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Franco GC, Leiva J, Nand S, Lee DM, Hajkowski M, Dick K, Withers B, Soto L, Mingoa BR, Acholonu M, Hutchins A, Neely L, Anand A. Soil Microbial Communities and Wine Terroir: Research Gaps and Data Needs. Foods 2024; 13:2475. [PMID: 39200402 PMCID: PMC11354026 DOI: 10.3390/foods13162475] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2024] [Revised: 08/01/2024] [Accepted: 08/01/2024] [Indexed: 09/02/2024] Open
Abstract
Microbes found in soil can have a significant impact on the taste and quality of wine, also referred to as wine terroir. To date, wine terroir has been thought to be associated with the physical and chemical characteristics of the soil. However, there is a fragmented understanding of the contribution of vineyard soil microbes to wine terroir. Additionally, vineyards can play an important role in carbon sequestration since the promotion of healthy soil and microbial communities directly impacts greenhouse gas emissions in the atmosphere. We review 24 studies that explore the role of soil microbial communities in vineyards and their influence on grapevine health, grape composition, and wine quality. Studies spanning 2015 to 2018 laid a foundation by exploring soil microbial biogeography in vineyards, vineyard management effects, and the reservoir function of soil microbes for grape-associated microbiota. On the other hand, studies spanning 2019 to 2023 appear to have a more specific and targeted approach, delving into the relationships between soil microbes and grape metabolites, the microbial distribution at different soil depths, and microbial influences on wine flavor and composition. Next, we identify research gaps and make recommendations for future work. Specifically, most of the studies utilize targeted sequencing (16S, 26S, ITS), which only reveals community composition. Utilizing high-throughput omics approaches such as shotgun sequencing (to infer function) and transcriptomics (for actual function) is vital to determining the specific mechanisms by which soil microbes influence grape chemistry. Going forward, understanding the long-term effects of vineyard management practices and climate change on soil microbiology, grapevine trunk diseases, and the role of bacteriophages in vineyard soil and wine-making would be a fruitful investigation. Overall, the studies presented shed light on the importance of soil microbiomes and their interactions with grapevines in shaping wine production. However, there are still many aspects of this complex ecosystem that require further exploration and understanding to support sustainable viticulture and enhance wine quality.
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Affiliation(s)
- Gabriela Crystal Franco
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
| | - Jasmine Leiva
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
| | - Sanjiev Nand
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
| | - Danica Marvi Lee
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
| | - Michael Hajkowski
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
| | - Katherine Dick
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
| | - Brennan Withers
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
| | - LuzMaria Soto
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
| | - Benjamin-Rafael Mingoa
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
| | - Michael Acholonu
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
| | - Amari Hutchins
- Department of Biology, Howard University, 2400 6th St NW, Washington, DC 20059, USA;
| | - Lucy Neely
- Neely Winery, Spring Ridge Vineyard, 555 Portola Road, Portola Valley, CA 94028, USA;
| | - Archana Anand
- Department of Biology, College of Science and Engineering, San Francisco State University, 1600 Holloway Avenue, San Francisco, CA 94132, USA; (G.C.F.); (J.L.); (S.N.); (D.M.L.); (M.H.); (K.D.); (B.W.); (L.S.); (B.-R.M.); (M.A.)
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Liu H, Wang H, Nie Z, Tao Z, Peng H, Shi H, Zhao P, Liu H. Combined application of arbuscular mycorrhizal fungi and selenium fertilizer increased wheat biomass under cadmium stress and shapes rhizosphere soil microbial communities. BMC PLANT BIOLOGY 2024; 24:359. [PMID: 38698306 PMCID: PMC11067182 DOI: 10.1186/s12870-024-05032-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/29/2023] [Accepted: 04/16/2024] [Indexed: 05/05/2024]
Abstract
BACKGROUND Selenium (Se) fertilizer and arbuscular mycorrhizal fungi (AMF) are known to modulate cadmium (Cd) toxicity in plants. However, the effects of their co-application on wheat growth and soil microbial communities in Cd-contaminated soil are unclear. RESULTS A pot experiment inoculation with two types of AMF and the application of Se fertilizer under Cd stress in wheat showed that inoculation AMF alone or combined with Se fertilizer significantly increased wheat biomass. Se and AMF alone or in combination significantly reduced available Cd concentration in wheat and soil, especially in the Se combined with Ri treatment. High throughput sequencing of soil samples indicated that Se and AMF application had stronger influence on bacterial community compared to fungal community and the bacterial network seemed to have more complex interconnections than the fungal network, and finally shaped the formation of specific microflora to affect Cd availability. CONCLUSION These results indicate that the application of Se and AMF, particularly in combination, could successfully decrease soil Cd availability and relieve the harm of Cd in wheat by modifying rhizosphere soil microbial communities.
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Affiliation(s)
- Haiyang Liu
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Haoquan Wang
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Zhaojun Nie
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Zhikang Tao
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Hongyu Peng
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Huazhong Shi
- Department of Chemistry and Biochemistry, Texas Tech University, Lubbock, TX, 79409, USA
| | - Peng Zhao
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China
| | - Hongen Liu
- College of Resources and Environment, Henan Agricultural University, Zhengzhou, 450046, China.
