Genomic Analysis of the 1-Aminocyclopropane-1-Carboxylate Deaminase-Producing Pseudomonas thivervalensis SC5 Reveals Its Multifaceted Roles in Soil and in Beneficial Interactions With Plants

Abstract

Beneficial 1-aminocyclopropane-1-carboxylate (ACC) deaminase-producing bacteria promote plant growth and stress resistance, constituting a sustainable alternative to the excessive use of chemicals in agriculture. In this work, the increased plant growth promotion activity of the ACC deaminase-producing Pseudomonas thivervalensis SC5, its ability to limit the growth of phytopathogens, and the genomics behind these important properties are described in detail. P. thivervalensis SC5 displayed several active plant growth promotion traits and significantly increased cucumber plant growth and resistance against salt stress (100mmol/L NaCl) under greenhouse conditions. Strain SC5 also limited the in vitro growth of the pathogens Botrytis cinerea and Pseudomonas syringae DC3000 indicating active biological control activities. Comprehensive analysis revealed that P. thivervalensis SC5 genome is rich in genetic elements involved in nutrient acquisition (N, P, S, and Fe); osmotic stress tolerance (e.g., glycine-betaine, trehalose, and ectoine biosynthesis); motility, chemotaxis and attachment to plant tissues; root exudate metabolism including the modulation of plant phenolics (e.g., hydroxycinnamic acids), lignin, and flavonoids (e.g., quercetin); resistance against plant defenses (e.g., reactive oxygens species-ROS); plant hormone modulation (e.g., ethylene, auxins, cytokinins, and salicylic acid), and bacterial and fungal phytopathogen antagonistic traits (e.g., 2,4-diacetylphloroglucinol, HCN, a fragin-like non ribosomal peptide, bacteriocins, a lantipeptide, and quorum-quenching activities), bringing detailed insights into the action of this versatile plant-growth-promoting bacterium. Ultimately, the combination of both increased plant growth promotion/protection and biological control abilities makes P. thivervalensis SC5 a prime candidate for its development as a biofertilizer/biostimulant/biocontrol product. The genomic analysis of this bacterium brings new insights into the functioning of Pseudomonas and their role in beneficial plant-microbe interactions.

Diversity of the Maize Root Endosphere and Rhizosphere Microbiomes Modulated by the Inoculation with Pseudomonas fluorescens UM270 in a Milpa System

“…Pseudomonas putida is present in the endobiomes of several plant species, including maize, and may play a role in promoting plant growth and health [40]. Pseudomonas thivervalensis is a less well-studied bacterial species; however, some strains have been found to produce compounds that can inhibit the growth of plant pathogens [41]. Serratia fonticola is a bacterial species found in various environments, including soil and water [42].…”

Ethylene, ACC, and the Plant Growth-Promoting Enzyme ACC Deaminase

“…Notwithstanding the abovementioned experiment, most studies of the efficacy of ACC deaminase in thwarting abiotic and biotic stresses have been performed in laboratory experiments, including both growth chamber and greenhouse experiments [ 83 ]. Based on many hundreds of reports of ACC deaminase containing PGPB protecting plants against a wide range of both abiotic and biotic stresses [ 84 , 85 , 86 , 87 , 88 , 89 , 90 , 91 , 92 , 93 , 94 , 95 , 96 , 97 , 98 , 99 , 100 , 101 , 102 , 103 , 104 , 105 , 106 , 107 , 108 , 109 , 110 , 111 , 112 ], it is clear that this enzyme is a key component of the ability of plants to survive and thrive in a multitude of different stressful environments.…”

Salinity stress endurance of the plants with the aid of bacterial genes

“…KBG6.2 ( Girma et al, 2020 ), Enterobacter roggenkampii ED5 ( Guo et al, 2020 ), Jejubacter calystegiae ( Jiang et al, 2021 ), Klebsiella sp. D5A ( Liu et al, 2016 ), Bacillus megaterium STB1 ( Nascimento et al, 2020 ), Pseudomonas thivervalensis SC5 ( Nascimento et al, 2021 ), Pantoea agglomerans ANP8 ( Noori et al, 2021 ), Hartmannibacter diazotrophicus E19T ( Suarez et al, 2019 ), Bacillus flexus KLBMP 4941 ( Wang et al, 2017 ), Enterobacter sp. SA187 ( Andres-Barrao et al, 2017 ), Bacillus paralicheniformis ES-1 ( Iqbal et al, 2022 ), Brevibacterium sediminis MG-1 ( Lutfullin et al, 2022 ), Bacillus sp.…”