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Li Y, Chen H, Gu L, Wu J, Zheng X, Fan Z, Pan D, Li JT, Shu W, Rosendahl S, Wang Y. Domestication of rice may have changed its arbuscular mycorrhizal properties by modifying phosphorus nutrition-related traits and decreasing symbiotic compatibility. THE NEW PHYTOLOGIST 2024; 243:1554-1570. [PMID: 38853449 DOI: 10.1111/nph.19901] [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: 01/29/2024] [Accepted: 05/27/2024] [Indexed: 06/11/2024]
Abstract
Modern cultivated rice (Oryza sativa) typically experiences limited growth benefits from arbuscular mycorrhizal (AM) symbiosis. This could be due to the long-term domestication of rice under favorable phosphorus conditions. However, there is limited understanding of whether and how the rice domestication has modified AM properties. This study compared AM properties between a collection of wild (Oryza rufipogon) and domesticated rice genotypes and investigated the mechanisms underlying their differences by analyzing physiological, genomic, transcriptomic, and metabolomic traits critical for AM symbiosis. The results revealed significantly lower mycorrhizal growth responses and colonization intensity in domesticated rice compared to wild rice, and this change of AM properties may be associated with the domestication modifications of plant phosphorus utilization efficiency at physiological and genomic levels. Domestication also resulted in a decrease in the activity of the mycorrhizal phosphorus acquisition pathway, which may be attributed to reduced mycorrhizal compatibility of rice roots by enhancing defense responses like root lignification and reducing carbon supply to AM fungi. In conclusion, rice domestication may have changed its AM properties by modifying P nutrition-related traits and reducing symbiotic compatibility. This study offers new insights for improving AM properties in future rice breeding programs to enhance sustainable agricultural production.
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Affiliation(s)
- Yingwei Li
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, 510631, China
| | - Hanwen Chen
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, 510631, China
| | - Ling Gu
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, 510631, China
| | - Jingwen Wu
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, 510631, China
| | - Xiutan Zheng
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, 510631, China
| | - Zhilan Fan
- Rice Research Institute, Guangdong Academy of Agricultural Science, Guangzhou, 510640, China
| | - Dajian Pan
- Rice Research Institute, Guangdong Academy of Agricultural Science, Guangzhou, 510640, China
| | - Jin-Tian Li
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, 510631, China
| | - Wensheng Shu
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, 510631, China
| | - Søren Rosendahl
- Department of Biology, University of Copenhagen, DK-2100, Copenhagen, Denmark
| | - Yutao Wang
- Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, Guangzhou Key Laboratory of Subtropical Biodiversity and Biomonitoring, School of Life Sciences, South China Normal University, Guangzhou, 510631, China
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2
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Yuan L, Zhao T, Yang J, Wu N, Zhang P, Zhang H, Xu T. Characteristics of the Perianthic Endophytic Fungal Communities of the Rare Horticultural Plant Lirianthe delavayi and Their Changes under Artificial Cultivation. Microorganisms 2024; 12:1491. [PMID: 39065259 PMCID: PMC11278761 DOI: 10.3390/microorganisms12071491] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2024] [Revised: 07/18/2024] [Accepted: 07/19/2024] [Indexed: 07/28/2024] Open
Abstract
Flower endophytic fungi play a major role in plant reproduction, stress resistance, and growth and development. However, little is known about how artificial cultivation affects the endophytic fungal community found in the tepals of rare horticultural plants. In this research, we used high-throughput sequencing technology combined with bioinformatics analysis to reveal the endophytic fungal community of tepals in Lirianthe delavayi and the effects of artificial cultivation on the community composition and function of these plants, using tepals of L. delavayi from wild habitat, cultivated campus habitat, and cultivated field habitat as research objects. The results showed that the variety of endophytic fungi in the tepals of L. delavayi was abundant, with a total of 907 Amplicon sequencing variants (ASVs) obtained from all the samples, which were further classified into 4 phyla, 23 classes, 51 orders, 97 families, 156 genera, and 214 species. We also found that artificial cultivation had a significant impact on the community composition of endophytic fungi. Although there was no significant difference at the phylum level, with Ascomycota and Basidiomycota being the main phyla, there were significant differences in dominant and unique genera. Artificial cultivation has led to the addition of new pathogenic fungal genera, such as Phaeosphaeria, Botryosphaeria, and Paraconiothyrium, increasing the risk of disease in L. delavayi. In addition, the abundance of the endophytic fungus Rhodotorula, which is typical in plant reproductive organs, decreased. Artificial cultivation also altered the metabolic pathways of endophytic fungi, decreasing their ability to resist pests and diseases and reducing their ability to reproduce. A comparison of endophytic fungi in tepals and leaves revealed significant differences in community composition and changes in the endophytic diversity caused by artificial cultivation. To summarize, our results indicate that endophytic fungi in the tepals of L. delavayi mainly consist of pathogenic and saprophytic fungi. Simultaneously, artificial cultivation introduces a great number of pathogenic fungi that alter the metabolic pathways associated with plant resistance to disease and pests, as well as reproduction, which can increase the risk of plant disease and reduce plant reproductive capacity. Our study provides an important reference for the conservation and breeding of rare horticultural plants.