- Key Laboratory of Soil Pollution Control and Remediation in Henan Province, Zhengzhou, 450046, China.
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Yang H, Wang Z, Zhang Z, Shu C, Zhu J, Li Y, Zhang J. Diversity of 'Cabernet Sauvignon' Grape Epidermis and Environmental Bacteria in Wineries from Different Sub-Regions of the Eastern Foothills of Helan Mountain, Ningxia. Foods 2024; 13:252. [PMID: 38254553 PMCID: PMC10815095 DOI: 10.3390/foods13020252] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2023] [Revised: 01/09/2024] [Accepted: 01/10/2024] [Indexed: 01/24/2024] Open
Abstract
Understanding the composition of the bacterial community on the epidermis of wine grapes and in winery environments, as well as the response of grape epidermal bacteria to climatic factors, plays a significant role in ensuring grape health and promoting grape conversion into wine. This study utilized high-throughput sequencing to explore the composition of the bacterial community on the wine grape epidermis and representative wineries of three sub-regions of the Eastern Foothills of Helan Mountain, Ningxia. The results showed that the bacterial diversity and richness in the Yongning (YN) sub-region were the highest, with Qingtongxia (QTX) having the lowest levels of grape epidermal bacteria. The bacterial diversity and richness were the highest in Yinchuan (YC) and the lowest in YN in the winery environment (p < 0.05). The composition of dominant bacteria on the grape epidermis and in winery environments of the three sub-regions was not different at the phylum and genus level, but the levels of these dominant bacteria were different among the sub-regions. There was a correlation between grape epidermal bacteria and climatic factors. Approximately 93% of the bacterial genera on the grape epidermal genera in the three sub-regions are present in the winery environment and contain all the dominant bacterial genera on the epidermis.
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Affiliation(s)
- Hui Yang
- School of Life Sciences, Ningxia University, Yinchuan 750021, China; (H.Y.); (Z.Z.)
- Institute of Medical Sciences, Ningxia Medical University, Yinchuan 750004, China
| | - Zheng Wang
- School of Wine & Horticulture, Ningxia University, Yinchuan 750021, China; (Z.W.); (C.S.); (J.Z.); (Y.L.)
| | - Zhong Zhang
- School of Life Sciences, Ningxia University, Yinchuan 750021, China; (H.Y.); (Z.Z.)
| | - Chao Shu
- School of Wine & Horticulture, Ningxia University, Yinchuan 750021, China; (Z.W.); (C.S.); (J.Z.); (Y.L.)
| | - Jiaqi Zhu
- School of Wine & Horticulture, Ningxia University, Yinchuan 750021, China; (Z.W.); (C.S.); (J.Z.); (Y.L.)
| | - Ying Li
- School of Wine & Horticulture, Ningxia University, Yinchuan 750021, China; (Z.W.); (C.S.); (J.Z.); (Y.L.)
| | - Junxiang Zhang
- School of Life Sciences, Ningxia University, Yinchuan 750021, China; (H.Y.); (Z.Z.)
- School of Wine & Horticulture, Ningxia University, Yinchuan 750021, China; (Z.W.); (C.S.); (J.Z.); (Y.L.)
- Engineering Research Center of Grape and Wine, Ministry of Education, Yinchuan 750021, China
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Khan MH, Liu H, Zhu A, Khan MH, Hussain S, Cao H. Conservation tillage practices affect soil microbial diversity and composition in experimental fields. Front Microbiol 2023; 14:1227297. [PMID: 37601340 PMCID: PMC10433396 DOI: 10.3389/fmicb.2023.1227297] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2023] [Accepted: 07/06/2023] [Indexed: 08/22/2023] Open
Abstract
Introduction Conservation tillage is a widely used technique worldwide, but the effects of conservation tillage on bacterial community structure are poorly understood. We explored proportional alterations in the bacterial community under different tillage treatments. Methodology Hence, this study utilized high-throughput sequencing technique to investigate the structure and assembly processes of microbial communities in different tillage treatments. Results and discussion Tillage treatments included tillage no-straw retention (CntWt), no-tillage with straw retention (CntWntS), tillage with straw retention (CntWtS), no-tillage and no-straw retention (CntWnt). The influence of tillage practices on soil bacterial communities was investigated using Illumina MiSeq sequencing. Different tillage methods and straw retention systems significantly influenced soil parameters such as total potassium and pH were not affected by tillage practices, while straw retention significantly affected soil parameters including nitrogen content, available phosphorus and available potassium. Straw retention decreased bacterial diversity while increased bacterial richness. The effect of straw retention and tillage on bacterial communities was greater than with no tillage. Phylogenetic β-diversity analysis showed that deterministic homogeneous selection processes were dominated, while stochastic processes were more pronounced in tillage without straw retention. Ecological network analysis showed that microbial community correlation was increased in CntWntS and CntWnt. Straw retention treatment significantly increased the relative abundance of bacterial taxa Proteobacteria, Bacteroidetes, and OD1, while Nitrospirae, Actinobacteria, and Verrucomicrobia significantly decreased. Conclusion The conservation tillage practices significantly affect soil properties, bacterial composition, and assembly processes; however, further studies are required to investigate the impact of different crops, tillage practices and physiological characteristics on bacterial community structure and functions.
