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Molecular characterization of microbial communities in the rhizosphere soils and roots of diseased and healthy Panax notoginseng

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Abstract

Rhizosphere and root-associated microbial communities are known to be related to soil-borne disease and plant health. In the present study, the microbial communities in rhizosphere soils and roots of both healthy and diseased Panax notoginseng were analyzed by high-throughput sequencing of 16S rRNA for bacteria and 18S rRNA internal transcribed spacer for fungi, to reveal the relationship of microbial community structure with plant health status. In total, 5593 bacterial operational taxonomic units (OTUs) and 963 fungal OTUs were identified in rhizosphere soils, while 1794 bacterial and 314 fungal OTUs were identified from root samples respectively. Principal coordinate analysis separated the microbial communities both in the rhizosphere soils and roots of diseased P. notoginseng from healthy plants. Compared to those of healthy P. notoginseng, microbial communities in rhizosphere soils and roots of diseased plants showed a decrease in alpha diversity. By contrast, bacterial community dissimilarity increased and fungal community dissimilarity decreased in rhizosphere soils of diseased plants, while both bacterial and fungal community dissimilarity in roots showed no significant difference between healthy and diseased plants. Redundancy analysis at the phylum level showed that mycorrhizal colonization and soil texture significantly affected microbial community composition in rhizosphere soils, whereas shoot nutrition status had a significant effect on microbial community composition in root samples. Our study provided strong evidence for the hypothesis that microbial diversity could potentially serve as an indicator for disease outbreak of medicinal plants, and supported the ecological significance of microbial communities in maintaining plant healthy and soil fertility.

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Acknowledgments

The study was financially supported by National Natural Science Foundation of China (41101245) and National Key Technology R&D Program of the Ministry of Science and Technology (2012BAI29B02). We are grateful to the Prof. Yong Wang in Wenshan Sanqi Institute of Wenshan University for identifying the root-rot disease of P. notoginseng.

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Authors and Affiliations

  1. State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China

    Zhaoxiang Wu, Zhipeng Hao & Baodong Chen

  2. University of Chinese Academy of Sciences, Beijing, 100049, China

    Zhaoxiang Wu

  3. China National Group Corporation of Traditional and Herbal Medicine, Beijing, 100097, China

    Yan Zeng

  4. State Key Laboratory of Dao-di Herbs, National Resource Center for Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing, 100700, China

    Lanping Guo & Luqi Huang

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  1. Zhaoxiang Wu
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Correspondence to Baodong Chen.

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Wu, Z., Hao, Z., Zeng, Y. et al. Molecular characterization of microbial communities in the rhizosphere soils and roots of diseased and healthy Panax notoginseng . Antonie van Leeuwenhoek 108, 1059–1074 (2015). https://doi.org/10.1007/s10482-015-0560-x

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