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Saylan Y, Aliyeva N, Eroglu S, Denizli A. Nanomaterial-Based Sensors for Coumarin Detection. ACS OMEGA 2024; 9:30015-30034. [PMID: 39035881 PMCID: PMC11256117 DOI: 10.1021/acsomega.4c01945] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/04/2024] [Revised: 06/11/2024] [Accepted: 06/20/2024] [Indexed: 07/23/2024]
Abstract
Sensors are widely used owing to their advantages including excellent sensing performance, user-friendliness, portability, rapid response, high sensitivity, and specificity. Sensor technologies have been expanded rapidly in recent years to offer many applications in medicine, pharmaceuticals, the environment, food safety, and national security. Various nanomaterial-based sensors have been developed for their exciting features, such as a powerful absorption band in the visible region, excellent electrical conductivity, and good mechanical properties. Natural and synthetic coumarin derivatives are attracting attention in the development of functional polymers and polymeric networks for their unique biological, optical, and photochemical properties. They are the most abundant organic molecules in medicine because of their biological and pharmacological impacts. Furthermore, coumarin derivatives can modulate signaling pathways that affect various cellular processes. This review covers the discovery of coumarins and their derivatives, the integration of nanomaterial-based sensors, and recent advances in nanomaterial-based sensing for coumarins. This review also explains how sensors work, their types, their pros and cons, and sensor studies for coumarin detection in recent years.
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Affiliation(s)
- Yeşeren Saylan
- Department
of Chemistry, Hacettepe University, 06800 Ankara, Turkey
| | - Nilufer Aliyeva
- Department
of Chemistry, Hacettepe University, 06800 Ankara, Turkey
| | - Seckin Eroglu
- Department
of Biological Sciences, Middle East Technical
University, 06800 Ankara, Turkey
| | - Adil Denizli
- Department
of Chemistry, Hacettepe University, 06800 Ankara, Turkey
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2
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Kimotho RN, Maina S. Unraveling plant-microbe interactions: can integrated omics approaches offer concrete answers? JOURNAL OF EXPERIMENTAL BOTANY 2024; 75:1289-1313. [PMID: 37950741 PMCID: PMC10901211 DOI: 10.1093/jxb/erad448] [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: 05/26/2023] [Accepted: 11/08/2023] [Indexed: 11/13/2023]
Abstract
Advances in high throughput omics techniques provide avenues to decipher plant microbiomes. However, there is limited information on how integrated informatics can help provide deeper insights into plant-microbe interactions in a concerted way. Integrating multi-omics datasets can transform our understanding of the plant microbiome from unspecified genetic influences on interacting species to specific gene-by-gene interactions. Here, we highlight recent progress and emerging strategies in crop microbiome omics research and review key aspects of how the integration of host and microbial omics-based datasets can be used to provide a comprehensive outline of complex crop-microbe interactions. We describe how these technological advances have helped unravel crucial plant and microbial genes and pathways that control beneficial, pathogenic, and commensal plant-microbe interactions. We identify crucial knowledge gaps and synthesize current limitations in our understanding of crop microbiome omics approaches. We highlight recent studies in which multi-omics-based approaches have led to improved models of crop microbial community structure and function. Finally, we recommend holistic approaches in integrating host and microbial omics datasets to achieve precision and efficiency in data analysis, which is crucial for biotic and abiotic stress control and in understanding the contribution of the microbiota in shaping plant fitness.
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Affiliation(s)
- Roy Njoroge Kimotho
- Hebei Key Laboratory of Soil Ecology, Key Laboratory of Agricultural Water Resources, Centre for Agricultural Resources Research, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, China
- University of Chinese Academy of Sciences, Beijing 100049, China
| | - Solomon Maina
- Elizabeth Macarthur Agricultural Institute, NSW Department of Primary Industries, Menangle, New South Wales 2568, Australia
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3
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Chen JY, Sang H, Chilvers MI, Wu CH, Chang HX. Characterization of soybean chitinase genes induced by rhizobacteria involved in the defense against Fusarium oxysporum. FRONTIERS IN PLANT SCIENCE 2024; 15:1341181. [PMID: 38405589 PMCID: PMC10884886 DOI: 10.3389/fpls.2024.1341181] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/20/2023] [Accepted: 01/08/2024] [Indexed: 02/27/2024]
Abstract
Rhizobacteria are capable of inducing defense responses via the expression of pathogenesis-related proteins (PR-proteins) such as chitinases, and many studies have validated the functions of plant chitinases in defense responses. Soybean (Glycine max) is an economically important crop worldwide, but the functional validation of soybean chitinase in defense responses remains limited. In this study, genome-wide characterization of soybean chitinases was conducted, and the defense contribution of three chitinases (GmChi01, GmChi02, or GmChi16) was validated in Arabidopsis transgenic lines against the soil-borne pathogen Fusarium oxysporum. Compared to the Arabidopsis Col-0 and empty vector controls, the transgenic lines with GmChi02 or GmChi16 exhibited fewer chlorosis symptoms and wilting. While GmChi02 and GmChi16 enhanced defense to F. oxysporum, GmChi02 was the only one significantly induced by Burkholderia ambifaria. The observation indicated that plant chitinases may be induced by different rhizobacteria for defense responses. The survey of 37 soybean chitinase gene expressions in response to six rhizobacteria observed diverse inducibility, where only 10 genes were significantly upregulated by at least one rhizobacterium and 9 genes did not respond to any of the rhizobacteria. Motif analysis on soybean promoters further identified not only consensus but also rhizobacterium-specific transcription factor-binding sites for the inducible chitinase genes. Collectively, these results confirmed the involvement of GmChi02 and GmChi16 in defense enhancement and highlighted the diverse inducibility of 37 soybean chitinases encountering F. oxysporum and six rhizobacteria.
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Affiliation(s)
- Jheng-Yan Chen
- Department of Plant Pathology and Microbiology, National Taiwan University, Taipei, Taiwan
| | - Hyunkyu Sang
- Department of Integrative Food, Bioscience and Biotechnology, Chonnam National University, Gwangju, Republic of Korea
| | - Martin I. Chilvers
- Department of Plant, Soil and Microbial Sciences, Michigan State University, East Lansing, MI, United States
| | - Chih-Hang Wu
- Institute of Plant and Microbial Biology, Academia Sinica, Taipei, Taiwan
| | - Hao-Xun Chang
- Department of Plant Pathology and Microbiology, National Taiwan University, Taipei, Taiwan
- Master Program of Plant Medicine, National Taiwan University, Taipei, Taiwan
- Center of Biotechnology, National Taiwan University, Taipei, Taiwan
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4
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Feng J, Ma H, Wang C, Gao J, Zhai C, Jiang L, Wan S. Water rather than nitrogen availability predominantly modulates soil microbial beta-diversity and co-occurrence networks in a secondary forest. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 907:167996. [PMID: 37871812 DOI: 10.1016/j.scitotenv.2023.167996] [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: 08/12/2023] [Revised: 10/18/2023] [Accepted: 10/19/2023] [Indexed: 10/25/2023]
Abstract
Atmospheric nitrogen (N) deposition and changing precipitation regimes greatly affect the structure and functions of terrestrial ecosystems. However, their impacts on the diversity and assembly of soil microbial communities including bacteria, fungi and protists, remain largely unclear. As part of a six-year field experiment in a secondary forest in a warm temperate and subtropical climate transitional zone in China, we aimed to investigate the responses of soil microbial communities to N addition, increased and decreased precipitation. The results showed that N addition had no effect on soil microbial α- or β-diversity, but reduced the complexity of microbial network. Neither increased nor decreased precipitation influenced soil microbial α-diversity, but decreased precipitation rather than increased precipitation elevated bacterial and protistan community dissimilarities (β-diversity), which could have been largely attributed to species replacement processes through reducing soil water availability. In addition, decreased precipitation weakened microbial complexity and stability, but enhanced the node proportion of protists in the co-occurrence network. Our observations suggest the asymmetric responses of soil microbial β-diversity to increased and decreased precipitation, and underscore that water rather than N availability, especially drought condition, plays a predominant role in modulating soil microbial β-diversity. Moreover, the findings imply that global change can strengthen the importance of soil protists and then reshape microbial assembly in forests.