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Affiliation(s)
- Lang Yuan
- School of Ecology and Environmental Science, Yunnan University, Kunming 650106, China (J.Y.)
| | - Tongxing Zhao
- School of Ecology and Environmental Science, Yunnan University, Kunming 650106, China (J.Y.)
| | - Jing Yang
- School of Ecology and Environmental Science, Yunnan University, Kunming 650106, China (J.Y.)
| | - Nannan Wu
- School of Ecology and Environmental Science, Yunnan University, Kunming 650106, China (J.Y.)
| | - Pinzheng Zhang
- School of Ecology and Environmental Science, Yunnan University, Kunming 650106, China (J.Y.)
| | - Hanbo Zhang
- State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan University, Kunming 650106, China
| | - Tao Xu
- School of Ecology and Environmental Science, Yunnan University, Kunming 650106, China (J.Y.)
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3
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Magnoli SM, Bever JD. Plant productivity response to inter- and intra-symbiont diversity: Mechanisms, manifestations and meta-analyses. Ecol Lett 2023; 26:1614-1628. [PMID: 37317651 DOI: 10.1111/ele.14274] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2023] [Revised: 04/20/2023] [Accepted: 05/25/2023] [Indexed: 06/16/2023]
Abstract
Symbiont diversity can have large effects on plant growth but the mechanisms generating this relationship remain opaque. We identify three potential mechanisms underlying symbiont diversity-plant productivity relationships: provisioning with complementary resources, differential impact of symbionts of varying quality and interference between symbionts. We connect these mechanisms to descriptive representations of plant responses to symbiont diversity, develop analytical tests differentiating these patterns and test them using meta-analysis. We find generally positive symbiont diversity-plant productivity relationships, with relationship strength varying with symbiont type. Inoculation with symbionts from different guilds (e.g. mycorrhizal fungi and rhizobia) yields strongly positive relationships, consistent with complementary benefits from functionally distinct symbionts. In contrast, inoculation with symbionts from the same guild yields weak relationships, with co-inoculation not consistently generating greater growth than the best individual symbiont, consistent with sampling effects. The statistical approaches we outline, along with our conceptual framework, can be used to further explore plant productivity and community responses to symbiont diversity, and we identify critical needs for additional research to explore context dependency in these relationships.
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Affiliation(s)
- Susan M Magnoli
- Kansas Biological Survey and Center for Ecological Research, University of Kansas, Lawrence, Kansas, USA
| | - James D Bever
- Kansas Biological Survey and Center for Ecological Research and Department of Ecology and Evolutionary Biology, University of Kansas, Lawrence, Kansas, USA
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4
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Artificial Cultivation Changes Foliar Endophytic Fungal Community of the Ornamental Plant Lirianthe delavayi. Microorganisms 2023; 11:microorganisms11030775. [PMID: 36985348 PMCID: PMC10059682 DOI: 10.3390/microorganisms11030775] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2023] [Revised: 03/10/2023] [Accepted: 03/15/2023] [Indexed: 03/19/2023] Open
Abstract
Many wild ornamental plant species have been introduced to improve the landscape of cities; however, until now, no study has been performed to explore the composition and function of foliar endophytes associated with cultivated rare plants in cities after their introduction. In this study, we collected the leaves of the healthy ornamental plant Lirianthe delavayi from wild and artificially cultivated habitats in Yunnan and compared their diversity, species composition, and functional predictions of their foliar endophytic fungal community based on high-throughput sequencing technology. In total, 3125 ASVs of fungi were obtained. The alpha diversity indices of wild L. delavayi populations are similar to those of cultivated samples; however, the species compositions of endophytic fungal ASVs were significantly varied in the two habitats. The dominant phylum is Ascomycota, accounting for more than 90% of foliar endophytes in both populations; relatively, artificial cultivation trends to increase the frequency of common phytopathogens of L. delavayi, such as Alternaria, Erysiphe. The relative abundance of 55 functional predictions is different between wild and cultivated L. delavayi leaves (p < 0.05); in particular, chromosome, purine metabolism, and peptidases are significantly increased in wild samples, while flagellar assembly, bacterial chemotaxis, and fatty acid metabolism are significantly enhanced in cultivated samples. Our results indicated that artificial cultivation can greatly change the foliar endophytic fungal community of L. delavayi, which is valuable for understanding the influence of the domestication process on the foliar fungal community associated with rare ornamental plants in urban environments.
