All Stories

  1. Genomic characterization and sub-clustering of Escherichia coli clonal complex 38 reveal host associated genetic markers

    Article • Communications Medicine, January 2026, Springer Science + Business Media

    Raphael Niklaus Sieber

  2. SARS-CoV-2 sequencing artifacts associated with targeted PCR enrichment and read mapping

    Article • PLOS One, October 2025, PLOS

    Raphael Niklaus Sieber

  3. Impact of the Staphylococcus aureus agr quorum sensing system on the lifecycle of the Sa3int temperate phage

    Article • The Microbe, September 2025, Elsevier

    Raphael Niklaus Sieber

  4. Association between biosecurity and zoonotic transmission of LA-MRSA CC398 from industrial pig farms to farm workers and their household members

    Article • Occupational and Environmental Medicine, January 2025, BMJ

    Raphael Niklaus Sieber

  5. Emergence and spread of SARS-CoV-2 variants from farmed mink to humans and back during the epidemic in Denmark, June-November 2020

    Article • PLoS Pathogens, July 2024, PLOS

    Raphael Niklaus Sieber

  6. SARS-CoV-2 sequencing artifacts associated with targeted PCR enrichment and read mapping

    Article • May 2024, Cold Spring Harbor Laboratory Press

    Raphael Niklaus Sieber

  7. Comparative genomics of Staphylococcus aureus strains from wild birds and pig farms elucidates levels of mobilomes, antibiotic pressure and host adaptation

    Article • Journal of Global Antimicrobial Resistance, March 2024, Elsevier

    Raphael Niklaus Sieber

  8. An Endogenous Staphylococcus aureus CRISPR-Cas System Limits Phage Proliferation and Is Efficiently Excised from the Genome as Part of the SCC mec Cassette

    Article • Microbiology Spectrum, August 2023, ASM Journals

    Raphael Niklaus Sieber

  9. Household transmission of SARS-CoV-2 Omicron variant of concern subvariants BA.1 and BA.2 in Denmark

    Article • Nature Communications, September 2022, Springer Science + Business Media

    Raphael Niklaus Sieber

  10. Risk of hospitalisation associated with infection with SARS-CoV-2 omicron variant versus delta variant in Denmark: an observational cohort study

    Article • The Lancet Infectious Diseases, July 2022, Elsevier

    Raphael Niklaus Sieber

  11. Effect of vaccination on household transmission of SARS-CoV-2 Delta variant of concern

    Article • Nature Communications, June 2022, Springer Science + Business Media

    Raphael Niklaus Sieber

  12. Introduction and transmission of SARS-CoV-2 lineage B.1.1.7, Alpha variant, in Denmark

    Article • Genome Medicine, May 2022, Springer Science + Business Media

    Raphael Niklaus Sieber

  13. Vaccine effectiveness against SARS-CoV-2 infection and COVID-19-related hospitalization with the Alpha, Delta and Omicron SARS-CoV-2 variants: a nationwide Danish cohort study

    Article • April 2022, Cold Spring Harbor Laboratory Press

    Raphael Niklaus Sieber

  14. Molecular epidemiology of the SARS-CoV-2 variant Omicron BA.2 sub-lineage in Denmark, 29 November 2021 to 2 January 2022

    Article • Eurosurveillance, March 2022, European Centre for Disease Control and Prevention (ECDC)

    Raphael Niklaus Sieber

  15. Occurrence and significance of Omicron BA.1 infection followed by BA.2 reinfection

    Article • February 2022, Cold Spring Harbor Laboratory Press

    Raphael Niklaus Sieber

  16. Transmission of SARS-CoV-2 Omicron VOC subvariants BA.1 and BA.2: Evidence from Danish Households

    Article • January 2022, Cold Spring Harbor Laboratory Press

    Raphael Niklaus Sieber

  17. Effect of Vaccination on Household Transmission of SARS-CoV-2 Delta VOC

    Article • January 2022, Cold Spring Harbor Laboratory Press

    Raphael Niklaus Sieber

  18. Emergence of methicillin resistance predates the clinical use of antibiotics

    Article • Nature, January 2022, Springer Science + Business Media

    Raphael Niklaus Sieber

  19. Increased transmission of SARS-CoV-2 in Denmark during UEFA European championships

    Article • Epidemiology and Infection, January 2022, Cambridge University Press

    Raphael Niklaus Sieber

  20. SARS-CoV-2 Omicron VOC Transmission in Danish Households

    Article • December 2021, Cold Spring Harbor Laboratory Press

    Raphael Niklaus Sieber

  21. Staphylococcal Phages Adapt to New Hosts by Extensive Attachment Site Variability

    Article • mBio, December 2021, ASM Journals

    Raphael Niklaus Sieber

  22. Epidemiological characterisation of the first 785 SARS-CoV-2 Omicron variant cases in Denmark, December 2021

    Article • Eurosurveillance, December 2021, European Centre for Disease Control and Prevention (ECDC)

