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CRPP Comprehensive genomic pathogen detection


Publications CRPP Comprehensive genomic pathogen detection

  • Tschumi, F. et al. Meningitis and epididymitis caused by Toscana virus infection imported to Switzerland diagnosed by metagenomic sequencing: a case report. BMC Infect Dis, 2019, 19, 591.
  • Junier, T. et al. Viral Metagenomics in the Clinical Realm: Lessons Learned from a Swiss-Wide Ring Trial. Genes, 2019, 10.
  • Kufner, Plate et al. Two Years of Viral Metagenomics in a Tertiary Diagnostics Unit: Evaluation of the First 105 Cases. Genes, 2019, 10.
  • Keller, E. et al. Large and Small Cerebral Vessel Involvement in Severe COVID-19: Detailed Clinical Workup of a Case Series. Stroke, 2020, 51, 3719.
  • López-Labrador, F. X. et al. Recommendations for the introduction of metagenomic high-throughput sequencing in clinical virology, part I: Wet lab procedure. Journal of Clinical Virology 2012, 134, 104691.
  • Weissberg, D. et al. Does respiratory co-infection facilitate dispersal of SARS-CoV-2? investigation of a super-spreading event in an open-space office. Antimicrob Resist Infect Control, 2020, 9, 672.
  • Pohl M. et al. Distinct Phenotypes of SARS-CoV-2 Isolates Reveal Viral Traits Critical for Replication in Primary Human Respiratory Cells. PLOS Biology, 2021.
  • Werner et al. Subacute Cerebellar Ataxia Following Respiratory Symptoms of COVID-19: A Case Report. BMC Infectious Diseases, 2021.
  • De Vries et al, Recommendations for the introduction of metagenomic next-generation sequencing in clinical virology, part II: bioinformatic analysis and reporting. Journal of Clinical Virology, 2021.
  • Lewandowska DW, Zagordi O, Zbinden A, Schuurmans MM, Schreiber P, Geissberger FD, Huder JB, Böni J, Benden C, Mueller NJ*, Trkola A* and Huber M* Unbiased metagenomic sequencing complements specific routine diagnostic methods and increases chances to detect rare viral strains. Diagn. Microbiol. Infect. Dis. 2015;83:133-138
  • Huber M*, Metzner KJ*, Geissberger FD, Shah C, Leemann C, Klimkait T, Böni J, Trkola A and Zagordi O MinVar: A rapid and versatile tool for HIV-1 Drug Resistance Genotyping by Deep Sequencing. J Virol Methods. 2016;240:7-13
  • Lewandowska DW, Schreiber PW, Schuurmans MM, Ruehe B, Zagordi O, Bayard C, Greiner M, Geissberger FD, Capaul R, Zbinden A, Böni J, Benden C, Mueller NJ*, Trkola A* and Huber M* Metagenomic sequencing complements routine diagnostics in identifying viral pathogens in lung transplant recipients with unknown etiology of respiratory infection. PLoS ONE.2017;12:e0177340
  • Lewandowska DW, Zagordi O, Geissberger FD, Kufner V, Schmutz S, Böni J, Metzner KJ, Trkola A and Huber M  Optimization and validation of sample preparation for metagenomic sequencing of viruses in clinical samples. BMC Microbiome.2017;5:115-128
  • Lewandowska DW, Capaul R, Prader S, Zagordi O, Geissberger FD, Kügler M, Knorr M, Berger C, Güngör T, Reichenbach J, Shah C, Böni J, Zbinden A, Trkola A, Pachlopnik Schmid J*, Huber M* Persistent mammalian orthoreovirus, coxsackievirus and adenovirus co-infection in a child with a primary immunodeficiency detected by metagenomic sequencing: a case report. BMC Infectious Diseases. 2018;18:33
  • Schreiber PW*, Kufner V*, Hübel L, Schmutz S, Zagordi O, Kaur A, Bayard C, Greiner M, Zbinden A, Capaul R, Böni J, Hirsch HH, Mueller TF, Mueller NJ*, Trkola A*, Huber M*. Metagenomic virome sequencing in living donor-recipient kidney transplant pairs revealed JC Polyomavirus transmission. Clin Infect Dis. 2018.