Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of <i>Panax notoginseng</i> Grown under Forest and Field Conditions
The present study investigated the potential changes in the structure of bacterial communities and their functional profiles in the rhizospheres of <i>Panax notoginseng</i> cultivated under field (CK) and pine forest conditions (T). The rhizospheres of two-year-old <i>P. notoginsen...
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MDPI AG
2021-12-01
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| Series: | Agronomy |
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| Online Access: | https://www.mdpi.com/2073-4395/11/12/2488 |
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| author | Rui Shi Haiyan Gu Shu He Binjie Xiong Youguo Huang Abraham Rami Horowitz Xiahong He |
| author_facet | Rui Shi Haiyan Gu Shu He Binjie Xiong Youguo Huang Abraham Rami Horowitz Xiahong He |
| author_sort | Rui Shi |
| collection | DOAJ |
| description | The present study investigated the potential changes in the structure of bacterial communities and their functional profiles in the rhizospheres of <i>Panax notoginseng</i> cultivated under field (CK) and pine forest conditions (T). The rhizospheres of two-year-old <i>P. notoginseng</i> plants were used to extract DNA for metagenomic sequencing and metabolites for metabolomic profiling. The results revealed a higher root weight (<i>p</i> < 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 <i>Bradyrhizobium</i>, <i>Candidatus koribacter</i> and <i>Edaphobacter</i>, were the dominant genera in both groups. Comparatively, a higher Proteobacteria to Acidobacteria ratio was observed in forest rhizospheres than in field conditions. <i>Candidatus Rokubacteria</i> and <i>Candidatus nitrostelea</i> 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 <i>P. notoginseng</i> cultivation on the soil quality under forest plantation. |
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| language | English |
| last_indexed | 2024-03-10T04:40:24Z |
| publishDate | 2021-12-01 |
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| series | Agronomy |
| spelling | doaj.art-4850365aa15d4de7bb044518511a2dc02023-11-23T03:22:39ZengMDPI AGAgronomy2073-43952021-12-011112248810.3390/agronomy11122488Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of <i>Panax notoginseng</i> Grown under Forest and Field ConditionsRui Shi0Haiyan Gu1Shu He2Binjie Xiong3Youguo Huang4Abraham Rami Horowitz5Xiahong He6Key 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, ChinaKey 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, ChinaKey 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, ChinaKey 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, ChinaKey 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, ChinaDepartment of Entomology, Agricultural Research Organization (ARO), Gilat Research Center for Arid & Semi-Arid Agricultural Research, Rishon LeZion 85280, IsraelKey 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, ChinaThe present study investigated the potential changes in the structure of bacterial communities and their functional profiles in the rhizospheres of <i>Panax notoginseng</i> cultivated under field (CK) and pine forest conditions (T). The rhizospheres of two-year-old <i>P. notoginseng</i> plants were used to extract DNA for metagenomic sequencing and metabolites for metabolomic profiling. The results revealed a higher root weight (<i>p</i> < 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 <i>Bradyrhizobium</i>, <i>Candidatus koribacter</i> and <i>Edaphobacter</i>, were the dominant genera in both groups. Comparatively, a higher Proteobacteria to Acidobacteria ratio was observed in forest rhizospheres than in field conditions. <i>Candidatus Rokubacteria</i> and <i>Candidatus nitrostelea</i> 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 <i>P. notoginseng</i> cultivation on the soil quality under forest plantation.https://www.mdpi.com/2073-4395/11/12/2488<i>Panax notoginseng</i>forest cultivationrhizospheresoil microbiomemetabolites |
| spellingShingle | Rui Shi Haiyan Gu Shu He Binjie Xiong Youguo Huang Abraham Rami Horowitz Xiahong He Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of <i>Panax notoginseng</i> Grown under Forest and Field Conditions Agronomy <i>Panax notoginseng</i> forest cultivation rhizosphere soil microbiome metabolites |
| title | Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of <i>Panax notoginseng</i> Grown under Forest and Field Conditions |
| title_full | Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of <i>Panax notoginseng</i> Grown under Forest and Field Conditions |
| title_fullStr | Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of <i>Panax notoginseng</i> Grown under Forest and Field Conditions |
| title_full_unstemmed | Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of <i>Panax notoginseng</i> Grown under Forest and Field Conditions |
| title_short | Comparative Metagenomic and Metabolomic Profiling of Rhizospheres of <i>Panax notoginseng</i> Grown under Forest and Field Conditions |
| title_sort | comparative metagenomic and metabolomic profiling of rhizospheres of i panax notoginseng i grown under forest and field conditions |
| topic | <i>Panax notoginseng</i> forest cultivation rhizosphere soil microbiome metabolites |
| url | https://www.mdpi.com/2073-4395/11/12/2488 |
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