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Affiliation(s)
- Muzammil Hassan Khan
- College of Life Sciences/Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, China
| | - Hao Liu
- College of Life Sciences/Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, China
| | - Anning Zhu
- Fengqiu Agro-Ecological Experimental Station, State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Mudassir Hassan Khan
- Department of Biological Sciences, Karakoram International University, Gilgit, Pakistan
| | - Sarfraz Hussain
- College of Life Sciences/Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, China
- Key Laboratory of Integrated Regulation and Resource Development on Shallow Lakes of Ministry of Education, College of Environment, Hohai University, Nanjing, China
| | - Hui Cao
- College of Life Sciences/Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, Nanjing Agricultural University, Nanjing, China
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Ding W, Li J, Hu B, Chu G, Tao R. Response of abundance, diversity, and network of rhizosphere fungal community to monoculture of cut chrysanthemum. Appl Microbiol Biotechnol 2023; 107:3673-3685. [PMID: 37115253 DOI: 10.1007/s00253-023-12542-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2022] [Revised: 03/31/2023] [Accepted: 04/10/2023] [Indexed: 04/29/2023]
Abstract
The effects of different monoculture years on rhizosphere fungal communities (abundance, diversity, structure, and cooccurrence network) of cut chrysanthemum were determined. Three different monoculture years were (i) planting for only 1 year (Y1), (ii) continuous monoculture for 6 years (Y6), and (iii) continuous monoculture for 12 years (Y12). Compared to the Y1 treatment, the Y12 treatment significantly decreased the rhizosphere fungal gene copy numbers but increased the potential pathogen Fusarium oxysporum (P < 0.05). Both the Y6 and Y12 treatments significantly increased fungal diversity (Shannon and Simpson indices), but Y6 had great potential to enhance fungal richness (Chao1 index) relative to the Y12 treatment. Monoculture treatments decreased the relative abundance of Ascomycota but increased that of Mortierellomycota. Four ecological clusters (Modules 0, 3, 4, and 9) were observed in the fungal cooccurrence network across the Y1, Y6, and Y12 treatments, and only Module 0 was significantly enriched in the Y12 treatment and associated with soil properties (P < 0.05). RDA (redundancy analysis) and Mantel analysis showed that soil pH and soil nutrients (organic carbon, total nitrogen, and available phosphorus) were the key factors affecting fungal communities during monoculture of cut chrysanthemum. Overall, the changes in soil properties were responsible for shaping rhizospheric soil fungal communities in long-term rather than short-term monoculture systems. KEY POINTS: • Both short- and long-term monocultures reshaped the soil fungal community structure. • Long-term monoculture enhanced the network complexity of the fungal community. • Soil pH, C and N levels mainly drove modularization in the fungal community network.
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Affiliation(s)
- Wangying Ding
- Department of Environmental Science and Engineering, School of Life Science, Shaoxing University, Huancheng West Road 508, Shaoxing, 312000, People's Republic of China
| | - Jun Li
- Department of Environmental Science and Engineering, School of Life Science, Shaoxing University, Huancheng West Road 508, Shaoxing, 312000, People's Republic of China
| | - Baowei Hu
- Department of Environmental Science and Engineering, School of Life Science, Shaoxing University, Huancheng West Road 508, Shaoxing, 312000, People's Republic of China
| | - Guixin Chu
- Department of Environmental Science and Engineering, School of Life Science, Shaoxing University, Huancheng West Road 508, Shaoxing, 312000, People's Republic of China
| | - Rui Tao
- Department of Environmental Science and Engineering, School of Life Science, Shaoxing University, Huancheng West Road 508, Shaoxing, 312000, People's Republic of China.
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Carro-Huerga G, Mayo-Prieto S, Rodríguez-González Á, Cardoza RE, Gutiérrez S, Casquero PA. Vineyard Management and Physicochemical Parameters of Soil Affect Native Trichoderma Populations, Sources of Biocontrol Agents against Phaeoacremonium minimum. PLANTS (BASEL, SWITZERLAND) 2023; 12:887. [PMID: 36840235 PMCID: PMC9966749 DOI: 10.3390/plants12040887] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/20/2023] [Revised: 02/08/2023] [Accepted: 02/14/2023] [Indexed: 06/18/2023]
Abstract
Native strains of Trichoderma in vineyard soil represent an opportunity for reducing the incidence of grapevine trunk diseases (GTDs) in vineyards. Moreover, its relationship with the environment (physicochemical soil characteristics and farming management practices) remains unclear. In the current study, a survey was carried out on farming management used by viticulturists, and soil samples were studied to analyze their physicochemical properties and to isolate Trichoderma strains. Later, statistical analyses were performed to identify possible correlations between Trichoderma populations, soil management and soil characteristics. In addition, in vitro tests, including antibiosis and mycoparasitism, were performed to select those Trichoderma strains able to antagonize Phaeoacremonium minimum. In this study a positive correlation was found between the iron content and pH in the soil, and a lower pH increases Trichoderma populations in soils. Vineyard management also affects Trichoderma populations in the soil, negatively in the case of fertilization and tillage and positively in the case of herbicide spraying. Two Trichoderma native strains were selected as potential biocontrol agents (Trichoderma gamsii T065 and Trichoderma harzianum T087) using antibiosis and mycoparasitism as mechanisms of action. These results led to the conclusion that native Trichoderma strains hold great potential as biological control agents and as producers of secondary metabolites.