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Eck JL, Kytöviita M, Laine A. Arbuscular mycorrhizal fungi influence host infection during epidemics in a wild plant pathosystem. THE NEW PHYTOLOGIST 2022; 236:1922-1935. [PMID: 36093733 PMCID: PMC9827988 DOI: 10.1111/nph.18481] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2022] [Accepted: 08/15/2022] [Indexed: 05/29/2023]
Abstract
While pathogenic and mutualistic microbes are ubiquitous across ecosystems and often co-occur within hosts, how they interact to determine patterns of disease in genetically diverse wild populations is unknown. To test whether microbial mutualists provide protection against pathogens, and whether this varies among host genotypes, we conducted a field experiment in three naturally occurring epidemics of a fungal pathogen, Podosphaera plantaginis, infecting a host plant, Plantago lanceolata, in the Åland Islands, Finland. In each population, we collected epidemiological data on experimental plants from six allopatric populations that had been inoculated with a mixture of mutualistic arbuscular mycorrhizal fungi or a nonmycorrhizal control. Inoculation with arbuscular mycorrhizal fungi increased growth in plants from every population, but also increased host infection rate. Mycorrhizal effects on disease severity varied among host genotypes and strengthened over time during the epidemic. Host genotypes that were more susceptible to the pathogen received stronger protective effects from inoculation. Our results show that arbuscular mycorrhizal fungi introduce both benefits and risks to host plants, and shift patterns of infection in host populations under pathogen attack. Understanding how mutualists alter host susceptibility to disease will be important for predicting infection outcomes in ecological communities and in agriculture.
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Affiliation(s)
- Jenalle L. Eck
- Department of Evolutionary Biology and Environmental StudiesUniversity of Zurich8057ZurichSwitzerland
| | - Minna‐Maarit Kytöviita
- Department of Biological and Environmental ScienceUniversity of Jyväskylä40014JyväskyläFinland
| | - Anna‐Liisa Laine
- Department of Evolutionary Biology and Environmental StudiesUniversity of Zurich8057ZurichSwitzerland
- Organismal and Evolutionary Biology Research Program, Faculty of Biological and Environmental SciencesUniversity of Helsinki00790HelsinkiFinland
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6
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Primieri S, Magnoli SM, Koffel T, Stürmer SL, Bever JD. Perennial, but not annual legumes synergistically benefit from infection with arbuscular mycorrhizal fungi and rhizobia: a meta-analysis. THE NEW PHYTOLOGIST 2022; 233:505-514. [PMID: 34626495 PMCID: PMC9298428 DOI: 10.1111/nph.17787] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/08/2021] [Accepted: 10/04/2021] [Indexed: 05/17/2023]
Abstract
Many plant species simultaneously interact with multiple symbionts, which can, but do not always, generate synergistic benefits for their host. We ask if plant life history (i.e. annual vs perennial) can play an important role in the outcomes of the tripartite symbiosis of legumes, arbuscular mycorrhizal fungi (AMF), and rhizobia. We performed a meta-analysis of 88 studies examining outcomes of legume-AMF-rhizobia interactions on plant and microbial growth. Perennial legumes associating with AMF and rhizobia grew larger than expected based on their response to either symbiont alone (i.e. their response to co-inoculation was synergistic). By contrast, annual legume growth with co-inoculation did not differ from additive expectations. AMF and rhizobia differentially increased phosphorus (P) and nitrogen (N) tissue concentration. Rhizobium nodulation increased with mycorrhizal fungi inoculation, but mycorrhizal fungi colonization did not increase with rhizobium inoculation. Microbial responses to co-infection were significantly correlated with synergisms in plant growth. Our work supports a balanced plant stoichiometry mechanism for synergistic benefits. We find that synergisms are in part driven by reinvestment in complementary symbionts, and that time-lags in realizing benefits of reinvestment may limit synergisms in annuals. Optimization of microbiome composition to maximize synergisms may be critical to productivity, particularly for perennial legumes.
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Affiliation(s)
- Silmar Primieri
- Instituto Federal de Santa Catarina (IFSC)Câmpus LagesLagesSC88506‐400Brazil
| | | | - Thomas Koffel
- W. K. Kellogg Biological StationMichigan State UniversityHickory CornersMI49060USA
- Program in Ecology, Evolutionary Biology and BehaviorDepartments of Plant Biology and Integrative BiologyMichigan State UniversityEast LansingMI48823USA
| | - Sidney L. Stürmer
- Departamento de Ciências NaturaisUniversidade Regional de BlumenauBlumenauSC89030‐903Brazil
| | - James D. Bever
- Kansas Biological SurveyUniversity of KansasLawrenceKS66047USA
- Department of Ecology and Evolutionary BiologyUniversity of KansasLawrenceKS66045USA
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7
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Agriculture and the Disruption of Plant–Microbial Symbiosis. Trends Ecol Evol 2020; 35:426-439. [DOI: 10.1016/j.tree.2020.01.006] [Citation(s) in RCA: 52] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2019] [Revised: 01/13/2020] [Accepted: 01/21/2020] [Indexed: 12/29/2022]
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8
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Preece C, Peñuelas J. A Return to the Wild: Root Exudates and Food Security. TRENDS IN PLANT SCIENCE 2020; 25:14-21. [PMID: 31648938 DOI: 10.1016/j.tplants.2019.09.010] [Citation(s) in RCA: 57] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/15/2019] [Revised: 09/21/2019] [Accepted: 09/30/2019] [Indexed: 05/07/2023]
Abstract
Challenges to food security under conditions of global change are forcing us to increase global crop production. Focussing on belowground plant traits, especially root exudation, has great promise to meet this challenge. Root exudation is the release of a vast array of compounds into the soil. These exudates are involved in many biotic and abiotic interactions. Wild relatives of crops provide a large potential source of information and genetic material and have desirable traits that could be incorporated into modern breeding programs. However, root exudates are currently underexploited. Here, we highlight how the traits of root exudates of crop wild relatives could be used to improve agricultural output and reduce environmental impacts, particularly by decreasing our dependence on pesticides and fertilisers.
