Josef Järhult
Professor at Department of Medical Sciences; Infection medicine
- Telephone:
- +46 18 611 24 03
- E-mail:
- Josef.Jarhult@medsci.uu.se
- Visiting address:
- Akademiska sjukhuset
Infektion, ingång 34, 1 tr - Postal address:
- Akademiska sjukhuset
Infektion, ingång 34, 1 tr
751 85 Uppsala
Download contact information for Josef Järhult at Department of Medical Sciences; Infection medicine
Visiting researcher at Department of Medical Biochemistry and Microbiology; Infection and Immunity; Åke Lundkvist
- Telephone:
- +46 18 471 43 35
- E-mail:
- josef.jarhult@imbim.uu.se
- Visiting address:
- BMC
Husargatan 3
752 37 UPPSALA - Postal address:
- Box 582
751 23 UPPSALA

Publications
Recent publications
Part of Next Research, 2025
- DOI for Temporal and spatial variation of third-generation cephalosporin-resistant and ESBL-producing Escherichia coli in a Swedish urban water system
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Part of Journal of Medical Microbiology, 2025
- DOI for Genomic insights into extended-spectrum β-lactamase- and plasmid-borne AmpC-producing Escherichia coli transmission between humans and livestock in rural Cambodia
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Heterogeneity and metabolic diversity among Enterococcus species during long-term colonization
Part of Microbiology Spectrum, 2025
- DOI for Heterogeneity and metabolic diversity among Enterococcus species during long-term colonization
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Bacteriuria and antibiotic use during the third wave of COVID-19 intensive care in Sweden
Part of Infectious Diseases, p. 284-293, 2024
- DOI for Bacteriuria and antibiotic use during the third wave of COVID-19 intensive care in Sweden
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Part of Antimicrobial Agents and Chemotherapy, p. 1-18, 2024
- DOI for Identification of novel and potent inhibitors of SARS-CoV-2 main protease from DNA-encoded chemical libraries
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All publications
Articles in journal
Part of Next Research, 2025
- DOI for Temporal and spatial variation of third-generation cephalosporin-resistant and ESBL-producing Escherichia coli in a Swedish urban water system
- Download full text (pdf) of Temporal and spatial variation of third-generation cephalosporin-resistant and ESBL-producing Escherichia coli in a Swedish urban water system
Part of Journal of Medical Microbiology, 2025
- DOI for Genomic insights into extended-spectrum β-lactamase- and plasmid-borne AmpC-producing Escherichia coli transmission between humans and livestock in rural Cambodia
- Download full text (pdf) of Genomic insights into extended-spectrum β-lactamase- and plasmid-borne AmpC-producing Escherichia coli transmission between humans and livestock in rural Cambodia
Heterogeneity and metabolic diversity among Enterococcus species during long-term colonization
Part of Microbiology Spectrum, 2025
- DOI for Heterogeneity and metabolic diversity among Enterococcus species during long-term colonization
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Bacteriuria and antibiotic use during the third wave of COVID-19 intensive care in Sweden
Part of Infectious Diseases, p. 284-293, 2024
- DOI for Bacteriuria and antibiotic use during the third wave of COVID-19 intensive care in Sweden
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Part of Antimicrobial Agents and Chemotherapy, p. 1-18, 2024
- DOI for Identification of novel and potent inhibitors of SARS-CoV-2 main protease from DNA-encoded chemical libraries
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Part of Cancers, 2024
- DOI for Tumor Predisposing Post-Zygotic Chromosomal Alterations in Bladder Cancer-Insights from Histologically Normal Urothelium
- Download full text (pdf) of Tumor Predisposing Post-Zygotic Chromosomal Alterations in Bladder Cancer-Insights from Histologically Normal Urothelium
Part of Nursing Reports, p. 1819-1827, 2024
- DOI for Perceptions of Carriership of Extended-Spectrum Beta-Lactamase (ESBL)-Producing Bacteria: A Qualitative Study
- Download full text (pdf) of Perceptions of Carriership of Extended-Spectrum Beta-Lactamase (ESBL)-Producing Bacteria: A Qualitative Study