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Affiliation(s)
- Jiayin Feng
- School of Life Sciences/Hebei Basic Science Center for Biotic Interaction, Institute of Life Science and Green Development, Hebei University, Baoding 071002, PR China
| | - Huixia Ma
- School of Life Sciences/Hebei Basic Science Center for Biotic Interaction, Institute of Life Science and Green Development, Hebei University, Baoding 071002, PR China
| | - Chunyu Wang
- School of Life Sciences, Henan Normal University, Xinxiang, Henan 453007, PR China
| | - Jingjing Gao
- School of Life Sciences, Henan Normal University, Xinxiang, Henan 453007, PR China
| | - Changchun Zhai
- School of Life Sciences/Hebei Basic Science Center for Biotic Interaction, Institute of Life Science and Green Development, Hebei University, Baoding 071002, PR China
| | - Lin Jiang
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Shiqiang Wan
- School of Life Sciences/Hebei Basic Science Center for Biotic Interaction, Institute of Life Science and Green Development, Hebei University, Baoding 071002, PR China.
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5
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Beesley A, Beyer SF, Wanders V, Levecque S, Bredenbruch S, Habash SS, Schleker ASS, Gätgens J, Oldiges M, Schultheiss H, Conrath U, Langenbach CJG. Engineered coumarin accumulation reduces mycotoxin-induced oxidative stress and disease susceptibility. PLANT BIOTECHNOLOGY JOURNAL 2023; 21:2490-2506. [PMID: 37578146 PMCID: PMC10651151 DOI: 10.1111/pbi.14144] [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: 09/20/2022] [Revised: 06/23/2023] [Accepted: 07/23/2023] [Indexed: 08/15/2023]
Abstract
Coumarins can fight pathogens and are thus promising for crop protection. Their biosynthesis, however, has not yet been engineered in crops. We tailored the constitutive accumulation of coumarins in transgenic Nicotiana benthamiana, Glycine max and Arabidopsis thaliana plants, as well as in Nicotiana tabacum BY-2 suspension cells. We did so by overexpressing A. thaliana feruloyl-CoA 6-hydroxylase 1 (AtF6'H1), encoding the key enzyme of scopoletin biosynthesis. Besides scopoletin and its glucoside scopolin, esculin at low level was the only other coumarin detected in transgenic cells. Mechanical damage of scopolin-accumulating tissue led to a swift release of scopoletin, presumably from the scopolin pool. High scopolin levels in A. thaliana roots coincided with reduced susceptibility to the root-parasitic nematode Heterodera schachtii. In addition, transgenic soybean plants were more tolerant to the soil-borne pathogenic fungus Fusarium virguliforme. Because mycotoxin-induced accumulation of reactive oxygen species and cell death were reduced in the AtF6'H1-overexpressors, the weaker sensitivity to F. virguliforme may be caused by attenuated oxidative damage of coumarin-hyperaccumulating cells. Together, engineered coumarin accumulation is promising for enhanced disease resilience of crops.
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Affiliation(s)
| | - Sebastian F. Beyer
- Department of Plant PhysiologyRWTH Aachen UniversityAachenGermany
- Present address:
BASF SE, Agricultural CenterLimburgerhofGermany
| | - Verena Wanders
- Department of Plant PhysiologyRWTH Aachen UniversityAachenGermany
| | - Sophie Levecque
- Department of Plant PhysiologyRWTH Aachen UniversityAachenGermany
| | | | - Samer S. Habash
- Department of Molecular PhytomedicineUniversity of BonnBonnGermany
- Present address:
BASF Vegetable SeedsNunhemNetherlands
| | | | - Jochem Gätgens
- Department of Bioprocesses and BioanalyticsResearch Center Jülich GmbHJülichGermany
| | - Marco Oldiges
- Department of Bioprocesses and BioanalyticsResearch Center Jülich GmbHJülichGermany
| | | | - Uwe Conrath
- Department of Plant PhysiologyRWTH Aachen UniversityAachenGermany
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6
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Coumarin biosynthesis genes are required after foliar pathogen infection for the creation of a microbial soil-borne legacy that primes plants for SA-dependent defenses. Sci Rep 2022; 12:22473. [PMID: 36577764 PMCID: PMC9797477 DOI: 10.1038/s41598-022-26551-x] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2022] [Accepted: 12/15/2022] [Indexed: 12/29/2022] Open
Abstract
Plants deposit photosynthetically-fixed carbon in the rhizosphere, the thin soil layer directly around the root, thereby creating a hospitable environment for microbes. To manage the inhabitants of this nutrient-rich environment, plant roots exude and dynamically adjust microbe-attracting and -repelling compounds to stimulate specific members of the microbiome. Previously, we demonstrated that foliar infection of Arabidopsis thaliana by the biotrophic downy mildew pathogen Hyaloperonospora arabidopsidis (Hpa) leads to a disease-induced modification of the rhizosphere microbiome. Soil conditioned with Hpa-infected plants provided enhanced protection against foliar downy mildew infection in a subsequent population of plants, a phenomenon dubbed the soil-borne legacy (SBL). Here, we show that for the creation of the SBL, plant-produced coumarins play a prominent role as coumarin-deficient myb72 and f6'h1 mutants were defective in creating a Hpa-induced SBL. Root exudation profiles changed significantly in Col-0 upon foliar Hpa infection, and this was accompanied by a compositional shift in the root microbiome that was significantly different from microbial shifts occurring on roots of Hpa-infected coumarin-deficient mutants. Our data further show that the Hpa-induced SBL primes Col-0 plants growing in SBL-conditioned soil for salicylic acid (SA)-dependent defenses. The SA-signaling mutants sid2 and npr1 were unresponsive to the Hpa-induced SBL, suggesting that the protective effect of the Hpa-induced shift in the root microbiome results from an induced systemic resistance that requires SA-signaling in the plant.
