Search Results - "Aarestrup, Frank"

In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing by CARATTOLI, Alessandra, ZANKARI, Ea, GARCIA-FERNANDEZ, Aurora, LARSEN, Mette Voldby, LUND, Ole, VILLA, Laura, AARESTRUP, Frank Møller, HASMAN, Henrik

“…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…”
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The livestock reservoir for antimicrobial resistance: a personal view on changing patterns of risks, effects of interventions and the way forward by Aarestrup, Frank M.

“…The purpose of this review was to provide an updated overview on the use of antimicrobial agents in livestock, the associated problems for humans and current…”
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Solving the problem of comparing whole bacterial genomes across different sequencing platforms by Kaas, Rolf S, Leekitcharoenphon, Pimlapas, Aarestrup, Frank M, Lund, Ole

“…Whole genome sequencing (WGS) shows great potential for real-time monitoring and identification of infectious disease outbreaks. However, rapid and reliable…”
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Rapid and precise alignment of raw reads against redundant databases with KMA by Clausen, Philip T L C, Aarestrup, Frank M, Lund, Ole

“…As the cost of sequencing has declined, clinical diagnostics based on next generation sequencing (NGS) have become reality. Diagnostics based on sequencing…”
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A Bacterial Analysis Platform: An Integrated System for Analysing Bacterial Whole Genome Sequencing Data for Clinical Diagnostics and Surveillance by Thomsen, Martin Christen Frølund, Ahrenfeldt, Johanne, Cisneros, Jose Luis Bellod, Jurtz, Vanessa, Larsen, Mette Voldby, Hasman, Henrik, Aarestrup, Frank Møller, Lund, Ole

“…Recent advances in whole genome sequencing have made the technology available for routine use in microbiological laboratories. However, a major obstacle for…”
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Comparative Evaluation of the Antimicrobial Activity of Different Antimicrobial Peptides against a Range of Pathogenic Bacteria by Ebbensgaard, Anna, Mordhorst, Hanne, Overgaard, Michael Toft, Nielsen, Claus Gyrup, Aarestrup, Frank Møller, Hansen, Egon Bech

“…The rapid emergence of resistance to classical antibiotics has increased the interest in novel antimicrobial compounds. Antimicrobial peptides (AMPs) represent…”
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Using sewage for surveillance of antimicrobial resistance by Aarestrup, Frank M, Woolhouse, Mark E J

“…A global system would exploit metagenomic sequencing Antimicrobial resistance (AMR), a cross-cutting and increasing threat to global health ( 1 – 3 ), is a…”
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PointFinder: a novel web tool for WGS-based detection of antimicrobial resistance associated with chromosomal point mutations in bacterial pathogens by Zankari, Ea, Allesøe, Rosa, Joensen, Katrine G, Cavaco, Lina M, Lund, Ole, Aarestrup, Frank M

“…Antibiotic resistance is a major health problem, as drugs that were once highly effective no longer cure bacterial infections. WGS has previously been shown to…”
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Evaluation of whole genome sequencing for outbreak detection of Salmonella enterica by Leekitcharoenphon, Pimlapas, Nielsen, Eva M, Kaas, Rolf S, Lund, Ole, Aarestrup, Frank M

“…Salmonella enterica is a common cause of minor and large food borne outbreaks. To achieve successful and nearly 'real-time' monitoring and identification of…”
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Detection of mobile genetic elements associated with antibiotic resistance in Salmonella enterica using a newly developed web tool: MobileElementFinder by Johansson, Markus H K, Bortolaia, Valeria, Tansirichaiya, Supathep, Aarestrup, Frank M, Roberts, Adam P, Petersen, Thomas N

“…Antimicrobial resistance (AMR) in clinically relevant bacteria is a growing threat to public health globally. In these bacteria, antimicrobial resistance genes…”
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Identification of acquired antimicrobial resistance genes by Zankari, Ea, Hasman, Henrik, Cosentino, Salvatore, Vestergaard, Martin, Rasmussen, Simon, Lund, Ole, Aarestrup, Frank M, Larsen, Mette Voldby

