Assembly, Core Microbiota, and Function of the Rhizosphere Soil and Bark Microbiota in Eucommia ulmoides
Medicinal plants are inhabited by diverse microbes in every compartment, and which play an essential role in host growth and development, nutrient absorption, synthesis of secondary metabolites, and resistance to biological and abiotic stress. However, the ecological processes that manage microbiota...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-05-01
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| Series: | Frontiers in Microbiology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fmicb.2022.855317/full |
| _version_ | 1818186883517120512 |
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| author | Chunbo Dong Qiuyu Shao Yulian Ren Wei Ge Ting Yao Haiyan Hu Jianzhong Huang Zongqi Liang Yanfeng Han Yanfeng Han |
| author_facet | Chunbo Dong Qiuyu Shao Yulian Ren Wei Ge Ting Yao Haiyan Hu Jianzhong Huang Zongqi Liang Yanfeng Han Yanfeng Han |
| author_sort | Chunbo Dong |
| collection | DOAJ |
| description | Medicinal plants are inhabited by diverse microbes in every compartment, and which play an essential role in host growth and development, nutrient absorption, synthesis of secondary metabolites, and resistance to biological and abiotic stress. However, the ecological processes that manage microbiota assembly and the phenotypic and metabolic characteristics of the core microbiota of Eucommia ulmoides remain poorly explored. Here, we systematically evaluated the effects of genotypes, compartment niches, and environmental conditions (climate, soil nutrition, and secondary metabolites) on the assembly of rhizosphere soil and bark associated bacterial communities. In addition, phenotypic and metabolic characteristics of E. ulmoides core microbiota, and their relationship with dominant taxa, rare taxa, and pharmacologically active compounds were deciphered. Results suggested that microbiota assembly along the two compartments were predominantly shaped by the environment (especially pH, relative humidity, and geniposide acid) and not by host genotype or compartment niche. There were 690 shared genera in the rhizosphere soil and bark, and the bark microbiota was mainly derived from rhizosphere soil. Core microbiota of E. ulmoides was a highly interactive “hub” microbes connecting dominant and rare taxa, and its phenotypic characteristics had a selective effect on compartment niches. Metabolic functions of the core microbiota included ammonia oxidation, nitrogen fixation, and polyhydroxybutyrate storage, which are closely related to plant growth or metabolism. Moreover, some core taxa were also significantly correlated with three active compounds. These findings provide an important scientific basis for sustainable agricultural management based on the precise regulation of the rhizosphere soil and bark microbiota of E. ulmoides. |
| first_indexed | 2024-12-11T23:02:13Z |
| format | Article |
| id | doaj.art-b5e4892e43254b8a9aaf364e634ee136 |
| institution | Directory Open Access Journal |
| issn | 1664-302X |
| language | English |
| last_indexed | 2024-12-11T23:02:13Z |
| publishDate | 2022-05-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Microbiology |
| spelling | doaj.art-b5e4892e43254b8a9aaf364e634ee1362022-12-22T00:47:02ZengFrontiers Media S.A.Frontiers in Microbiology1664-302X2022-05-011310.3389/fmicb.2022.855317855317Assembly, Core Microbiota, and Function of the Rhizosphere Soil and Bark Microbiota in Eucommia ulmoidesChunbo Dong0Qiuyu Shao1Yulian Ren2Wei Ge3Ting Yao4Haiyan Hu5Jianzhong Huang6Zongqi Liang7Yanfeng Han8Yanfeng Han9Institute of Fungus Resources, Department of Ecology, College of Life Sciences, Guizhou University, Guiyang, ChinaInstitute of Fungus Resources, Department of Ecology, College of Life Sciences, Guizhou University, Guiyang, ChinaInstitute of Fungus Resources, Department of Ecology, College of Life Sciences, Guizhou University, Guiyang, ChinaInstitute of Fungus Resources, Department of Ecology, College of Life