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Affiliation(s)
- Guzmán Carro-Huerga
- Grupo Universitario de Investigación en Ingeniería y Agricultura Sostenible (GUIIAS), Instituto de Medio Ambiente, Recursos Naturales y Biodiversidad, Universidad de León, Avenida Portugal 41, 24071 León, Spain
| | - Sara Mayo-Prieto
- Grupo Universitario de Investigación en Ingeniería y Agricultura Sostenible (GUIIAS), Instituto de Medio Ambiente, Recursos Naturales y Biodiversidad, Universidad de León, Avenida Portugal 41, 24071 León, Spain
| | - Álvaro Rodríguez-González
- Grupo Universitario de Investigación en Ingeniería y Agricultura Sostenible (GUIIAS), Instituto de Medio Ambiente, Recursos Naturales y Biodiversidad, Universidad de León, Avenida Portugal 41, 24071 León, Spain
| | - Rosa E. Cardoza
- Grupo Universitario de Investigación en Ingeniería y Agricultura Sostenible (GUIIAS), Área de Microbiología, Escuela de Ingeniería Agraria y Forestal, Campus de Ponferrada, Universidad de León, Avenida Astorga s/n, 24400 Ponferrada, Spain
| | - Santiago Gutiérrez
- Grupo Universitario de Investigación en Ingeniería y Agricultura Sostenible (GUIIAS), Área de Microbiología, Escuela de Ingeniería Agraria y Forestal, Campus de Ponferrada, Universidad de León, Avenida Astorga s/n, 24400 Ponferrada, Spain
| | - Pedro A. Casquero
- Grupo Universitario de Investigación en Ingeniería y Agricultura Sostenible (GUIIAS), Instituto de Medio Ambiente, Recursos Naturales y Biodiversidad, Universidad de León, Avenida Portugal 41, 24071 León, Spain
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Xu Y, Ding H, Zhang G, Li Z, Guo Q, Feng H, Qin F, Dai L, Zhang Z. Green manure increases peanut production by shaping the rhizosphere bacterial community and regulating soil metabolites under continuous peanut production systems. BMC PLANT BIOLOGY 2023; 23:69. [PMID: 36726076 PMCID: PMC9890850 DOI: 10.1186/s12870-023-04079-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/25/2022] [Accepted: 01/20/2023] [Indexed: 06/18/2023]
Abstract
BACKGROUND Green manure (GM) is a crop commonly grown during fallow periods, which has been applied in agriculture as a strategy to regulate nutrient cycling, improve organic matter, and enhance soil microbial biodiversity, but to date, few studies have examined the effects of GM treatments on rhizosphere soil bacterial community and soil metabolites from continuous cropping peanut field. RESULTS In this study, we found that the abundances of several functionally significant bacterial groups containing Actinobacteria, Acidobacteria, and genus Sphingomonas, which are associated with nitrogen cycling, were dramatically increased in GM-applied soils. Consistent with the bacterial community results, metabolomics analysis revealed a strong perturbation of nitrogen- or carbon-related metabolisms in GM-applied soils. The substantially up-regulated beneficial metabolites including sucrose, adenine, lysophosphatidylcholine (LPC), malic acid, and betaines in GM-applied soils may contribute to overcome continuous cropping obstacle. In contrast to peanut continuous cropping, planting winter wheat and oilseed rape in winter fallow period under continuous spring peanut production systems evidently improved the soil quality, concomitantly with raised peanut pod yield by 32.93% and 25.20%, in the 2020 season, respectively. CONCLUSIONS GMs application is an effective strategy to overcome continuous cropping obstacle under continuous peanut production systems by improving nutrient cycling, soil metabolites, and rhizobacterial properties.
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Affiliation(s)
- Yang Xu
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, China
| | - Hong Ding
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, China
| | - Guanchu Zhang
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, China
| | - Zelun Li
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, China
| | - Qing Guo
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, China
| | - Hao Feng
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, China
| | - Feifei Qin
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, China
| | - Liangxiang Dai
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, China.
| | - Zhimeng Zhang
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, China.
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Darriaut R, Antonielli L, Martins G, Ballestra P, Vivin P, Marguerit E, Mitter B, Masneuf-Pomarède I, Compant S, Ollat N, Lauvergeat V. Soil composition and rootstock genotype drive the root associated microbial communities in young grapevines. Front Microbiol 2022; 13:1031064. [PMID: 36439844 PMCID: PMC9685171 DOI: 10.3389/fmicb.2022.1031064] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2022] [Accepted: 10/14/2022] [Indexed: 08/31/2023] Open
Abstract
Soil microbiota plays a significant role in plant development and health and appears to be a major component of certain forms of grapevine decline. A greenhouse experiment was conducted to study the impact of the microbiological quality of the soil and grapevine rootstock genotype on the root microbial community and development of young plants. Two rootstocks heterografted with the same scion were grown in two vineyard soils differing in microbial composition and activities. After 4 months, culture-dependent approaches and amplicon sequencing of bacterial 16S rRNA gene and fungal ITS were performed on roots, rhizosphere and bulk soil samples. The root mycorrhizal colonization and number of cultivable microorganisms in the rhizosphere compartment of both genotypes were clearly influenced by the soil status. The fungal diversity and richness were dependent on the soil status and the rootstock, whereas bacterial richness was affected by the genotype only. Fungal genera associated with grapevine diseases were more abundant in declining soil and related root samples. The rootstock affected the compartmentalization of microbial communities, underscoring its influence on microorganism selection. Fluorescence in situ hybridization (FISH) confirmed the presence of predominant root-associated bacteria. These results emphasized the importance of rootstock genotype and soil composition in shaping the microbiome of young vines.