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Affiliation(s)
- Catherine Preece
- CREAF, Cerdanyola del Vallès, 08193, Catalonia, Spain; CSIC, Global Ecology Unit CREAF-CSIC-UAB, Bellaterra 08193, Catalonia, Spain.
| | - Josep Peñuelas
- CREAF, Cerdanyola del Vallès, 08193, Catalonia, Spain; CSIC, Global Ecology Unit CREAF-CSIC-UAB, Bellaterra 08193, Catalonia, Spain
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9
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Hassani MA, Özkurt E, Seybold H, Dagan T, Stukenbrock EH. Interactions and Coadaptation in Plant Metaorganisms. ANNUAL REVIEW OF PHYTOPATHOLOGY 2019; 57:483-503. [PMID: 31348865 DOI: 10.1146/annurev-phyto-082718-100008] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Plants associate with a wide diversity of microorganisms. Some microorganisms engage in intimate associations with the plant host, collectively forming a metaorganism. Such close coexistence with plants requires specific adaptations that allow microorganisms to overcome plant defenses and inhabit plant tissues during growth and reproduction. New data suggest that the plant immune system has a broader role beyond pathogen recognition and also plays an important role in the community assembly of the associated microorganism. We propose that core microorganisms undergo coadaptation with their plant host, notably in response to the plant immune system allowing them to persist and propagate in their host. Microorganisms, which are vertically transmitted from generation to generation via plant seeds, putatively compose highly adapted species and may have plant-beneficial functions. The extent to which plant domestication has impacted the underlying genetics of plant-microbe associations remains poorly understood. We propose that the ability of domesticated plants to select and maintain advantageous microbial partners may have been affected. In this review, we discuss factors that impact plant metaorganism assembly and function. We underline the importance of microbe-microbe interactions in plant tissues, as they are still poorly studied but may have a great impact on plant health.
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Affiliation(s)
- M Amine Hassani
- Environmental Genomics, Max Planck Institute for Evolutionary Biology, 24306 Plön, Germany;
- Environmental Genomics, Christian-Albrechts University of Kiel, 24118 Kiel, Germany
| | - Ezgi Özkurt
- Environmental Genomics, Max Planck Institute for Evolutionary Biology, 24306 Plön, Germany;
- Environmental Genomics, Christian-Albrechts University of Kiel, 24118 Kiel, Germany
| | - Heike Seybold
- Environmental Genomics, Max Planck Institute for Evolutionary Biology, 24306 Plön, Germany;
- Environmental Genomics, Christian-Albrechts University of Kiel, 24118 Kiel, Germany
| | - Tal Dagan
- Institute of Microbiology, Christian-Albrechts University of Kiel, 24118 Kiel, Germany
| | - Eva H Stukenbrock
- Environmental Genomics, Max Planck Institute for Evolutionary Biology, 24306 Plön, Germany;
- Environmental Genomics, Christian-Albrechts University of Kiel, 24118 Kiel, Germany
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10
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Kokkoris V, Hamel C, Hart MM. Mycorrhizal response in crop versus wild plants. PLoS One 2019; 14:e0221037. [PMID: 31393956 PMCID: PMC6687160 DOI: 10.1371/journal.pone.0221037] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2019] [Accepted: 07/29/2019] [Indexed: 01/20/2023] Open
Abstract
We proposed a theoretical framework predicting mutualistic outcomes for the arbuscular mycorrhizal (AM) symbiosis based on host provenance (crop versus wild). To test the framework, we grew two isolates of Rhizoglomus irregulare (commercial versus an isolate locally isolated), with five crop plants and five wild plants endemic to the region that co-occur with the locally sourced fungus. While inoculation with either isolate had no effect on plant biomass, it decreased leaf P content, particularly for wild plants. All plants associating with the commercial fungus had lower leaf P. Overall, our data shows that wild plants may be more sensitive to differences in mutualistic quality among fungal isolates.