Sciences, Guizhou University, Guiyang, ChinaAnalysis and Test Center, Huangshan University, Huangshan, ChinaState Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang, ChinaEngineering Research Centre of Industrial Microbiology, Ministry of Education, Fujian Normal University, Fuzhou, ChinaInstitute of Fungus Resources, Department of Ecology, College of Life Sciences, Guizhou University, Guiyang, ChinaInstitute of Fungus Resources, Department of Ecology, College of Life Sciences, Guizhou University, Guiyang, ChinaKey Laboratory of Plant Resource Conservation and Germplasm Innovation in Mountainous Region (Ministry of Education), Guizhou University, Guiyang, ChinaMedicinal plants are inhabited by diverse microbes in every compartment, and which play an essential role in host growth and development, nutrient absorption, synthesis of secondary metabolites, and resistance to biological and abiotic stress. However, the ecological processes that manage microbiota assembly and the phenotypic and metabolic characteristics of the core microbiota of Eucommia ulmoides remain poorly explored. Here, we systematically evaluated the effects of genotypes, compartment niches, and environmental conditions (climate, soil nutrition, and secondary metabolites) on the assembly of rhizosphere soil and bark associated bacterial communities. In addition, phenotypic and metabolic characteristics of E. ulmoides core microbiota, and their relationship with dominant taxa, rare taxa, and pharmacologically active compounds were deciphered. Results suggested that microbiota assembly along the two compartments were predominantly shaped by the environment (especially pH, relative humidity, and geniposide acid) and not by host genotype or compartment niche. There were 690 shared genera in the rhizosphere soil and bark, and the bark microbiota was mainly derived from rhizosphere soil. Core microbiota of E. ulmoides was a highly interactive “hub” microbes connecting dominant and rare taxa, and its phenotypic characteristics had a selective effect on compartment niches. Metabolic functions of the core microbiota included ammonia oxidation, nitrogen fixation, and polyhydroxybutyrate storage, which are closely related to plant growth or metabolism. Moreover, some core taxa were also significantly correlated with three active compounds. These findings provide an important scientific basis for sustainable agricultural management based on the precise regulation of the rhizosphere soil and bark microbiota of E. ulmoides.https://www.frontiersin.org/articles/10.3389/fmicb.2022.855317/fullEucommia ulmoides Olivplant-microbe interactionscommunity assemblycore microbiotamicrobial functions |
| spellingShingle | Chunbo Dong Qiuyu Shao Yulian Ren Wei Ge Ting Yao Haiyan Hu Jianzhong Huang Zongqi Liang Yanfeng Han Yanfeng Han Assembly, Core Microbiota, and Function of the Rhizosphere Soil and Bark Microbiota in Eucommia ulmoides Frontiers in Microbiology Eucommia ulmoides Oliv plant-microbe interactions community assembly core microbiota microbial functions |
| title | Assembly, Core Microbiota, and Function of the Rhizosphere Soil and Bark Microbiota in Eucommia ulmoides |
| title_full | Assembly, Core Microbiota, and Function of the Rhizosphere Soil and Bark Microbiota in Eucommia ulmoides |
| title_fullStr | Assembly, Core Microbiota, and Function of the Rhizosphere Soil and Bark Microbiota in Eucommia ulmoides |
| title_full_unstemmed | Assembly, Core Microbiota, and Function of the Rhizosphere Soil and Bark Microbiota in Eucommia ulmoides |
| title_short | Assembly, Core Microbiota, and Function of the Rhizosphere Soil and Bark Microbiota in Eucommia ulmoides |
| title_sort | assembly core microbiota and function of the rhizosphere soil and bark microbiota in eucommia ulmoides |
| topic | Eucommia ulmoides Oliv plant-microbe interactions community assembly core microbiota microbial functions |
| url | https://www.frontiersin.org/articles/10.3389/fmicb.2022.855317/full |
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