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7
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Yang Y, Chen X, Liu L, Li T, Dou Y, Qiao J, Wang Y, An S, Chang SX. Nitrogen fertilization weakens the linkage between soil carbon and microbial diversity: A global meta-analysis. GLOBAL CHANGE BIOLOGY 2022; 28:6446-6461. [PMID: 35971768 DOI: 10.1111/gcb.16361] [Citation(s) in RCA: 30] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/16/2022] [Revised: 07/18/2022] [Accepted: 07/18/2022] [Indexed: 06/15/2023]
Abstract
Soil microbes make up a significant portion of the genetic diversity and play a critical role in belowground carbon (C) cycling in terrestrial ecosystems. Soil microbial diversity and organic C are often tightly coupled in C cycling processes; however, this coupling can be weakened or broken by rapid global change. A global meta-analysis was performed with 1148 paired comparisons extracted from 229 articles published between January 1998 and December 2021 to determine how nitrogen (N) fertilization affects the relationship between soil C content and microbial diversity in terrestrial ecosystems. We found that N fertilization decreased soil bacterial (-11%) and fungal diversity (-17%), but increased soil organic C (SOC) (+19%), microbial biomass C (MBC) (+17%), and dissolved organic C (DOC) (+25%) across different ecosystems. Organic N (urea) fertilization had a greater effect on SOC, MBC, DOC, and bacterial and fungal diversity than inorganic N fertilization. Most importantly, soil microbial diversity decreased with increasing SOC, MBC, and DOC, and the absolute values of the correlation coefficients decreased with increasing N fertilization rate and duration, suggesting that N fertilization weakened the linkage between soil C and microbial diversity. The weakened linkage might negatively impact essential ecosystem services under high rates of N fertilization; this understanding is important for mitigating the negative impact of global N enrichment on soil C cycling.
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Affiliation(s)
- Yang Yang
- State Key Laboratory of Loess and Quaternary Geology, Institute of Earth Environment, Chinese Academy of Sciences, Xi'an, China
- CAS Center for Excellence in Quaternary Science and Global Change, Xi'an, China
- National Observation and Research Station of Earth Critical Zone on the Loess Plateau, Xi'an, China
| | - Xinli Chen
- Department of Renewable Resources, University of Alberta, Edmonton, Alberta, Canada
| | - Liangxu Liu
- State Key Laboratory of Loess and Quaternary Geology, Institute of Earth Environment, Chinese Academy of Sciences, Xi'an, China
- Urat Desert-Grassland Research Station, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Science, Lanzhou, China
| | - Ting Li
- Guangzhou Academy of Forestry and Landscape Architecture, Guangzhou, China
| | - Yanxing Dou
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling, China
| | - Jiangbo Qiao
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling, China
| | - Yunqiang Wang
- State Key Laboratory of Loess and Quaternary Geology, Institute of Earth Environment, Chinese Academy of Sciences, Xi'an, China
- CAS Center for Excellence in Quaternary Science and Global Change, Xi'an, China
- National Observation and Research Station of Earth Critical Zone on the Loess Plateau, Xi'an, China
| | - Shaoshan An
- State Key Laboratory of Soil Erosion and Dryland Farming on the Loess Plateau, Northwest A&F University, Yangling, China
| | - Scott X Chang
- Department of Renewable Resources, University of Alberta, Edmonton, Alberta, Canada
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8
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Kudjordjie EN, Hooshmand K, Sapkota R, Darbani B, Fomsgaard IS, Nicolaisen M. Fusarium oxysporum Disrupts Microbiome-Metabolome Networks in Arabidopsis thaliana Roots. Microbiol Spectr 2022; 10:e0122622. [PMID: 35766498 PMCID: PMC9430778 DOI: 10.1128/spectrum.01226-22] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2022] [Accepted: 05/29/2022] [Indexed: 12/13/2022] Open
Abstract
While the plant host metabolome drives distinct enrichment of detrimental and beneficial members of the microbiome, the mechanistic interomics relationships remain poorly understood. Here, we studied microbiome and metabolome profiles of two Arabidopsis thaliana accessions after Fusarium oxysporum f.sp. mathioli (FOM) inoculation, Landsberg erecta (Ler-0) being susceptible and Col-0 being resistant against FOM. By using bacterial and fungal amplicon sequencing and targeted metabolite analysis, we observed highly dynamic microbiome and metabolome profiles across FOM host progression, while being markedly different between FOM-inoculated and noninoculated Col-0 and Ler-0. Co-occurrence network analysis revealed more robust microbial networks in the resistant Col-0 compared to Ler-0 during FOM infection. Correlation analysis revealed distinct metabolite-OTU correlations in Ler-0 compared with Col-0 which could possibly be explained by missense variants of the Rfo3 and Rlp2 genes in Ler-0. Remarkably, we observed positive correlations in Ler-0 between most of the analyzed metabolites and the bacterial phyla Proteobacteria, Bacteroidetes, Planctomycetes, Acidobacteria, and Verrucomicrobia, and negative correlations with Actinobacteria, Firmicutes, and Chloroflexi. The glucosinolates 4-methyoxyglucobrassicin, glucoerucin and indole-3 carbinol, but also phenolic compounds were strongly correlating with the relative abundances of indicator and hub OTUs and thus could be active in structuring the A. thaliana root-associated microbiome. Our results highlight interactive effects of host plant defense and root-associated microbiota on Fusarium infection and progression. Our findings provide significant insights into plant interomic dynamics during pathogen invasion and could possibly facilitate future exploitation of microbiomes for plant disease control. IMPORTANCE Plant health and fitness are determined by plant-microbe interactions which are guided by host-synthesized metabolites. To understand the orchestration of this interaction, we analyzed the distinct interomic dynamics in resistant and susceptible Arabidopsis ecotypes across different time points after infection with Fusarium oxysporum (FOM). Our results revealed distinct microbial profiles and network resilience during FOM infection in the resistant Col-0 compared with the susceptible Ler-0 and further pinpointed specific microbe-metabolite associations in the Arabidopsis microbiome. These findings provide significant insights into plant interomics dynamics that are likely affecting fungal pathogen invasion and could possibly facilitate future exploitation of microbiomes for plant disease control.
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Affiliation(s)
- Enoch Narh Kudjordjie
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, Slagelse, Denmark
| | - Kourosh Hooshmand
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, Slagelse, Denmark
| | - Rumakanta Sapkota
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, Slagelse, Denmark
| | - Behrooz Darbani
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, Slagelse, Denmark
| | - Inge S. Fomsgaard
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, Slagelse, Denmark
| | - Mogens Nicolaisen
- Department of Agroecology, Faculty of Technical Sciences, Aarhus University, Slagelse, Denmark
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Yang J, Huang Y, Zhao G, Li B, Qin X, Xu J, Li X. Phytoremediation potential evaluation of three rhubarb species and comparative analysis of their rhizosphere characteristics in a Cd- and Pb-contaminated soil. CHEMOSPHERE 2022; 296:134045. [PMID: 35183585 DOI: 10.1016/j.chemosphere.2022.134045] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2021] [Revised: 01/04/2022] [Accepted: 02/16/2022] [Indexed: 06/14/2023]
Abstract
Screening or breeding exceptional plant species for heavy metal phytoremediation is as important as adopting feasible measures to enhance phytoremediation efficiency, which are largely based on clarifying the mechanisms of heavy metal tolerance and accumulation by plants. In this study, cadmium (Cd) and lead (Pb) tolerance and accumulation characteristics of Rheum officinale, R. palmatum, and R. tanguticum were analysed to assess their phytoremediation potential. The seed germination test indicated that these three rhubarb species could tolerate 10 mg L-1 Cd and 100 mg L-1 Pb. However, when sown in Cd- and Pb-contaminated soil, all three rhubarb species exhibited a relatively high Cd accumulation capacity but a considerably low Pb accumulation capacity according to the bioconcentration factors of Cd (0.42-0.47 in shoots and 0.11-0.15 in roots) and Pb (0.004-0.008 in shoots and 0.007-0.013 in roots). The high Cd translocation factors (3.04-4.24) indicated that these three rhubarb species were suitable for Cd phytoextraction. The changes in rhizospheric physicochemical indices were generally similar among the three rhubarb plants in comparison with those of the unplanted soil. However, differential indicator rhizobacteria were identified for the three rhubarb plants, which may be primarily attributed to their different root system characteristics. These enriched rhizobacteria included many plant growth-promoting bacteria, and several of them were also involved in regulating heavy metal uptake by plants, indicating that three rhubarb species likely recruit differentially beneficial rhizobacteria to maintain plant growth and vitality and to regulate heavy metal uptake in the Cd- and Pb-polluted soil. This study identifies new candidate plant resources for the phytoremediation of Cd-polluted soils and provides novel insights into understanding the interactions among heavy metals, rhizobacteria, and plants.
