Matthew Clark from The Genome Analysis Center presented at the Nanopore Community Meeting 2016 a session with the title “MinION metagenomics: from mock communities to clinical samples.” They took a mock community with twenty equimolar genomes. They were impressed with the results: 98%+ aligned, and there were long alignments. At the time, the group used R7.3 flow cells! The team used their “Nanuk” workflow for classification. Next, Clark and the team worked with the BAMBI study: Baby Associated MicroBioata of the Intestine. These babies often are pre-term and suffer necrotizing enterocolitis (NEC). For each patient in the study, several samples are obtained over time. Clark shared rarefaction curves, suggesting enough sequencing depth is being obtained. Reads were mapped to the CARD antibiotic resistance gene database and compared to the treatment regimes experienced by these babies. This recording was from early uses of the MinION for metagenomic analysis and microbiome projects.