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Affiliation(s)
- Romain Darriaut
- EGFV, Université de Bordeaux, Bordeaux Sciences Agro, Villenave d'Ornon, France
| | - Livio Antonielli
- Bioresources Unit, Center for Health and Bioresources, AIT Austrian Institute of Technology GmbH, Tulln, Austria
| | - Guilherme Martins
- Univ. Bordeaux, Bordeaux INP, INRAE, OENO, UMR 1366, ISVV, Villenave d’Ornon, France
- Bordeaux Sciences Agro, Bordeaux INP, INRAE, OENO, UMR 1366, ISVV, Gradignan, France
| | - Patricia Ballestra
- Univ. Bordeaux, Bordeaux INP, INRAE, OENO, UMR 1366, ISVV, Villenave d’Ornon, France
- Bordeaux Sciences Agro, Bordeaux INP, INRAE, OENO, UMR 1366, ISVV, Gradignan, France
| | - Philippe Vivin
- EGFV, Université de Bordeaux, Bordeaux Sciences Agro, Villenave d'Ornon, France
| | - Elisa Marguerit
- EGFV, Université de Bordeaux, Bordeaux Sciences Agro, Villenave d'Ornon, France
| | - Birgit Mitter
- Bioresources Unit, Center for Health and Bioresources, AIT Austrian Institute of Technology GmbH, Tulln, Austria
| | - Isabelle Masneuf-Pomarède
- Univ. Bordeaux, Bordeaux INP, INRAE, OENO, UMR 1366, ISVV, Villenave d’Ornon, France
- Bordeaux Sciences Agro, Bordeaux INP, INRAE, OENO, UMR 1366, ISVV, Gradignan, France
| | - Stéphane Compant
- Bioresources Unit, Center for Health and Bioresources, AIT Austrian Institute of Technology GmbH, Tulln, Austria
| | - Nathalie Ollat
- EGFV, Université de Bordeaux, Bordeaux Sciences Agro, Villenave d'Ornon, France
| | - Virginie Lauvergeat
- EGFV, Université de Bordeaux, Bordeaux Sciences Agro, Villenave d'Ornon, France
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9
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Liu Y, Li D, Gao H, Li Y, Chen W, Jiao S, Wei G. Regulation of soil micro-foodwebs to root secondary metabolites in cultivated and wild licorice plants. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 828:154302. [PMID: 35276159 DOI: 10.1016/j.scitotenv.2022.154302] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2021] [Revised: 02/27/2022] [Accepted: 02/28/2022] [Indexed: 06/14/2023]
Abstract
The diversity of soil eukaryotes and micro-foodwebs are only partially understood. Moreover, how they affect secondary metabolites in plant roots under distinct soil environment is not well elucidated. By combining multiple statistical analyses and network constructions, variations in soil eukaryotic diversity, community assembly processes and potential associations of holistic microbiotas were investigated in the bulk and rhizosphere soils of cultivated and wild licorice, and their regulatory patterns for root secondary metabolites were elucidated. The protistan communities displayed lower alpha diversity, more varied beta diversity patterns, and higher stochastic processes, as compared with fungal communities. Soil fungi individually played a more essential role than soil protists in the regulation of root secondary metabolites. Furthermore, rhizosphere soil was associated with more complicated networks than bulk soil; and wild licorice was associated with more complicated networks than cultivated licorice. Specific responsive modules resulting from networks were essential for the regulation of root secondary metabolites and were mostly affected by edaphic properties. Moreover, these modules directly or indirectly regulated the root secondary metabolites to varying degrees in the presence of soil protists. This indicated that the secondary metabolites were affected by associations between protistan, fungal and bacterial groups, and not merely by individual types of microorganisms in agricultural ecosystems. This study provides insight into the responses of root secondary metabolites to different groups of soil eukaryotic diversity and micro-foodwebs. The results have implications for comprehensively understanding the characteristics of the separate and combined roles of microbiotas for environmental management of licorice plantation ecosystem.
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Affiliation(s)
- Yang Liu
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Da Li
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Hang Gao
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Yuhua Li
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Weimin Chen
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Shuo Jiao
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
| | - Gehong Wei
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China.