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Affiliation(s)
- Jingya Yang
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China; Honghe Center for Mountain Futures, Kunming Institute of Botany, Chinese Academy of Sciences, Honghe, 654400, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Yingqi Huang
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China; Honghe Center for Mountain Futures, Kunming Institute of Botany, Chinese Academy of Sciences, Honghe, 654400, China; University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Gaojuan Zhao
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China; Honghe Center for Mountain Futures, Kunming Institute of Botany, Chinese Academy of Sciences, Honghe, 654400, China
| | - Boqun Li
- Science and Technology Information Center, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China
| | - Xiangshi Qin
- Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China
| | - Jianchu Xu
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China; Honghe Center for Mountain Futures, Kunming Institute of Botany, Chinese Academy of Sciences, Honghe, 654400, China.
| | - Xiong Li
- Department of Economic Plants and Biotechnology, Yunnan Key Laboratory for Wild Plant Resources, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China; Honghe Center for Mountain Futures, Kunming Institute of Botany, Chinese Academy of Sciences, Honghe, 654400, China; Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, 650201, China.
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10
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Lee JH, Anderson AJ, Kim YC. Root-Associated Bacteria Are Biocontrol Agents for Multiple Plant Pests. Microorganisms 2022; 10:microorganisms10051053. [PMID: 35630495 PMCID: PMC9146382 DOI: 10.3390/microorganisms10051053] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2022] [Revised: 05/15/2022] [Accepted: 05/16/2022] [Indexed: 02/01/2023] Open
Abstract
Biological control is an important process for sustainable plant production, and this trait is found in many plant-associated microbes. This study reviews microbes that could be formulated into pesticides active against various microbial plant pathogens as well as damaging insects or nematodes. The focus is on the beneficial microbes that colonize the rhizosphere where, through various mechanisms, they promote healthy plant growth. Although these microbes have adapted to cohabit root tissues without causing disease, they are pathogenic to plant pathogens, including microbes, insects, and nematodes. The cocktail of metabolites released from the beneficial strains inhibits the growth of certain bacterial and fungal plant pathogens and participates in insect and nematode toxicity. There is a reinforcement of plant health through the systemic induction of defenses against pathogen attack and abiotic stress in the plant; metabolites in the beneficial microbial cocktail function in triggering the plant defenses. The review discusses a wide range of metabolites involved in plant protection through biocontrol in the rhizosphere. The focus is on the beneficial firmicutes and pseudomonads, because of the extensive studies with these isolates. The review evaluates how culture conditions can be optimized to provide formulations containing the preformed active metabolites for rapid control, with or without viable microbial cells as plant inocula, to boost plant productivity in field situations.
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Affiliation(s)
- Jang Hoon Lee
- Agricultural Solutions, BASF Korea Ltd., Seoul 04518, Korea;
| | - Anne J. Anderson
- Department of Biological Engineering, Utah State University, Logan, UT 84322, USA;
| | - Young Cheol Kim
- Department of Applied Biology, College of Agriculture and Life Sciences, Chonnam National University, Gwangju 61186, Korea
- Correspondence:
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11
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Ma W, Liao X, Wang C, Zhang Y. Effects of Four Cropping Patterns of Lilium brownii on Rhizosphere Microbiome Structure and Replant Disease. PLANTS 2022; 11:plants11060824. [PMID: 35336706 PMCID: PMC8950473 DOI: 10.3390/plants11060824] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/08/2022] [Revised: 02/18/2022] [Accepted: 03/15/2022] [Indexed: 11/18/2022]
Abstract
Replant disease caused by continuous cropping obstacles commonly occurs in a Lilium brownii consecutive monoculture. To reveal the mechanisms contributing to the continuous cropping obstacles of L. brownii, four cropping patterns (fallow, L. brownii-rice rotation, newly planted L. brownii, and 2-year L. brownii consecutive monoculture) were designed, and Illumina MiSeq (16S rDNA and ITS) was utilized to detect shifts in the microbial community in the rhizosphere. Our result showed that planting of L. brownii significantly reduced soil pH. Consecutive monoculture of L. brownii can significantly decrease the diversity and abundance of soil bacteria, but markedly increase the diversity and abundance of soil fungi. Under the four planting pattern treatments, the changes in soil pH were consistent with the changes in the Shannon diversity index of soil bacterial communities, whereas we observed a negative correlation between soil pH and Shannon diversity index for fungi. The relative abundance of Lactobacillales significantly increased in soils of L. brownii consecutive monoculture, while Acidobacteriales, Solibacterales, and Xanthomonadales increased in soils of L. brownii-rice rotation and newly planted L. brownii. Collectively, this work aimed to elucidate the relationship between the L. brownii planting patterns and soil microbiome, thereby providing a theoretical basis for screening new biological agents that may contribute to resolving continuous cropping obstacles of L. brownii.
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Affiliation(s)
- Wenyue Ma
- College of Plant Protection, Hunan Agricultural University, Changsha 410128, China; (W.M.); (X.L.)
| | - Xiaolan Liao
- College of Plant Protection, Hunan Agricultural University, Changsha 410128, China; (W.M.); (X.L.)
| | - Chong Wang
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha 410128, China
- Correspondence: (C.W.); (Y.Z.); Tel.: +86-0731-8461-8163 (Y.Z.)
| | - Ya Zhang
- College of Plant Protection, Hunan Agricultural University, Changsha 410128, China; (W.M.); (X.L.)
- Correspondence: (C.W.); (Y.Z.); Tel.: +86-0731-8461-8163 (Y.Z.)
