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Yang Z, Dong H, Zhang S, Jiang J, Zhu H, Yang H, Li L. Isolation and identification of mycorrhizal helper bacteria of Vaccinium uliginosum and their interaction with mycorrhizal fungi. Front Microbiol 2023; 14:1180319. [PMID: 37143547 PMCID: PMC10151510 DOI: 10.3389/fmicb.2023.1180319] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2023] [Accepted: 03/28/2023] [Indexed: 05/06/2023] Open
Abstract
Mycorrhizal helper bacteria (MHB) can promote mycorrhizal fungal colonization and form mycorrhizal symbiosis structures. To investigate the effect of interactions between mycorrhizal beneficial microorganisms on the growth of blueberry, 45 strains of bacteria isolated from the rhizosphere soil of Vaccinium uliginosum were screened for potential MHB strains using the dry-plate confrontation assay and the bacterial extracellular metabolite promotion method. The results showed that the growth rate of mycelium of Oidiodendron maius 143, an ericoid mycorrhizal fungal strain, was increased by 33.33 and 77.77% for bacterial strains L6 and LM3, respectively, compared with the control in the dry-plate confrontation assay. In addition, the extracellular metabolites of L6 and LM3 significantly promoted the growth of O. maius 143 mycelium with an average growth rate of 40.9 and 57.1%, respectively, the cell wall-degrading enzyme activities and genes of O. maius 143 was significantly increased. Therefore, L6 and LM3 were preliminarily identified as potential MHB strains. In addition, the co-inoculated treatments significantly increased blueberry growth; increased the nitrate reductase, glutamate dehydrogenase, glutamine synthetase, and glutamate synthase activities in the leaves; and promoted nutrient uptake in blueberry. Based on the physiological, and 16S rDNA gene molecular analyses, we initially identified strain L6 as Paenarthrobacter nicotinovorans and LM3 as Bacillus circulans. Metabolomic analysis revealed that mycelial exudates contain large amounts of sugars, organic acids and amino acids, which can be used as substrates to stimulate the growth of MHB. In conclusion, L6 and LM3 and O. maius 143 promote each other's growth, while co-inoculation of L6 and LM3 with O. maius 143 can promote the growth of blueberry seedlings, providing a theoretical basis for further studies on the mechanism of ericoid mycorrhizal fungi-MHB-blueberry interactions. It laid the technical foundation for the exploitation of biocontrol strain resources and the development of biological fertilizer.
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Affiliation(s)
- Zhiyu Yang
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration (Northeast Forestry University), Ministry of Education, Harbin, China
- College of Life Science, Northeast Forestry University, Harbin, China
| | - Hui Dong
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration (Northeast Forestry University), Ministry of Education, Harbin, China
- College of Life Science, Northeast Forestry University, Harbin, China
| | - Sai Zhang
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration (Northeast Forestry University), Ministry of Education, Harbin, China
- College of Life Science, Northeast Forestry University, Harbin, China
| | - Jing Jiang
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration (Northeast Forestry University), Ministry of Education, Harbin, China
- College of Life Science, Northeast Forestry University, Harbin, China
| | - Haifeng Zhu
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration (Northeast Forestry University), Ministry of Education, Harbin, China
- College of Life Science, Northeast Forestry University, Harbin, China
| | - Hongyi Yang
- Key Laboratory of Saline-alkali Vegetation Ecology Restoration (Northeast Forestry University), Ministry of Education, Harbin, China
- College of Life Science, Northeast Forestry University, Harbin, China
- *Correspondence: Hongyi Yang,
| | - Lili Li
- Institute of Forestry Science of Heilongjiang Province, Harbin, China
- Lili Li,
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Multiomics Molecular Research into the Recalcitrant and Orphan Quercus ilex Tree Species: Why, What for, and How. Int J Mol Sci 2022; 23:ijms23179980. [PMID: 36077370 PMCID: PMC9456323 DOI: 10.3390/ijms23179980] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2022] [Revised: 08/29/2022] [Accepted: 08/30/2022] [Indexed: 11/17/2022] Open