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10
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Wei RT, Chen N, Ding YT, Wang L, Gao FF, Zhang L, Liu YH, Li H, Wang H. Diversity and Dynamics of Epidermal Microbes During Grape Development of Cabernet Sauvignon (Vitis vinifera L.) in the Ecological Viticulture Model in Wuhai, China. Front Microbiol 2022; 13:935647. [PMID: 35847061 PMCID: PMC9280189 DOI: 10.3389/fmicb.2022.935647] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Accepted: 05/24/2022] [Indexed: 01/10/2023] Open
Abstract
Grapevine-related microorganisms affect the health and yield of grapes, the metabolic pathways of the fermentation process, and the regional characteristics of wine. However, the diversity of epidermal microorganisms during the development of berries under the ecological viticulture model has not been described in detail. In this study, high-throughput amplicon sequencing technology was used to perform ITS and 16S sequencing of Cabernet Sauvignon epidermal microbes at different developmental stages in the Wuhai region to investigate the succession of epidermal microbes and their response to developmental stages and vineyard weather. The results showed that the diversity of fungi and bacteria decreased during development. Epidermal microorganisms recruited members according to their developmental stages, but retained the core taxa, such as the fungi genera Alternaria, Jattaea, and Jattaea and the bacteria genera Brevundimonas, Sphingomonas, Acinetobacter, and Pseudomonas. In addition, the microbial diversity was associated with specific meteorological parameters, implying that there was a connection between the environmental conditions of the vineyard and the microbial distribution pattern such as the fungus genus Filobasidium was positively correlated with relative humidity and negatively correlated with average high temperature, average low temperature, and average ground temperature; the bacterium genus Lactobacillus was positively correlated with sunlight time, and negatively correlated with relative humidity. In conclusion, this study can help vineyard managers understand the microbial consortia associated with particular diseases, and also the dynamics of infection processes in order to take preventive actions, especially at the most critical moments.
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Affiliation(s)
- Ru-teng Wei
- College of Enology, Northwest A&F University, Xianyang, China
| | - Ning Chen
- College of Enology, Northwest A&F University, Xianyang, China
| | - Yin-ting Ding
- College of Enology, Northwest A&F University, Xianyang, China
| | - Lin Wang
- College of Enology, Northwest A&F University, Xianyang, China
| | - Fei-fei Gao
- College of Enology, Northwest A&F University, Xianyang, China
| | - Liang Zhang
- College of Enology, Northwest A&F University, Xianyang, China
| | - Yi-hui Liu
- College of Enology, Northwest A&F University, Xianyang, China
| | - Hua Li
- College of Enology, Northwest A&F University, Xianyang, China
- Shaanxi Engineering Research Center for Viti-Viniculture, Xianyang, China
- China Wine Industry Technology Institute, Zhongguancun Innovation Center, Yinchuan, China
- *Correspondence: Hua Li,
| | - Hua Wang
- College of Enology, Northwest A&F University, Xianyang, China
- Shaanxi Engineering Research Center for Viti-Viniculture, Xianyang, China
- China Wine Industry Technology Institute, Zhongguancun Innovation Center, Yinchuan, China
- Hua Wang,
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11
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Liu Y, Wang H, Peng Z, Li D, Chen W, Jiao S, Wei G. Regulation of root secondary metabolites by partial root-associated microbiotas under the shaping of licorice ecotypic differentiation in northwest China. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2021; 63:2093-2109. [PMID: 34655272 DOI: 10.1111/jipb.13179] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2021] [Accepted: 10/08/2021] [Indexed: 06/13/2023]
Abstract
Interactions between plant hosts and their microbiotas are becoming increasingly evident, while the effects of plant communities on microbial communities in different geographic environments are poorly understood. Here, the differentiation of licorice plant ecotypes and the distribution of root-associated microbiotas were investigated across five sampling sites in northwest China. The interactions between the environment, plant and microbial communities, and their effects on licorice root secondary metabolites, were elucidated. The plant community was clearly differentiated into distinct ecotypes based on genotyping-by-sequencing and was primarily driven by geographic distance and available soil nitrogen. The bulk soil and root-associated microbiotas (rhizosphere soil and root endosphere) partially correlated with plant community, but all were significantly discriminated by plant clade. Moreover, these microbiotas were explained to different extents by distinct combinations of environment, geography, and plant community. Similarly, three structural equation models showed that licorice root secondary metabolites were complicatedly modulated by multiple abiotic and biotic factors, and were mostly explained by these factors in the rhizosphere model. Collectively, the results provide novel insights into the role of environment-plant-microbiota interactions in regulating root secondary metabolites. That should be accounted for when selecting appropriate licorice planting sites and management measures.
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Affiliation(s)
- Yang Liu
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, 712100, China
| | - Hao Wang
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, 712100, China
| | - Ziheng Peng
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, 712100, China
| | - Da Li
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, 712100, China
| | - Weimin Chen
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, 712100, China
| | - Shuo Jiao
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, 712100, China
| | - Gehong Wei
- State Key Laboratory of Crop Stress Biology for Arid Areas, Shaanxi Key Laboratory of Agricultural and Environmental Microbiology, College of Life Science, Northwest A&F University, Yangling, 712100, China
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12
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Torres N, Yu R, Kurtural SK. Inoculation with Mycorrhizal Fungi and Irrigation Management Shape the Bacterial and Fungal Communities and Networks in Vineyard Soils. Microorganisms 2021; 9:1273. [PMID: 34207954 PMCID: PMC8230719 DOI: 10.3390/microorganisms9061273] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Revised: 06/07/2021] [Accepted: 06/10/2021] [Indexed: 12/05/2022] Open
Abstract
Vineyard-living microbiota affect grapevine health and adaptation to changing environments and determine the biological quality of soils that strongly influence wine quality. However, their abundance and interactions may be affected by vineyard management. The present study was conducted to assess whether the vineyard soil microbiome was altered by the use of biostimulants (arbuscular mycorrhizal fungi (AMF) inoculation vs. non-inoculated) and/or irrigation management (fully irrigated vs. half irrigated). Bacterial and fungal communities in vineyard soils were shaped by both time course and soil management (i.e., the use of biostimulants and irrigation). Regarding alpha diversity, fungal communities were more responsive to treatments, whereas changes in beta diversity were mainly recorded in the bacterial communities. Edaphic factors rarely influence bacterial and fungal communities. Microbial network analyses suggested that the bacterial associations were weaker than the fungal ones under half irrigation and that the inoculation with AMF led to the increase in positive associations between vineyard-soil-living microbes. Altogether, the results highlight the need for more studies on the effect of management practices, especially the addition of AMF on cropping systems, to fully understand the factors that drive their variability, strengthen beneficial microbial networks, and achieve better soil quality, which will improve crop performance.
