Genome Sequencing and Genome de novo Assembly

Genomic DNA of Pseudoruegeria sp. M32A2M was extracted using the Wizard Genomic DNA Purification Kit (Promega, USA) following the manufacturer’s protocol. The quality of extracted genomic DNA was checked by NanoDrop 2000 (ThermoFisher Scientific, USA) for a UV absorbance ratio (260:280) at ~2 and inspection by 1% agarose gel electrophoresis. A genome sequencing library with an insert size of 550 bp was prepared using the TruSeq Nano DNA Library Prep Kit (Illumina, USA) following the manufacturer’s protocol. The prepared genome sequencing library was sequenced using a 250-cycle paired-end reaction on the Illumina Miseq platform. Raw sequencing reads were subjected to PlasmidSeeker for the detection of a native plasmid [29]. Sequencing data were processed on a CLC Genomics Workbench 6.5.1. (CLC bio, Denmark). PhiX, adapters, and quality trimmed reads were used for de novo genome assembly (word size = 24, bubble size = automatic, and mapping option = map reads back to contigs (slow)). This Whole Genome Shotgun project has been deposited at DDBJ/ENA/GenBank under the accession {"type":"entrez-nucleotide","attrs":{"text":"VNKR00000000","term_id":"1807798975"}}VNKR00000000. The version described in this paper is version {"type":"entrez-nucleotide","attrs":{"text":"VNKR01000000","term_id":"1807798975"}}VNKR01000000.