Abstract
The bacteria that dominate and become enriched in the rhizosphere during continuous cropping are of increasing interest, as they can greatly adapt to the rhizosphere. However, there are still little knowledge about the general composition and function of these bacteria. In this study, we planted tomatoes in three different soils for three planting cycles and used both high-throughput sequencing and culture-dependent workflows. Despite significant differences in bacterial communities from the initial soils, we observed a similar succession in the rhizosphere bacterial community compositions. We identified certain bacteria that were gradually enriched and potentially beneficial, such as Rhizobium and Flavobacterium. However, some other potentially beneficial bacteria, such as Massilia and Lysobacter, were gradually depleted. Additionally, we found that predicted functions related to xenobiotic biodegradation, nutrient metabolism and antibiotic biosynthesis were enriched in different rhizosphere soils. Beijerinckia fluminensis GR2, which was gradually enriched in all tested soils, significantly inhibited the growth of Ralstonia solanacearum and protected the host from infection. Our study provides new insights into the assembly mechanism of gradually enriched bacteria and their role as plant-beneficial microbes that adapt well to the rhizosphere.
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Authors contribution
Lv Su performed all experiments and composed the main text. Huatai Li, Jing Wang and Wenting Gao analysed the core taxa in the rhizosphere. Xia Shu and Xiting Sun re-analysed raw data. Kesu Wang and Xia Shu prepared experimental materials. Yan Duan, Yunpeng Liu and Eiko E. Kuramae provided suggestions for the manuscript. Biao Shen and Ruifu Zhang conceived, organized and supervised the project.
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The raw sequences were submitted to the NCBI Sequence Read Archive (SRA) under accession number PRJNA625715.
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This work was supported by the National Natural Science Foundation of China (41571242 and 42207359) and the China Postdoctoral Science Foundation (2021M693448).
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Su, L., Li, H., Wang, J. et al. Composition, function and succession of bacterial communities in the tomato rhizosphere during continuous cropping. Biol Fertil Soils 59, 723–732 (2023). https://doi.org/10.1007/s00374-023-01731-7
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DOI: https://doi.org/10.1007/s00374-023-01731-7