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Ratnadass A, Llandres AL, Goebel FR, Husson O, Jean J, Napoli A, Sester M, Joseph S. Potential of silicon-rich biochar (Sichar) amendment to control crop pests and pathogens in agroecosystems: A review. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 910:168545. [PMID: 37984651 DOI: 10.1016/j.scitotenv.2023.168545] [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: 06/23/2023] [Revised: 10/09/2023] [Accepted: 11/11/2023] [Indexed: 11/22/2023]
Abstract
We reviewed the potential of silicon (Si)-rich biochars (sichars) as crop amendments for pest and pathogen control. The main pathosystems that emerged from our systematic literature search were bacterial wilt on solanaceous crops (mainly tomato, pepper, tobacco and eggplant), piercing-sucking hemipteran pests and soil-borne fungi on gramineous crops (mainly rice and wheat), and parasitic nematodes on other crops. The major pest and pathogen mitigation pathways identified were: i) Si-based physical barriers; ii) Induction of plant defenses; iii) Enhancement of plant-beneficial/pathogen-antagonistic soil microflora in the case of root nematodes; iv) Alteration of soil physical-chemical properties resulting in Eh-pH conditions unfavorable to root nematodes; v) Alteration of soil physical-chemical properties resulting in Eh-pH, bulk density and/or water holding capacity favorable to plant growth and resulting tolerance to necrotrophic pathogens; vi) Increased Si uptake resulting in reduced plant quality, owing to reduced nitrogen intake towards some hemi-biotrophic pests or pathogens. Our review highlighted synergies between pathways and tradeoffs between others, depending, inter alia, on: i) crop type (notably whether Si-accumulating or not); ii) pest/pathogen type (e.g. below-ground/root-damaging vs above-ground/aerial part-damaging; "biotrophic" vs "necrotrophic" sensu lato, and corresponding systemic resistance pathways; thriving Eh-pH spectrum; etc.); iii) soil type. Our review also stressed the need for further research on: i) the contribution of Si and other physical-chemical characteristics of biochars (including potential antagonistic effects); ii) the pyrolysis process to a) optimize Si availability in the soil and its uptake by the crop and b) to minimize formation of harmful compounds e.g. cristobalite; iii) on the optimal form of biochar, e.g. Si-nano particles on the surface of the biochar, micron-sized biochar-based compound fertilizer vs larger biochar porous matrices.
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Affiliation(s)
- Alain Ratnadass
- CIRAD, UPR AIDA, 97410 Saint-Pierre, Réunion, France; AIDA, Univ Montpellier, CIRAD, Montpellier, France.
| | - Ana L Llandres
- AIDA, Univ Montpellier, CIRAD, Montpellier, France; CIRAD, UPR AIDA, Institut de Recherche Coton (IRC), Cotonou, Benin; CIRAD, UPR AIDA, International Institute of Tropical Agriculture (IITA), Cotonou, Benin
| | - François-Régis Goebel
- AIDA, Univ Montpellier, CIRAD, Montpellier, France; CIRAD, UPR AIDA, 34398 Montpellier, France
| | - Olivier Husson
- AIDA, Univ Montpellier, CIRAD, Montpellier, France; CIRAD, UPR AIDA, 34398 Montpellier, France
| | - Janine Jean
- AIDA, Univ Montpellier, CIRAD, Montpellier, France; CIRAD, UPR AIDA, 34398 Montpellier, France
| | - Alfredo Napoli
- CIRAD, UPR BioWooEB, 34398 Montpellier, France; BioWooEB, Univ Montpellier, CIRAD, Montpellier, France
| | - Mathilde Sester
- AIDA, Univ Montpellier, CIRAD, Montpellier, France; CIRAD, UPR Aïda, Phnom Penh, Cambodia; Institut Technologique du Cambodge, Phnom Penh, Cambodia
| | - Stephen Joseph
- College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing 210095, China; School of Materials Science and Engineering, University of NSW, Sydney, NSW 2052, Australia; Institute for Superconducting and Electronic Materials, School of Physics, University of Wollongong, NSW 2522, Australia
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2
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Chen W, Modi D, Picot A. Soil and Phytomicrobiome for Plant Disease Suppression and Management under Climate Change: A Review. PLANTS (BASEL, SWITZERLAND) 2023; 12:2736. [PMID: 37514350 PMCID: PMC10384710 DOI: 10.3390/plants12142736] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2023] [Revised: 07/17/2023] [Accepted: 07/18/2023] [Indexed: 07/30/2023]
Abstract
