Draft Genome Sequence of Deep-Sea Alteromonas sp. Strain V450 Isolated from the Marine Sponge Leiodermatium sp.

The proteobacterium Alteromonas sp. strain V450 was isolated from the Atlantic deep-sea sponge Leiodermatium sp. Here, we report the draft genome sequence of this strain, with a genome size of approx. 4.39 Mb and a G+C content of 44.01%. The results will aid deep-sea microbial ecology, evolution, and sponge-microbe association studies.

GENOME ANNOUNCEMENT

Alteromonas (Gammaproteobacteria, Alteromonadales, Alteromonadaceae), a genus of Gram-negative Gammaproteobacteria, is often found in seawater, and is attracting research interest in the areas of ecology, evolution, and secondary metabolism (1–4). So far, the genome sequences of 42 Alteromonas species/strains have been deposited into public databases, and 18 of these were released in 2016 (5).

Here, we report the draft genome sequence of a deep-sea Alteromonas sp. strain V450. This strain was cultured using mucin-amended seawater from the Lithistid sponge Leiodermatium sp., the producer of the potent antimitotic agent leiodermatolide (6, 7). The sponge was collected at a depth of 392.5 m on the Miami Terrace located in the southeast of Miami, FL (8).

The V450 genome is the first reported genome of an Alteromonas strain derived from a marine sponge. The 16S rRNA gene sequences of V450 shared 99% similarity with those of various Alteromonas macleodii strains, including the deep-sea isolates AltDE1 and UM7 (3, 9).

Genome sequences were obtained using the Illumina HiSeq 2500 sequencing platform; the draft genome was obtained from 15 million reads of paired-end 125 (PE125) via assembling and optimization according to paired-end and overlap relationships. The G+C content was calculated by GC-depth analysis. The reads were assembled de novo by ABySS (10), SPAdes (11), and MIX (12). Based on the assembly results, the number of scaffolds is five, and the total coverage over the genome is 1,225-fold. The N50 value is 4,393,372 bp. The majority of the sequences were assembled into a scaffold of over 4.3 Mb; with additional four small contigs, the total genome of V450 is 4,398,017 bp. The G+C content is 44.01%. The protein-coding open reading frames (ORFs) and functional annotation were predicted by RAST and Prokka (13, 14); rRNA was predicted by the rRNA database and RNAmmer (15), and tRNA was predicted by tRNAscan (16). A total of 3,795 ORFs, 52 tRNAs, and six rRNAs are predicted.

In order to determine whether V450 is possibly the microbial producer of leiodermatolide associated with Leiodermatium sponge, antiSMASH (17) was run to predict secondary metabolic gene clusters in the V450 genome. A total of 25 predictive gene clusters are present in the V450 genome for the biosynthesis of secondary metabolites, such as bacteriocin and nonribosomal peptide.

Accession number(s).

This whole-genome shotgun project has been deposited at DDBJ/ENA/GenBank under the accession no. MODU00000000. The version described in this paper is version MODU01000000.