A5023917528- Genomics and Phylogenetic Studies
- Antibiotic Resistance in Bacteria
- Antibiotics Pharmacokinetics and Efficacy
- Chronic Disease Management Strategies
- Pharmaceutical and Antibiotic Environmental Impacts
- HIV/AIDS Research and Interventions
- Pesticide and Herbicide Environmental Studies
- Pneumonia and Respiratory Infections
- RNA and protein synthesis mechanisms
- Microbial Metabolic Engineering and Bioproduction
- Primary Care and Health Outcomes
- Bacterial Identification and Susceptibility Testing
- Migration, Health and Trauma
- Enterobacteriaceae and Cronobacter Research
- Healthcare Systems and Technology
- Interprofessional Education and Collaboration
- Microbial Community Ecology and Physiology
- Molecular Biology Techniques and Applications
- Protein Structure and Dynamics
- Respiratory viral infections research
- Antimicrobial Resistance in Staphylococcus
- Probiotics and Fermented Foods
- Escherichia coli research studies
- Healthcare Quality and Management
- Advanced Numerical Methods in Computational Mathematics
UK Health Security Agency
2023-2025
Université Paris-Saclay
2018-2022
Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement
2021-2022
Mathématiques et Informatique Appliquées du Génome à l'Environnement
2012-2022
AgroParisTech
2022
Stanford University
2020-2021
Palo Alto Institute
2019-2020
Sutter Health
2019
British Society for Antimicrobial Chemotherapy
2016-2017
University of Liverpool
2017
Lactobacillus sakei is a psychotrophic lactic acid bacterium found naturally on fresh meat and fish. This microorganism widely used in the manufacture of fermented meats has biotechnological potential biopreservation food safety. We have explored 1,884,661-base-pair (bp) circular chromosome strain 23K encoding 1,883 predicted genes. Genome sequencing revealed specialized metabolic repertoire, including purine nucleoside scavenging that may contribute to an ability successfully compete raw...
Escherichia coli associated with urinary tract infections and bacteremia has been intensively investigated, including recent work focusing on the virulent, globally disseminated, multidrug-resistant lineage ST131. To contextualize ST131 within broader E. population disease, we used genomics to analyze a systematic 11-yr hospital-based survey of using isolates collected from across England by British Society for Antimicrobial Chemotherapy Cambridge University Hospitals NHS Foundation Trust....
ABSTRACT Klebsiella pneumoniae is a human commensal and opportunistic pathogen that has become leading causative agent of hospital-based infections over the past few decades. The emergence global expansion hypervirulent multidrug-resistant (MDR) clones K. have been increasingly reported in community-acquired nosocomial infections. Despite this, population genomics epidemiology MDR at national level are still poorly understood. To obtain insights into these, we analyzed systematic large-scale...
Serratia marcescens , a member of the Enterobacteriaceae family, is Gram-negative bacterium responsible for wide range nosocomial infections. The emergence multidrug-resistant strains an increasing danger to public health. To design effective means control dissemination S. in-depth analysis population structure and variation required. Utilizing whole-genome sequencing, we characterized variation, as well antimicrobial resistance determinants, systematic collection antimicrobial-resistant...
Mapping short reads against a reference genome is classically the first step of many next-generation sequencing data analyses, and it should be as accurate possible. Because large number to handle, numerous sophisticated algorithms have been developped in last 3 years tackle this problem. In article, we review underlying used most existing mapping tools, then compare performance nine these tools on well controled benchmark built for purpose. We set that exist single or multiple copies which...
Residents of long-term care facilities (LTCF) may have high carriage rates multidrug-resistant pathogens, but are not currently included in surveillance programmes for antimicrobial resistance or healthcare-associated infections. Here, we describe the value derived from a longitudinal epidemiological and genomic study drug-resistant Escherichia coli LTCF United Kingdom (UK). Forty-five 90 (50%) residents were recruited followed six months 2014. Participants screened weekly extended-spectrum...
