Assessment of Plant-Growth Promoting Potential of Bacteria Isolated from Amazonian Black Pepper Roots

Abstract

Purpose: In the Amazon, farmers use chemical fertilizers on a large scale to meet the nutritional requirements of some crops. Plant-growth promoting bacteria (PGPB) offer a sustainable alternative to enhance crop productivity. This study aimed to prospect novel PGPB from Amazonian black pepper (Piper nigrum L.) roots. Methods: Bacterial isolates were obtained from plant roots, evaluated for their biofertilizing potential, and the most promising strain was selected for genome sequencing. Taxonomic classification was based on 16 S rRNA gene sequencing. ACC deaminase activity, phosphate solubilization, and nitrogen fixation were assessed. Genome sequencing was performed using the Ion GeneStudio S5 platform. Results: The 20 isolates were affiliated to Enterobacter (7 isolates), Klebsiella (4 isolates), Kosakonia (5 isolates), Bacillus (2 isolates), and two unclassified bacteria. Seven isolates were positive for ACC deaminase activity, while four were positive for the presence of the nifH gene. Nitrogenase gene was found only in Kosakonia isolates. Ninety isolates were able to solubilize phosphate. The isolate Pn16 was the most promising and presented a genome of 6,432,985 bp, GC content of 55%, 6,465 Coding Sequences, 10 Symbiotic Islands, 28 biosynthetic gene clusters, and several genes involved in plant-growth promotion such as phoU-pstSCAB-phoBR, oqxAB, ipdC, speADEGF, nifHDK. Conclusions: We were able to isolate a bacterium with potential for biofertilization. Based on phylogeny and Average Nucleotide Identity, we propose the classification of the Pn16 isolate as Kosakonia pseudosacchari Pn16.