The phytomicrobiome plays a crucial role in soil and ecosystem health, encompassing both beneficial members providing critical ecosystem goods and services and pathogens threatening food safety and security. The potential benefits of harnessing the power of the phytomicrobiome for plant disease suppression and management are indisputable and of interest in agriculture but also in forestry and landscaping. Indeed, plant diseases can be mitigated by in situ manipulations of resident microorganisms through agronomic practices (such as minimum tillage, crop rotation, cover cropping, organic mulching, etc.) as well as by applying microbial inoculants. However, numerous challenges, such as the lack of standardized methods for microbiome analysis and the difficulty in translating research findings into practical applications are at stake. Moreover, climate change is affecting the distribution, abundance, and virulence of many plant pathogens, while also altering the phytomicrobiome functioning, further compounding disease management strategies. Here, we will first review literature demonstrating how agricultural practices have been found effective in promoting soil health and enhancing disease suppressiveness and mitigation through a shift of the phytomicrobiome. Challenges and barriers to the identification and use of the phytomicrobiome for plant disease management will then be discussed before focusing on the potential impacts of climate change on the phytomicrobiome functioning and disease outcome.
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Affiliation(s)
- Wen Chen
- Ottawa Research and Development Centre, Science and Technology Branch, Agriculture and Agri-Food Canada, Ottawa, ON K1A 0C6, Canada
- Department of Biology, University of Ottawa, Ottawa, ON K1N 6N5, Canada
| | - Dixi Modi
- Ottawa Research and Development Centre, Science and Technology Branch, Agriculture and Agri-Food Canada, Ottawa, ON K1A 0C6, Canada
| | - Adeline Picot
- Univ Brest, INRAE, Laboratoire Universitaire de Biodiversité et Écologie Microbienne, F-29280 Plouzané, France
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3
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Resendiz-Nava CN, Alonso-Onofre F, Silva-Rojas HV, Rebollar-Alviter A, Rivera-Pastrana DM, Stasiewicz MJ, Nava GM, Mercado-Silva EM. Tomato Plant Microbiota under Conventional and Organic Fertilization Regimes in a Soilless Culture System. Microorganisms 2023; 11:1633. [PMID: 37512805 PMCID: PMC10383152 DOI: 10.3390/microorganisms11071633] [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: 05/18/2023] [Revised: 06/15/2023] [Accepted: 06/19/2023] [Indexed: 07/30/2023] Open
Abstract
Tomato is the main vegetable cultivated under soilless culture systems (SCSs); production of organic tomato under SCSs has increased due to consumer demands for healthier and environmentally friendly vegetables. However, organic tomato production under SCSs has been associated with low crop performance and fruit quality defects. These agricultural deficiencies could be linked to alterations in tomato plant microbiota; nonetheless, this issue has not been sufficiently addressed. Thus, the main goal of the present study was to characterize the rhizosphere and phyllosphere of tomato plants cultivated under conventional and organic SCSs. To accomplish this goal, tomato plants grown in commercial greenhouses under conventional or organic SCSs were tested at 8, 26, and 44 weeks after seedling transplantation. Substrate (n = 24), root (n = 24), and fruit (n = 24) composite samples were subjected to DNA extraction and high-throughput 16S rRNA gene sequencing. The present study revealed that the tomato core microbiota was predominantly constituted by Proteobacteria, Actinobacteria, and Firmicutes. Remarkably, six bacterial families, Bacillaceae, Microbacteriaceae, Nocardioidaceae, Pseudomonadaceae, Rhodobacteraceae, and Sphingomonadaceae, were shared among all substrate, rhizosphere, and fruit samples. Importantly, it was shown that plants under organic SCSs undergo a dysbiosis characterized by significant changes in the relative abundance of Bradyrhizobiaceae, Caulobacteraceae, Chitinophagaceae, Enterobacteriaceae, Erythrobacteraceae, Flavobacteriaceae, Nocardioidaceae, Rhodobacteraceae, and Streptomycetaceae. These results suggest that microbial alterations in substrates, roots, and fruits could be potential factors in contributing to the crop performance and fruit quality deficiencies observed in organic SCSs.
