| Abstrak/Abstract |
Pseudoalteromonas viridis strain BBR56 was isolated from seawater at Dutungan Island, South Sulawesi, Indonesia.
Bacterial DNA was isolated using Promega Genomic DNA TM050. DNA purity and quantity were assessed using
NanoDrop spectrophotometers and Qubit fluorometers. The DNA library and sequencing were prepared using
Oxford Nanopore Technology GridION MinKNOW 20.06.9 with long read, direct, and comprehensive analysis.
High accuracy base calling was assessed with Guppy version 4.0.11. Filtlong and NanoPlot were used for filtering
and visualizing the FASTQ data. Flye (2.8.1) was used for de novo assembly analysis. Variant calls and consensus
sequences were created using Medaka. The annotation of the genome was elaborated by DFAST. The assembled
genome and annotation were tested using Busco and CheckM. Herein, we found that the highest similarity of the
BBR56 isolate was 98.37% with the 16 S rRNA gene sequence of P. viridis G-1387. The genome size was 5.5 Mb and
included chromosome 1 (4.2 Mbp) and chromosome 2 (1.3 Mbp), which encoded 61 pseudogenes, 4 noncoding
RNAs, 113 tRNAs, 31 rRNAs, 4,505 coding DNA sequences, 4 clustered regularly interspaced short palindromic
repeats, 4,444 coding genes, and a GC content of 49.5%. The sequence of the whole genome of P. viridis BBR56 was
uploaded to GenBank under the accession numbers CP072425–CP072426, biosample number SAMN18435505, and
bioproject number PRJNA716373. The sequence read archive (SRR14179986) was successfully obtained from NCBI
for BBR56 raw sequencing reads. Digital DNA–DNA hybridization results showed that the genome of BBR56 had
the potential to be a new species because no other bacterial genomes were similar to the sample. Biosynthetic
gene clusters (BGCs) were assessed using BAGEL4 and the antiSMASH bacterial version. The genome harbored
diverse BGCs, including genes that encoded polyketide synthase, nonribosomal peptide synthase, RiPP-like, NRPmetallophore, hydrogen cyanide, betalactone, thioamide-NRP, Lant class I, sactipeptide, and prodigiosin. Thus,
BBR56 has considerable potential for further exploration regarding the use of its secondary metabolite products in
the human and fisheries sectors. |