Part of Veterinary medicine and science, 2024
- DOI for Understanding veterinary drug shop workers' knowledge and practices to identify drivers of antibiotic use in Vietnamese livestock farms
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Part of Frontiers in Veterinary Science, 2024
- DOI for Understanding Vietnamese chicken farmers' knowledge and practices related to antimicrobial resistance using an item response theory approach
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Part of Frontiers in Medicine, 2023
- DOI for Antibiotic use during coronavirus disease 2019 intensive care unit shape multidrug resistance bacteriuria: A Swedish longitudinal prospective study
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Expression of influenza A virus glycan receptor candidates in mallard, chicken, and tufted duck
Part of Glycobiology, 2023
- DOI for Expression of influenza A virus glycan receptor candidates in mallard, chicken, and tufted duck
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Part of Antibiotics, 2023
- DOI for Incidence of Rifampicin Resistance in Periprosthetic Joint Infection: A Single-Centre Cohort Study on 238 Patients
- Download full text (pdf) of Incidence of Rifampicin Resistance in Periprosthetic Joint Infection: A Single-Centre Cohort Study on 238 Patients
Part of Antibiotics, 2023
- DOI for Early Staphylococcal Periprosthetic Joint Infection (PJI) Treated with Debridement, Antibiotics, and Implant Retention (DAIR): Inferior Outcomes in Patients with Staphylococci Resistant to Rifampicin
- Download full text (pdf) of Early Staphylococcal Periprosthetic Joint Infection (PJI) Treated with Debridement, Antibiotics, and Implant Retention (DAIR): Inferior Outcomes in Patients with Staphylococci Resistant to Rifampicin
Part of Journal of Antimicrobial Chemotherapy, p. 1395-1405, 2023
- DOI for Exploring the epidemiology of mcr genes, genetic context and plasmids in Enterobacteriaceae originating from pigs and humans on farms in Thailand
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Part of Viruses, 2023
- DOI for Reduced Binding between Omicron B.1.1.529 and the Human ACE2 Receptor in a Surrogate Virus Neutralization Test for SARS-CoV-2
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Part of Microbiology Spectrum, 2023
- DOI for A Comparison of Host Responses to Infection with Wild-Type Avian Influenza Viruses in Chickens and Tufted Ducks
- Download full text (pdf) of A Comparison of Host Responses to Infection with Wild-Type Avian Influenza Viruses in Chickens and Tufted Ducks
Part of Irish Journal of Medical Science, p. 227-229, 2023
- DOI for Infectious SARS-CoV-2 is rarely present in the nasopharynx samples collected from Swedish hospitalized critically ill COVID-19 patients
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Temporal pathway analysis of cerebrospinal fluid proteome in herpes simplex encephalitis
Part of Infectious Diseases, p. 694-705, 2023
Part of Journal of General Virology, 2023
- DOI for An oseltamivir-resistant avian H1N1 influenza A virus can transmit from mallards to chickens similarly to a wild-type strain: implications for the risk of resistance transmission to humans
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Loss of Y in leukocytes as a risk factor for critical COVID-19 in men
Part of Genome Medicine, 2022
- DOI for Loss of Y in leukocytes as a risk factor for critical COVID-19 in men
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Part of Antibiotics, 2022
- DOI for Molecular Detection of Colistin Resistance mcr-1 Gene in Multidrug-Resistant Escherichia coli Isolated from Chicken
- Download full text (pdf) of Molecular Detection of Colistin Resistance mcr-1 Gene in Multidrug-Resistant Escherichia coli Isolated from Chicken
Part of Biomaterials Advances, 2022
- DOI for 3D-printed porous Ti6Al4V alloys with silver coating combine osteocompatibility and antimicrobial properties
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Part of Frontiers in Microbiology, 2022
- DOI for Dissemination of Resistant Escherichia coli Among Wild Birds, Rodents, Flies, and Calves on Dairy Farms
- Download full text (pdf) of Dissemination of Resistant Escherichia coli Among Wild Birds, Rodents, Flies, and Calves on Dairy Farms