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Affiliation(s)
- Carolina N Resendiz-Nava
- Facultad de Quimica, Universidad Autonoma de Queretaro, Cerro de las Campanas S/N, Queretaro 76010, Queretaro, Mexico
| | | | - Hilda V Silva-Rojas
- Posgrado en Recursos Geneticos y Productividad, Produccion de Semillas, Colegio de Postgraduados, Km 36.5 Carretera Mexico-Texcoco, Texcoco 56264, Mexico
| | - Angel Rebollar-Alviter
- Centro Regional Morelia, Universidad Autonoma de Chapingo, Morelia 58170, Michoacan, Mexico
| | - Dulce M Rivera-Pastrana
- Facultad de Quimica, Universidad Autonoma de Queretaro, Cerro de las Campanas S/N, Queretaro 76010, Queretaro, Mexico
| | - Matthew J Stasiewicz
- Department of Food Science and Human Nutrition, University of Illinois at Urbana-Champaign, 1302W Pennsylvania Ave, Urbana, IL 61801, USA
| | - Gerardo M Nava
- Facultad de Quimica, Universidad Autonoma de Queretaro, Cerro de las Campanas S/N, Queretaro 76010, Queretaro, Mexico
| | - Edmundo M Mercado-Silva
- Facultad de Quimica, Universidad Autonoma de Queretaro, Cerro de las Campanas S/N, Queretaro 76010, Queretaro, Mexico
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Shakir S, Zaidi SSEA, Hashemi FSG, Nyirakanani C, Vanderschuren H. Harnessing plant viruses in the metagenomics era: from the development of infectious clones to applications. TRENDS IN PLANT SCIENCE 2023; 28:297-311. [PMID: 36379846 DOI: 10.1016/j.tplants.2022.10.005] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2022] [Revised: 10/17/2022] [Accepted: 10/20/2022] [Indexed: 06/16/2023]
Abstract
Recent metagenomic studies which focused on virus characterization in the entire plant environment have revealed a remarkable viral diversity in plants. The exponential discovery of viruses also requires the concomitant implementation of high-throughput methods to perform their functional characterization. Despite several limitations, the development of viral infectious clones remains a method of choice to understand virus biology, their role in the phytobiome, and plant resilience. Here, we review the latest approaches for efficient characterization of plant viruses and technical advances built on high-throughput sequencing and synthetic biology to streamline assembly of viral infectious clones. We then discuss the applications of plant viral vectors in fundamental and applied plant research as well as their technical and regulatory limitations, and we propose strategies for their safer field applications.
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Affiliation(s)
- Sara Shakir
- Plant Genetics and Rhizosphere Processes Laboratory, TERRA Teaching and Research Center, Gembloux Agro-Bio Tech, University of Liège, Gembloux, Belgium.
| | - Syed Shan-E-Ali Zaidi
- Plant Genetics and Rhizosphere Processes Laboratory, TERRA Teaching and Research Center, Gembloux Agro-Bio Tech, University of Liège, Gembloux, Belgium
| | - Farahnaz Sadat Golestan Hashemi
- Plant Genetics and Rhizosphere Processes Laboratory, TERRA Teaching and Research Center, Gembloux Agro-Bio Tech, University of Liège, Gembloux, Belgium
| | - Chantal Nyirakanani
- Plant Genetics and Rhizosphere Processes Laboratory, TERRA Teaching and Research Center, Gembloux Agro-Bio Tech, University of Liège, Gembloux, Belgium; Department of Crop Science, School of Agriculture, University of Rwanda, Musanze, Rwanda
| | - Hervé Vanderschuren
- Plant Genetics and Rhizosphere Processes Laboratory, TERRA Teaching and Research Center, Gembloux Agro-Bio Tech, University of Liège, Gembloux, Belgium; Laboratory of Tropical Crop Improvement, Division of Crop Biotechnics, Biosystems Department, KU Leuven, Leuven, Belgium.
