Whole genome sequencing and bioinformatics analysis of Photobacterium kishitanii FJ21

Abstract

Background: Photobacterium kishitanii FJ21 is isolated and purified in the laboratory, and it is a kind of gram-negative bacteria that can emit blue-green fluorescence under normal conditions. In order to understand the lux operon that has luminescence activity, the whole-genome sequencing and bioinformatics analysis of Photobacterium kishitanii were carried out by using Nanopore sequencing technology. The sequencing data were predicted by the secondary structure and tertiary structure of the protein encoded by lux genes, genome assembly, GC content, gene prediction and functional annotation, phylogenetic tree, genome collinearity analysis and secondary metabolite synthesis gene cluster prediction. Result: Sequencing results showed that there were luxC, luxD, luxA, luxB, luxF, luxE and luxG genes in Photobacterium kishitanii FJ21, and the protein encoded by lux genes had certain hydrophilicity. The genome of this strain contains a chromosome with a total length of 4853277bp and a GC content of 39.23%. There are 3141, 1769, 2472, 4070, 3514 and 1413 genes annotated in COG, KEGG, GO, Refseq, Pfam and TIGRFAMs databases, respectively. At the same time, three types of secondary metabolite gene clusters are predicted, namely RiPP-like, betalactone and arylpolyene. 870 genes were annotated in PHI database. The antibiotic resistance genes of the strain were annotated with CARD database. Conclusion: This study reported the whole genome sequence Photobacterium kishitanii FJ21, and the related research results will provide a basis for further study of lux genes, photogenic activities and mining of other functional genes of this strain.