Part of BMC Microbiology, 2022
- DOI for Genome-associations of extended-spectrum ss-lactamase producing (ESBL) or AmpC producing E. coli in small and medium pig farms from Khon Kaen province, Thailand
- Download full text (pdf) of Genome-associations of extended-spectrum ss-lactamase producing (ESBL) or AmpC producing E. coli in small and medium pig farms from Khon Kaen province, Thailand
Part of ACS Applied Materials and Interfaces, p. 41751-41763, 2022
- DOI for Trabecular Titanium for Orthopedic Applications: Balancing Antimicrobial with Osteoconductive Properties by Varying Silver Contents
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Antimicrobial and osteoconductive properties of two different types of titanium silver coating
Part of European Cells & Materials, p. 694-706, 2021
- DOI for Antimicrobial and osteoconductive properties of two different types of titanium silver coating
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Part of Frontiers in Microbiology, 2021
- DOI for Molecular Characterization of Multidrug-Resistant Yersinia enterocolitica From Foodborne Outbreaks in Sweden
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Part of GigaScience, 2021
- DOI for A high-quality genome and comparison of short-versus long-read transcriptome of the palaearctic duck Aythya fuligula (tufted duck)
- Download full text (pdf) of A high-quality genome and comparison of short-versus long-read transcriptome of the palaearctic duck Aythya fuligula (tufted duck)
Part of Antibiotics, 2021
- DOI for On-Site Pilot Testing of Hospital Wastewater Ozonation to Reduce Pharmaceutical Residues and Antibiotic-Resistant Bacteria
- Download full text (pdf) of On-Site Pilot Testing of Hospital Wastewater Ozonation to Reduce Pharmaceutical Residues and Antibiotic-Resistant Bacteria
Part of Frontiers in Microbiology, 2021
- DOI for Exploring the Antibiotic Resistance Burden in Livestock, Livestock Handlers and Their Non-Livestock Handling Contacts: A One Health Perspective
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Part of Animals, 2021
- DOI for Multidrug Antimicrobial Resistance and Molecular Detection of mcr-1 Gene in Salmonella Species Isolated from Chicken
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Geographic Drivers of Antimicrobial Use and Resistance in Pigs in Khon Kaen Province, Thailand
Part of Frontiers in Veterinary Science, 2021
- DOI for Geographic Drivers of Antimicrobial Use and Resistance in Pigs in Khon Kaen Province, Thailand
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Part of Scientific Reports, 2021
- DOI for The impact of viremia on organ failure, biomarkers and mortality in a Swedish cohort of critically ill COVID-19 patients
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Part of Antiviral Research, 2021
Residual antimicrobial agents in food originating from animals
Part of Trends in Food Science & Technology, p. 141-150, 2021
- DOI for Residual antimicrobial agents in food originating from animals
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Part of Journal of Antimicrobial Chemotherapy, p. 2218-2220, 2021
- DOI for Novel mcr-3.40 variant co-located with mcr-2.3 and bla(CTX-M-63) on an IncHI1B/IncFIB plasmid found in Klebsiella pneumoniae from a healthy carrier in Thailand
- Download full text (pdf) of Novel mcr-3.40 variant co-located with mcr-2.3 and bla(CTX-M-63) on an IncHI1B/IncFIB plasmid found in Klebsiella pneumoniae from a healthy carrier in Thailand
Part of Journal of Antimicrobial Chemotherapy, p. 2012-2016, 2021
Part of Antimicrobial Agents and Chemotherapy, 2021
Multi laboratory evaluation of ReaScan TBE IgM rapid test, 2016 to 2017
Part of Eurosurveillance, p. 27-36, 2020
- DOI for Multi laboratory evaluation of ReaScan TBE IgM rapid test, 2016 to 2017
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Antimicrobial Resistance Patterns in Organic and Conventional Dairy Herds in Sweden
Part of Antibiotics, 2020
- DOI for Antimicrobial Resistance Patterns in Organic and Conventional Dairy Herds in Sweden
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Part of Antibiotics, 2020
