Draft Genome Sequence of Antagonistic Agent Lysobacter antibioticus 13-6.

Lysobacter antibioticus 13-6, isolated from the roots of Chinese cabbage, effectively controls the pathogens Plasmodiophora brassicae, Xanthomonas oryzae pv. oryzicola, X. oryzae pv. oryzae, Xanthomonas axonopodis pv. dieffenbachiae, and Pseudomonas syringae pv. tabaci. We report the first draft genome sequence of the L. antibioticus species in China.

GENOME ANNOUNCEMENT

The genus Lysobacter represents a source of biocontrol agents, which consisted of 16 species (1, 2). Recently, we reported that application of L. antibioticus 13-6 can control brassicae clubroot (3). Due to its tremendous potential application value, we analyzed the draft genome sequence of L. antibioticus 13-6.

13-6 genomic DNA was extracted from cell grown at 28°C in Luria-Bertani agar (LB) liquid cultures by using a genomic-tip 100/G kit (Qiagen GmbH, Hilden, Germany). DNA shotguns libraries were constructed using 1-kb fragments which were break-interrupted by Fisher. A TruSeqTM DNA sample prep kit—Set A (Illumina, USA), TruSeq PE cluster kit, and Illumina Hiseq2500 were used for the construction of libraries, amplification, and sequencing, respectively. A total of 11,524,134 filtered reads for the 13-6 genome were assembled into 162 contings (N50 length, 60,432), with an average coverage of 40.0×, using the A5 pipeline. The genome has a G+C content of 67.14%, which is similar to the content of the strain of L. capsici AZ78 (4); 4,056 genes belong to homologous sequences in the NCBI nr database, in which 2,674 genes were assigned functions by using the NCBI Prokaryotic Genomes Annotation Pipeline utilizing Gene-MarkS.

The analysis showed that the genome contains genes involved in phenylalanine, lipoic acid, laurine, and hypotaurine metabolism. Betalain synthetic genes were also found in the 13-6 genome. As excepted, the 13-6 genome contains a high number of genes coding for antibiotics, a property that explains its resistance to plant pathogens, specifically, tetracycline, vancomycin, β-lactam, streptomycin, novobiocin, penicillin, cephalosporin, butirosin, and neomycin.

The availability of the draft genome of L. antibioticus 13-6 will help elucidate the mechanism of disease prevention and will provide background knowledge for its production and application.

Nucleotide sequence accession number.

This whole-genome shotgun project has been deposited at GenBank under the accession no. JMTZ00000000.