Klebsiella oxytoca, a member of the Enterobacteriaceae, is gram-negative pathogenic bacterium environmental origin, which can cause infection in healthcare settings. Outbreaks multidrug-resistant K. oxytoca have been increasingly reported hospitalized patients. Despite growing importance this pathogen, there limited knowledge about population structure and epidemiology antimicrobial resistant oxytoca. We investigated genomic basis resistance 41 multidrug isolates recovered from bloodstream...
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A framework to study interlimb coordination, which allowed the analysis of all symmetrical and asymmetrical gaits, was recently proposed. It suggests that gait depends on a common basic pattern controlling coordination forelimbs (fore lag, FL), hindlimbs (hind HL) relationship between these two pairs limbs (pair PL) in an anteroposterior sequence movement (APS). These three time parameters are sufficient for identifying steady gaits. We assumed this work same could also be used non-steady...
Specific interactions have been highlighted between cyanobacteria and chemotrophic bacteria within the cyanosphere, suggesting that nutrients recycling could be optimized by cyanobacteria/bacteria exchanges. In order to determine respective metabolic roles of cyanobacterial bacterial consortia (microbiome), a day-night metatranscriptomic analysis was performed on Dolichospermum sp. (N2 -fixer) Microcystis (non N2 natural blooms occurring successively French peri-urban lake. The taxonomical...
More is known about the structural features of health system integration than social features—elements normative (alignment norms) and interpersonal (collaboration among professionals with patients). We surveyed practice managers 1,360 staff physicians at 59 sites within 17 systems (828 responses; 61%). Building on prior theory, we developed established psychometric properties survey measures describing integration. Normative were both consistently related to better provider experience,...
Protein phosphorylation especially on serine/threonine/tyrosine residues are frequent in many bacteria. This post-translational modification has been associated with pathogenicity and virulence various species. However only few data have produced so far generally recognized as safe bacteria used food fermentations. A family of kinases known Hanks-type is suspected to be responsible for, at least, a part these phosphorylations eukaryotes The objective our work was establish the first...
Coagulase negative staphylococci are normal inhabitant of the human skin flora that account for an increasing number infections, particularly hospital-acquired infections. Staphylococcus lugdunensis has emerged as a most virulent species causing various infections with clinical characteristics close to what clinicians usually observe aureus and both bacteria share more than 70% their genome. Virulence S. relies on large repertoire virulence factors, many which encoded mobile genetic...
Like other streptococci, Streptococcus agalactiae typically has intrinsic low-level aminoglycoside resistance. High-level gentamicin resistance was seen in 2 of 1125 isolates collected the BSAC Bacteraemia Surveillance Programme between 2001 and 2014. These organisms, both isolated 2014, were characterized. Identifications by latex agglutination, MICs agar dilution sequencing Illumina methodology. Gentamicin >1024 mg/L versus a species mode 8 mg/L; also unusually ciprofloxacin resistant with...
Abstract Objective Examine care integration—efforts to unify disparate parts of health organizations generate synergy across activities occurring within and between them—to understand whether at which organizational level systems impact quality staff experience. Data Sources Surveys administered one practice manager (56/59) up 26 (828/1360) in 59 sites 24 physician 17 four states (2017‐2019). Study Design We developed surveys collect data on organizational, social, clinical process...
Abstract Background Yarrowia lipolytica , a nonconventional oleaginous yeast species, has attracted attention due to its high lipid degradation and accumulation capacities. Y. is used as chassis for the production of usual unusual lipids derivatives. While genes involved in intracellular transport activation fatty acids different cellular compartments have been characterized, no acid from extracellular medium into cell identified thus far. In this study, we secreted proteins binding. Results...
Thermobacillus xylanilyticus is a thermophilic and hemicellulolytic bacterium able to use several lignocelluloses as its main carbon source. This draft genome sequence gives insight into the genomic potential of this provides new resources understand enzymatic mechanisms used by during lignocellulose degradation will allow identification robust lignocellulolytic enzymes.