Genome Sequencing of Bacterial Strains

The genomes of MB and 11a were sequenced on an Illumina GA-II genome analyzer at the Beijing Genome Institute (BGI-Hong Kong). A paired-end sequencing method of 90 bp long reads in 200 bp insert library was used, yielding coverage depth of about 110 × per genome. The National Center for Bio-technology Information (NCBI) accession numbers for strains MB and 11a are stated in Table 1. Quality sequences were obtained using a threshold of 20 as quality score47 (link). Detailed methodology on genome construction, open reading frame predictions, annotation, genome comparison, phylogenetic tree construction, heatmap of non-core genes and Clustered regularly interspaced short palindromic repeats (CRISPR) searches can be found as Supplementary Methods online. Adobe Illustrator CS6 was used to enhance the resolution of figures throughout this manuscript.