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Affiliation(s)
- Vasilis Kokkoris
- Department of Biology, University of British Columbia, Okanagan campus, Kelowna, BC, Canada
| | - Chantal Hamel
- Quebec Research and Development Centre, Agriculture and Agri-Food Canada, Quebec, QC, Canada
| | - Miranda M. Hart
- Department of Biology, University of British Columbia, Okanagan campus, Kelowna, BC, Canada
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11
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Pérez-Jaramillo JE, Carrión VJ, de Hollander M, Raaijmakers JM. The wild side of plant microbiomes. MICROBIOME 2018; 6:143. [PMID: 30115122 PMCID: PMC6097318 DOI: 10.1186/s40168-018-0519-z] [Citation(s) in RCA: 118] [Impact Index Per Article: 19.7] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/16/2018] [Accepted: 07/17/2018] [Indexed: 05/18/2023]
Affiliation(s)
- Juan E Pérez-Jaramillo
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), P.O. Box 50, 6708 PB, Wageningen, The Netherlands
- Institute of Biology, Leiden University, Sylviusweg 72, 2333 BE, Leiden, The Netherlands
| | - Víctor J Carrión
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), P.O. Box 50, 6708 PB, Wageningen, The Netherlands
| | - Mattias de Hollander
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), P.O. Box 50, 6708 PB, Wageningen, The Netherlands
| | - Jos M Raaijmakers
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), P.O. Box 50, 6708 PB, Wageningen, The Netherlands.
- Institute of Biology, Leiden University, Sylviusweg 72, 2333 BE, Leiden, The Netherlands.
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12
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Ellouze W, Hamel C, Singh AK, Mishra V, DePauw RM, Knox RE. Abundance of the arbuscular mycorrhizal fungal taxa associated with the roots and rhizosphere soil of different durum wheat cultivars in the Canadian prairies. Can J Microbiol 2018; 64:527-536. [PMID: 29633625 DOI: 10.1139/cjm-2017-0637] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Understanding the variation in how wheat genotypes shape their arbuscular mycorrhizal (AM) fungal communities in a prairie environment is foundational to breeding for enhanced AM fungi-wheat interactions. The AM fungal communities associated with 32 durum wheat genotypes were described by pyrosequencing of amplicons. The experiment was set up at two locations in the Canadian prairies. The intensively managed site was highly dominated by Funneliformis. Genotype influenced the AM fungal community in the rhizosphere soil, but there was no evidence of a differential genotype effect on the AM fungal community of durum wheat roots. The influence of durum wheat genotype on the AM fungal community of the soil was less important at the intensively managed site. Certain durum wheat genotypes, such as Strongfield, Plenty, and CDC Verona, were associated with high abundance of Paraglomus, and Dominikia was undetected in the rhizosphere of the recent cultivars Enterprise, Eurostar, Commander, and Brigade. Genetic variation in the association of durum wheat with AM fungi suggests the possibility of increasing the sustainability of cropping systems through the use of durum wheat genotypes that select highly effective AM fungal taxa residing in the agricultural soils of the Canadian prairies.
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Affiliation(s)
- Walid Ellouze
- a Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, P.O. Box 1030, 1 Airport Road, Swift Current, SK S9H 3X2, Canada.,b Crop Diversification Centre South, Alberta Agriculture and Forestry, 301 Horticultural Station Road East, Brooks, AB T1R 1E6, Canada
| | - Chantal Hamel
- a Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, P.O. Box 1030, 1 Airport Road, Swift Current, SK S9H 3X2, Canada
| | - Asheesh K Singh
- c Department of Agronomy, Iowa State University, 1501 Agronomy Hall, Ames, IA 50011-1010, USA
| | - Vachaspati Mishra
- b Crop Diversification Centre South, Alberta Agriculture and Forestry, 301 Horticultural Station Road East, Brooks, AB T1R 1E6, Canada
| | - Ron M DePauw
- a Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, P.O. Box 1030, 1 Airport Road, Swift Current, SK S9H 3X2, Canada.,d Advancing Wheat Technology, 870 Field Drive, Swift Current, SK S9H 4N5, Canada
| | - Ron E Knox
- a Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, P.O. Box 1030, 1 Airport Road, Swift Current, SK S9H 3X2, Canada
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13
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Martín-Robles N, Lehmann A, Seco E, Aroca R, Rillig MC, Milla R. Impacts of domestication on the arbuscular mycorrhizal symbiosis of 27 crop species. THE NEW PHYTOLOGIST 2018; 218:322-334. [PMID: 29281758 DOI: 10.1111/nph.14962] [Citation(s) in RCA: 77] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2017] [Accepted: 11/12/2017] [Indexed: 06/07/2023]
Abstract
The arbuscular mycorrhizal (AM) symbiosis is key to plant nutrition, and hence is potentially key in sustainable agriculture. Fertilization and other agricultural practices reduce soil AM fungi and root colonization. Such conditions might promote the evolution of low mycorrhizal responsive crops. Therefore, we ask if and how evolution under domestication has altered AM symbioses of crops. We measured the effect of domestication on mycorrhizal responsiveness across 27 crop species and their wild progenitors. Additionally, in a subset of 14 crops, we tested if domestication effects differed under contrasting phosphorus (P) availabilities. The response of AM symbiosis to domestication varied with P availability. On average, wild progenitors benefited from the AM symbiosis irrespective of P availability, while domesticated crops only profited under P-limited conditions. Magnitudes and directions of response were diverse among the 27 crops, and were unrelated to phylogenetic affinities or to the coordinated evolution with fine root traits. Our results indicate disruptions in the efficiency of the AM symbiosis linked to domestication. Under high fertilization, domestication could have altered the regulation of resource trafficking between AM fungi and associated plant hosts. Provided that crops are commonly raised under high fertilization, this result has important implications for sustainable agriculture.
