Pseudomonas is a key player in conferring disease suppressiveness in organic farming

Khatri, Shivani; Sazinas, Pavelas; Strube, M. L.; Ding, Lian; Dubey, S.; Shivay, Yashbir Singh; Sharma, Shilpi; Jelsbak, Lars

doi:10.1007/s11104-023-05927-6

Cited by 15 publications

(1 citation statement)

References 70 publications

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“…While the available literature on Rhodanobacter is limited, it has been reported that it has the capacity to act as a denitrifying bacterium, which, if it occurs excessively, can result in the loss of nitrogen, an essential nutrient for plant growth, and reduce nitrogen availability for crops in agricultural soils [54,55]. Furthermore, in the case of Streptomyces and Pseudomonas, these genera have been widely reported in agricultural soils due to their biocontrol properties and their ability to act as antagonists against plant pathogens [56,57], their capacity to degrade and metabolize a wide range of organic compounds [58][59][60], and their ability to produce substances that promote plant growth, such as phytohormones, enzymes, and siderophores, which can enhance nutrient absorption and stimulate plant growth [61][62][63]. In the case of less common genera, it is important to highlight some low-abundance genera that, despite their scarcity, may play significant roles in the rhizosphere.…”

Section: Discussionmentioning

confidence: 99%

Exploring Microbial Rhizosphere Communities in Asymptomatic and Symptomatic Apple Trees Using Amplicon Sequencing and Shotgun Metagenomics

Muñoz-Ramírez,

González-Escobedo,

Avila-Quezada

et al. 2024

Agronomy

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The rhizosphere is a dynamic and highly interactive habitat where diverse microbial communities are established, and it plays crucial roles in plant health and disease dynamics. In this study, microbial communities and functional profiles in the rhizosphere of both asymptomatic and symptomatic apple trees were investigated through amplicon sequencing and shotgun metagenomics. The research was conducted at a location in the municipality of Cuauhtemoc, Chihuahua State, Mexico, and a total of 22 samples were collected, comprising 12 for amplicon sequencing and 10 for shotgun metagenomic sequencing. Symptomatic trees were identified based on reddish branches and internal necrosis in the trunk and root, while asymptomatic trees exhibited a healthy physiology. The findings showed that the dominant bacterial phyla included Proteobacteria, Actinobacteria, and Bacteroidetes, with prevalent genera such as Streptomyces, Pseudomonas, and Rhodanobacter. The fungal communities featured Ascomycota, Mortierellomycota, and Basidiomycota, which were dominated by Fusarium, Penicillium, and Mortierella. In the fungal communities, Mortierellomycota, notably abundant in asymptomatic trees, holds potential as a biocontrol agent, as seen in other studies on the suppression of Fusarium wilt disease. The application of shotgun metagenomic sequencing revealed significant differences in alpha and beta diversities in bacterial communities, suggesting a health-dependent change in species composition and abundance. Functional profile analysis highlighted enzymatic activities associated with lipid synthesis/degradation, amino acid biosynthesis, carbohydrate metabolism, and nucleotide synthesis, which have been documented to participate in symbiotic relationships between plants. These insights not only contribute to understanding the dynamics of rhizosphere microbial activity but also provide valuable perspectives on the potential application of microbial communities for tree health and implications for the management of apple orchards.

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