Abstract
The holm oak (Quercus ilex L.) is the dominant tree species of the Mediterranean forest and the Spanish agrosilvopastoral ecosystem, “dehesa.” It has been, since the prehistoric period, an important part of the Iberian population from a social, cultural, and religious point of view, providing an ample variety of goods and services, and forming the basis of the economy in rural areas. Currently, there is renewed interest in its use for dietary diversification and sustainable food production. It is part of cultural richness, both economically (tangible) and environmentally (intangible), and must be preserved for future generations. However, a worrisome degradation of the species and associated ecosystems is occurring, observed in an increase in tree decline and mortality, which requires urgent action. Breeding programs based on the selection of elite genotypes by molecular markers is the only plausible biotechnological approach. To this end, the authors’ group started, in 2004, a research line aimed at characterizing the molecular biology of Q. ilex. It has been a challenging task due to its biological characteristics (long life cycle, allogamous, high phenotypic variability) and recalcitrant nature. The biology of this species has been characterized following the central dogma of molecular biology using the omics cascade. Molecular responses to biotic and abiotic stresses, as well as seed maturation and germination, are the two main objectives of our research. The contributions of the group to the knowledge of the species at the level of DNA-based markers, genomics, epigenomics, transcriptomics, proteomics, and metabolomics are discussed here. Moreover, data are compared with those reported for Quercus spp. All omics data generated, and the genome of Q. ilex available, will be integrated with morphological and physiological data in the systems biology direction. Thus, we will propose possible molecular markers related to resilient and productive genotypes to be used in reforestation programs. In addition, possible markers related to the nutritional value of acorn and derivate products, as well as bioactive compounds (peptides and phenolics) and allergens, will be suggested. Subsequently, the selected molecular markers will be validated by both genome-wide association and functional genomic analyses.
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Tarkka MT, Grams TEE, Angay O, Kurth F, Maboreke HR, Mailänder S, Bönn M, Feldhahn L, Fleischmann F, Ruess L, Schädler M, Scheu S, Schrey SD, Buscot F, Herrmann S. Ectomycorrhizal fungus supports endogenous rhythmic growth and corresponding resource allocation in oak during various below- and aboveground biotic interactions. Sci Rep 2021; 11:23680. [PMID: 34880358 PMCID: PMC8654951 DOI: 10.1038/s41598-021-03132-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2021] [Accepted: 11/24/2021] [Indexed: 12/13/2022] Open
Abstract
Endogenous rhythmic growth (ERG) is displayed by many tropical and some major temperate tree species and characterized by alternating root and shoot flushes (RF and SF). These flushes occur parallel to changes in biomass partitioning and in allocation of recently assimilated carbon and nitrogen. To address how biotic interactions interplay with ERG, we cross-compared the RF/SF shifts in oak microcuttings in the presence of pathogens, consumers and a mycorrhiza helper bacterium, without and with an ectomycorrhizal fungus (EMF), and present a synthesis of the observations. The typical increase in carbon allocation to sink leaves during SF did not occur in the presence of root or leaf pathogens, and the increase in nitrogen allocation to lateral roots during RF did not occur with the pathogens. The RF/SF shifts in resource allocation were mostly restored upon additional interaction with the EMF. Its presence led to increased resource allocation to principal roots during RF, also when the oaks were inoculated additionally with other interactors. The interactors affected the alternating, rhythmic growth and resource allocation shifts between shoots and roots. The restoring role of the EMF on RF/SF changes in parallel to the corresponding enhanced carbon and nitrogen allocation to sink tissues suggests that the EMF is supporting plants in maintaining the ERG.