- DOI for Antimicrobial Resistance in Fecal Escherichia coli from Humans and Pigs at Farms at Different Levels of Intensification
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Part of Frontiers in Microbiology, 2020
- DOI for A Comparative Study of the Innate Humoral Immune Response to Avian Influenza Virus in Wild and Domestic Mallards
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Spatio-Temporal Mutational Profile Appearances of Swedish SARS-CoV-2 during the Early Pandemic
Part of Viruses, 2020
- DOI for Spatio-Temporal Mutational Profile Appearances of Swedish SARS-CoV-2 during the Early Pandemic
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Mitigation of the replication of SARS-CoV-2 by nitric oxide in vitro
Part of Redox Biology, 2020
- DOI for Mitigation of the replication of SARS-CoV-2 by nitric oxide in vitro
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Maximization of Livestock Anthrax Vaccination Coverage in Bangladesh: An Alternative Approach
Part of Vaccines, 2020
- DOI for Maximization of Livestock Anthrax Vaccination Coverage in Bangladesh: An Alternative Approach
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Part of Veterinary Sciences, 2020
- DOI for Serological Evidence of Avian Influenza in Captive Wild Birds in a Zoo and Two Safari Parks in Bangladesh
- Download full text (pdf) of Serological Evidence of Avian Influenza in Captive Wild Birds in a Zoo and Two Safari Parks in Bangladesh
Part of PLOS ONE, 2020
- DOI for Antibiotic use in pig farms at different levels of intensification-Farmers' practices in northeastern Thailand
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Part of Journal of Global Antimicrobial Resistance, p. 396-398, 2020
- DOI for Genome sequences of two Salmonella enterica strains (MEZSAL74 and MEZSAL81) harbouring multiple antimicrobial resistance genes isolated from livestock in South Africa
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Part of Veterinary Sciences, 2020
- DOI for Prevalence and Diversity of Avian Influenza Virus Hemagglutinin Sero-Subtypes in Poultry and Wild Birds in Bangladesh
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Part of Journal of Global Antimicrobial Resistance, p. 445-449, 2020
Part of PLOS ONE, 2020
- DOI for Torque teno virus viral load is related to age, CMV infection and HLA type but not to Alzheimer's disease
- Download full text (pdf) of Torque teno virus viral load is related to age, CMV infection and HLA type but not to Alzheimer's disease
Part of Critical Care, 2020
- DOI for Presence of SARS-CoV-2 in urine is rare and not associated with acute kidney injury in critically ill COVID-19 patients
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Towards pandemic preparedness beyond COVID-19
Part of LANCET MICROBE, 2020
- DOI for Towards pandemic preparedness beyond COVID-19
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Part of One Health, 2020
- DOI for From SARS to COVID-19: A previously unknown SARS- related coronavirus (SARS-CoV-2) of pandemic potential infecting humans ? Call for a One Health approach
- Download full text (pdf) of From SARS to COVID-19: A previously unknown SARS- related coronavirus (SARS-CoV-2) of pandemic potential infecting humans ? Call for a One Health approach
Part of Scientific American, 2019
Health and zoonotic Infections of snow leopards Panthera unica in the South Gobi desert of Mongolia.
Part of Infection Ecology & Epidemiology, 2019
- DOI for Health and zoonotic Infections of snow leopards Panthera unica in the South Gobi desert of Mongolia.
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Genome Sequence of Listeria innocua Strain MEZLIS26, Isolated from a Goat in South Africa
Part of Microbiology Resource Announcements, 2019
- DOI for Genome Sequence of Listeria innocua Strain MEZLIS26, Isolated from a Goat in South Africa
- Download full text (pdf) of Genome Sequence of Listeria innocua Strain MEZLIS26, Isolated from a Goat in South Africa
Part of Frontiers in Microbiology, 2019
- DOI for Attachment Patterns of Human and Avian Influenza Viruses to Trachea and Colon of 26 Bird Species: Support for the Community Concept
- Download full text (pdf) of Attachment Patterns of Human and Avian Influenza Viruses to Trachea and Colon of 26 Bird Species: Support for the Community Concept
