Draft genome of Pseudomonas sp. strain CD21
The PureLink genomic DNA isolation kit (Thermo Fisher Scientific, USA) was used to extract genomic DNA from the isolates, grown overnight in Luria broth (Himedia) at 30C and 100rpm. DNA was then quantified using a SPECTROstar Nano microplate reader (BMG Labtech, Germany) (5). An Ion Xpress Plus fragment library kit was used to create a library from genomic DNA that had been enzymatically sheared (Thermo Fisher Scientific). SizeSelect 2% agarose E-Gel (Thermo Fisher Scientific) was used to select around 330-bp DNA sequences, which were then sequenced on the Ion S5 systems 540 chip (Thermo Fisher Scientific). Low-quality (>Q20) and polyclonal readings were filtered out before sequence retrieval from the Ion S5, and the adapter sequences were edited using the inbuilt PGM software (Torrent Suite 5.8.0) using default parameters: settings to filter out reads less than a minimum read length (--min-read-length of 25), adapter trimming settings (trim-adapter-cutoff of 16.0; trim-adapter-min-match of 6), and quality trimming settings (--trim-qual-window-size of 30; --trim-qual-cutoff of 16), and to filter out too-short reads (--trim-min-read-length of 25). SPAdes v3.13.0 with default parameters was used to assemble the high-quality reads into contigs.