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Affiliation(s)
- Mika T. Tarkka
- grid.7492.80000 0004 0492 3830Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle (Saale), Germany ,grid.421064.50000 0004 7470 3956German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
| | - Thorsten E. E. Grams
- grid.6936.a0000000123222966Department of Ecology and Ecosystem Science, Plant Ecophysiology, Technische Universität München, Hans-Carl-von-Carlowitz Platz 2, Freising, Germany
| | - Oguzhan Angay
- grid.6936.a0000000123222966Department of Ecology and Ecosystem Science, Plant Ecophysiology, Technische Universität München, Hans-Carl-von-Carlowitz Platz 2, Freising, Germany
| | - Florence Kurth
- grid.7492.80000 0004 0492 3830Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle (Saale), Germany
| | - Hazel R. Maboreke
- grid.7468.d0000 0001 2248 7639Institute of Biology, Ecology Group, Humboldt-Universität Zu Berlin, Philippstraße 13, 10115 Berlin, Germany
| | - Sarah Mailänder
- Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), Auf der Morgenstelle 1, 72076 Tübingen, Germany
| | - Markus Bönn
- grid.7492.80000 0004 0492 3830Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle (Saale), Germany ,Landesamt Für Verbraucherschutz Sachsen-Anhalt, Freiimfelder Str. 68, 06112 Halle, Germany
| | - Lasse Feldhahn
- grid.7492.80000 0004 0492 3830Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle (Saale), Germany ,grid.9018.00000 0001 0679 2801Institut Für Informatik, Martin-Luther-Universität Halle-Wittenberg, 06120 Halle, Germany
| | - Frank Fleischmann
- grid.6936.a0000000123222966Department of Ecology and Ecosystem Science, Plant Ecophysiology, Technische Universität München, Hans-Carl-von-Carlowitz Platz 2, Freising, Germany ,grid.5252.00000 0004 1936 973XLudwig-Maximilians-University Munich, Chair of Experimental Physics – Laser physics, Am Coulombwall 1, 85748 Garching, Germany
| | - Liliane Ruess
- grid.7468.d0000 0001 2248 7639Institute of Biology, Ecology Group, Humboldt-Universität Zu Berlin, Philippstraße 13, 10115 Berlin, Germany
| | - Martin Schädler
- grid.421064.50000 0004 7470 3956German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany ,grid.7492.80000 0004 0492 3830Department of Community Ecology, Helmholtz-Centre for Environmental Research-UFZ, Theodor-Lieser-Strasse 4, 06110 Halle (Saale), Germany
| | - Stefan Scheu
- grid.7450.60000 0001 2364 4210Centre of Biodiversity and Sustainable Land Use, University of Göttingen, Büsgenweg 1, 37077 Göttingen, Germany ,grid.7450.60000 0001 2364 4210J.F. Blumenbach Institute of Zoology and Anthropology, University of Göttingen, Untere Karspüle 2, 37073 Göttingen, Germany
| | - Silvia D. Schrey
- Interfaculty Institute of Microbiology and Infection Medicine Tübingen (IMIT), Auf der Morgenstelle 1, 72076 Tübingen, Germany ,grid.8385.60000 0001 2297 375XInstitute of Bio- and Geosciences, IBG-2: Plant Sciences, Leo- Brandt-Straße, Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Francois Buscot
- grid.7492.80000 0004 0492 3830Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle (Saale), Germany ,grid.421064.50000 0004 7470 3956German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
| | - Sylvie Herrmann
- grid.7492.80000 0004 0492 3830Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle (Saale), Germany ,grid.421064.50000 0004 7470 3956German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
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Amaral J, Lamelas L, Valledor L, Castillejo MÁ, Alves A, Pinto G. Comparative proteomics of Pinus-Fusarium circinatum interactions reveal metabolic clues to biotic stress resistance. PHYSIOLOGIA PLANTARUM 2021; 173:2142-2154. [PMID: 34537969 DOI: 10.1111/ppl.13563] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2021] [Revised: 09/02/2021] [Accepted: 09/15/2021] [Indexed: 05/24/2023]
Abstract
Fusarium circinatum, causing pine pitch canker (PPC), affects conifers productivity and health worldwide. Selection and breeding for resistance arises as the most promising approach to fight PPC. Therefore, it is crucial to explore the response of hosts with varying levels of susceptibility to PPC to unveil the genes/pathways behind these phenotypes. We evaluated the dynamics of the needle proteome of a susceptible (Pinus radiata) and a relatively resistant (Pinus pinea) species upon F. circinatum inoculation by GeLC-MS/MS. Integration with physiological data and validation of key genes by qPCR allowed to identify core pathways regulating these contrasting responses. In P. radiata, the pathogen may target both the secondary metabolism to negatively regulate immune response and chloroplast redox proteins to increase energy-producing pathways for amino acid production in its favour. In contrast, chloroplast redox regulation may assure redox homeostasis in P. pinea, as well as nonenzymatic antioxidants. The presence of membrane trafficking-related proteins exclusively in P. pinea likely explains its defence response against F. circinatum. A crosstalk between abscisic acid and epigenetic regulation of gene expression is also proposed in PPC response. These results are useful to support breeding programs aiming to achieve PPC resistance.