Resistance in the wild: Q&A: Keeping antivirals viable
Part of Nature, 2019
Part of Infectious Diseases, p. 683-690, 2019
A One Health - One World initiative to control antibiotic resistance: A Chile - Sweden collaboration
Part of One Health, 2019
- DOI for A One Health - One World initiative to control antibiotic resistance: A Chile - Sweden collaboration
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Part of Zoonoses and Public Health, p. 603-617, 2019
- DOI for Carriage of carbapenemase- and extended-spectrum cephalosporinase-producing Escherichia coli and Klebsiella pneumoniae in humans and livestock in rural Cambodia: gender and age differences and detection of blaOXA-48 in humans
- Download full text (pdf) of Carriage of carbapenemase- and extended-spectrum cephalosporinase-producing Escherichia coli and Klebsiella pneumoniae in humans and livestock in rural Cambodia: gender and age differences and detection of blaOXA-48 in humans
Part of Vector Borne and Zoonotic Diseases, p. 414-420, 2019
Part of Journal of Medical Virology, p. 724-730, 2019
Part of Microbial Drug Resistance, p. 822-829, 2018
Part of Environmental Microbiology Reports, p. 576-582, 2018
- DOI for Long-term carriage and rapid transmission of extended spectrum beta-lactamase-producing E. coli within a flock of Mallards in the absence of antibiotic selection
- Download full text (pdf) of Long-term carriage and rapid transmission of extended spectrum beta-lactamase-producing E. coli within a flock of Mallards in the absence of antibiotic selection
Part of Infection Ecology & Epidemiology, 2018
- DOI for The enzyme toilet rim block “pCure” does not efficiently remove drug residues in a hospital setting -: exemplifying the importance of on-site implementation testing
- Download full text (pdf) of The enzyme toilet rim block “pCure” does not efficiently remove drug residues in a hospital setting -: exemplifying the importance of on-site implementation testing
Part of Frontiers in Microbiology, 2018
Part of Journal of Virological Methods, p. 32-36, 2018
Alternate routes of influenza A virus infection in Mallard (Anas platyrhynchos)
Part of Veterinary research (Print), 2018
- DOI for Alternate routes of influenza A virus infection in Mallard (Anas platyrhynchos)
- Download full text (pdf) of Alternate routes of influenza A virus infection in Mallard (Anas platyrhynchos)
A rapid and transient innate immune response to avian influenza infection in mallards
Part of Molecular Immunology, p. 64-72, 2018
Part of Data in Brief, p. 1562-1566, 2018
- DOI for Expression of immune genes RIG-I and Mx in mallard ducks infected with low pathogenic avian influenza (LPAI): A dataset.
- Download full text (pdf) of Expression of immune genes RIG-I and Mx in mallard ducks infected with low pathogenic avian influenza (LPAI): A dataset.
Antibiotic-resistant Escherichia coli in migratory birds inhabiting remote Alaska.
Part of EcoHealth, p. 72-81, 2018
ESBL-producing Escherichia coli in Swedish gulls: A case of environmental pollution from humans?
Part of PLOS ONE, 2017
- DOI for ESBL-producing Escherichia coli in Swedish gulls: A case of environmental pollution from humans?
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Part of Journal of General Virology, p. 2937-2949, 2017
Urbanization and the dynamics of RNA viruses in Mallards (Anas platyrhynchos)
Part of Infection, Genetics and Evolution, p. 89-97, 2017
Part of Chemosphere, p. 175-182, 2017
- DOI for Removal of 30 active pharmaceutical ingredients in surface water under long-term artificial UV irradiation
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Part of Infection Ecology & Epidemiology, 2016
- DOI for Increased prevalence of antibiotic resistant E. coli in gulls sampled in Southcentral Alaska is associated with urban environments
- Download full text (pdf) of Increased prevalence of antibiotic resistant E. coli in gulls sampled in Southcentral Alaska is associated with urban environments
High Prevalence and Putative Lineage Maintenance of Avian Coronaviruses in Scandinavian Waterfowl.
Part of PLOS ONE, 2016
- DOI for High Prevalence and Putative Lineage Maintenance of Avian Coronaviruses in Scandinavian Waterfowl.
