Metagenomics sample preparation and sequencing.

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
  • Erik Bongcam-Rudloff 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.662

Keywords:

veterinary medicine, virology, metagenomics, molecular niology

Abstract

Metagenomic methods for detection of viruses provide new diagnostic tools to veterinary and public health laboratories, with powerful capacities to detect and to monitor the viromes in clinical samples. The Metagenomics methodology is divided into three main activities or steps: (1) wet-lab methodology; (2) sequencing; and (3) data analysis. The aim of the work is to provide insight into using the metagenomics approach for detection of emerging viruses, monitoring wildlife for known pathogens as well as providing a tool for rapid characterization of viral pathogens in outbreak situations. The main goal of the work is now to define Standard Operating Procedures for metagenomic investigations of clinical material and continuously provide a technology watch for the use of NGS within metagenomics in the Veterinary medicine field.

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

  • Erik Bongcam-Rudloff, 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

Posters

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