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5
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Iacomino G, Idbella M, Laudonia S, Vinale F, Bonanomi G. The Suppressive Effects of Biochar on Above- and Belowground Plant Pathogens and Pests: A Review. PLANTS (BASEL, SWITZERLAND) 2022; 11:3144. [PMID: 36432873 PMCID: PMC9695804 DOI: 10.3390/plants11223144] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/06/2022] [Revised: 11/04/2022] [Accepted: 11/11/2022] [Indexed: 06/16/2023]
Abstract
Soilborne pathogens and pests in agroecosystems are serious problems that limit crop yields. In line with the development of more ecologically sustainable agriculture, the possibility of using biochar to control pests has been increasingly investigated in recent years. This work provides a general overview of disease and pest suppression using biochar. We present an updated view of the literature from 2015 to 2022 based on 61 articles, including 117 experimental case studies. We evaluated how different biochar production feedstocks, pyrolysis temperatures, application rates, and the pathosystems studied affected disease and pest incidence. Fungal pathogens accounted for 55% of the case studies, followed by bacteria (15%), insects and nematodes (8%), oomycetes and viruses (6%), and only 2% parasitic plants. The most commonly studied belowground pathogen species were Fusarium oxysporum f. sp. radicis lycopersici in fungi, Ralstonia solanacearum in bacteria, and Phytophthora capisci in oomycetes, while the most commonly studied pest species were Meloidogyne incognita in nematodes, Epitrix fuscula in insects, and both Phelipanche aegyptiaca and Orobanche crenata in parasitic plants. Biochar showed suppression efficiencies of 86% for fungi, 100% for oomycetes, 100% for viruses, 96% for bacteria, and 50% for nematodes. Biochar was able to potentially control 20 fungal, 8 bacterial, and 2 viral plant pathogens covered by our review. Most studies used an application rate between 1% and 3%, a pyrolysis temperature between 500 °C and 600 °C, and a feedstock based on sawdust and wood waste. Several mechanisms have been proposed to explain disease suppression by biochar, including induction of systemic resistance, enhancement of rhizosphere competence of the microbial community, and sorption of phytotoxic compounds of plant and/or microbial origin. Overall, it is important to standardize biochar feedstock and the rate of application to improve the beneficial effects on plants in terms of disease control.
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Affiliation(s)
- Giuseppina Iacomino
- Department of Agricultural Sciences, University of Naples Federico II, 80055 Portici, Italy
| | - Mohamed Idbella
- Department of Agricultural Sciences, University of Naples Federico II, 80055 Portici, Italy
| | - Stefania Laudonia
- Department of Agricultural Sciences, University of Naples Federico II, 80055 Portici, Italy
- Center for Studies on Bioinspired Agro-Environmental Technology, BAT Center, University of Naples Federico II, 80055 Portici, Italy
| | - Francesco Vinale
- Center for Studies on Bioinspired Agro-Environmental Technology, BAT Center, University of Naples Federico II, 80055 Portici, Italy
- Department of Veterinary Medicine and Animal Productions, University of Naples Federico II, 80137 Naples, Italy
| | - Giuliano Bonanomi
- Department of Agricultural Sciences, University of Naples Federico II, 80055 Portici, Italy
- Task Force on Microbiome Studies, University of Naples Federico II, 80055 Portici, Italy
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6
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Leaf Bacteriome in Sugar Beet Shows Differential Response against Beet curly top virus during Resistant and Susceptible Interactions. Int J Mol Sci 2022; 23:ijms23158073. [PMID: 35897649 PMCID: PMC9331236 DOI: 10.3390/ijms23158073] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2022] [Revised: 07/19/2022] [Accepted: 07/20/2022] [Indexed: 02/05/2023] Open
Abstract
Beet curly top virus (BCTV) significantly reduces sugar beet yield in semi-arid production areas. Genetic resistance to BCTV is limited; therefore, identification of additional resistance-associated factors is highly desired. Using 16S rRNA sequencing and BCTV resistant (R) genotypes (KDH13, KDH4-9) along with a susceptible (S) genotype (KDH19-17), we investigated leaf bacteriome changes during BCTV post inoculation (pi). At day 6 (~6-week-old plants), Cyanobacteria were predominant (~90%); whereas, at week 4 (~10-week-old plants) Firmicutes (11–66%), Bacteroidetes (17–26%), and Verrucomicrobia (12–29%) were predominant phyla and genotype dependent. Both Bacteroidetes and Verrucomicrobia, increased post infection only in the R lines. The bacterial genera Brevibacillus increased at 6 dpi, and Akkermansia and Bacteroides at 4 wkpi in the R lines. Linear discriminant analysis effect size (LEfSe) identified potential biomarkers in the R vs. S lines. Functional profiling revealed bacterial enrichment associated with the TCA cycle, polyisoprenoid, and L-methionine biosynthesis pathways only in KDH4-9 at 6 dpi. At 4 wkpi, bacteria associated with tryptophan and palmitate biosynthesis in the R lines, and uridine monophosphate, phosphatidyl glycerol, and phospholipid biosynthesis in the S line, were enriched. Future characterization of bacterial genera with antiviral properties will help establish their use as biocontrol agents/biomarkers against BCTV.
