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Steven B, Hassani MA, LaReau JC, Wang Y, White JC. Nanoscale sulfur alters the bacterial and eukaryotic communities of the tomato rhizosphere and their interactions with a fungal pathogen. NANOIMPACT 2024; 33:100495. [PMID: 38246247 DOI: 10.1016/j.impact.2024.100495] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/07/2023] [Revised: 01/16/2024] [Accepted: 01/17/2024] [Indexed: 01/23/2024]
Abstract
Nanoformulations of sulfur have demonstrated the potential to enhance plant growth and reduce disease incidence when plants are confronted with pathogens. However, the impact of nanoscale sulfur on microbial communities in close contact with the plant root, known as the rhizosphere, remain poorly characterized. In this study, we investigate the impact of three formulations of sulfur; bulk sulfur, uncoated (pristine) sulfur nanoparticles, and stearic acid coated sulfur nanoparticles, on the rhizosphere of tomato plants. Tomato plants were additionally challenged by the pathogenic fungus Fusarium oxysporum f. sp. Lycopersici. Employing bacterial 16S rRNA gene sequencing, along with recently in-house designed peptide nucleic acid clamps to facilitate the recovery of microeukaryote sequences, we performed a comprehensive survey of rhizosphere microbial populations. We found the largest influence on the composition of the rhizosphere microbiome was the presence of the fungal pathogen. However, sulfur amendments also drove state changes in the rhizosphere populations; for example, enriching the relative abundance of the plant-beneficial sulfur-oxidizing bacterium Thiobacillus. Notably, when investigating the response of the rhizosphere community to the different sulfur amendments, there was a strong interaction between the fungal pathogen and sulfur treatments. This resulted in different bacterial and eukaryotic taxa being enriched in association with the different forms of sulfur, which was dependent on the presence of the pathogen. These data point to nano formulations of sulfur exerting unique shifts in the rhizosphere community compared to bulk sulfur, particularly in association with a plant pathogen, and have implications for the sustainable use of nanoscale strategies in sustainable agriculture.
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Affiliation(s)
- Blaire Steven
- Department of Environmental Science and Forestry, Connecticut Agricultural Experiment Station, New Haven, CT, USA.
| | - M Amine Hassani
- Department of Plant Pathology and Ecology, Connecticut Agricultural Experiment Station, New Haven, CT, USA
| | - Jacquelyn C LaReau
- Department of Environmental Science and Forestry, Connecticut Agricultural Experiment Station, New Haven, CT, USA
| | - Yi Wang
- Department of Analytical Chemistry, Connecticut Agricultural Experiment Station, New Haven, CT, USA
| | - Jason C White
- Department of Analytical Chemistry, Connecticut Agricultural Experiment Station, New Haven, CT, USA
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Jiao H, Liu L, Wang R, Qin W, Zhang B. The rhizosphere Microbiome of Malus sieversii (Ldb.) Roem. in the geographic and environmental gradients of China's Xinjiang. BMC Microbiol 2023; 23:26. [PMID: 36681818 PMCID: PMC9862814 DOI: 10.1186/s12866-023-02763-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Accepted: 01/10/2023] [Indexed: 01/22/2023] Open
Abstract
Malus sieversii (Ldb.) Roem. is the original species of modern cultivated apple and a key national essential conservation plant in China. In recent years, degradation and death of wild apple has been exacerbated by imbalances in the rhizosphere micro-ecosystems of wild apple forests due to soil nutrient loss, grazing, climate change and pest and disease outbreaks. However, the structure, diversity and response to environmental factors of wild apple rhizosphere microbial communities are so far unclear. In this study, the rhizosphere bacterial and eukaryotic communities of M. sieversii (Ldb.) Roem. in eight regions of the Yili River were analyzed using 16S/18S rDNA high-throughput sequencing technology. The results indicated that the bacterial operational taxonomic units (OTUs), Shannon index, and community composition were significantly lower in regions A, E, and F than in other regions. By contrast, the dominant eukaryotic communities in all regions were relatively similar in composition and differed less than the relative abundance of bacterial communities. Geographical and climatic distance were found to be key factors influencing the composition and diversity of wild apple rhizosphere microbial communities through mantel analysis. Moreover, these factors above were more correlated with bacterial diversity than with eukaryotes. This study identified the structure of wild apple rhizosphere microbial communities in Xinjiang and their interaction mechanisms under geographical and environmental gradients. It provides guidance for the sustainable management and ecological construction of wild apple forests in China.