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12
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Wang Q, Yang R, Peng W, Yang Y, Ma X, Zhang W, Ji A, Liu L, Liu P, Yan L, Hu X. Tea Plants With Gray Blight Have Altered Root Exudates That Recruit a Beneficial Rhizosphere Microbiome to Prime Immunity Against Aboveground Pathogen Infection. Front Microbiol 2021; 12:774438. [PMID: 34925281 PMCID: PMC8672095 DOI: 10.3389/fmicb.2021.774438] [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: 09/12/2021] [Accepted: 11/13/2021] [Indexed: 01/04/2023] Open
Abstract
Tea gray blight disease and its existing control measures have had a negative impact on the sustainable development of tea gardens. However, our knowledge of safe and effective biological control measures is limited. It is critical to explore beneficial microbial communities in the tea rhizosphere for the control of tea gray blight. In this study, we prepared conditioned soil by inoculating Pseudopestalotiopsis camelliae-sinensis on tea seedling leaves. Thereafter, we examined the growth performance and disease resistance of fresh tea seedlings grown in conditioned and control soils. Next, the rhizosphere microbial community and root exudates of tea seedlings infected by the pathogen were analyzed. In addition, we also evaluated the effects of the rhizosphere microbial community and root exudates induced by pathogens on the performance of tea seedlings. The results showed that tea seedlings grown in conditioned soil had lower disease index values and higher growth vigor. Soil microbiome analysis revealed that the fungal and bacterial communities of the rhizosphere were altered upon infection with Ps. camelliae-sinensis. Genus-level analysis showed that the abundance of the fungi Trichoderma, Penicillium, and Gliocladiopsis and the bacteria Pseudomonas, Streptomyces, Bacillus, and Burkholderia were significantly (p < 0.05) increased in the conditioned soil. Through isolation, culture, and inoculation tests, we found that most isolates from the induced microbial genera could inhibit the infection of tea gray blight pathogen and promote tea seedling growth. The results of root exudate analysis showed that infected tea seedlings exhibited significantly higher exudate levels of phenolic acids and flavonoids and lower exudate levels of amino acids and organic acids. Exogenously applied phenolic acids and flavonoids suppressed gray blight disease by regulating the rhizosphere microbial community. In summary, our findings suggest that tea plants with gray blight can recruit beneficial rhizosphere microorganisms by altering their root exudates, thereby improving the disease resistance of tea plants growing in the same soil.
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Affiliation(s)
- Qiaomei Wang
- College of Plant Protection, Yunnan Agricultural University, Kunming, China.,Puer Institute of Pu-Erh Tea, Pu'er City, China.,College of Pu'er Tea, West Yunnan University of Applied Sciences, Pu'er City, China
| | - Ruijuan Yang
- Puer Institute of Pu-Erh Tea, Pu'er City, China.,College of Pu'er Tea, West Yunnan University of Applied Sciences, Pu'er City, China.,College of Food Science and Technology, Yunnan Agricultural University, Kunming, China
| | - Wenshu Peng
- Puer Institute of Pu-Erh Tea, Pu'er City, China.,College of Pu'er Tea, West Yunnan University of Applied Sciences, Pu'er City, China
| | - Yanmei Yang
- College of Plant Protection, Yunnan Agricultural University, Kunming, China
| | - Xiaoling Ma
- School of Biological and Chemical Science, Pu'er University, Pu'er City, China
| | - Wenjie Zhang
- Puer Institute of Pu-Erh Tea, Pu'er City, China.,College of Pu'er Tea, West Yunnan University of Applied Sciences, Pu'er City, China
| | - Aibing Ji
- Puer Institute of Pu-Erh Tea, Pu'er City, China.,College of Pu'er Tea, West Yunnan University of Applied Sciences, Pu'er City, China
| | - Li Liu
- Puer Institute of Pu-Erh Tea, Pu'er City, China.,College of Pu'er Tea, West Yunnan University of Applied Sciences, Pu'er City, China
| | - Pei Liu
- College of Plant Protection, Yunnan Agricultural University, Kunming, China
| | - Liang Yan
- Puer Institute of Pu-Erh Tea, Pu'er City, China.,College of Pu'er Tea, West Yunnan University of Applied Sciences, Pu'er City, China
| | - Xianqi Hu
- College of Plant Protection, Yunnan Agricultural University, Kunming, China
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13
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Sun H, Jiang S, Jiang C, Wu C, Gao M, Wang Q. A review of root exudates and rhizosphere microbiome for crop production. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:54497-54510. [PMID: 34431053 DOI: 10.1007/s11356-021-15838-7] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/25/2021] [Accepted: 08/02/2021] [Indexed: 05/04/2023]
Abstract
Increasing crop yields and ensuring food security is a major global challenge. In order to increase crop production, chemical fertilizers and pesticides are excessively used. However, the significance of root exudates is understudied. Beneficial interactions between plant and rhizosphere microbiome are critical for plant fitness and health. In this review, we discuss the application and progress of current research methods and technologies in terms of root exudates and rhizosphere microbiome. We summarize how root exudates promote plant access to nitrogen, phosphorus, and iron, and how root exudates strengthen plant immunity to cope with biotic stress by regulating the rhizosphere microbiome, and thereby reducing dependence on fertilizers and pesticides. Optimizing these interactions to increase plant nutrient uptake and resistance to biotic stresses offers one of the few untapped opportunities to confront sustainability issues in food security. To overcome the limitations of current research, combination of multi-omics, imaging technology together with synthetic communities has the potential to uncover the interaction mechanisms and to fill the knowledge gap for their applications in agriculture to achieve sustainable development.
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Affiliation(s)
- Haishu Sun
- Department of Environmental Engineering, School of Energy and Environmental Engineering, University of Science and Technology Beijing, Beijing, 100083, China
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
| | - Shanxue Jiang
- School of Ecology and Environment, Beijing Technology and Business University, Beijing, 100048, China
- State Environmental Protection Key Laboratory of Food Chain Pollution Control, Beijing Technology and Business University, Beijing, 100048, China
| | - Cancan Jiang
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
| | - Chuanfu Wu
- Department of Environmental Engineering, School of Energy and Environmental Engineering, University of Science and Technology Beijing, Beijing, 100083, China
- Beijing Key Laboratory on Resource-oriented Treatment of Industrial Pollutants, University of Science and Technology Beijing, Beijing, 10083, China
| | - Ming Gao
- Department of Environmental Engineering, School of Energy and Environmental Engineering, University of Science and Technology Beijing, Beijing, 100083, China
- Beijing Key Laboratory on Resource-oriented Treatment of Industrial Pollutants, University of Science and Technology Beijing, Beijing, 10083, China
| | - Qunhui Wang
- Department of Environmental Engineering, School of Energy and Environmental Engineering, University of Science and Technology Beijing, Beijing, 100083, China.
- Beijing Key Laboratory on Resource-oriented Treatment of Industrial Pollutants, University of Science and Technology Beijing, Beijing, 10083, China.