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Affiliation(s)
- Nieves Martín-Robles
- Departamento de Biología y Geología, Área de Biodiversidad y Conservación, Escuela Superior de Ciencias Experimentales y Tecnología, Universidad Rey Juan Carlos, c/Tulipán s/n, Móstoles, 28933, Spain
| | - Anika Lehmann
- Institut für Biologie, Dahlem Center of Plant Sciences, Freie Universität Berlin, Altensteinstr. 6, 14195, Berlin, Germany
| | - Erica Seco
- Departamento de Biología y Geología, Área de Biodiversidad y Conservación, Escuela Superior de Ciencias Experimentales y Tecnología, Universidad Rey Juan Carlos, c/Tulipán s/n, Móstoles, 28933, Spain
| | - Ricardo Aroca
- Departamento de Microbiología del Suelo y Sistemas Simbióticos, Estación experimental del Zaidín, CSIC, C/Profesor Albareda 1, 18008, Granada, Spain
| | - Matthias C Rillig
- Institut für Biologie, Dahlem Center of Plant Sciences, Freie Universität Berlin, Altensteinstr. 6, 14195, Berlin, Germany
| | - Rubén Milla
- Departamento de Biología y Geología, Área de Biodiversidad y Conservación, Escuela Superior de Ciencias Experimentales y Tecnología, Universidad Rey Juan Carlos, c/Tulipán s/n, Móstoles, 28933, Spain
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14
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Besnard G, Terral JF, Cornille A. On the origins and domestication of the olive: a review and perspectives. ANNALS OF BOTANY 2018; 121:385-403. [PMID: 29293871 PMCID: PMC5838823 DOI: 10.1093/aob/mcx145] [Citation(s) in RCA: 66] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2017] [Accepted: 10/12/2017] [Indexed: 05/18/2023]
Abstract
Background Unravelling domestication processes is crucial for understanding how species respond to anthropogenic pressures, forecasting crop responses to future global changes and improving breeding programmes. Domestication processes for clonally propagated perennials differ markedly from those for seed-propagated annual crops, mostly due to long generation times, clonal propagation and recurrent admixture with local forms, leading to a limited number of generations of selection from wild ancestors. However, additional case studies are required to document this process more fully. Scope The olive is an iconic species in Mediterranean cultural history. Its multiple uses and omnipresence in traditional agrosystems have made this species an economic pillar and cornerstone of Mediterranean agriculture. However, major questions about the domestication history of the olive remain unanswered. New paleobotanical, archeological, historical and molecular data have recently accumulated for olive, making it timely to carry out a critical re-evaluation of the biogeography of wild olives and the history of their cultivation. We review here the chronological history of wild olives and discuss the questions that remain unanswered, or even unasked, about their domestication history in the Mediterranean Basin. We argue that more detailed ecological genomics studies of wild and cultivated olives are crucial to improve our understanding of olive domestication. Multidisciplinary research integrating genomics, metagenomics and community ecology will make it possible to decipher the evolutionary ecology of one of the most iconic domesticated fruit trees worldwide. Conclusion The olive is a relevant model for improving our knowledge of domestication processes in clonally propagated perennial crops, particularly those of the Mediterranean Basin. Future studies on the ecological and genomic shifts linked to domestication in olive and its associated community will provide insight into the phenotypic and molecular bases of crop adaptation to human uses.