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Luigi M, Manglli A, Dragone I, Antonelli MG, Contarini M, Speranza S, Bertin S, Tiberini A, Gentili A, Varvaro L, Tomassoli L, Faggioli F. Effects of Biochar on the Growth and Development of Tomato Seedlings and on the Response of Tomato Plants to the Infection of Systemic Viral Agents. Front Microbiol 2022; 13:862075. [PMID: 35615512 PMCID: PMC9125222 DOI: 10.3389/fmicb.2022.862075] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2022] [Accepted: 03/25/2022] [Indexed: 11/13/2022] Open
Abstract
Biochar is a rich carbon product obtained by pyrolysis of biomass under a limited supply of oxygen. It is composed mainly of aromatic molecules, but its agronomic value is hard to evaluate and difficult to predict due to its great variable characteristics depending on the type of starting biomass and the conditions of pyrolysis. Anyway, it could be used as soil amendment because it increases the soil fertility of acidic soils, increases the agricultural productivity, and seems to provide protection against some foliar and soilborne diseases. In this study, the effects of biochar, obtained from olive pruning, have been evaluated on tomato seedlings growth and on their response to systemic agents' infection alone or added with beneficial microorganisms (Bacillus spp. and Trichoderma spp.). First, experimental data showed that biochar seems to promote the development of the tomato seedlings, especially at concentrations ranging from 1 to 20% (w/w with peat) without showing any antimicrobial effects on the beneficial soil bacteria at the tomato rhizosphere level and even improving their growth. Thus, those concentrations were used in growing tomato plants experimentally infected with tomato spotted wilt virus (TSWV) and potato spindle tuber viroid (PSTVd). The biochar effect was estimated by evaluating three parameters, namely, symptom expression, number of infected plants, and pathogen quantification, using RT-qPCR technique and −ΔΔCt analysis. Biochar at 10–15% and when added with Trichoderma spp. showed that it reduces the replication of PSTVd and the expression of symptoms even if it was not able to block the start of infection. The results obtained on TSWV-infected plants suggested that biochar could contribute to reducing both infection rate and virus replication. For systemic viral agents, such as PSTVd and TSWV, there are no curative control methods, and therefore, the use of prevention means, as can be assumed the use biochar, for example, in the nursery specialized in horticultural crops, can be of great help. These results can be an encouraging starting point to introduce complex biochar formulates among the sustainable managing strategies of plant systemic diseases.
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Affiliation(s)
- Marta Luigi
- Council for Agricultural Research and Economics-Research Centre for Plant Protection and Certification (CREA-DC), Rome, Italy
| | - Ariana Manglli
- Council for Agricultural Research and Economics-Research Centre for Plant Protection and Certification (CREA-DC), Rome, Italy
| | - Immacolata Dragone
- Council for Agricultural Research and Economics-Research Centre for Plant Protection and Certification (CREA-DC), Rome, Italy
| | | | - Mario Contarini
- Department of Agriculture and Forest Sciences, University of Tuscia, Viterbo, Italy
| | - Stefano Speranza
- Department of Agriculture and Forest Sciences, University of Tuscia, Viterbo, Italy
| | - Sabrina Bertin
- Council for Agricultural Research and Economics-Research Centre for Plant Protection and Certification (CREA-DC), Rome, Italy
| | - Antonio Tiberini
- Council for Agricultural Research and Economics-Research Centre for Plant Protection and Certification (CREA-DC), Rome, Italy
| | - Andrea Gentili
- Council for Agricultural Research and Economics-Research Centre for Plant Protection and Certification (CREA-DC), Rome, Italy
| | - Leonardo Varvaro
- Department of Agriculture and Forest Sciences, University of Tuscia, Viterbo, Italy
| | - Laura Tomassoli
- Council for Agricultural Research and Economics-Research Centre for Plant Protection and Certification (CREA-DC), Rome, Italy
| | - Francesco Faggioli
- Council for Agricultural Research and Economics-Research Centre for Plant Protection and Certification (CREA-DC), Rome, Italy
- *Correspondence: Francesco Faggioli
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Abstract
The microorganisms associated with an organism, the microbiome, have a strong and wide impact in their host biology. In particular, the microbiome modulates both the host defense responses and immunity, thus influencing the fate of infections by pathogens. Indeed, this immune modulation and/or interaction with pathogenic viruses can be essential to define the outcome of viral infections. Understanding the interplay between the microbiome and pathogenic viruses opens future venues to fight viral infections and enhance the efficacy of antiviral therapies. An increasing number of researchers are focusing on microbiome-virus interactions, studying diverse combinations of microbial communities, hosts, and pathogenic viruses. Here, we aim to review these studies, providing an integrative overview of the microbiome impact on viral infection across different pathosystems.