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14
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Sneha GR, Swarnalakshmi K, Sharma M, Reddy K, Bhoumik A, Suman A, Kannepalli A. Soil type influence nutrient availability, microbial metabolic diversity, eubacterial and diazotroph abundance in chickpea rhizosphere. World J Microbiol Biotechnol 2021; 37:167. [PMID: 34468874 DOI: 10.1007/s11274-021-03132-0] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2021] [Accepted: 08/18/2021] [Indexed: 11/30/2022]
Abstract
Rhizosphere microbial communities are dynamic and play a crucial role in diverse biochemical processes and nutrient cycling. Soil type and cultivar modulate the composition of rhizosphere microbial communities. Changes in the community composition significantly alter microbial function and ecological process. We examined the influence of soil type on eubacterial and diazotrophic community abundance and microbial metabolic potential in chickpea (cv. BG 372 and cv. BG 256) rhizosphere. The total eubacterial and diazotrophic community as estimated through 16 S rDNA and nifH gene copy numbers using qPCR showed the soil type influence with clear rhizosphere effect on gene abundance. PLFA study has shown the variation in microbial community structure with different soil types. Differential influence of soil types and cultivar on the ratio of Gram positive to Gram negative bacteria was observed with most rhizosphere soils corresponding to higher ratios than bulk soil. The rhizosphere microbial activities (urease, dehydrogenase, alkaline phosphatase and beta-glucosidase) were also assessed as an indicator of microbial metabolic diversity. Principal component analysis and K-means non-hierarchical cluster mapping grouped soils into three categories, each having different soil enzyme activity or edaphic drivers. Soil type and cultivar influence on average substrate utilization pattern analyzed through community level physiological profiling (CLPP) was higher for rhizosphere soils than bulk soils. The soil nutrient studies revealed that both soil type and cultivar influenced the available N, P, K and organic carbon content of rhizosphere soil. Our study signifies that soil type and cultivar jointly influenced soil microbial community abundance and their metabolic potential in chickpea rhizosphere.
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Affiliation(s)
- G R Sneha
- Division of Microbiology, ICAR-Indian Agricultural Research Institute, New Delhi, 110012, India
| | | | - Meenakshi Sharma
- Division of Microbiology, ICAR-Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Kedharnath Reddy
- Division of Microbiology, ICAR-Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Arpan Bhoumik
- ICAR-IndianAgricultural Statistical Research Institute, New Delhi, 110012, India
| | - Archna Suman
- Division of Microbiology, ICAR-Indian Agricultural Research Institute, New Delhi, 110012, India
| | - Annapurna Kannepalli
- Division of Microbiology, ICAR-Indian Agricultural Research Institute, New Delhi, 110012, India.
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15
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Bruno L, Talarico E, Cabeiras-Freijanes L, Madeo ML, Muto A, Minervino M, Lucini L, Miras-Moreno B, Sofo A, Araniti F. Coumarin Interferes with Polar Auxin Transport Altering Microtubule Cortical Array Organization in Arabidopsis thaliana (L.) Heynh. Root Apical Meristem. Int J Mol Sci 2021; 22:ijms22147305. [PMID: 34298924 PMCID: PMC8306912 DOI: 10.3390/ijms22147305] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2021] [Revised: 07/04/2021] [Accepted: 07/05/2021] [Indexed: 01/22/2023] Open
Abstract
Coumarin is a phytotoxic natural compound able to affect plant growth and development. Previous studies have demonstrated that this molecule at low concentrations (100 µM) can reduce primary root growth and stimulate lateral root formation, suggesting an auxin-like activity. In the present study, we evaluated coumarin’s effects (used at lateral root-stimulating concentrations) on the root apical meristem and polar auxin transport to identify its potential mode of action through a confocal microscopy approach. To achieve this goal, we used several Arabidopsis thaliana GFP transgenic lines (for polar auxin transport evaluation), immunolabeling techniques (for imaging cortical microtubules), and GC-MS analysis (for auxin quantification). The results highlighted that coumarin induced cyclin B accumulation, which altered the microtubule cortical array organization and, consequently, the root apical meristem architecture. Such alterations reduced the basipetal transport of auxin to the apical root apical meristem, inducing its accumulation in the maturation zone and stimulating lateral root formation.
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Affiliation(s)
- Leonardo Bruno
- Dipartimento di Biologia, Ecologia e Scienza della Terra, Università della Calabria (DiBEST-UNICAL), 87036 Arcavacata di Rende, Italy; (E.T.); (M.L.M.); (A.M.); (M.M.)
- Correspondence: (L.B.); (F.A.)
| | - Emanuela Talarico
- Dipartimento di Biologia, Ecologia e Scienza della Terra, Università della Calabria (DiBEST-UNICAL), 87036 Arcavacata di Rende, Italy; (E.T.); (M.L.M.); (A.M.); (M.M.)
| | - Luz Cabeiras-Freijanes
- Department of Plant Biology and Soil Science, Campus Lagoas-Marcosende, University of Vigo, 36310 Vigo, Spain;
- CITACA, Agri-Food Research and Transfer Cluster, Campus da Auga, University of Vigo, 32004 Ourense, Spain
| | - Maria Letizia Madeo
- Dipartimento di Biologia, Ecologia e Scienza della Terra, Università della Calabria (DiBEST-UNICAL), 87036 Arcavacata di Rende, Italy; (E.T.); (M.L.M.); (A.M.); (M.M.)
| | - Antonella Muto
- Dipartimento di Biologia, Ecologia e Scienza della Terra, Università della Calabria (DiBEST-UNICAL), 87036 Arcavacata di Rende, Italy; (E.T.); (M.L.M.); (A.M.); (M.M.)
| | - Marco Minervino
- Dipartimento di Biologia, Ecologia e Scienza della Terra, Università della Calabria (DiBEST-UNICAL), 87036 Arcavacata di Rende, Italy; (E.T.); (M.L.M.); (A.M.); (M.M.)
| | - Luigi Lucini
- Department for Sustainable Food Process, Università Cattolica del Sacro Cuore, Via Emilia Parmense 84, 29122 Piacenza, Italy; (L.L.); (B.M.-M.)
| | - Begoña Miras-Moreno
- Department for Sustainable Food Process, Università Cattolica del Sacro Cuore, Via Emilia Parmense 84, 29122 Piacenza, Italy; (L.L.); (B.M.-M.)
| | - Adriano Sofo
- Department of European and Mediterranean Cultures: Architecture, Environment, and Cultural Heritage (DICEM), University of Basilicata, 75100 Matera, Italy;
| | - Fabrizio Araniti
- Dipartimento di Scienze Agrarie e Ambientali—Produzione, Territorio, Agroenergia, Università Statale di Milano, Via Celoria n°2, 20133 Milano, Italy
- Correspondence: (L.B.); (F.A.)
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16
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Baruch Z, Liddicoat C, Cando-Dumancela C, Laws M, Morelli H, Weinstein P, Young JM, Breed MF. Increased plant species richness associates with greater soil bacterial diversity in urban green spaces. ENVIRONMENTAL RESEARCH 2021; 196:110425. [PMID: 33157108 DOI: 10.1016/j.envres.2020.110425] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2020] [Revised: 10/29/2020] [Accepted: 10/31/2020] [Indexed: 06/11/2023]
Abstract
The vegetation and soil microbiome within urban green spaces is increasingly managed to help conserve biodiversity and improve human health concurrently. However, the effects of green space management on urban soil ecosystems is poorly understood, despite their importance. Across 40 urban green spaces in metropolitan Adelaide, South Australia, we show that soil bacterial communities are strongly affected by urban green space type (incl. sport fields, community gardens, parklands and revegetated areas), and that plant species richness is positively associated with soil bacterial diversity. Importantly, these microbiome trends were not affected by geographic proximity of sample sites. Our results provide early evidence that urban green space management can have predictable effects on the soil microbiome, at least from a diversity perspective, which could prove important to inform policy development if urban green spaces are to be managed to optimise population health benefits.