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Affiliation(s)
| | | | - S. Kaan Kurtural
- Department of Viticulture and Enology, University of California Davis, 1 Shields Avenue, Davis, CA 95616, USA; (N.T.); (R.Y.)
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13
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Griggs RG, Steenwerth KL, Mills DA, Cantu D, Bokulich NA. Sources and Assembly of Microbial Communities in Vineyards as a Functional Component of Winegrowing. Front Microbiol 2021; 12:673810. [PMID: 33927711 PMCID: PMC8076609 DOI: 10.3389/fmicb.2021.673810] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2021] [Accepted: 03/22/2021] [Indexed: 01/05/2023] Open
Abstract
Microbiomes are integral to viticulture and winemaking – collectively termed winegrowing – where diverse fungi and bacteria can exert positive and negative effects on grape health and wine quality. Wine is a fermented natural product, and the vineyard serves as a key point of entry for quality-modulating microbiota, particularly in wine fermentations that are conducted without the addition of exogenous yeasts. Thus, the sources and persistence of wine-relevant microbiota in vineyards critically impact its quality. Site-specific variations in microbiota within and between vineyards may contribute to regional wine characteristics. This includes distinctions in microbiomes and microbiota at the strain level, which can contribute to wine flavor and aroma, supporting the role of microbes in the accepted notion of terroir as a biological phenomenon. Little is known about the factors driving microbial biodiversity within and between vineyards, or those that influence annual assembly of the fruit microbiome. Fruit is a seasonally ephemeral, yet annually recurrent product of vineyards, and as such, understanding the sources of microbiota in vineyards is critical to the assessment of whether or not microbial terroir persists with inter-annual stability, and is a key factor in regional wine character, as stable as the geographic distances between vineyards. This review examines the potential sources and vectors of microbiota within vineyards, general rules governing plant microbiome assembly, and how these factors combine to influence plant-microbe interactions relevant to winemaking.
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Affiliation(s)
- Reid G Griggs
- Department of Viticulture and Enology, Robert Mondavi Institute for Wine and Food Science, University of California, Davis, Davis, CA, United States
| | - Kerri L Steenwerth
- USDA-ARS, Crops Pathology and Genetics Research Unit, Department of Land, Air and Water Resources, University of California, Davis, Davis, CA, United States
| | - David A Mills
- Department of Viticulture and Enology, Robert Mondavi Institute for Wine and Food Science, University of California, Davis, Davis, CA, United States.,Department of Food Science and Technology, Robert Mondavi Institute for Wine and Food Science, University of California, Davis, Davis, CA, United States.,Foods for Health Institute, University of California, Davis, Davis, CA, United States
| | - Dario Cantu
- Department of Viticulture and Enology, Robert Mondavi Institute for Wine and Food Science, University of California, Davis, Davis, CA, United States
| | - Nicholas A Bokulich
- Laboratory of Food Systems Biotechnology, Institute of Food, Nutrition and Health, ETH Zurich, Zurich, Switzerland
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14
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Ci D, Tang Z, Ding H, Cui L, Zhang G, Li S, Dai L, Qin F, Zhang Z, Yang J, Xu Y. The synergy effect of arbuscular mycorrhizal fungi symbiosis and exogenous calcium on bacterial community composition and growth performance of peanut (Arachis hypogaea L.) in saline alkali soil. J Microbiol 2020; 59:51-63. [PMID: 33201434 DOI: 10.1007/s12275-021-0317-3] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2020] [Revised: 10/12/2020] [Accepted: 10/12/2020] [Indexed: 12/16/2022]
Abstract
Peanut (Arachis hypogaea. L) is an important oil seed crop. Both arbuscular mycorrhizal fungi (AMF) symbiosis and calcium (Ca2+) application can ameliorate the impact of saline soil on peanut production, and the rhizosphere bacterial communities are also closely correlated with peanut salt tolerance; however, whether AMF and Ca2+ can withstand high-salinity through or partially through modulating rhizosphere bacterial communities is unclear. Here, we used the rhizosphere bacterial DNA from saline alkali soil treated with AMF and Ca2+ alone or together to perform high-throughput sequencing of 16S rRNA genes. Taxonomic analysis revealed that AMF and Ca2+ treatment increased the abundance of Proteobacteria and Firmicutes at the phylum level. The nitrogen-fixing bacterium Sphingomonas was the dominant genus in these soils at the genus level, and the soil invertase and urease activities were also increased after AMF and Ca2+ treatment, implying that AMF and Ca2+ effectively improved the living environment of plants under salt stress. Moreover, AMF combined with Ca2+ was better than AMF or Ca2+ alone at altering the bacterial structure and improving peanut growth in saline alkali soil. Together, AMF and Ca2+ applications are conducive to peanut salt adaption by regulating the bacterial community in saline alkali soil.
