GHRU Protocols

GHRU Protocols

The links below are to the latest copies of the protocols, SOPs and training materials

Whole Genome Sequencing (Wet-lab)


Methods and workflows as developed for "Empowering microbiology laboratories in emerging economies with scalable genome sequencing for routine pathogen surveillance" CID manuscript

Full List of wet-lab SOPs
  1. Genomic DNA Isolation

    Bacterial Genomic DNA Isolation using the Nexttec 1-step Kit

    Genomic DNA Quantification using a Qubit Fluorometer

    Genomic DNA Purity Measurement using a Nanodrop Spectrophotometer

  2. DNA Library Preparation

    DNA Library Preparation using the NEBNext Ultra II FS DNA Kit for Illumina

    Quality Control (QC) of DNA Libraries for Whole Genome Sequencing

  3. Library Normalisation and Pooling

    Normalisation and Pooling of DNA Libraries for Illumina Whole Genome Sequencing

  4. Whole Genome Sequencing

    Operation of the Illumina MiSeq for Whole Genome Sequencing

  5. DNA Sample Transport

    Preparation of DNA Isolates for Domestic and Overseas Transport



Methods used for the "Overcoming data bottlenecks in pathogen genomic surveillance" CID manuscript

Training Materials

Bioinformatics Training

Our Research Alliances and Funders


Centers for Disease
Control and Prevention


European Centre for Disease Prevention and Control


Food and Agriculture Organisation
of the United Nations


National Institutes
for Health


National Institute for
Health Research


World Health Organisation

Big Data Institute logoOxford University logoWellcome Trust logo
Wellcome Sanger Institute logoWellcome Genome Campus logo

Ⓒ 2019 Centre for Genomic Pathogen Surveillance