Draft Genome Sequence of Jeotgalibacillus soli DSM 23228, a Bacterium Isolated from Alkaline Sandy Soil

Abstract

Jeotgalibacillus soli, a bacterium capable of degrading N-acyl homoserine lactone, was isolated from a soil sample in Portugal. J. soli constitutes the only Jeotgalibacillus species isolated from a non-marine source. Here, the draft genome, several interesting glycosyl hydrolases, and its putative N-acyl homoserine lactonases are presented.

GENOME ANNOUNCEMENT

Jeotgalibacillus is under explored halophilic genus of family Planococcaceae. The cell wall peptidoglycan of members of this genus is of the A1α type, linked directly through l-Lys. The major quinones of Jeotgalibacillus spp. are MK-7 and MK-8 (1). With the exception of J. soli DSM 23228, isolated from alkaline sandy soil, representatives of this genus are associated with marine sources or fermented seafood. J. soli has been identified as being strictly aerobic, oxidase- and catalase-positive, and positive for H₂S production (2). Cells have single polar or subpolar flagella. J. soli is distinctive from other Jeotgalibacillus spp. in its limited tolerance to NaCl (maximum 9% [wt/vol]). Other species such as J. alimentarius, J. salarius, J. malaysiensis, and J. campisalis, for instance, are able to tolerate concentrations of 15 to 30% (wt/vol) (1, 3, 4).

Strain DSM 23228 was obtained from the Deutsche Sammlung von Mikroorganismen und Zellkulturen and its genome was sequenced using an Illumina MiSeq sequencer. An average coverage of 200-fold was obtained for the draft genome of 3,776,953 bp in 24 contigs with a N₅₀ of 525,494. The de novo assembly was performed using SPAdes (5). Gene prediction was carried out using Glimmer 3.02 (6), tRNA prediction with tRNAscan-SE (7), and rRNA prediction with HMMER (8), while BLAST searches were performed against several databases including CatFam, COG, NCBI RefSeq, and SEED.

The G+C content of the J. soli genome is 39.7%. The total number of predicted genes is 3,938, and 5 rRNA and 78 tRNA genes were identified. Protein coding genes with predicted functions number 3,040, equivalent to approximately 80% of the total number of predicted genes. Of these, 968 sequences putatively code for catalytic enzymes. The ability of J. soli to use starch as a carbon source may be explained by the presence of enzymes (3 α-amylases and 2 pullulanases) that act on α-1,4 and α-1,6 glycosidic bonds. In addition, our detection of the key glycogen-degrading enzyme oligo-1,4-1,6-α-glucosidase is consistent with the capacity of J. soli to grow on glycogen. Although β-glucosidase activity was not observed using a standard API 50 CHB/E test (bioMérieux), a gene encoding this enzyme was identified in the J. soli genome. In addition, the N-acyl homoserine lactone (AHL) degradation capability of J. soli was validated using an AHL inactivation assay performed with N-hexanoyl-l-homoserine lactone and N-(3-oxohexanoyl)-l-homoserine lactone, and several putative N-acyl homoserine lactonases (9, 10) were identified in the genomic sequence. Based on the same assay, J. alimentarius, J. salarius, J. malaysiensis, and J. campisalis were found to be unable to degrade AHL.

Nucleotide sequence accession numbers.

This whole-genome shotgun project has been deposited in DDBJ/EMBL/GenBank under the accession no. JXRP00000000. The version described in this paper is the first version, JXRP01000000.