Is this you? As a journalist, you can create a free Muck Rack account to customize your profile, list your contact preferences, and upload a portfolio of your best work.
Claim your profile
Articles by Frank M. Aarestrup
Capacity building for genomic surveillance of mpox and other emerging diseases in resource-limited settings within the African Great Lakes region
Abstract Genomic surveillance has become an indispensable tool for the identification of pathogens and tracking of transmission chains. Building upon the global sequencing and surveillance infrastructure developed and expanded during the COVID-19 pandemic, these capacities are now being adapted to track other pathogens in low- and middle-income countries which remain disproportionately affected by infectious diseases.
Unveiling the global urban virome through wastewater metagenomics
Five years on, Google DeepMind’s AlphaFold shows why science may be AI’s killer app While many businesses continue to seek AI’s killer app, biochemists have already found it. That application is protein folding. This week marks the …
Artificial intelligence and spillover prediction: aligning innovation with empirical reality in One Health surveillance - Authors' reply
In our recent Comment,1 we suggest that different artificial intelligence (AI) applications might improve our ability to predict hotspots for risk-based surveillance and improve prediction of novel pathogens in metagenomes from such surveillance, potentially including host range, disease profiles, and transmission efficacy. We also highlight that AI is unlikely to be the solution to all problems.
Genomic monitoring and tracking of mpox virus clade Ib in Burundi between july to september 2024 - Communications Medicine
Abstract Since the first identification of mpox virus (MPXV) clade Ib in Burundi in July 2024, Burundi is one of the most affected countries in this evolving outbreak outside of the DRC. Here we aimed to understand the route(s) of introduction and spread of MPXV throughout the first months of the outbreak in Burundi. In total, 98 genome sequences from cases diagnosed during the first three months of the outbreak were generated.
Serological evidence of clade Ib Mpox transmission by sex workers and within household in South Kivu, DRC - Nature Communications
Abstract Understanding secondary attack rates is a key knowledge gap in the ongoing clade Ib mpox virus (MPXV) outbreak in the Democratic Republic of the Congo. Here, we report the first cross-sectional serological study to investigate local MPXV clade Ib transmission in South Kivu, DRC. Seropositivity was defined as a detectable titer in a cell lysate-based screening ELISA and confirmation by virus neutralization test.
Epidemiological and genomic evolution of the ongoing outbreak of clade Ib mpox virus in the eastern Democratic Republic of the Congo - Nature Medicine
Abstract In September 2023, an ongoing mpox outbreak emerged in South Kivu (Democratic Republic of the Congo) that spread to other regions and countries. Here we describe the epidemiological and genomic evolution of the outbreak between September 2023 and June 2024. Samples were collected from hospitalized patients, along with data on residence and possible exposures. Employee numbers and locations were recorded for bars with sex workers.
Author Correction: Time-series sewage metagenomics distinguishes seasonal, human-derived and environmental microbial communities potentially allowing source-attributed surveillance | Nature Communications
Correction to: Nature Communications https://doi.org/10.1038/s41467-024-51957-8, published online 30 August 2024 The published version of the article contained an error in the Results section ‘Abundance and diversity of recovered genomes’ in that in the fourth sentence of the fifth paragraph the bacterial genus name was misspelled (changed from ‘Aliorcobacter’ to ‘Aliarcobacter’).
The dynamics of blaTEM resistance genes in Salmonella Typhi - Scientific Reports
Abstract Salmonella Typhi (S. Typhi) is an important pathogen causing typhoid fever worldwide. The emergence of antibiotic resistance, including that of blaTEM genes encoding to TEM \(\:\beta\:\)-lactamases has been observed. This study aimed to investigate the dynamics of blaTEM genes in S. Typhi by analyzing the phylogeny and flanking region patterns and phylogenetic associating them with metadata (year, country) and genomic data (genotypes, antibiotic resistance genes (ARGs), plasmids).
Time-series sewage metagenomics distinguishes seasonal, human-derived and environmental microbial communities potentially allowing source-attributed surveillance | Nature Communications
Abstract Sewage metagenomics has risen to prominence in urban population surveillance of pathogens and antimicrobial resistance (AMR). Unknown species with similarity to known genomes cause database bias in reference-based metagenomics. To improve surveillance, we seek to recover sewage genomes and develop a quantification and correlation workflow for these genomes and AMR over time.
Foodborne Pathogen Dynamics in Meat and Meat Analogues Analysed Using Traditional Microbiology and Metagenomic Sequencing
All articles published by MDPI are made immediately available worldwide under an open access license. No special permission is required to reuse all or part of the article published by MDPI, including figures and tables. For articles published under an open access Creative Common CC BY license, any part of the article may be reused without permission provided that the original article is clearly cited. For more information, please refer to https://www.mdpi.com/openaccess.
Utilizing co-abundances of antimicrobial resistance genes to identify potential co-selection in the resistome
Abstract The rapid spread of antimicrobial resistance (AMR) is a threat to global health, and the nature of co-occurring antimicrobial resistance genes (ARGs) may cause collateral AMR effects once antimicrobial agents are used. Therefore, it is essential to identify which pairs of ARGs co-occur. Given the wealth of NGS data available in public repositories, we have investigated the correlation between ARG abundances in a collection of 214,095 metagenomic datasets.
