Complete genome sequence of Picosynechococcus sp. strain NKBG15041c, a fast-growing marine cyanobacterium
Data files
Jul 08, 2025 version files 2.07 GB
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15041c_genome_LGK9224.hifi_reads.fastq
1.48 GB
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15041c-genome_R1_001.fastq.gz
288.85 MB
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15041c-genome_R2_001.fastq.gz
306.03 MB
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README.md
2.26 KB
Abstract
Here, we report the complete genome sequence of Picosynechococcus sp. strain NKBG15041c, which was isolated from coastal seawater in Okinawa prefecture, Japan. Additionally, we determined the complete sequences of three associated plasmids. The genomic DNA was sequenced using both Illumina and PacBio platforms. Genome assembly, integrating PacBio long reads and Illumina short reads, was performed using B-assembler. The longest circular contig represents the complete genome of P. NKBG1504c, comprising 2,845,435 bp with a G+C content of 49.8%. The three circular contigs showed high homology with plasmids from Synechococcus sp. NIES-970.
This Readme file lists the raw sequence files of Illumina short reads and PacBio Long reads for the genome of Picosynechococcus sp. strain NKBG1504c.
Dataset DOI: 10.5061/dryad.wdbrv161k
Description of the data and file structure
P. NKBG15041c was cultivated in BG11 medium supplemented with 3% NaCl under continuous illumination (50 µmol photons m⁻² s⁻¹) at 30 °C with shaking at 100 rpm. Cells were grown until the OD₆₆₀ reached 0.4, and then harvested by centrifugation at 8,000×g for 10 minutes at 4℃. Genomic DNA was extracted from bacterial pellets using ISOIL for Bead Beating (NIPPON GENE) according to the manufacturer’s instructions. Following RNase treatment for 30 minutes at 4 °C, the DNA was purified by phenol-chloroform extraction and ethanol precipitation.
For Illumina sequencing, 500 ng of genomic DNA was fragmented to a target size of 350 bp (range: 250–650 bp) using a Covaris M220 Focused-ultrasonicator and purified using PCR Clean DX Beads (Aline Biosciences). Library preparation was performed using the NEB Next Ultra II DNA Library Prep Kit for Illumina (NEB). The resulting sequencing libraries were quantified using the Qubit DNA Assay (Thermo Fisher Scientific), and their fragment size distribution was assessed using the TapeStation D1000 ScreenTape (Agilent). The library was sequenced with 150-bp pair-end reads on the Novaseq 6000 Sequencing System. For PacBio sequencing, 3 μg of genomic DNA was sheared to an appropriate fragment length by g-TUBE (Covaris) and used for library construction with the SMRTbell® Prep Kit 3.0 (PacBio). The library concentration was quantified using a Qubit 3.0 Fluorometer (Invitrogen), and its size distribution was assessed using an Agilent 2100 Bioanalyzer System. Subsequent steps were carried out according to the manufacturer's instructions. The library was sequenced using HiFi chemistry on the PacBio Sequel IIe platform.
Files
Illumina short read
15041c-genome_R1_001.fastq.gz
15041c-genome_R2_001.fastq.gz
PacBio long read
15041c_genome_LGK9224.hifi_reads.fastq