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Affiliation(s)
- Joana Amaral
- Centre for Environmental and Marine Studies (CESAM), Department of Biology, University of Aveiro, Aveiro, Portugal
| | - Laura Lamelas
- Plant Physiology, Department of Organisms and Systems Biology, University of Oviedo, Oviedo, Asturias, Spain
| | - Luis Valledor
- Plant Physiology, Department of Organisms and Systems Biology, University of Oviedo, Oviedo, Asturias, Spain
| | - María Ángeles Castillejo
- Agroforestry and Plant Biochemistry, Proteomics and Systems Biology, Department of Biochemistry and Molecular Biology, University of Cordoba, Cordoba, Spain
| | - Artur Alves
- Centre for Environmental and Marine Studies (CESAM), Department of Biology, University of Aveiro, Aveiro, Portugal
| | - Glória Pinto
- Centre for Environmental and Marine Studies (CESAM), Department of Biology, University of Aveiro, Aveiro, Portugal
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Visen A, Singh PN, Chakraborty B, Singh A, Bisht TS. Scanning electron microscopy indicates Pseudomonad strains facilitate AMF mycorrhization in litchi ( Litchi chinensis Sonn.) air-layers and improving survivability, growth and leaf nutrient status. CURRENT RESEARCH IN MICROBIAL SCIENCES 2021; 2:100063. [PMID: 34841353 PMCID: PMC8610343 DOI: 10.1016/j.crmicr.2021.100063] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2021] [Revised: 08/10/2021] [Accepted: 08/18/2021] [Indexed: 11/06/2022] Open
Abstract
Co-inoculation of pseudomonad R62 and R81 (PGPR) with Glomus intraradices (AM fungi) was tested at two different stages of litchi air-layering technique. The process of mycorrhization was enhanced with co-inoculation of these pseudomonad strains. This co-inoculation treatment reduced the mortality and increased the growth of the litchi air-layers. The leaf primary (N, P, and K) and micro (Zn, Cu and Fe) nutrient status in the litchi air-layers were also improved under this co-inoculation treatment. Inoculation after detachment of the air-layers from the mother tree was more productive.
The efficacy of two plant growth promoting rhizobacteria (PGPR) viz. Pseudomonas jessenni strain R62 and Pseudomonas synxantha strain R81 was examined for mycorrhization of arbuscular mycorrhizal (AM) fungi (Glomus intraradices), survivability, growth and leaf nutrient status in litchi air-layer system. Therefore, the litchi air-layers were inoculated with PGPR i.e., Pseudomonad strains and AM fungi alone and with combination during the preparation of air-layers on the mother tree and planting of air-layers in root trainers just after detachment of the fresh air-layers from the mother tree. The scanning electron microscopy of the litchi roots indicated that Pseudomonad strains enhanced the process of mycorrhization of AM fungi and accounted near about 11.5 (tree inoculation) to 14.5 (root trainer inoculation) per cent increase in colonization over the sole inoculation of AM fungi in respective air-layers. No sign of mortality in any air-layered plants was noted in PGPR + AM fungi and sole AM fungi inoculated air-layers up to 18 months of growing. Significantly the highest shoot and root dry weight, and root length were recorded in the air-layers inoculated with both PGPR and AM fungi. This co-inoculation of PGPR with AM fungi was also responsible for the significant enrichment of the primary (N, P and K) and micro (Zn, Cu and Fe) nutrient concentration of the leaves in the litchi air-layers. However, the inoculation of air-layers with these microorganisms failed to produce any significant effects on leaf secondary (Ca, Mg and S) nutrient content. Further, the inoculation treatments had an adverse impact on leaf Mn content. The fresh air-layers inoculated after detachment from the mother tree were performed better for most of the studied parameters than the tree inoculated air-layers.