    Raphael Niklaus Sieber

  23. Dynamics of the Human Nasal Microbiota and Staphylococcus aureus CC398 Carriage in Pig Truck Drivers across One Workweek

    Article • Applied and Environmental Microbiology, August 2021, ASM Journals

    Raphael Niklaus Sieber

  24. Introduction and transmission of SARS-CoV-2 B.1.1.7 in Denmark

    Article • June 2021, Cold Spring Harbor Laboratory Press

    Raphael Niklaus Sieber

  25. Bacteriophages encoding human immune evasion factors adapt to livestock-associated MRSA through rounds of integration and excision

    Article • April 2021, Cold Spring Harbor Laboratory Press

    Raphael Niklaus Sieber

  26. Phage-Mediated Immune Evasion and Transmission of Livestock-Associated Methicillin-ResistantStaphylococcus aureusin Humans

    Article • Emerging Infectious Diseases, November 2020, Centers for Disease Control and Prevention (CDC)

    Raphael Niklaus Sieber

  27. Complete Genome Sequences of Methicillin-Resistant Staphylococcus aureus Strains 110900 and 128254, Two Representatives of the CRISPR-Cas-Carrying Sequence Type 630/ spa Type t4549 Lineage

    Article • Microbiology Resource Announcements, October 2020, ASM Journals

    Raphael Niklaus Sieber

  28. Genomic analyses of Staphylococcus aureus clonal complex 45 isolates does not distinguish nasal carriage from bacteraemia

    Article • Microbial Genomics, August 2020, Society for General Microbiology

    Raphael Niklaus Sieber

  29. Die Stadt als gesunder Lebensort?!

    Article • Bundesgesundheitsblatt - Gesundheitsforschung - Gesundheitsschutz, July 2020, Springer Science + Business Media

    Raphael Niklaus Sieber

  30. Household transmission and host immune evasion factors of LA-MRSA CC398

    Article • Access Microbiology, July 2020, Society for General Microbiology

    Raphael Niklaus Sieber

  31. Local and Transboundary Transmissions of Methicillin-Resistant Staphylococcus aureus Sequence Type 398 through Pig Trading

    Article • Applied and Environmental Microbiology, June 2020, ASM Journals

    Raphael Niklaus Sieber, Professor Luca Guardabassi

  32. Spread of LA-MRSA CC398 in Danish mink (Neovison vison) and mink farm workers

    Article • Veterinary Microbiology, June 2020, Elsevier

    Raphael Niklaus Sieber

  33. A snapshot of diversity: Intraclonal variation of Escherichia coli clones as commensals and pathogens

    Article • International Journal of Medical Microbiology, April 2020, Elsevier

    Raphael Niklaus Sieber

  34. Antimicrobial Resistance and Virulence Gene Profiles of Methicillin-Resistant and -Susceptible Staphylococcus aureus From Food Products in Denmark

    Article • Frontiers in Microbiology, December 2019, Frontiers

    Raphael Niklaus Sieber

  35. Genome investigations show host adaptation and transmission of LA-MRSA CC398 from pigs into Danish healthcare institutions

    Article • Scientific Reports, December 2019, Springer Science + Business Media

    Raphael Niklaus Sieber

  36. LA-MRSA CC398 in Dairy Cattle and Veal Calf Farms Indicates Spillover From Pig Production

    Article • Frontiers in Microbiology, November 2019, Frontiers

    Raphael Niklaus Sieber

  37. Animal movements and antimicrobial resistance genes drove the spread of pig MRSA in Denmark

    Article • mBio, November 2018, ASM Journals

    Raphael Niklaus Sieber

  38. Bloodstream Infections in Denmark caused by LA-MRSA CC398

    Article • Clinical Infectious Diseases, May 2017, Oxford University Press (OUP)

    Raphael Niklaus Sieber

  39. Danish horses MRSA CC398 and other strains of Staphylococcus aureus.

    Article • Frontiers in Microbiology, April 2017, Frontiers

    Professor Luca Guardabassi, Raphael Niklaus Sieber

  40. Characteristics of symbiont-conferred resistance to parasitoids in aphids

    Article • Functional Ecology, September 2011, Wiley

    Raphael Niklaus Sieber