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Metabolic and genomic analysis deciphering biocontrol potential of endophytic Streptomyces albus RC2 against crop pathogenic fungi

  • Bacterial, Fungal and Virus Molecular Biology - Research Paper
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Abstract

Plant diseases caused by phytopathogenic fungi are one of the leading factors affecting crop loss. In the present study, sixty-one Streptomyces strains were screened for their antifungal activity against relevant wide range fungal pathogens prominent in Vietnam, namely Lasiodiplodia theobromae, Fusarium fujikuroi, and Scopulariopsis gossypii. Endophytic strain RC2 was the most effective strain in the mycelial inhibition of the tested fungi. Based on phenotypic characteristics, 16S rDNA gene analysis, and genomic analysis, strain RC2 belonged to Streptomyces albus. An ethyl acetate extract of S. albus RC2 led to the strong growth inhibition of S. gossypii Co1 and F. fujikuroi L3, but not L. theobromae N13. The crude extract also suppressed the spore germination of S. gossypii Co1 and F. fujikuroi L3 to 92.4 ± 3.2% and 87.4% ± 1.9%, respectively. In addition, the RC2 extract displayed potent and broad-spectrum antibacterial activity against Escherichia coli, Pseudomonas aeruginosa, and the phytopathogenic bacteria Ralstonia solanacearum and Xanthomonas oryzae. The genome of strain RC2 was sequenced and revealed the presence of 15 biosynthetic gene clusters (BGCs) with similarities ≥ 45% to reference BGCs available in the antiSMASH database. The UPLC-HRMS analysis led to the identification of 8 other secondary metabolites, which have not been reported in S. albus. The present study indicated that RC2 could be a potent biocontrol agent against phytopathogenic fungi. Further attention should be paid to antifungal metabolites without functional annotation, development of product prototypes, and greenhouse experiments to demonstrate effective control of the plant diseases.

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Data Availability

All data analyzed during this study are included in this published article. Data will be shared upon reasonable request.

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Acknowledgements

The authors would like to acknowledge the support of the VAST-Culture Collection of Microorganisms, Institute of Biotechnology, Vietnam Academy of Science and Technology (www.vccm.vast.vn).

Funding

This research was funded by the Vietnam Academy of Science and Technology (Grant No. VAST02.03/22–23) and the Postdoctoral Scholarship Programme of Vingroup Innovation Foundation (VINIF), code VINIF.2022.STS.32.

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Authors and Affiliations

  1. Institute of Biotechnology, Vietnam Academy of Science and Technology, Hanoi, 100000, Vietnam

    Ngoc Tung Quach, Thi Hanh Nguyen Vu, Thi Thu An Nguyen, Phuong Chi Le, Phan Thi Hong Thao, Thi Thanh Loi Nguyen, Hoang Ha Chu & Quyet-Tien Phi

  2. Graduate University of Science and Technology, Vietnam Academy of Science and Technology, Hanoi, 100000, Vietnam

    Ngoc Tung Quach, Thi Hanh Nguyen Vu, Phan Thi Hong Thao, Hoang Ha Chu & Quyet-Tien Phi

  3. Center for Research and Technology Transfer, Vietnam Academy of Science and Technology, Hanoi, 100000, Vietnam

    Hoang Giang Do & Tien Dat Nguyen

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Contributions

NTQ and THNV designed this study; TTAN, PCL, GDH, TDN, TTLN, and THTP performed experiments; NTQ, HHC, and QTP wrote the paper. All authors approved this final manuscript. All authors have read and agreed to the published version of the manuscript.

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Correspondence to Quyet-Tien Phi.

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Quach, N.T., Vu, T.H.N., Nguyen, T.T.A. et al. Metabolic and genomic analysis deciphering biocontrol potential of endophytic Streptomyces albus RC2 against crop pathogenic fungi. Braz J Microbiol 54, 2617–2626 (2023). https://doi.org/10.1007/s42770-023-01134-8

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