Genome Features and AntiSMASH Analysis of an Endophytic Strain Fusarium sp. R1

Aim The aims of this study were to explore the antagonistic potential of siderophore-producing Bacillus subtilis (CWTS 5) for the suppression of Ralstonia solanacearum and to explore the mechanisms of inhibition by FTIR, LC-MS, and whole genome analysis. Methods and results A siderophore-producing B. subtilis (CWTS 5) possessing several plant growth-promoting properties such as IAA and ACC deaminase production, phosphate solubilisation, and nitrogen fixation was assessed for its inhibitory effect against R. solanacearum, and its mechanisms were explored by in vitro and in vivo analyses. The active secondary metabolites in the siderophore extracts were identified as 2-deoxystreptamine, miserotoxin, fumitremorgin C, pipercide, pipernonaline, gingerone A, and deoxyvasicinone by LC-MS analysis. The Arnow's test and antiSMASH analysis confirmed the presence of catecholate siderophores, and the functional groups determined by FTIR spectroscopy confirmed the presence of secondary metabolites in the siderophore extract possessing antagonistic effect. The complete genome sequence of CWTS 5 revealed the gene clusters responsible for siderophore, antibiotics, secondary metabolite production, and antibacterial and antifungal metabolites. Furthermore, the evaluation of CWTS 5 against R. solanacearum in pot studies demonstrated 40.0% reduced disease severity (DSI) by CWTS 5, methanolic extract (DSI-26.6%), ethyl acetate extract (DSI-20.0%), and increased plant growth such as root and shoot length, wet weight and dry weight of Solanum lycopersicum L. owing to its antagonistic potential. This genomic insight will support future studies on the application of B. subtilis as a plant growth promoter and biocontrol agent against R. solanacearum for bacterial wilt management. Conclusion The results of this study revealed that B. subtilis (CWTS 5) possesses multiple mechanisms that control R. solanacearum, reduce disease incidence, and improve S. lycopersicum growth.

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Whole genome sequencing of Penicillium and Burkholderia strains antagonistic to the causal agent of kauri dieback disease (Phytophthora agathidicida) reveals biosynthetic gene clusters related to antimicrobial secondary metabolites

Byers

Condron

O’Callaghan

et al. 2023

Molecular Ecology Resources

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Phytophthora agathidicida is a virulent soil pathogen of Aotearoa New Zealand's iconic kauri tree species (Agathis australis (D. Don) Lindl.) and the primary causal agent of kauri dieback disease. To date, only a few control options are available to treat infected kauri that are expressing symptoms of dieback disease. Previous research has identified strains of Penicillium and Burkholderia that inhibited the mycelial growth of P. agathidicida in vitro. However, the mechanisms of inhibition remain unknown. By performing whole genome sequencing, we screened the genomes of four Penicillium and five Burkholderia strains to identify secondary metabolite encoding biosynthetic gene clusters (SM‐BGCs) that may be implicated in the production of antimicrobial compounds. We identified various types of SM‐BGCs in the genome of each strain, including polyketide synthases (PKSs), non‐ribosomal peptide synthetases (NRPSs), and terpenes. Across all four of the Penicillium strains, five SM‐BGCs were detected that encoded the biosynthesis of napthopyrone, clavaric acid, pyranonigrin E, dimethyl coprogen and asperlactone. Across all five of the Burkholderia strains, three SM‐BGCs were detected that encoded the biosynthesis of ornibactin, pyochelin and pyrrolnitin. Our analysis detected numerous SM‐BGCs which could not be characterised. Further efforts should be made to identify the compounds encoded by these SM‐BGCs so that we can explore their antimicrobial potential. The potential inhibitory effects of the compounds encoded by the SM‐BGCs identified in this study may be worthy of further investigation for their effect on the growth and virulence of P. agathidicida.

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Genome Features and AntiSMASH Analysis of an Endophytic Strain Fusarium sp. R1

Cited by 8 publications

References 52 publications

Annotating Multiple Prebiotic Synthesizing Capabilities Through Whole Genome Sequencing of Fusarium Strain HFK-74

Annotating Multiple Prebiotic Synthesizing Capabilities Through Whole Genome Sequencing of Fusarium Strain HFK-74

Complete genome sequencing ofBacillus subtilis(CWTS 5), a siderophore-producing bacterium triggers antagonistic potential againstRalstonia solanacearum

Whole genome sequencing of Penicillium and Burkholderia strains antagonistic to the causal agent of kauri dieback disease (Phytophthora agathidicida) reveals biosynthetic gene clusters related to antimicrobial secondary metabolites

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