WGS Nanopore for Serratia ureilytica: Dryococelus australis
DNA purified using the DNeasy kit on a QiaCube extractor (Qiagen) and cleaned by 1x SPRI with Agencourt AMPureX magnetic beads. Quality of the genomic DNA preparation assessed with a Nanodrop spectrophotometer and quantified with a Quantus fluorometer using QuantiFluor dsDNA reagent (Promega). Genomic DNA sheared with a Covaris gTube to generate ~8kb fragments. Sequencing library prepared with the Oxford Nanopore kit SQK-LSK208, using a mixture of 2.2 g of sheared DNA and 0.55 g of non-sheared DNA. Sequencing performed with a MinION MK-Ib device fitted with flowcell R9.4 for 17 hours. Basecalling performed with Albacore version 1.1.2 to generate 2D reads in FASTQ format. Reads filtered for length of >1kb and mean PHRED quality of >15 with the script fastq_to_fastq.py (https://github.com/rrwick/Fast5-to-Fastq).