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Affiliation(s)
- Dunwei Ci
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, 266100, P. R. China
| | - Zhaohui Tang
- Biotechnology Research Center, Shandong Academy of Agricultural Sciences/Shandong Key Lab. of Genetic Improvement, Ecology and Physiology of Crops, Jinan, 250100, P. R. China
| | - Hong Ding
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, 266100, P. R. China
| | - Li Cui
- Shandong Provincial Crop Germplasm Resource Centre, Shandong Academy of Agricultural Sciences, Jinan, 250100, P. R. China
| | - Guanchu Zhang
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, 266100, P. R. China
| | - Shangxia Li
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, 266100, P. R. China
| | - Liangxiang Dai
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, 266100, P. R. China
| | - Feifei Qin
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, 266100, P. R. China
| | - Zhimeng Zhang
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, 266100, P. R. China
| | - Jishun Yang
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, 266100, P. R. China.
| | - Yang Xu
- Shandong Peanut Research Institute, Shandong Academy of Agricultural Sciences, Qingdao, Shandong, 266100, P. R. China.
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15
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Lappa IK, Kachrimanidou V, Pateraki C, Koulougliotis D, Eriotou E, Kopsahelis N. Indigenous yeasts: emerging trends and challenges in winemaking. Curr Opin Food Sci 2020. [DOI: 10.1016/j.cofs.2020.04.004] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
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16
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Influence of Salt Stress on Growth of Spermosphere Bacterial Communities in Different Peanut ( Arachis hypogaea L.) Cultivars. Int J Mol Sci 2020; 21:ijms21062131. [PMID: 32244906 PMCID: PMC7139419 DOI: 10.3390/ijms21062131] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2020] [Revised: 03/17/2020] [Accepted: 03/18/2020] [Indexed: 11/17/2022] Open
Abstract
Background: Exposure of seeds to high salinity can cause reduced germination and poor seedling establishment. Improving the salt tolerance of peanut (Arachis hypogaea L.) seeds during germination is an important breeding goal of the peanut industry. Bacterial communities in the spermosphere soils may be of special importance to seed germination under salt stress, whereas extant results in oilseed crop peanut are scarce. Methods: Here, bacterial communities colonizing peanut seeds with salt stress were characterized using 16S rRNA gene sequencing. Results: Peanut spermosphere was composed of four dominant genera: Bacillus, Massilia, Pseudarthrobacter, and Sphingomonas. Comparisons of bacterial community structure revealed that the beneficial bacteria (Bacillus), which can produce specific phosphatases to sequentially mineralize organic phosphorus into inorganic phosphorus, occurred in relatively higher abundance in salt-treated spermosphere soils. Further soil enzyme activity assays showed that phosphatase activity increased in salt-treated spermosphere soils, which may be associated with the shift of Bacillus. Conclusion: This study will form the foundation for future improvement of salt tolerance of peanuts at the seed germination stage via modification of the soil microbes.
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17
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Knight SJ, Karon O, Goddard MR. Small scale fungal community differentiation in a vineyard system. Food Microbiol 2019; 87:103358. [PMID: 31948613 DOI: 10.1016/j.fm.2019.103358] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2019] [Revised: 09/05/2019] [Accepted: 10/24/2019] [Indexed: 01/25/2023]
Abstract
Microbes influence the quality of agricultural commodities and contribute to their distinctive sensorial attributes. Increasingly studies have demonstrated not only differential geographic patterns in microbial communities and populations, but that these contribute to valuable regionally distinct agricultural product identities, the most well-known example being wine. However, little is understood about microbial geographic patterns at scales of less than 100 km. For wine, single vineyards are the smallest (and most valuable) scale at which wine is asserted to differ; however, it is unknown whether microbes play any role in agricultural produce differentiation at this scale. Here we investigate whether vineyard fungal communities and yeast populations driving the spontaneous fermentation of fruit from these same vineyards are differentiated using metagenomics and population genetics. Significant differentiation of fungal communities was revealed between four Central Otago (New Zealand) Pinot Noir vineyard sites. However, there was no vineyard demarcation between fermenting populations of S. cerevisiae. Overall, this provides evidence that vineyard microbiomes potentially contribute to vineyard specific attributes in wine. Understanding the scale at which microbial communities are differentiated, and how these communities influence food product attributes has direct economic implications for industry and could inform sustainable management practices that maintain and enhance microbial diversity.
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Affiliation(s)
- Sarah J Knight
- The School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland Mail Centre, Auckland, 1142, New Zealand.
| | - Ophir Karon
- The School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland Mail Centre, Auckland, 1142, New Zealand
| | - Matthew R Goddard
- The School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland Mail Centre, Auckland, 1142, New Zealand; The School of Life Sciences, The University of Lincoln, Lincoln, LN6 7DL, United Kingdom
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