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Bacterial communities associated with Zeldia punctata, a bacterivorous soil-borne nematode

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Abstract

Soil inhabiting organisms are important determinants of agroecosystem productivity. Understanding the composition, the abundance, and the type of interactions established by soil microorganisms is therefore crucial to design strategies to improve agricultural practices and agroecosystem management. In this study, we collected Zeldia punctata nematodes in maize fields in South Africa and profiled their associated bacterial communities using next-generation sequencing. We observed that Z. punctata nematodes establish associations with ecologically diverse bacterial species. The most abundant species observed are Pseudomonas syringae, a phytopathogenic bacterial complex; Lactobacillus paraplantarum, a broadly distributed bacterial species that is present in soils, water bodies, and animal intestinal tracts and has certain probiotic and antimicrobial properties; and Melissococcus plutonius, a serious pathogenic bacterial species that causes brood disease in honeybees. Our study contributes to a better understanding of the soil bacterial communities associated with nematodes in maize agricultural soils in South Africa and unravels the presence of diverse detrimental and beneficial nematode-associated bacteria.

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Data availability

All data generated or analysed during this study are included in this published article and its supplementary information files. New generation sequencing data were deposited in the NCBI under the following biosample accession numbers: SAMN20693819 and SAMN20694755-57.

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Acknowledgements

The authors thank the Technology Innovation Agency of the Republic of South Africa, the Institute of Biology of the University of Neuchatel, and the Swiss National Science Foundation for supporting the project.

Funding

This research was funded by the Technology Innovation Agency (TIA SEED FUND) of the Republic of South Africa. The work of RARM is supported by the Swiss National Science Foundation (Grant No. 186094 to RARM).

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Authors and Affiliations

  1. Green Biotechnologies Research Centre of Excellence, University of Limpopo, Private Bag X1106, Sovenga, 0727, South Africa

    Ebrahim Shokoohi & Phatu William Mashela

  2. Experimental Biology Research Group, Institute of Biology, University of Neuchatel, 2000, Neuchatel, Switzerland

    Ricardo A. R. Machado

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  1. Ebrahim Shokoohi
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  2. Phatu William Mashela
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  3. Ricardo A. R. Machado
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Contributions

Ebrahim Shokoohi conceptualized the project, designed experiments, analysed data, and wrote and revised the manuscript. PW Mashela edited and revised the manuscript. Ricardo A. R. Machado analysed data and wrote and revised the manuscript.

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Correspondence to Ebrahim Shokoohi or Ricardo A. R. Machado.

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Supplementary Information

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Supplementary file1 Fig. S1 Alpha diversity rarefaction plot. (JPG 51 KB)

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Supplementary file2 Fig. S2 Alpha diversity for Z. punctata collected from maize fields using Shannon entropy. (JPG 30 KB)

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Supplementary file3 Fig. S3 Relative frequency of the most abundant bacterial phyla associated with Z. punctata nematodes collected from maize fields in South Africa. (JPG 71 KB)

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Supplementary file4 Fig. S4 Relative frequency of the most abundant bacterial orders associated with Z. punctata nematodes collected from maize fields in South Africa. (JPG 103 KB)

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Supplementary file5 Fig. S5 Relative frequency of the most abundant bacterial families associated with Z. punctata nematodes collected from maize fields. (JPG 123 KB)

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Shokoohi, E., Mashela, P.W. & Machado, R.A.R. Bacterial communities associated with Zeldia punctata, a bacterivorous soil-borne nematode. Int Microbiol 25, 207–216 (2022). https://doi.org/10.1007/s10123-021-00207-8

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