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Affiliation(s)
- Guillaume Besnard
- CNRS-UPS-ENSFEA-IRD, EDB, UMR 5174, Université Paul Sabatier, Toulouse Cedex , France
| | - Jean-Frédéric Terral
- ISEM, UMR 5554, CNRS-Université de Montpellier-IRD-EPHE, Equipe Dynamique de la Biodiversité, Anthropo-écologie, Montpellier Cedex, France
- International Associated Laboratory (LIA, CNRS) EVOLea, Zürich, Switzerland
| | - Amandine Cornille
- Center for Adaptation to a Changing Environment, ETH Zürich, Zürich, Switzerland
- GQE - Le Moulon, INRA, Univ. Paris-Sud, CNRS, AgroParisTech, Université Paris-Saclay, Gif-sur-Yvette, France
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15
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Werner GDA, Zhou Y, Pieterse CMJ, Kiers ET. Tracking plant preference for higher-quality mycorrhizal symbionts under varying CO 2 conditions over multiple generations. Ecol Evol 2018; 8:78-87. [PMID: 29321853 PMCID: PMC5756855 DOI: 10.1002/ece3.3635] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2017] [Revised: 10/13/2017] [Accepted: 10/16/2017] [Indexed: 01/14/2023] Open
Abstract
The symbiosis between plants and root-colonizing arbuscular mycorrhizal (AM) fungi is one of the most ecologically important examples of interspecific cooperation in the world. AM fungi provide benefits to plants; in return plants allocate carbon resources to fungi, preferentially allocating more resources to higher-quality fungi. However, preferential allocations from plants to symbionts may vary with environmental context, particularly when resource availability affects the relative value of symbiotic services. We ask how differences in atmospheric CO 2-levels influence root colonization dynamics between AMF species that differ in their quality as symbiotic partners. We find that with increasing CO 2-conditions and over multiple plant generations, the more beneficial fungal species is able to achieve a relatively higher abundance. This suggests that increasing atmospheric carbon supply enables plants to more effectively allocate carbon to higher-quality mutualists, and over time helps reduce lower-quality AM abundance. Our results illustrate how environmental context may affect the extent to which organisms structure interactions with their mutualistic partners and have potential implications for mutualism stability and persistence under global change.
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Affiliation(s)
- Gijsbert D. A. Werner
- Department of Ecological ScienceVrije Universiteit AmsterdamAmsterdamThe Netherlands
- Department of ZoologyUniversity of OxfordOxfordUK
| | - Yeling Zhou
- Plant‐Microbe InteractionsDepartment of BiologyUtrecht UniversityUtrechtThe Netherlands
| | - Corné M. J. Pieterse
- Plant‐Microbe InteractionsDepartment of BiologyUtrecht UniversityUtrechtThe Netherlands
| | - E. Toby Kiers
- Department of Ecological ScienceVrije Universiteit AmsterdamAmsterdamThe Netherlands
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16
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Chen YH, Shapiro LR, Benrey B, Cibrián-Jaramillo A. Back to the Origin: In Situ Studies Are Needed to Understand Selection during Crop Diversification. Front Ecol Evol 2017. [DOI: 10.3389/fevo.2017.00125] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
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17
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Leff JW, Lynch RC, Kane NC, Fierer N. Plant domestication and the assembly of bacterial and fungal communities associated with strains of the common sunflower, Helianthus annuus. THE NEW PHYTOLOGIST 2017; 214:412-423. [PMID: 27879004 DOI: 10.1111/nph.14323] [Citation(s) in RCA: 107] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2016] [Accepted: 10/09/2016] [Indexed: 05/21/2023]
Abstract
Root and rhizosphere microbial communities can affect plant health, but it remains undetermined how plant domestication may influence these bacterial and fungal communities. We grew 33 sunflower (Helianthus annuus) strains (n = 5) that varied in their extent of domestication and assessed rhizosphere and root endosphere bacterial and fungal communities. We also assessed fungal communities in the sunflower seeds to investigate the degree to which root and rhizosphere communities were influenced by vertical transmission of the microbiome through seeds. Neither root nor rhizosphere bacterial communities were affected by the extent of sunflower domestication, but domestication did affect the composition of rhizosphere fungal communities. In particular, more modern sunflower strains had lower relative abundances of putative fungal pathogens. Seed-associated fungal communities strongly differed across strains, but several lines of evidence suggest that there is minimal vertical transmission of fungi from seeds to the adult plants. Our results indicate that plant-associated fungal communities are more strongly influenced by host genetic factors and plant breeding than bacterial communities, a finding that could influence strategies for optimizing microbial communities to improve crop yields.