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Affiliation(s)
- Huiying Jiao
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China
| | - Liqiang Liu
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China
| | - Ruizhe Wang
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China
| | - Wei Qin
- Faculty of Horticulture, Xinjiang Agricultural University, Urumqi, 830052, China.
| | - Bo Zhang
- Faculty of Resources and Environment, Xinjiang Agricultural University, Urumqi, 830052, China
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Xu Z, Liu H, Ullah N, Tung SA, Ali B, Li X, Chen S, Xu L. Insights into accumulation of active ingredients and rhizosphere microorganisms between Salvia miltiorrhiza and S. castanea. FEMS Microbiol Lett 2023; 370:fnad102. [PMID: 37863834 DOI: 10.1093/femsle/fnad102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2023] [Revised: 06/26/2023] [Accepted: 10/11/2023] [Indexed: 10/22/2023] Open
Abstract
Salvia miltiorrhiza is an important traditional herbal medicine, and its extracts could be used for treating cardiovascular disease. Although these medicinal compounds are functionally similar, their wild relative, S. castanea, produces significantly different concentrations of these compounds. The reason for their differences is still unknown. In a series of soil and plant-based analyses, we explored and compared the rhizosphere microbiome of S. miltiorrhiza and S. castanea. To further investigate the geographical distribution of S. castanea, MaxEnt models were used to predict the future suitable habitat areas of S. castanea in China. Results revealed the distributions and structure of the rhizosphere microbial community of S. miltiorrhiza and S. castanea at different times. In addition, differences in altitude and soil moisture resulting from changes in climate and geographical location are also critical environmental factors in the distribution of S. castanea. The findings of this study increase our understanding of plant adaptation to their geographical environment through secondary metabolites. It also highlights the complex interplay between rhizospheric factors and plant metabolism, which provides the theoretical basis for the cultivation of S. miltiorrhiza and the use of S. castanea resources.
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Affiliation(s)
- Zishu Xu
- Zhejiang Province Key Laboratory of Plant Secondary Metabolism and Regulation, College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
| | - Hui Liu
- School of Agriculture and Environment and Institute of Agriculture, The University of Western Australia, Perth, WA 6009, Australia
| | - Najeeb Ullah
- Agricultural Research Station, Office of VP for Research & Graduate Studies, Qatar University, Doha 2713, Qatar
| | - Shahbaz Atta Tung
- Department of Agronomy, PMAS-Arid Agriculture University Rawalpindi, Rawalpindi, Punjab 46300, Pakistan
| | - Basharat Ali
- Department of Agricultural Engineering, Khwaja Fareed University of Engineering and Information Technology (KFUEIT), Rahim Yar Khan 64200, Pakistan
| | - Xin Li
- Zhejiang Province Key Laboratory of Plant Secondary Metabolism and Regulation, College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
| | - Shubin Chen
- Zhejiang Province Key Laboratory of Plant Secondary Metabolism and Regulation, College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
| | - Ling Xu
- Zhejiang Province Key Laboratory of Plant Secondary Metabolism and Regulation, College of Life Sciences and Medicine, Zhejiang Sci-Tech University, Hangzhou 310018, China
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Guo Y, Song B, Li A, Wu Q, Huang H, Li N, Yang Y, Adams JM, Yang L. Higher pH is associated with enhanced co-occurrence network complexity, stability and nutrient cycling functions in the rice rhizosphere microbiome. Environ Microbiol 2022; 24:6200-6219. [PMID: 36076153 DOI: 10.1111/1462-2920.16185] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2022] [Accepted: 08/29/2022] [Indexed: 01/12/2023]
Abstract
The rice rhizosphere microbiota is crucial for crop yields and nutrient use efficiency. However, little is known about how co-occurrence patterns, keystone taxa and functional gene assemblages relate to soil pH in the rice rhizosphere soils. Using shotgun metagenome analysis, the rice rhizosphere microbiome was investigated across 28 rice fields in east-central China. At higher pH sites, the taxonomic co-occurrence network of rhizosphere soils was more complex and compact, as defined by higher average degree, graph density and complexity. Network stability was greatest at medium pH (6.5 < pH < 7.5), followed by high pH (7.5 < pH). Keystone taxa were more abundant at higher pH and correlated significantly with key ecosystem functions. Overall functional genes involved in C, N, P and S cycling were at a higher relative abundance in higher pH rhizosphere soils, excepting C degradation genes (e.g. key genes involved in starch, cellulose, chitin and lignin degradation). Our results suggest that the rice rhizosphere soil microbial network is more complex and stable at higher pH, possibly indicating increased efficiency of nutrient cycling. These observations may indicate routes towards more efficient soil management and understanding of the potential effects of soil acidification on the rice rhizosphere system.
