Metagenomics And Clinical Benchmarking With Low Coverage Oxford Nanopore Data

Noah Alexander
2015 Zenodo  
We have sequenced an equimolar mixture of six bacterial genomes of interest (Pseudomonas fluorescens, Escherichia coli, Halobacillus halophilus, Pseudoalteromonas haloplanktis, Staphylococcus epidermidis, and Micrococcus luteus) at low coverage using the oxford nanopore minION. We checked the utility of these data for metagenomics work using classification tools BLAST and Kraken. We have also sequenced an Enterobacter cloacae sample at low coverage (1.4X coverage of 2D data) to begin
more » ... g with a sample containing known genetic material with an available reference genome with the same algorithms that were used with the bacterial pool. This dataset remains very low-coverage but does provide more coverage than the bacterial pool dataset affords each constituent sample. We have also sequenced the Genome in a Bottle HG-002 human genome reference material sample, one of the most deeply sequenced samples in existence, in order to assess the Viability of current nanopore methods for clinical sequencing work involving human genetic material.
doi:10.5281/zenodo.31274 fatcat:nemhhd6x7ja5dhucgw7pc4bgxy