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Affiliation(s)
- Zdravko Baruch
- School of Biological Sciences, University of Adelaide, Adelaide, SA, 5005, Australia
| | - Craig Liddicoat
- School of Public Health, University of Adelaide, Adelaide, SA, 5005, Australia; College of Science and Engineering, Flinders University, Adelaide, SA, 5042 Australia
| | | | - Mark Laws
- School of Biological Sciences, University of Adelaide, Adelaide, SA, 5005, Australia
| | - Hamish Morelli
- School of Biological Sciences, University of Adelaide, Adelaide, SA, 5005, Australia
| | - Philip Weinstein
- School of Biological Sciences, University of Adelaide, Adelaide, SA, 5005, Australia; School of Public Health, University of Adelaide, Adelaide, SA, 5005, Australia
| | - Jennifer M Young
- College of Science and Engineering, Flinders University, Adelaide, SA, 5042 Australia
| | - Martin F Breed
- College of Science and Engineering, Flinders University, Adelaide, SA, 5042 Australia.
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17
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Park YS, Ryu CM. Understanding Plant Social Networking System: Avoiding Deleterious Microbiota but Calling Beneficials. Int J Mol Sci 2021; 22:ijms22073319. [PMID: 33805032 PMCID: PMC8037233 DOI: 10.3390/ijms22073319] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Revised: 03/09/2021] [Accepted: 03/19/2021] [Indexed: 01/24/2023] Open
Abstract
Plant association with microorganisms elicits dramatic effects on the local phytobiome and often causes systemic and transgenerational modulation on plant immunity against insect pests and microbial pathogens. Previously, we introduced the concept of the plant social networking system (pSNS) to highlight the active involvement of plants in the recruitment of potentially beneficial microbiota upon exposure to insects and pathogens. Microbial association stimulates the physiological responses of plants and induces the development of their immune mechanisms while interacting with multiple enemies. Thus, beneficial microbes serve as important mediators of interactions among multiple members of the multitrophic, microscopic and macroscopic communities. In this review, we classify the steps of pSNS such as elicitation, signaling, secreting root exudates, and plant protection; summarize, with evidence, how plants and beneficial microbes communicate with each other; and also discuss how the molecular mechanisms underlying this communication are induced in plants exposed to natural enemies. Collectively, the pSNS modulates robustness of plant physiology and immunity and promotes survival potential by helping plants to overcome the environmental and biological challenges.
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Affiliation(s)
- Yong-Soon Park
- Biotechnology Research Institute, College of Natural Sciences, Chungbuk National University, Cheongju 28644, Korea;
| | - Choong-Min Ryu
- Molecular Phytobacteriology Laboratory, Infection Disease Research Center, KRIBB, Daejeon 34141, Korea
- Biosystem and Bioengineering Program, University of Science and Technology (UST) KRIBB School, Daejeon 34141, Korea
- Correspondence:
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18
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Pang Z, Chen J, Wang T, Gao C, Li Z, Guo L, Xu J, Cheng Y. Linking Plant Secondary Metabolites and Plant Microbiomes: A Review. FRONTIERS IN PLANT SCIENCE 2021; 12:621276. [PMID: 33737943 PMCID: PMC7961088 DOI: 10.3389/fpls.2021.621276] [Citation(s) in RCA: 196] [Impact Index Per Article: 65.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2020] [Accepted: 02/08/2021] [Indexed: 05/09/2023]
Abstract
Plant secondary metabolites (PSMs) play many roles including defense against pathogens, pests, and herbivores; response to environmental stresses, and mediating organismal interactions. Similarly, plant microbiomes participate in many of the above-mentioned processes directly or indirectly by regulating plant metabolism. Studies have shown that plants can influence their microbiome by secreting various metabolites and, in turn, the microbiome may also impact the metabolome of the host plant. However, not much is known about the communications between the interacting partners to impact their phenotypic changes. In this article, we review the patterns and potential underlying mechanisms of interactions between PSMs and plant microbiomes. We describe the recent developments in analytical approaches and methods in this field. The applications of these new methods and approaches have increased our understanding of the relationships between PSMs and plant microbiomes. Though the current studies have primarily focused on model organisms, the methods and results obtained so far should help future studies of agriculturally important plants and facilitate the development of methods to manipulate PSMs-microbiome interactions with predictive outcomes for sustainable crop productions.
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Affiliation(s)
- Zhiqiang Pang
- Institute of Bast Fiber Crops and Center of Southern Economic Crops, Chinese Academy of Agricultural Sciences, Changsha, China
- CAS Key Laboratory of Tropical Plant Resources and Sustainable Use, Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Kunming, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Jia Chen
- Institute of Bast Fiber Crops and Center of Southern Economic Crops, Chinese Academy of Agricultural Sciences, Changsha, China
| | - Tuhong Wang
- Institute of Bast Fiber Crops and Center of Southern Economic Crops, Chinese Academy of Agricultural Sciences, Changsha, China
| | - Chunsheng Gao
- Institute of Bast Fiber Crops and Center of Southern Economic Crops, Chinese Academy of Agricultural Sciences, Changsha, China
| | - Zhimin Li
- Institute of Bast Fiber Crops and Center of Southern Economic Crops, Chinese Academy of Agricultural Sciences, Changsha, China
| | - Litao Guo
- Institute of Bast Fiber Crops and Center of Southern Economic Crops, Chinese Academy of Agricultural Sciences, Changsha, China
| | - Jianping Xu
- Institute of Bast Fiber Crops and Center of Southern Economic Crops, Chinese Academy of Agricultural Sciences, Changsha, China
- Department of Biology, McMaster University, Hamilton, ON, Canada
| | - Yi Cheng
- Institute of Bast Fiber Crops and Center of Southern Economic Crops, Chinese Academy of Agricultural Sciences, Changsha, China
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19
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Liu Y, Gao J, Bai Z, Wu S, Li X, Wang N, Du X, Fan H, Zhuang G, Bohu T, Zhuang X. Unraveling Mechanisms and Impact of Microbial Recruitment on Oilseed Rape ( Brassica napus L.) and the Rhizosphere Mediated by Plant Growth-Promoting Rhizobacteria. Microorganisms 2021; 9:microorganisms9010161. [PMID: 33445684 PMCID: PMC7828142 DOI: 10.3390/microorganisms9010161] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2020] [Revised: 12/31/2020] [Accepted: 01/06/2021] [Indexed: 01/13/2023] Open
Abstract
Plant growth-promoting rhizobacteria (PGPR) are noticeably applied to enhance plant nutrient acquisition and improve plant growth and health. However, limited information is available on the compositional dynamics of rhizobacteria communities with PGPR inoculation. In this study, we investigated the effects of three PGPR strains, Stenotrophomonas rhizophila, Rhodobacter sphaeroides, and Bacillus amyloliquefaciens on the ecophysiological properties of Oilseed rape (Brassica napus L.), rhizosphere, and bulk soil; moreover, we assessed rhizobacterial community composition using high-throughput Illumina sequencing of 16S rRNA genes. Inoculation with S. rhizophila, R. sphaeroides, and B. amyloliquefaciens, significantly increased the plant total N (TN) (p < 0.01) content. R. sphaeroides and B. amyloliquefaciens selectively enhanced the growth of Pseudomonadacea and Flavobacteriaceae, whereas S. rhizophila could recruit diazotrophic rhizobacteria, members of Cyanobacteria and Actinobacteria, whose abundance was positively correlated with inoculation, and improved the transformation of organic nitrogen into inorganic nitrogen through the promotion of ammonification. Initial colonization by PGPR in the rhizosphere affected the rhizobacterial community composition throughout the plant life cycle. Network analysis indicated that PGPR had species-dependent effects on niche competition in the rhizosphere. These results provide a better understanding of PGPR-plant-rhizobacteria interactions, which is necessary to develop the application of PGPR.
