Complete genome sequence of Nguyenibacter sp. L1, a phosphate solubilizing bacterium isolated from Lespedeza bicolor rhizosphere

• Published in: Frontiers in microbiology Vol. 14; p. 1257442
• Main Authors: Li, Xiao Li, Lv, Xin Yang, Ji, Jun Bin, Wang, Wei Duo, Wang, Ji, Wang, Cong, He, Hai Bin, Ben, Ai Ling, Liu, Ting Li
• Format: Journal Article
• Language: English
• Published: Switzerland Frontiers Media S.A 11.12.2023
• Subjects: gene functions; Microbiology; Nguyenibacter sp. L1; nitrogen fixation; phosphate dissolution; whole genome; gene functions; phosphate dissolution; nitrogen fixation; Nguyenibacter sp. L1; whole genome
• ISSN: 1664-302X; 1664-302X
• DOI: 10.3389/fmicb.2023.1257442

Phosphorus (P) deficiency is a predominant constraint on plant growth in acidified soils, largely due to the sequestration of P by toxic aluminum (Al) compounds. Indigenous phosphorus-solubilizing bacteria (PSBs) capable of mobilizing Al-P in these soils hold significant promise. A novel Al-P-solubilizing strain, Al-P sp. L1, was isolated from the rhizosphere soil of healthy plants indigenous to acidic terrains. However, our understanding of the genomic landscape of bacterial species within the genus remains in its infancy. To further explore its biotechnological potentialities, we sequenced the complete genome of this strain, employing an amalgamation of Oxford Nanopore ONT and Illumina sequencing platforms. The resultant genomic sequence of sp. L1 manifests as a singular, circular chromosome encompassing 4,294,433 nucleotides and displaying a GC content of 66.73%. The genome was found to host 3,820 protein-coding sequences, 12 rRNAs, and 55 tRNAs. Intriguingly, annotations derived from the eggNOG and KEGG databases indicate the presence of genes affiliated with phosphorus solubilization and nitrogen fixation, including U, A, and B/D associated with nitrogen fixation, and BC associated with inorganic phosphate dissolution. Several bioactive secondary metabolite genes in the genome, including CDE, phytoene synthase and squalene synthase predicted by antiSMASH. Moreover, we uncovered a complete metabolic pathway for ammonia, suggesting an ammonia-affinity property inherent to sp. L1. This study verifies the nitrogen-fixing and phosphate-dissolving abilities of sp. L1 at the molecular level through genetic screening and analysis. The insights gleaned from this study offer strategic guidance for future strain enhancement and establish a strong foundation for the potential incorporation of this bacterium into agricultural practices.