Viral Metagenomics – New applications for the broad-range detection of viromes in veterinary and public health settings

Authors

  • Oskar Erik Karlsson 1 Department of Biomedical Sciences and Veterinary Public Health (BVF), Swedish University of Agricultural Sciences (SLU), Uppsala 2 SLU Global Bioinformatics Centre, Department of Animal Breeding and Genetics (HGEN), Swedish University of Agricultural Sciences (SLU), Uppsala 3 The Joint Research and Development Division of SLU and SVA, OIE Collaborating Centre for the Biotechnology-based Diagnosis of Infectious Diseases in Veterinary Medicine (OIE CC), Uppsala,
  • Martin Norling SLU Global Bioinformatics Centre, Department of Animal Breeding and Genetics (HGEN), Swedish University of Agricultural Sciences (SLU), Uppsala
  • Fredrik Granberg 1 Department of Biomedical Sciences and Veterinary Public Health (BVF), Swedish University of Agricultural Sciences (SLU), Uppsala 2 The Joint Research and Development Division of SLU and SVA, OIE Collaborating Centre for the Biotechnology-based Diagnosis of Infectious Diseases in Veterinary Medicine (OIE CC), Uppsala
  • Sándor Belák 1 Department of Virology, Immunobiology and Parasitology, (VIP), National Veterinary Institute (SVA), Uppsala 2 Department of Biomedical Sciences and Veterinary Public Health (BVF), Swedish University of Agricultural Sciences (SLU), Uppsala 3 The Joint Research and Development Division of SLU and SVA, OIE Collaborating Centre for the Biotechnology-based Diagnosis of Infectious Diseases in Veterinary Medicine (OIE CC), Uppsala
  • Erik Bongcam-Rudloff 1 SLU Global Bioinformatics Centre, Department of Animal Breeding and Genetics (HGEN), Swedish University of Agricultural Sciences (SLU), Uppsala

DOI:

https://doi.org/10.14806/ej.19.A.631

Keywords:

Veterinary medicine, Virology, Metagenomics, Molecular Biology, Bioinformatics, Next Generation Sequencing

Abstract

Metagenomic methods for detection of viruses provide new diagnostic tools to the veterinary and public health laboratories, with powerful capacities to detect and to monitor the viromes in clinical samples. Our groups at the OIE Collaborating Centre for the Biotechnology-based Diagnosis of Infectious Diseases in Veterinary Medicine, Uppsala, Sweden and at the SLU Global Bioinformatics Centre, Uppsala, Sweden are working with the development and evaluation of the methodological and technological platforms for viral metagenomics. Together with the National Veterinary Institute (SVA), we develop and test methods for extraction of viromes, feasibility of sequencing platforms to deliver metagenomic data-sets and evaluate bioinformatics tools as well as combine them into software packages for analysis and exploration of metagenomes. The aim of the work is to provide insight into using the metagenomics approach for detection of emerging viruses.

Author Biographies

  • Oskar Erik Karlsson, 1 Department of Biomedical Sciences and Veterinary Public Health (BVF), Swedish University of Agricultural Sciences (SLU), Uppsala 2 SLU Global Bioinformatics Centre, Department of Animal Breeding and Genetics (HGEN), Swedish University of Agricultural Sciences (SLU), Uppsala 3 The Joint Research and Development Division of SLU and SVA, OIE Collaborating Centre for the Biotechnology-based Diagnosis of Infectious Diseases in Veterinary Medicine (OIE CC), Uppsala,

    PhD Student

    Swedish University of Agricultural Sciences (SLU)
    Dept of Biomedical Sciences & Veterinary Public Health, Section of Virolog

  • Martin Norling, SLU Global Bioinformatics Centre, Department of Animal Breeding and Genetics (HGEN), Swedish University of Agricultural Sciences (SLU), Uppsala

    Phd Student

    SLU Global Bioinformatics Centre, Department of Animal Breeding and Genetics (HGEN), Swedish University of Agricultural Sciences (SLU), Uppsala, Sweden

  • Fredrik Granberg, 1 Department of Biomedical Sciences and Veterinary Public Health (BVF), Swedish University of Agricultural Sciences (SLU), Uppsala 2 The Joint Research and Development Division of SLU and SVA, OIE Collaborating Centre for the Biotechnology-based Diagnosis of Infectious Diseases in Veterinary Medicine (OIE CC), Uppsala

    PhD

    Swedish University of Agricultural Sciences (SLU) Dept of Biomedical Sciences & Veterinary Public Health, Section of Virolog

  • Sándor Belák, 1 Department of Virology, Immunobiology and Parasitology, (VIP), National Veterinary Institute (SVA), Uppsala 2 Department of Biomedical Sciences and Veterinary Public Health (BVF), Swedish University of Agricultural Sciences (SLU), Uppsala 3 The Joint Research and Development Division of SLU and SVA, OIE Collaborating Centre for the Biotechnology-based Diagnosis of Infectious Diseases in Veterinary Medicine (OIE CC), Uppsala

    Professor

    Department of Virology, Immunobiology and Parasitology, (VIP), National Veterinary Institute (SVA), Uppsala, Sweden

     

  • Erik Bongcam-Rudloff, 1 SLU Global Bioinformatics Centre, Department of Animal Breeding and Genetics (HGEN), Swedish University of Agricultural Sciences (SLU), Uppsala

    Associate Professor

    SLU Global Bioinformatics Centre, Department of Animal Breeding and Genetics (HGEN), Swedish University of Agricultural Sciences (SLU), Uppsala, Sweden

     

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Published

2013-04-08

Issue

Vol. 19: Supplement A

Section

Oral Presentations

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