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Affiliation(s)
- Yaping Guo
- School of Geography and Ocean Science, Nanjing University, Nanjing, People's Republic of China
| | - Bin Song
- School of Geography and Ocean Science, Nanjing University, Nanjing, People's Republic of China
| | - Anqi Li
- School of Geography and Ocean Science, Nanjing University, Nanjing, People's Republic of China
| | - Qi Wu
- School of Geography and Ocean Science, Nanjing University, Nanjing, People's Republic of China
| | - Haili Huang
- School of Geography and Ocean Science, Nanjing University, Nanjing, People's Republic of China
| | - Na Li
- School of Geography and Ocean Science, Nanjing University, Nanjing, People's Republic of China
| | - Ying Yang
- School of Geography and Ocean Science, Nanjing University, Nanjing, People's Republic of China
| | - Jonathan Miles Adams
- School of Geography and Ocean Science, Nanjing University, Nanjing, People's Republic of China
| | - Lin Yang
- School of Geography and Ocean Science, Nanjing University, Nanjing, People's Republic of China
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Ren H, Wang H, Qi X, Yu Z, Zheng X, Zhang S, Wang Z, Zhang M, Ahmed T, Li B. The Damage Caused by Decline Disease in Bayberry Plants through Changes in Soil Properties, Rhizosphere Microbial Community Structure and Metabolites. PLANTS (BASEL, SWITZERLAND) 2021; 10:2083. [PMID: 34685892 PMCID: PMC8540645 DOI: 10.3390/plants10102083] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2021] [Revised: 09/25/2021] [Accepted: 09/28/2021] [Indexed: 05/03/2023]
Abstract
Decline disease causes serious damage and rapid death in bayberry, an important fruit tree in south China, but the cause of this disease remains unclear. The aim of this study was to investigate soil quality, microbial community structure and metabolites of rhizosphere soil samples from healthy and diseased trees. The results revealed a significant difference between healthy and diseased bayberry in soil properties, microbial community structure and metabolites. Indeed, the decline disease caused a 78.24% and 78.98% increase in Rhizomicrobium and Cladophialophora, but a 28.60%, 57.18%, 38.84% and 68.25% reduction in Acidothermus, Mortierella, Trichoderma and Geminibasidium, respectively, compared with healthy trees, based on 16S and ITS amplicon sequencing of soil microflora. Furthermore, redundancy discriminant analysis of microbial communities and soil properties indicated that the main variables of bacterial and fungal communities included pH, organic matter, magnesium, available phosphorus, nitrogen and calcium, which exhibited a greater influence in bacterial communities than in fungal communities. In addition, there was a high correlation between the changes in microbial community structure and secondary metabolites. Indeed, GC-MS metabolomics analysis showed that the healthy and diseased samples differed over six metabolic pathways, including thiamine metabolism, phenylalanine-tyrosine-tryptophan biosynthesis, valine-leucine-isoleucine biosynthesis, phenylalanine metabolism, fatty acid biosynthesis and fatty acid metabolism, where the diseased samples showed a 234.67% and 1007.80% increase in palatinitol and cytidine, respectively, and a 17.37-8.74% reduction in the other 40 metabolites compared to the healthy samples. Overall, these results revealed significant changes caused by decline disease in the chemical properties, microbiota and secondary metabolites of the rhizosphere soils, which provide new insights for understanding the cause of this bayberry disease.
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Affiliation(s)
- Haiying Ren
- Institute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (H.R.); (H.W.); (X.Q.); (Z.Y.); (X.Z.); (S.Z.)
| | - Hongyan Wang
- Institute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (H.R.); (H.W.); (X.Q.); (Z.Y.); (X.Z.); (S.Z.)
- School of Horticulture and Landscape architecture, Yangtze University, Jingzhou 434023, China
| | - Xingjiang Qi
- Institute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (H.R.); (H.W.); (X.Q.); (Z.Y.); (X.Z.); (S.Z.)
| | - Zheping Yu
- Institute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (H.R.); (H.W.); (X.Q.); (Z.Y.); (X.Z.); (S.Z.)
| | - Xiliang Zheng
- Institute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (H.R.); (H.W.); (X.Q.); (Z.Y.); (X.Z.); (S.Z.)
| | - Shuwen Zhang
- Institute of Horticulture, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China; (H.R.); (H.W.); (X.Q.); (Z.Y.); (X.Z.); (S.Z.)
| | - Zhenshuo Wang
- College of Plant Protection, China Agricultural University, Beijing 100193, China
| | - Muchen Zhang
- Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China; (M.Z.); (T.A.)
| | - Temoor Ahmed
- Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China; (M.Z.); (T.A.)
| | - Bin Li
- Institute of Biotechnology, Zhejiang University, Hangzhou 310058, China; (M.Z.); (T.A.)
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