Structure Analysis of Genomic Islands Flanked by 5' and 3' End of the tRNA~(Gly-CCC) Gene in Delftia Acidovorans SPH-1

摘要

Delftia acidovorans SPH-1 is a beta-Proteobacterium that degrades a number of organic compounds. Genomic islands play the important role in horizontal gene transfer. Two prophage-related genomic islands (GIs), SPHGI~(Gly-CCC)-1 and SPHGI~(Gly-CCC)-2, were determined and are integrated into 5' and 3' end of the tRNA~(Gly-CCC) gene (Daci_R0056) that was aligned with D. acidovorans SPH-1 chromosome. The genomic islands that have similar flanking direct repeats and homologous integrases with SPHGI~(Gly-CCC)-1 and SPHGI~(Gly-CCC)-2 verified in Delftia sp. Cs1-4, Bordetella petrii strain DSM 12804, Pseudomonas stutzeri DSM 4166, and several Pseudomonas aeruginosa strains, respectively. The cutting sites of the integrases in SPHGI~(Gly-CCC)-1 and SPHGI~(Gly-CCC)-2 that are annotated as DNA breaking-rejoining enzyme and P4 integrase are located inside DHU loop and downstream region of T Ψ C loop, respectively. SPHGI~(Gly-CCC)-1, SPHGI~(Gly-CCC)-2, and their structure similar GIs should be transfer into many beta-Proteobacterium chromosomes that have highly similar tRNA~(Gly-CCC) gene with D. acidovorans SPH-1, and these strains that capture the GIs will obtain new character.