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Samaddar S, Karp DS, Schmidt R, Devarajan N, McGarvey JA, Pires AFA, Scow K. Role of soil in the regulation of human and plant pathogens: soils' contributions to people. Philos Trans R Soc Lond B Biol Sci 2021; 376:20200179. [PMID: 34365819 DOI: 10.1098/rstb.2020.0179] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
Soil and soil biodiversity play critical roles in Nature's Contributions to People (NCP) # 10, defined as Nature's ability to regulate direct detrimental effects on humans, and on human-important plants and animals, through the control or regulation of particular organisms considered to be harmful. We provide an overview of pathogens in soil, focusing on human and crop pathogens, and discuss general strategies, and examples, of how soils' extraordinarily diverse microbial communities regulate soil-borne pathogens. We review the ecological principles underpinning the regulation of soil pathogens, as well as relationships between pathogen suppression and soil health. Mechanisms and specific examples are presented of how soil and soil biota are involved in regulating pathogens of humans and plants. We evaluate how specific agricultural management practices can either promote or interfere with soil's ability to regulate pathogens. Finally, we conclude with how integrating soil, plant, animal and human health through a 'One Health' framework could lead to more integrated, efficient and multifunctional strategies for regulating detrimental organisms and processes. This article is part of the theme issue 'The role of soils in delivering Nature's Contributions to People'.
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Affiliation(s)
- Sandipan Samaddar
- Department of Land, Air and Water Resources, University of California, Davis, Davis, CA, USA
| | - Daniel S Karp
- Department of Wildlife, Fish, and Conservation Biology, University of California, Davis, Davis, CA, USA
| | - Radomir Schmidt
- Department of Land, Air and Water Resources, University of California, Davis, Davis, CA, USA
| | - Naresh Devarajan
- Department of Wildlife, Fish, and Conservation Biology, University of California, Davis, Davis, CA, USA
| | - Jeffery A McGarvey
- Agricultural Research Service, US Department of Agriculture, Albany, CA, USA
| | - Alda F A Pires
- Department of Population Health and Reproduction, School of Veterinary Medicine, University of California, Davis, Davis, CA, USA
| | - Kate Scow
- Department of Land, Air and Water Resources, University of California, Davis, Davis, CA, USA
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10
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Zhang Z, Zheng K, Zhao L, Su X, Zheng X, Wang T. Occurrence, Distribution, Evolutionary Relationships, Epidemiology, and Management of Orthotospoviruses in China. Front Microbiol 2021; 12:686025. [PMID: 34421843 PMCID: PMC8371445 DOI: 10.3389/fmicb.2021.686025] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2021] [Accepted: 06/25/2021] [Indexed: 11/17/2022] Open
Abstract
Orthotospoviruses are responsible for serious crop losses worldwide. Orthotospoviral diseases have spread rapidly in China over the past 10 years and are now found in 19 provinces. Currently, 17 Orthotospovirus species have been reported in China, including eight newly identified species from this genus. The number of new highly pathogenic Orthotospovirus strains or species has increased, likely because of the virus species diversity, the wide range of available hosts, adaptation of the viruses to different climates, and multiple transmission routes. This review describes the distribution of Orthotospovirus species, host plants, typical symptoms of infection under natural conditions, the systemic infection of host plants, spatial clustering characteristics of virus particles in host cells, and the orthotospoviral infection cycle in the field. The evolutionary relationships of orthotospoviruses isolated from China and epidemiology are also discussed. In order to effectively manage orthotospoviral disease, future research needs to focus on deciphering the underlying mechanisms of systemic infection, studying complex/mixed infections involving the same or different Orthotospovirus species or other viruses, elucidating orthotospovirus adaptative mechanisms to multiple climate types, breeding virus-resistant plants, identifying new strains and species, developing early monitoring and early warning systems for plant infection, and studying infection transmission routes.