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Affiliation(s)
- Ying Liu
- School of Life Sciences, University of Science and Technology of China, Hefei 230026, China;
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Z.B.); (S.W.); (X.L.); (N.W.); (X.D.); (H.F.); (G.Z.)
| | - Jie Gao
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Z.B.); (S.W.); (X.L.); (N.W.); (X.D.); (H.F.); (G.Z.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Zhihui Bai
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Z.B.); (S.W.); (X.L.); (N.W.); (X.D.); (H.F.); (G.Z.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Shanghua Wu
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Z.B.); (S.W.); (X.L.); (N.W.); (X.D.); (H.F.); (G.Z.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xianglong Li
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Z.B.); (S.W.); (X.L.); (N.W.); (X.D.); (H.F.); (G.Z.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Na Wang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Z.B.); (S.W.); (X.L.); (N.W.); (X.D.); (H.F.); (G.Z.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xiongfeng Du
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Z.B.); (S.W.); (X.L.); (N.W.); (X.D.); (H.F.); (G.Z.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Haonan Fan
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Z.B.); (S.W.); (X.L.); (N.W.); (X.D.); (H.F.); (G.Z.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Guoqiang Zhuang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Z.B.); (S.W.); (X.L.); (N.W.); (X.D.); (H.F.); (G.Z.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Tsing Bohu
- CSIRO Mineral Resources, Kensington, WA 6151, Australia;
| | - Xuliang Zhuang
- CAS Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; (J.G.); (Z.B.); (S.W.); (X.L.); (N.W.); (X.D.); (H.F.); (G.Z.)
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
- Correspondence: ; Tel.: +86-10-6284-9193
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20
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Wu L, Yang B, Li M, Chen J, Xiao Z, Wu H, Tong Q, Luo X, Lin W. Modification of Rhizosphere Bacterial Community Structure and Functional Potentials to Control Pseudostellaria heterophylla Replant Disease. PLANT DISEASE 2020; 104:25-34. [PMID: 31726014 DOI: 10.1094/pdis-04-19-0833-re] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Replant disease caused by negative plant-soil feedback commonly occurs in a Pseudostellaria heterophylla monoculture regime. Here, barcoded pyrosequencing of 16S ribosomal DNA amplicons combined with phylogenetic investigation of communities by reconstruction of unobserved states (PICRUSt) analysis was applied to study the shifts in soil bacterial community structure and functional potentials in the rhizosphere of P. heterophylla under consecutive monoculture and different soil amendments (i.e., bio-organic fertilizer application [MF] and paddy-upland rotation [PR]). The results showed that the yield of tuberous roots decreased under P. heterophylla consecutive monoculture and then increased after MF and PR treatments, which was consistent with the changes in soil bacterial diversity. Both principal coordinate analysis and the unweighted pair-group method with arithmetic means cluster analysis showed the distinct difference in bacterial community structure between the consecutively monocultured soil (relatively unhealthy soil) and other relatively healthy soils (i.e., newly planted soil, MF, and PR). Furthermore, taxonomic analysis showed that consecutive monoculture of P. heterophylla significantly decreased the relative abundances of the families Burkholderiaceae and Acidobacteriaceae (subgroup 1), whereas it increased the population density of families Xanthomonadaceae, Phyllobacteriaceae, Sphingobacteriaceae, and Alcaligenaceae, and Fusarium oxysporum. In contrast, the MF and PR treatments recovered the soil microbiome and decreased F. oxysporum abundance through the different ways; for example, the introduction of beneficial microorganisms (in MF) or the switching between anaerobic and aerobic conditions (in PR). In addition, PICRUSt analysis revealed the higher abundances of membrane transport, cell motility, and DNA repair in the consecutively monocultured soil, which might contribute to the root colonization and survival for certain bacterial pathogens under monoculture. These findings highlight the close association between replant disease of P. heterophylla and the variations in structure and potential functions of rhizosphere bacterial community.
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Affiliation(s)
- Linkun Wu
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University
| | - Bo Yang
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University
| | - Manlin Li
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University
| | - Jun Chen
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University
| | - Zhigang Xiao
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University
| | - Hongmiao Wu
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University
| | - Qingyu Tong
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, Fujian Agriculture and Forestry University
| | - Xiaomian Luo
- Key Laboratory of Crop Ecology and Molecular Physiology, Fujian Agriculture and Forestry University
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, Fujian Agriculture and Forestry University
| | - Wenxiong Lin
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou 350002, Fujian, China
- Fujian Provincial Key Laboratory of Agroecological Processing and Safety Monitoring, Fujian Agriculture and Forestry University
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Hiruma K. Roles of Plant-Derived Secondary Metabolites during Interactions with Pathogenic and Beneficial Microbes under Conditions of Environmental Stress. Microorganisms 2019; 7:microorganisms7090362. [PMID: 31540419 PMCID: PMC6780457 DOI: 10.3390/microorganisms7090362] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2019] [Revised: 09/12/2019] [Accepted: 09/13/2019] [Indexed: 11/16/2022] Open
Abstract
Under natural conditions, plants generate a vast array of secondary metabolites. Several of these accumulate at widely varying levels in the same plant species and are reportedly critical for plant adaptation to abiotic and/or biotic stresses. Some secondary metabolite pathways are required for beneficial interactions with bacterial and fungal microbes and are also regulated by host nutrient availability so that beneficial interactions are enforced. These observations suggest an interplay between host nutrient pathways and the regulation of secondary metabolites that establish beneficial interactions with microbes. In this review, I introduce the roles of tryptophan-derived and phenylpropanoid secondary-metabolite pathways during plant interactions with pathogenic and beneficial microbes and describe how these pathways are regulated by nutrient availability.
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Affiliation(s)
- Kei Hiruma
- Department of Science and Technology, Nara Institute of Science and Technology, Nara 630-0192, Japan.
- PRESTO, Japan Science and Technology Agency, 4-1-8 Honcho Kawaguchi, Saitama 332-0012, Japan.
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Xu L, Coleman-Derr D. Causes and consequences of a conserved bacterial root microbiome response to drought stress. Curr Opin Microbiol 2019; 49:1-6. [DOI: 10.1016/j.mib.2019.07.003] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2019] [Revised: 07/24/2019] [Accepted: 07/29/2019] [Indexed: 10/26/2022]
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Vanholme B, El Houari I, Boerjan W. Bioactivity: phenylpropanoids’ best kept secret. Curr Opin Biotechnol 2019; 56:156-162. [DOI: 10.1016/j.copbio.2018.11.012] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2018] [Revised: 11/10/2018] [Accepted: 11/14/2018] [Indexed: 11/24/2022]
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