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

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

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Bioinformatics

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

Bioinformatics Training Materials