Importance of mobile genetic elements for dissemination of antimicrobial resistance in metagenomic sewage samples across the world
Loading metrics Open Access Peer-reviewed Research Article Citation: Johansson MHK, Aarestrup FM, Petersen TN (2023) Importance of mobile genetic elements for dissemination of antimicrobial resistance in metagenomic sewage samples across the world. PLoS ONE 18(10): e0293169.
Highly drug resistant clone of Salmonella Kentucky ST198 in clinical infections and poultry in Zimbabwe - npj Antimicrobials and Resistance
Abstract A highly multidrug-resistant strain of Salmonella enterica serotype Kentucky (S. Kentucky) of sequence type (ST)198 emerged in North Africa and has since spread widely. To investigate the genetic diversity and phylogenetic relationship of S. Kentucky in Zimbabwe and identify potential sources of infection, the whole-genome sequence of 37 S. Kentucky strains isolated from human clinical infections and from poultry farms between 2017 and 2020 was determined. Of 37 S.
Detection of specific uncultured bacteriophages by fluorescence in situ hybridisation in pig microbiome
PLOS ONE, Mar 2023 This is a preview of a remote PDF: https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0283676&type=printable Line Jensen Ostenfeld, Patrick Munk, Frank M. Aarestrup, Saria Otani. , PLOS ONE, 2023, Volume 18, Issue 3, DOI: 10.1371/journal.pone.0283676
Utilizing co-abundances of antimicrobial resistance genes to identify potential co-selection in the resistome
New Results doi: https://doi.org/10.1101/2022.12.19.519133 Abstract The rapid spread of antimicrobial resistance (AMR) is a threat to global health, and the nature of co-occurring antimicrobial resistance genes (ARGs) may cause collateral AMR effects once antimicrobial agents are used. Therefore, it is essential to identify which pairs of ARGs co-occur.
A curated data resource of 214K metagenomes for characterization of the global resistome
Thank you for your interest in spreading the word about bioRxiv. NOTE: Your email address is requested solely to identify you as the sender of this article. Your Email * Your Name * Send To * Enter multiple addresses on separate lines or separate them with commas. Message Subject (Your Name) has forwarded a page to you from bioRxiv Message Body (Your Name) thought you would like to see this page from the bioRxiv website.
Emergence of methicillin resistance predates the clinical use of antibiotics - Nature
|
Abstract The discovery of antibiotics more than 80 years ago has led to considerable improvements in human and animal health. Although antibiotic resistance in environmental bacteria is ancient, resistance in human pathogens is thought to be a modern phenomenon that is driven by the clinical use of antibiotics1. Here we show that particular lineages of methicillin-resistant Staphylococcus aureus—a notorious human pathogen—appeared in European hedgehogs in the pre-antibiotic era.
By Jesper Larsen, Xiaoliang Ba, Guillermo F. Padilla-González, Robert L. Skov, Sophie L. Rasmussen, Frank M. Aarestrup, Karsten Becker, Paolo Moroni, Herminia de Lencastre, Emilia Cercenado, Stefan Börjesson, Andrew Waller, Sharon J. Peacock, Julian Parkhill, Geoffrey Foster, Gavin Paterson, Xavier Didelot, Mark Holmes, Ewan M. Harrison, Barbora Černá Bolfíková, Carmen Espinosa-Gongora, Franziska Layer, Hannah J. Jørgensen
|
Nature
Verified
Pandemics- One Health preparedness for the next
1 Introduction The ongoing COVID-19 pandemic has highlighted how extremely vulnerable we are as a society when unforeseen infectious disease events happen.
Analytical Performance Validation of Next-Generation Sequencing Based Clinical Microbiology Assays Using a K-mer Analysis Workflow
Introduction Infections caused by antibiotic resistant bacteria are one of the most serious public health challenges worldwide. Due to overuse and misuse of antibiotics, previously manageable bacterial infections are becoming hard-to-treat (WHO, 2014). In order to effectively address this challenge, fast and comprehensive diagnostic information prior to treatment is of utmost importance (Leekha et al., 2011).
Using sewage for surveillance of antimicrobial resistance
Policy ForumGlobal Health Frank M. Aarestrup1, Mark E. J. Woolhouse2 1Technical University of Denmark, DK-2800 Kgs. Lyngby, Denmark. 2Usher Institute, University of Edinburgh, Edinburgh EH9 3FL, UK. Email: mark.woolhouse{at}ed.ac.uk See allHide authors and affiliations Science 07 Feb 2020: Vol. 367, Issue 6478, pp.
Show More
loading
Actions
Is this you?
As a journalist, you can create a free Muck Rack account to customize your profile, list your contact preferences, and upload a portfolio of your best work.Get in touch with Frank M.
Contact Frank M., search articles and posts on X, monitor coverage, and track replies from one place.
Learn more about Muck Rack