“…Identification of antimicrobial resistance genes is important for understanding the underlying mechanisms and the epidemiology of antimicrobial resistance. As…”
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ResFinder - an open online resource for identification of antimicrobial resistance genes in next-generation sequencing data and prediction of phenotypes from genotypes by Florensa, Alfred Ferrer, Kaas, Rolf Sommer, Clausen, Philip Thomas Lanken Conradsen, Aytan-Aktug, Derya, Aarestrup, Frank M

“…Antimicrobial resistance (AMR) is one of the most important health threats globally. The ability to accurately identify resistant bacterial isolates and the…”
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A metagenomic glimpse into the gut of wild and domestic animals: Quantification of antimicrobial resistance and more by Skarżyńska, Magdalena, Leekitcharoenphon, Pimlapas, Hendriksen, Rene S, Aarestrup, Frank M, Wasyl, Dariusz

“…Antimicrobial resistance (AMR) in bacteria is a complex subject, why one need to look at this phenomenon from a wider and holistic perspective. The extensive…”
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Evaluation of Methods for the Concentration and Extraction of Viruses from Sewage in the Context of Metagenomic Sequencing by Hjelmsø, Mathis Hjort, Hellmér, Maria, Fernandez-Cassi, Xavier, Timoneda, Natàlia, Lukjancenko, Oksana, Seidel, Michael, Elsässer, Dennis, Aarestrup, Frank M, Löfström, Charlotta, Bofill-Mas, Sílvia, Abril, Josep F, Girones, Rosina, Schultz, Anna Charlotte

“…Viral sewage metagenomics is a novel field of study used for surveillance, epidemiological studies, and evaluation of waste water treatment efficiency. In raw…”
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MGmapper: Reference based mapping and taxonomy annotation of metagenomics sequence reads by Petersen, Thomas Nordahl, Lukjancenko, Oksana, Thomsen, Martin Christen Frølund, Maddalena Sperotto, Maria, Lund, Ole, Møller Aarestrup, Frank, Sicheritz-Pontén, Thomas

“…An increasing amount of species and gene identification studies rely on the use of next generation sequence analysis of either single isolate or metagenomics…”
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Real-time whole-genome sequencing for routine typing, surveillance, and outbreak detection of verotoxigenic Escherichia coli by Joensen, Katrine Grimstrup, Scheutz, Flemming, Lund, Ole, Hasman, Henrik, Kaas, Rolf S, Nielsen, Eva M, Aarestrup, Frank M

“…Fast and accurate identification and typing of pathogens are essential for effective surveillance and outbreak detection. The current routine procedure is…”
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Characterization and Genetic Variation of Vibrio cholerae Isolated from Clinical and Environmental Sources in Thailand by Siriphap, Achiraya, Leekitcharoenphon, Pimlapas, Kaas, Rolf S, Theethakaew, Chonchanok, Aarestrup, Frank M, Sutheinkul, Orasa, Hendriksen, Rene S

“…Cholera is still an important public health problem in several countries, including Thailand. In this study, a collection of clinical and environmental V…”
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Detection of specific uncultured bacteriophages by fluorescence in situ hybridisation in pig microbiome by Ostenfeld, Line Jensen, Munk, Patrick, Aarestrup, Frank M, Otani, Saria

“…Microbial communities have huge impacts on their ecosystems and local environments spanning from marine and soil communities to the mammalian gut…”
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Rapid and Easy In Silico Serotyping of Escherichia coli Isolates by Use of Whole-Genome Sequencing Data by Joensen, Katrine G, Tetzschner, Anna M M, Iguchi, Atsushi, Aarestrup, Frank M, Scheutz, Flemming

“…Accurate and rapid typing of pathogens is essential for effective surveillance and outbreak detection. Conventional serotyping of Escherichia coli is a…”
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The Role of Outer Membrane Proteins and Lipopolysaccharides for the Sensitivity of Escherichia coli to Antimicrobial Peptides by Ebbensgaard, Anna, Mordhorst, Hanne, Aarestrup, Frank M, Hansen, Egon B

“…Bacterial resistance to classical antibiotics is emerging worldwide. The number of infections caused by multidrug resistant bacteria is increasing and becoming…”
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