Draft genome sequence data of Vibrio harveyi VH1 isolated from a diseased tiger grouper, Epinephelus fuscoguttatus, cultured in Malaysia

Vibriosis accounts for 66.7% of diseases reported in groupers' cultures and affects almost all stages of growth. The disease could lead up to mortality up to 50% mortality, and it was reported that high stocking density and poor fish handling were among the factors that contributed to the disease dissemination. V. harveyi has been reported to be among the causative agent and has caused acute mortality in cage groupers. In this study, we report the genome of V. harveyi VH1 isolated from a diseased tiger grouper Epinephelus fuscoguttatus, reared in a cage farm located in the coastal area of Langkawi.


a b s t r a c t
Vibriosis accounts for 66.7% of diseases reported in groupers' cultures and affects almost all stages of growth. The disease could lead up to mortality up to 50% mortality, and it was reported that high stocking density and poor fish handling were among the factors that contributed to the disease dissemination. V. harveyi has been reported to be among the causative agent and has caused acute mortality in cage groupers. In this study, we report the genome of V. harveyi VH1 isolated from a

Value of the Data
• The draft genome of Vibrio harveyi VH1, isolated from cultured marine fish ( E. fuscoguttatus ) will be useful for further research on the virulence gene transfer of V. harveyi and Vibrio spp. in general. • Data on the genome sequence of Vibrio harveyi VH1 can be used for comparative genomic studies with other Vibrio spp. disease isolates from other places. • Data on the genome sequence of Vibrio harveyi VH1 could be used to identify and characterize important virulence factors that contribute to the pathogenesis. • Data is useful for the bioinformatician and bacteriologist to better understand the genetic features of Vibrio harveyi VH1 and novel insights about its key virulence determinants.

Data Description
The draft genome of V. harveyi strain VH1 was reported in this finding. The draft genome assembly of V. harveyi strain VH1 has a length of 6,094,415 bp and a GC content of 44.8% ( Fig. 1 ). The paired-end reads were assembled de novo into three huge contigs using Canu 1.6 with error and mismatch correction (N50, 3,675,737 bp). Annotation of the draft genome with RAST (Rapid Annotation using Subsystem Technology) 2.0 identified 416 subsystems, 8763 coding sequences (CDS), and 161 total RNAs in the genome ( Table 2 ). 108 coding sequences involves in virulency, diseases, and defense which inclusive of bacteriocins productions, ribosomally synthesized an-  tibacterial peptides, and resistance to antibiotics ( Fig. 2 ). Four coding sequences were found to have identity with phages, prophages, transposable elements and plasmids [1][2][3][4] .
Besides that, 219 coding sequences involved in motility and chemotaxis, 120 coding sequences involved in regulation and cell signaling, 139 coding sequences involved in stress response, and 158 coding sequences involved in cell respiration. The genome sequence of V. harveyi VH1 serves as an additional genomic resource for comparative genomic studies of other V. harveyi strains that infected marine fish ( Fig. 2 ).

Experimental Design, Materials and Methods
V. harveyi strain VH1 was isolated from the skin lesion samples originated from a male diseased tiger grouper Epinephelus fuscoguttatus , reared in a cage farm located in the coastal area of Langkawi, Malaysia ( Table 1 ). The V. harveyi isolate was cultured and maintained in thiosulfatecitrate-bile salts (TCBS) (Oxoid) agar and tryptone soy broth (TSB) (Oxoid), supplemented with NaCl (1.5% w/v) at 30 °C. A TCBS agar is a selective medium for enteropathogenic Vibrio spp. When cultured on TCBS agar, the colonies of pathogenic V. harveyi strain VH1 appeared as yellow colonies. Genomic DNA of V. harveyi VH1 was extracted from the culture using the DNA kit (Thermo Fisher Scientific). Sequencing library was prepared using the Rapid Barcoding Kit (SQK-RBK001) (Oxford Nanopore Technologies, Oxford, UK) as per instruction in the manual provided by the manufacturer. The library was then loaded to a MinION R9 flow cell (FLO-MIN106) (Oxford Nanopore Technologies, Oxford, UK), and the sequencing analysis was performed using MinKNOW software version 1.7.14. Fast5s from Nanopore sequencing were basecalled with ONT Albacore Sequencing Pipeline software version 2.0.2 and reads passing the internal test were used for subsequent analysis [5] . Porechop 0.2.2 ( https://github.com/rrwick/Porechop ) was used for debarcoding and adaptor trimming. Nanopore reads were assembled using Canu 1.6 [6] . For Nanopore-only assembly, output contigs were polished using Nanopolish software version 0.8.1 ( https://github.com/jts/nanopolish ). Contigs from Canu 1.6 were manually closed based on the assembly graph with Bandage software version 0.8.1 [7] .

Ethics Statements
The study was conducted according to the guidelines by the Animal Care and Use Committee Universiti Putra Malaysia (UPM/IACUC/AUP-R078/2019). All animal experiments are reported in compliance with the ARRIVE guidelines and carried out in accordance with the U.K. Animals (Scientific Procedures) Act, 1986 and associated guidelines, EU Directive 2010/63/EU for animal experiments, or the National Institutes of Health guide for the care and use of Laboratory animals (NIH Publications No. 8023, revised 1978).

CRediT Author Statement
The

Declaration of Competing Interest
The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.

Data Availability
Draft genome sequence data of Vibrio harveyi VH1 (Original data) (NCBI).