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Whole-genome sequencing reveals putative underlying mechanisms of biocontrol capability of IBFCBF-5

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Abstract

As the world’s food safety and environmental safety problems become increasingly severe, the agricultural sectors of various countries are also paying closer attention to the use of biofertilizers and biocontrol agents. Rhizosphere bacteria are a significant source of commonly used biofertilizers and biocontrol agents. This study aims to describe the genome and genomic traits of a biocontrol agent in the genus Bacillus. In this paper, a strain of Bacillus amyloliquefaciens IBFCBF-5 was isolated and identified to have an inhibitory effect on several common oomycete and fungal pathogens Phytophthora capsica, Sclerotinia sclerotiorum, Colletotrichum gloeosporioides, and Fusarium oxysporum f.sp. cucumerinum. The genome of strain IBFCB-5 was sequenced, and the assembled genome was 4,338,658 bp, with a G + C content of 46.05%. The IBFCBF-5 genome contains abundant GH, GT, CE, PL, AA, and CBM gene families, potentially degrading cellulose and hemicellulose, chitin, starch, xylan, peptidoglycan, etc. In addition, 14 lipopeptide and polypeptide antibiotic gene clusters were found in IBFCBF-5, including those coding for the synthesis of several known antifungal and antibacterial compounds Fengycin, Bacilysin, Bacillibactin, and Plantazolicin. Our results show that Bacillus amyloliquefaciens IBFCBF-5 has a broad-spectrum antifungal ability and that its genome contains many genes coding for enzymes involved in the synthesis of antimicrobial metabolites.

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Data availability

The data set generated and/or analyzed during the current study can be found in the NCBI repository [https://www.ncbi.nlm.nih.gov/], including a total of 1 sequence, with accession numbers: SUB9291413 (IBFCBF-5),. The data will be released in October 2021.

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Acknowledgements

We thank the reviewers for their comments and suggestions. Many thanks also to the publishers for the pre-print on the Research Square, that gave us an early endorsement from other researchers. Information about the pre-print: Whole-genome sequencing reveals putative underlying mechanisms of biocontrol capability of IBFCBF-5 (https://doi.org/10.21203/rs.3.rs-668301/v1).

Funding

This work was supported by the National Key R&D Program of China (2018YFC0311300), the Agricultural Science and Technology Innovation Program of the Chinese Academy of Agricultural Sciences (CAAS-ASTIP-IBFC07), and the Biology discipline construction funds.

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Author notes

  1. Chen Luo and Ai-rong Shen contributed equally to this work.

Authors and Affiliations

  1. Hunan Provincial Key Laboratory of Forestry Biotechnology, Central South University of Forestry and Technology, No. 498 Shaoshan South Road, Changsha, 410004, Hunan, China

    Chen Luo, Ai-rong Shen, Ye-song Ren & Ji-lie Li

  2. Institute of Bast Fiber Crops, Chinese Academy of Agricultural Sciences, No 348 Xianjiahu West Road, Changsha, 410205, Hunan, China

    Chen Luo, Yang Zhai, Yi Cheng, Jianping Xu & Liang-bin Zeng

  3. Hunan Academy of Forestry, Changsha, 410004, China

    Ai-rong Shen

  4. Department of Biology, McMaster University, Hamilton, ON, L8S 4K1, Canada

    Jianping Xu

  5. Institute of Plant Protection, Hunan Academy of Agricultural Sciences, Changsha, 410125, China

    Lin Wei

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  1. Chen Luo
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Luo, C., Shen, Ar., Ren, Ys. et al. Whole-genome sequencing reveals putative underlying mechanisms of biocontrol capability of IBFCBF-5. Acta Physiol Plant 45, 60 (2023). https://doi.org/10.1007/s11738-023-03522-x

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