Background: Endophytic bacteria are ubiquitous in all plant species contributing in host plant's nutrient uptake and helping the host to improve its growth. Moringa peregrina is a medicinal plant, growing in arid region of Arabia was assessed for the presence of endophytic bacterial strains.

Results: PCR amplification and sequencing of 16S rRNA of bacterial endophytes revealed that the 5 endophytic bacteria, in which 2 strains were from Sphingomonas sp; 2 strains from Bacillus sp. and 1 from Methylobacterium genus. Among endophytic bacterial strains, a strain of Bacillus subtilis LK14 have shown significant prospects in phosphate solubilization (clearing zone of 56.71 mm after 5 d), ACC deaminase (448.3 ± 2.91 nM α-ketobutyrate mg^-1 h^-1) and acid phosphatase activity (8.4 ± 1.2 nM mg^-1 Min^-1). The endophytic bacteria were also assessed for their potential to produce indole-3-acetic acid (IAA). Among isolated strains, the initial spectrophotometry analysis showed significantly higher IAA production by Bacillus subtilis LK14. The diurnal production of IAA was quantified using multiple reactions monitoring method in UPLC/MS-MS. The analysis showed that LK14 produced highest (8.7 µM) IAA on 14th d of growth. Looking at LK14 potentials, it was applied to Solanum lycopersicum, where it significantly increased the shoot and root biomass and chlorophyll (a and b) contents as compared to control plants.