Forty years of molecular diagnostics for infectious diseases

JE Schmitz, CW Stratton, DH Persing… - Journal of clinical …, 2022 - journals.asm.org
Nearly 40 years have elapsed since the invention of the PCR, with its extremely sensitive
and specific ability to detect nucleic acids via in vitro enzyme-mediated amplification. In turn …

Whole-genome sequencing of bacterial pathogens: the future of nosocomial outbreak analysis

S Quainoo, JPM Coolen, SAFT van Hijum… - Clinical microbiology …, 2017 - journals.asm.org
Outbreaks of multidrug-resistant bacteria present a frequent threat to vulnerable patient
populations in hospitals around the world. Intensive care unit (ICU) patients are particularly …

ResFinder–an open online resource for identification of antimicrobial resistance genes in next-generation sequencing data and prediction of phenotypes from …

AF Florensa, RS Kaas, PTLC Clausen… - Microbial …, 2022 - microbiologyresearch.org
Antimicrobial resistance (AMR) is one of the most important health threats globally. The
ability to accurately identify resistant bacterial isolates and the individual antimicrobial …

Engineered phage with antibacterial CRISPR–Cas selectively reduce E. coli burden in mice

YE Gencay, D Jasinskytė, C Robert, S Semsey… - Nature …, 2024 - nature.com
Antibiotic treatments have detrimental effects on the microbiome and lead to antibiotic
resistance. To develop a phage therapy against a diverse range of clinically relevant …

Detection of mobile genetic elements associated with antibiotic resistance in Salmonella enterica using a newly developed web tool: MobileElementFinder

MHK Johansson, V Bortolaia… - Journal of …, 2021 - academic.oup.com
Objectives Antimicrobial resistance (AMR) in clinically relevant bacteria is a growing threat
to public health globally. In these bacteria, antimicrobial resistance genes are often …

In Silico Genoty** of Escherichia coli Isolates for Extraintestinal Virulence Genes by Use of Whole-Genome Sequencing Data

AM Malberg Tetzschner, JR Johnson… - Journal of clinical …, 2020 - journals.asm.org
ABSTRACT Extraintestinal pathogenic Escherichia coli (ExPEC) is the leading cause in
humans of urinary tract infection and bacteremia. The previously published web tool …

Fecal microbiota transplantation promotes reduction of antimicrobial resistance by strain replacement

MH Woodworth, RE Conrad, M Haldopoulos… - Science translational …, 2023 - science.org
Multidrug-resistant organism (MDRO) colonization is a fundamental challenge in
antimicrobial resistance. Limited studies have shown that fecal microbiota transplantation …

Open-access bacterial population genomics: BIGSdb software, the PubMLST. org website and their applications

KA Jolley, JE Bray, MCJ Maiden - Wellcome open research, 2018 - pmc.ncbi.nlm.nih.gov
The PubMLST. org website hosts a collection of open-access, curated databases that
integrate population sequence data with provenance and phenotype information for over …

In Silico Detection and Ty** of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Ty**

A Carattoli, E Zankari, A García-Fernández… - Antimicrobial agents …, 2014 - journals.asm.org
In the work presented here, we designed and developed two easy-to-use Web tools for in
silico detection and characterization of whole-genome sequence (WGS) and whole-plasmid …

Rapid and Easy In Silico Seroty** of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data

KG Joensen, AMM Tetzschner, A Iguchi… - Journal of clinical …, 2015 - journals.asm.org
Accurate and rapid ty** of pathogens is essential for effective surveillance and outbreak
detection. Conventional seroty** of Escherichia coli is a delicate, laborious, time …