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Affiliation(s)
- Zhongkai Zhang
- Key Lab of Agricultural Biotechnology of Yunnan Province, Biotechnology and Germplasm Resources Research Institute, Yunnan Academy of Agricultural Sciences, Kunming, China
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Readyhough T, Neher DA, Andrews T. Organic Amendments Alter Soil Hydrology and Belowground Microbiome of Tomato ( Solanum lycopersicum). Microorganisms 2021; 9:microorganisms9081561. [PMID: 34442640 PMCID: PMC8399880 DOI: 10.3390/microorganisms9081561] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2021] [Revised: 07/08/2021] [Accepted: 07/19/2021] [Indexed: 01/04/2023] Open
Abstract
Manure-derived organic amendments are a cost-effective tool that provide many potential benefits to plant and soil health including fertility, water retention, and disease suppression. A greenhouse experiment was conducted to evaluate how dairy manure compost (DMC), dairy manure compost-derived vermicompost (VC), and dehydrated poultry manure pellets (PP) impact the tripartite relationship among plant growth, soil physiochemical properties, and microbial community composition. Of tomato plants with manure-derived fertilizers amendments, only VC led to vigorous growth through the duration of the experiment, whereas DMC had mixed impacts on plant growth and PP was detrimental. Organic amendments increased soil porosity and soil water holding capacity, but delayed plant maturation and decreased plant biomass. Composition of bacterial communities were affected more by organic amendment than fungal communities in all microhabitats. Composition of communities outside roots (bulk soil, rhizosphere, rhizoplane) contrasted those within roots (endosphere). Distinct microbial communities were detected for each treatment, with an abundance of Massilia, Chryseolinea, Scedosporium, and Acinetobacter distinguishing the control, vermicompost, dairy manure compost, and dehydrated poultry manure pellet treatments, respectively. This study suggests that plant growth is affected by the application of organic amendments not only because of the soil microbial communities introduced, but also due to a synergistic effect on the physical soil environment. Furthermore, there is a strong interaction between root growth and the spatial heterogeneity of soil and root-associated microbial communities.
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12
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Bonanomi G, Idbella M, Abd-ElGawad AM. Microbiota Management for Effective Disease Suppression: A Systematic Comparison between Soil and Mammals Gut. SUSTAINABILITY 2021; 13:7608. [DOI: 10.3390/su13147608] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/01/2023]
Abstract
Both soil and the human gut support vast microbial biodiversity, in which the microbiota plays critical roles in regulating harmful organisms. However, the functional link between microbiota taxonomic compositions and disease suppression has not been explained yet. Here, we provide an overview of pathogen regulation in soil and mammals gut, highlighting the differences and the similarities between the two systems. First, we provide a review of the ecological mechanisms underlying the regulation of soil and pathogens, as well as the link between disease suppression and soil health. Particular emphasis is thus given to clarifying how soil and the gut microbiota are associated with organic amendment and the human diet, respectively. Moreover, we provide several insights into the importance of organic amendment and diet composition in shaping beneficial microbiota as an efficient way to support crop productivity and human health. This review also discusses novel ways to functionally characterize organic amendments and the proper operational combining of such materials with beneficial microbes for stirring suppressive microbiota against pathogens. Furthermore, specific examples are given to describe how agricultural management practices, including the use of antibiotics and fumigants, hinder disease suppression by disrupting microbiota structure, and the potentiality of entire microbiome transplant. We conclude by discussing general strategies to promote soil microbiota biodiversity, the connection with plant yield and health, and their possible integration through a “One Health” framework.
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