Whole genome analysis for plant growth promotion profiling of Pantoea agglomerans CPHN2, a non-rhizobial nodule endophyte

Pradeep Kumar; Simran Rani; Priyanka Dahiya; Ajit Kumar; Amita Suneja Dang; Pooja Suneja

doi:10.3389/fmicb.2022.998821

Whole genome analysis for plant growth promotion profiling of Pantoea agglomerans CPHN2, a non-rhizobial nodule endophyte

Front Microbiol. 2022 Nov 7:13:998821. doi: 10.3389/fmicb.2022.998821. eCollection 2022.

Authors

Pradeep Kumar¹, Simran Rani¹, Priyanka Dahiya¹, Ajit Kumar², Amita Suneja Dang³, Pooja Suneja¹

Affiliations

¹ Department of Microbiology, Maharshi Dayanand University, Rohtak, India.
² Centre for Bioinformatics, Maharshi Dayanand University, Rohtak, India.
³ Centre for Medical Biotechnology, Maharshi Dayanand University, Rohtak, India.

Abstract

Reduced agricultural production as well as issues like nutrient-depleted soils, eutrophication, and groundwater contamination have drawn attention to the use of endophyte-based bioformulations to restore soil fertility. Pantoea agglomerans CPHN2, a non-rhizobial nodule endophyte isolated from Cicer arietinum, exhibited a variety of plant growth-promoting traits. In this study, we used NextSeq500 technology to analyze whole-genome sequence information of this plant growth-promoting endophytic bacteria. The genome of P. agglomerans CPHN2 has a length of 4,839,532 bp and a G + C content of 55.2%. The whole genome comprises three different genomic fractions, comprising one circular chromosome and two circular plasmids. A comparative analysis between P. agglomerans CPHN2 and 10 genetically similar strains was performed using a bacterial pan-genome pipeline. All the predicted and annotated gene sequences for plant growth promotions (PGPs), such as phosphate solubilization, siderophore synthesis, nitrogen metabolism, and indole-3-acetic acid (IAA) of P. agglomerans CPHN2, were identified. The whole-genome analysis of P. agglomerans CPHN2 provides an insight into the mechanisms underlying PGP by endophytes and its potential applications as a biofertilizer.

Keywords: KEGG pathway; PGPEB; Pantoea agglomerans; next-generation sequencing; whole genome.