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Agronomy
Volume 11
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10.3390/agronomy11122488
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Article

Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of Panax notoginseng Grown under Forest and Field Conditions

by
Rui Shi
1,†,
Haiyan Gu
1,†,
Shu He
1,
Binjie Xiong
1,
Youguo Huang
1,
Abraham Rami Horowitz
2,3 and
Xiahong He
1,*
1
Key Laboratory for Forest Resources Conservation and Utilization in the Southwest Mountains of China, Ministry of Education, Southwest Landscape Architecture Engineering Research Center of National Forestry and Grassland Administration, Southwest Forestry University, Kunming 650224, China
2
Department of Entomology, Agricultural Research Organization (ARO), Gilat Research Center for Arid & Semi-Arid Agricultural Research, Rishon LeZion 85280, Israel
3
Katif Research Center, Sedot Negev, the Ministry of Science, Technology & Space, Netivot 85200, Israel
*
Author to whom correspondence should be addressed.
†
Same contribution.
Agronomy 2021, 11(12), 2488; https://doi.org/10.3390/agronomy11122488
Submission received: 4 November 2021 / Revised: 27 November 2021 / Accepted: 1 December 2021 / Published: 8 December 2021
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Abstract

The present study investigated the potential changes in the structure of bacterial communities and their functional profiles in the rhizospheres of Panax notoginseng cultivated under field (CK) and pine forest conditions (T). The rhizospheres of two-year-old P. notoginseng plants were used to extract DNA for metagenomic sequencing and metabolites for metabolomic profiling. The results revealed a higher root weight (p < 0.05) in plants grown under the forest than CK. The rhizospheric bacterial community comprised mainly three dominant phyla including Acidobacteria, Proteobacteria, and Candidatus rokubacteria which accounted for 75% of the total microbial population. Among them, Acidobacteria was the most abundant bacterial taxa, accounting for 42.4% and 40.4% of the total populations in CK and T, respectively. Relative abundances of bacterial genera revealed that Bradyrhizobium, Candidatus koribacter and Edaphobacter, were the dominant genera in both groups. Comparatively, a higher Proteobacteria to Acidobacteria ratio was observed in forest rhizospheres than in field conditions. Candidatus Rokubacteria and Candidatus nitrostelea were identified as biomarker taxa in forest rhizospheres, while the same could be said for taxa belonging to betaproteobacteria and gammaproteobacteria, Burkholderiales and Verrucomicrobia for field rhizospheres. No differential metabolite contents were observed between the two rhizosphere groups, indicating no adverse effects of P. notoginseng cultivation on the soil quality under forest plantation.
Keywords: Panax notoginseng; forest cultivation; rhizosphere; soil microbiome; metabolites Panax notoginseng; forest cultivation; rhizosphere; soil microbiome; metabolites

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MDPI and ACS Style

Shi, R.; Gu, H.; He, S.; Xiong, B.; Huang, Y.; Horowitz, A.R.; He, X. Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of Panax notoginseng Grown under Forest and Field Conditions. Agronomy 2021, 11, 2488. https://doi.org/10.3390/agronomy11122488

AMA Style

Shi R, Gu H, He S, Xiong B, Huang Y, Horowitz AR, He X. Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of Panax notoginseng Grown under Forest and Field Conditions. Agronomy. 2021; 11(12):2488. https://doi.org/10.3390/agronomy11122488

Chicago/Turabian Style

Shi, Rui, Haiyan Gu, Shu He, Binjie Xiong, Youguo Huang, Abraham Rami Horowitz, and Xiahong He. 2021. "Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of Panax notoginseng Grown under Forest and Field Conditions" Agronomy 11, no. 12: 2488. https://doi.org/10.3390/agronomy11122488

APA Style

Shi, R., Gu, H., He, S., Xiong, B., Huang, Y., Horowitz, A. R., & He, X. (2021). Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of Panax notoginseng Grown under Forest and Field Conditions. Agronomy, 11(12), 2488. https://doi.org/10.3390/agronomy11122488

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