Draft genome of five Cupriavidus plantarum strains: agave, maize and sorghum plant-associated bacteria with resistance to metals

• Published in: 3 Biotech Vol. 10; no. 6; p. 242
• Main Authors: Arroyo-Herrera, Ivan, Rojas-Rojas, Fernando Uriel, Lozano-Cervantes, Karla Daniela, Larios-Serrato, Violeta, Vásquez-Murrieta, María Soledad, Whtiman, William B., Ibarra, J. Antonio, Estrada-de los Santos, Paulina
• Format: Journal Article
• Language: English
• Published: Cham Springer International Publishing 01-06-2020; Springer Nature B.V
• Subjects: Agriculture; Archaea; Arsenates; Arsenite; Bacteria; Bacteriocins; Bioinformatics; Biomaterials; Bioremediation; Biosynthesis; Biotechnology; Cancer Research; Cellulose; Chemistry; Chemistry and Materials Science; Chitinase; Chromium; Cobalt; Deoxyribonucleic acid; DNA; Encyclopedias; Federal agencies; Gene sequencing; Genes; Genome Reports; Genomes; Heavy metals; Hybridization; Metals; Nickel; Nucleotides; Peptides; Phenazine; Phosphonates; Siderophores; Sorghum; Stem Cells; Strains (organisms); Terpenes; PGP bacteria; Rhizobacteria; Plant-associated bacteria; Metal resistance; Cupriavidus
• ISSN: 2190-572X; 2190-5738
• DOI: 10.1007/s13205-020-02210-8

Five strains of
Cupriavidus plantarum
, a metal-resistant, plant-associated bacterium, were selected for genome sequencing through the Genomic Encyclopedia of Bacteria and Archaea (GEBA) Phase IV project at the Joint Genome Institute (JGI) of the U.S. Department of Energy (DOE). The genome of the strains was in the size range of 6.2–6.4 Mbp and encoded 5605–5834 proteins; 16.9–23.7% of these genes could not be assigned to a COG-associated functional category. The G + C content was 65.83–65.99%, and the genomes encoded 59–67 stable RNAs. The strains were resistant in vitro to arsenite, arsenate, cobalt, chromium, copper, nickel and zinc, and their genomes possessed the resistance genes for these metals. The genomes also encoded the biosynthesis of potential antimicrobial compounds, such as terpenes, phosphonates, bacteriocins, betalactones, nonribosomal peptides, phenazine and siderophores, as well as the biosynthesis of cellulose and enzymes such as chitinase and trehalase. The average nucleotide identity (ANI) and DNA-DNA in silico hybridization of the genomes confirmed that
C. plantarum
is a single species. Moreover, the strains cluster within a single group upon multilocus sequence analyses with eight genes and a phylogenomic analyses. Noteworthy, the ability of the species to tolerate high concentrations of different metals might prove useful for bioremediation of naturally contaminated environments.