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Part of PLOS ONE, 2016
- DOI for A Panel of Stably Expressed Reference Genes for Real-Time qPCR Gene Expression Studies of Mallards (Anas platyrhynchos)
- Download full text (pdf) of A Panel of Stably Expressed Reference Genes for Real-Time qPCR Gene Expression Studies of Mallards (Anas platyrhynchos)
Part of Microbial Drug Resistance, p. 682-687, 2016
Part of Chemosphere, p. 723-730, 2016
Part of Applied and Environmental Microbiology, p. 2378-2383, 2015
Part of Infection Ecology & Epidemiology, 2015
- DOI for Absence of vancomycin-resistant enterococci among highly ESBL-positive crows (Corvus splendens) foraging on hospital waste in Bangladesh
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Part of Infection Ecology & Epidemiology, 2015
Part of Antimicrobial Agents and Chemotherapy, p. 5196-5202, 2015
- DOI for Influenza A(H7N9) Virus Acquires Resistance-Related Neuraminidase I222T Substitution When Infected Mallards Are Exposed to Low Levels of Oseltamivir in Water
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Part of PLOS ONE, 2015
Part of Talanta, p. 164-169, 2015
- DOI for Online solid phase extraction liquid chromatography using bonded zwitterionic stationary phases and tandem mass spectrometry for rapid environmental trace analysis of highly polar hydrophilic compounds - Application for the antiviral drug Zanamivir
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One Health: a doctor's perspective
Part of The Veterinary Record, p. 351-353, 2015
Tamiflu: What we know about its ups and downs
Part of British Journal of Virology, p. 49-52, 2015
Part of PLOS ONE, 2014
- DOI for Intra- and Inter-Pandemic Variations of Antiviral, Antibiotics and Decongestants in Wastewater Treatment Plants and Receiving Rivers
- Download full text (pdf) of Intra- and Inter-Pandemic Variations of Antiviral, Antibiotics and Decongestants in Wastewater Treatment Plants and Receiving Rivers
Part of PLOS ONE, 2014
- DOI for Study of oseltamivir and zanamivir resistance-related mutations in influenza viruses isolated from wild mallards in Sweden
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Varför är det så svårt att förstå betydelsen av One Health?
Part of Svensk veterinärtidning, p. 35-39, 2014
Part of Infection Ecology & Epidemiology, 2013
Part of Journal of Wildlife Diseases, p. 103-113, 2013
Part of PLOS ONE, 2013
- DOI for Resistance Mutation R292K Is Induced in Influenza A(H6N2) Virus by Exposure of Infected Mallards to Low Levels of Oseltamivir
- Download full text (pdf) of Resistance Mutation R292K Is Induced in Influenza A(H6N2) Virus by Exposure of Infected Mallards to Low Levels of Oseltamivir
Part of PLOS ONE, 2013
- DOI for Compliance to Oseltamivir among Two Populations in Oxfordshire, United Kingdom Affected by Influenza A(H1N1)pdm09, November 2009 - A Waste Water Epidemiology Study.
- Download full text (pdf) of Compliance to Oseltamivir among Two Populations in Oxfordshire, United Kingdom Affected by Influenza A(H1N1)pdm09, November 2009 - A Waste Water Epidemiology Study.
Part of Infection Ecology & Epidemiology, p. 18385, 2012
Part of PLOS ONE, 2011
- DOI for Environmental Levels of the Antiviral Oseltamivir Induce Development of Resistance Mutation H274Y in Influenza A/H1N1 Virus in Mallards
- Download full text (pdf) of Environmental Levels of the Antiviral Oseltamivir Induce Development of Resistance Mutation H274Y in Influenza A/H1N1 Virus in Mallards
Detection of the antiviral drug oseltamivir in aquatic environments
Part of PloS one, 2009
Part of Glia, p. 319-31, 1996
Articles, review/survey
Avian influenza viruses at the wild-domestic bird interface in Egypt
Part of Infection Ecology & Epidemiology, 2019
- DOI for Avian influenza viruses at the wild-domestic bird interface in Egypt
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Global patterns of avian influenza A (H7): virus evolution and zoonotic threats
Part of FEMS Microbiology Reviews, p. 608-621, 2019
- DOI for Global patterns of avian influenza A (H7): virus evolution and zoonotic threats
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Part of Acta Veterinaria Scandinavica, 2018
- DOI for Environmental resistance development to influenza antivirals: a case exemplifying the need for a multidisciplinary One Health approach including physicians
- Download full text (pdf) of Environmental resistance development to influenza antivirals: a case exemplifying the need for a multidisciplinary One Health approach including physicians
Antibiotic resistance in wild birds
Part of Upsala Journal of Medical Sciences, p. 113-116, 2014
Comprehensive doctoral thesis
Manuscripts (preprints)
Other
2024
Hur ska vi klara de nya epidemierna?
2017