.00430-15 · Cited by 305
Cited by
Federici, S., Kredo-Russo, S., Valdés-Mas, R., Kviatcovsky, D., Weinstock, E., Matiuhin, Y., Silberberg, Y., Atarashi, K., Furuichi, M., Oka, A., et al. (2022) · Cell · doi:10.1016/j.cell.2022.07.003 · Cited by 542
Wang, M., Earley, M., Chen, L., Hanson, B. M., Yu, Y., Liu, Z., Salcedo, S., Cober, E., Li, L., Kanj, S. S., et al. (2022) · The Lancet Infectious Diseases · doi:10.1016/s1473-3099(21)00399-6 · Cited by 363
Néron, B., Littner, E., Haudiquet, M., Perrin, A., Cury, J., & Rocha, E. (2022) · Microorganisms · doi:10.3390/microorganisms10040700 · Cited by 319
Capsules and their traits shape phage susceptibility and plasmid conjugation efficiency
Haudiquet, M., Le Bris, J., Nucci, A., Bonnin, R. A., Domingo-Calap, P., Rocha, E. P. C., & Rendueles, O. (2024) · Nature Communications · doi:10.1038/s41467-024-46147-5 · Cited by 72
Strong pathogen competition in neonatal gut colonisation
Mäklin, T., Thorpe, H. A., Pöntinen, A. K., Gladstone, R. A., Shao, Y., Pesonen, M., McNally, A., Johnsen, P. J., Samuelsen, Ø., Lawley, T. D., et al. (2022) · Nature Communications · doi:10.1038/s41467-022-35178-5 · Cited by 54
Metadata
- Authors
- Lam, M. M. C., Wick, R. R., Watts, S. C., Cerdeira, L. T., Wyres, K. L., & Holt, K. E.
- Venue
- Nature Communications
- Published
- 2021-07-07
- Volume
- 12
- Issue
- 1
- Pages
- 4188-4188
- ISSN
- 2041-1723 (ISSN-L)
- OpenAlex
- W3181261361
- Cited by
- 1,068
- References
- 4
- FWCI
- 37.60
- Type
- journal article
- Language
- en
- Open access
- gold
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- Lam, M. M. C., Wick, R. R., Watts, S. C., Cerdeira, L. T., Wyres, K. L., & Holt, K. E. (2021). A genomic surveillance framework and genotyping tool for Klebsiella pneumoniae and its related species complex. Nature Communications. https://doi.org/10.1038/s41467-021-24448-3
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