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Affiliation(s)
- Jonathan W Leff
- Cooperative Institute for Research in Environmental Sciences, University of Colorado, Boulder, CO, 80309-0216, USA
- Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO, 80309, USA
| | - Ryan C Lynch
- Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO, 80309, USA
- Medicinal Genomics, 12 Gill St, Woburn, MA, 01801, USA
| | - Nolan C Kane
- Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO, 80309, USA
| | - Noah Fierer
- Cooperative Institute for Research in Environmental Sciences, University of Colorado, Boulder, CO, 80309-0216, USA
- Department of Ecology and Evolutionary Biology, University of Colorado, Boulder, CO, 80309, USA
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18
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Pérez-Jaramillo JE, Mendes R, Raaijmakers JM. Impact of plant domestication on rhizosphere microbiome assembly and functions. PLANT MOLECULAR BIOLOGY 2016; 90:635-44. [PMID: 26085172 PMCID: PMC4819786 DOI: 10.1007/s11103-015-0337-7] [Citation(s) in RCA: 290] [Impact Index Per Article: 36.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2015] [Accepted: 06/04/2015] [Indexed: 05/18/2023]
Abstract
The rhizosphere microbiome is pivotal for plant health and growth, providing defence against pests and diseases, facilitating nutrient acquisition and helping plants to withstand abiotic stresses. Plants can actively recruit members of the soil microbial community for positive feedbacks, but the underlying mechanisms and plant traits that drive microbiome assembly and functions are largely unknown. Domestication of plant species has substantially contributed to human civilization, but also caused a strong decrease in the genetic diversity of modern crop cultivars that may have affected the ability of plants to establish beneficial associations with rhizosphere microbes. Here, we review how plants shape the rhizosphere microbiome and how domestication may have impacted rhizosphere microbiome assembly and functions via habitat expansion and via changes in crop management practices, root exudation, root architecture, and plant litter quality. We also propose a "back to the roots" framework that comprises the exploration of the microbiome of indigenous plants and their native habitats for the identification of plant and microbial traits with the ultimate goal to reinstate beneficial associations that may have been undermined during plant domestication.
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Affiliation(s)
- Juan E Pérez-Jaramillo
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), P.O. Box 50, 6708 PB, Wageningen, The Netherlands
- Sylvius Laboratories, Institute of Biology, Leiden University, Sylviusweg 72, 2333 BE, Leiden, The Netherlands
| | - Rodrigo Mendes
- Laboratory of Environmental Microbiology, Brazilian Agricultural Research Corporation, Embrapa Environment, Rodovia SP 340 - km 127.5, Jaguariúna, 13820-000, Brazil
| | - Jos M Raaijmakers
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), P.O. Box 50, 6708 PB, Wageningen, The Netherlands.
- Sylvius Laboratories, Institute of Biology, Leiden University, Sylviusweg 72, 2333 BE, Leiden, The Netherlands.
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19
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Werner GDA, Kiers ET. Partner selection in the mycorrhizal mutualism. THE NEW PHYTOLOGIST 2015; 205:1437-1442. [PMID: 25421912 DOI: 10.1111/nph.13113] [Citation(s) in RCA: 80] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2014] [Accepted: 09/10/2014] [Indexed: 05/23/2023]
Abstract
Partner selection in the mycorrhizal symbiosis is thought to be a key factor stabilising the mutualism. Both plant hosts and mycorrhizal fungi have been shown to preferentially allocate resources to higher quality partners. This can help maintain underground cooperation, although it is likely that different plant species vary in the spatial precision with which they can select partners. Partner selection in the mycorrhizal symbiosis is presumably context-dependent and can be mediated by factors like (relative) resource abundance and resource fluctuations, competition among mycorrhizas, arrival order and cultivation history. Such factors complicate our current understanding of the importance of partner selection and its effectiveness in stimulating mutualistic cooperation.
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Affiliation(s)
- Gijsbert D A Werner
- Department of Ecological Science, Vrije Universiteit Amsterdam, De Boeleaan 1085, 1081 HV, Amsterdam, the Netherlands
| | - E Toby Kiers
- Department of Ecological Science, Vrije Universiteit Amsterdam, De Boeleaan 1085, 1081 HV, Amsterdam, the Netherlands
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20
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Bissett A, Brown MV, Siciliano SD, Thrall PH. Microbial community responses to anthropogenically induced environmental change: towards a systems approach. Ecol Lett 2013; 16 Suppl 1:128-39. [DOI: 10.1111/ele.12109] [Citation(s) in RCA: 185] [Impact Index Per Article: 16.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2012] [Revised: 10/17/2012] [Accepted: 02/26/2013] [Indexed: 11/27/2022]
Affiliation(s)
- Andrew Bissett
- CSIRO Plant Industry; PO Box 1600; Canberra; 2601; Australia
| | - Mark V. Brown
- School of Biotechnology and Biomolecular Sciences and Ecology and Evolution Research Center; University of New South Wales; Sydney; 2052; Austraila
| | | | - Peter H. Thrall
- CSIRO Plant Industry; PO Box 1600; Canberra; 2601; Australia
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21
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BAKHTIAR YENNI, YAHYA SUDIRMAN, SUMARYONO WAHONO, SURADJI SINAGA MEITY, WILARSO BUDI SRI. Adaptation of Oil Palm Seedlings Inoculated with Arbuscular Mycorrhizal Fungi and Mycorrhizal Endosymbiotic Bacteria Bacillus subtilis B10 towards Biotic Stress of Pathogen Ganoderma boninense Pat. MICROBIOLOGY INDONESIA 2012. [DOI: 10.5454/mi.6.4.3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
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22
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Molecular approaches for AM fungal community ecology: A primer. J Microbiol Methods 2012; 90:108-14. [DOI: 10.1016/j.mimet.2012.04.010] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2012] [Revised: 04/10/2012] [Accepted: 04/11/2012] [Indexed: 11/21/2022]
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