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Affiliation(s)
- Amit Visen
- Department of Horticulture, College of Agriculture, Govind Ballabh Pant University of Agriculture and Technology, Pantnagar- 263 145, Udham Singh Nagar, Uttarakhand, India.,Subject Matter Specialist (Horticulture), Krishi Vigyan Kendra, Dr. Rajendra Prasad Central Agricultural University, Sipaya, Gopalganj, 841 501, Bihar, India
| | - Pramodh Narayan Singh
- Department of Horticulture, College of Agriculture, Govind Ballabh Pant University of Agriculture and Technology, Pantnagar- 263 145, Udham Singh Nagar, Uttarakhand, India
| | - Binayak Chakraborty
- Regional Research Station (Terai Zone), Uttar Banga Krishi Viswavidyalaya, P.O.: Pundibari- 736 165, Coochbehar, WB, India
| | - Anand Singh
- Department of Horticulture, Janta College, C.S.J.M. University, Bakewar, Etawah 206 124, Uttar Pradesh, India
| | - Tejpal Singh Bisht
- Department of Horticulture, Chauras Campus, Hemvati Nandan Bahuguna Garhwal University, Srinagar-Garhwal- 246 174, Uttarakhand, India
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Rodrigues AM, Miguel C, Chaves I, António C. Mass spectrometry-based forest tree metabolomics. MASS SPECTROMETRY REVIEWS 2021; 40:126-157. [PMID: 31498921 DOI: 10.1002/mas.21603] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2019] [Accepted: 08/05/2019] [Indexed: 05/24/2023]
Abstract
Research in forest tree species has advanced slowly when compared with other agricultural crops and model organisms, mainly due to the long-life cycles, large genome sizes, and lack of genomic tools. Additionally, trees are complex matrices, and the presence of interferents (e.g., oleoresins and cellulose) challenges the analysis of tree tissues with mass spectrometry (MS)-based analytical platforms. In this review, advances in MS-based forest tree metabolomics are discussed. Given their economic and ecological significance, particular focus is given to Pinus, Quercus, and Eucalyptus forest tree species to better understand their metabolite responses to abiotic and biotic stresses in the current climate change scenario. Furthermore, MS-based metabolomics technologies produce large and complex datasets that require expertize to adequately manage, process, analyze, and store the data in dedicated repositories. To ensure that the full potential of forest tree metabolomics data are translated into new knowledge, these data should comply with the FAIR principles (i.e., Findable, Accessible, Interoperable, and Re-usable). It is essential that adequate standards are implemented to annotate metadata from forest tree metabolomics studies as is already required by many science and governmental agencies and some major scientific publishers. © 2019 John Wiley & Sons Ltd. Mass Spec Rev 40:126-157, 2021.
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Affiliation(s)
- Ana Margarida Rodrigues
- Plant Metabolomics Laboratory, GreenIT-Bioresources for Sustainability, Instituto de Tecnologia Química e Biológica António Xavie, Universidade Nova de Lisboa (ITQB NOVA) Avenida da República, Oeiras, 2780-157, Portugal
| | - Célia Miguel
- Forest Genomics & Molecular Genetics Lab, BioISI-Biosystems & Integrative Sciences Institute, Faculty of Sciences, University of Lisboa, 1749-016, Lisboa, Portugal
- Instituto de Biologia Experimental e Tecnológica (iBET), 2780-157, Oeiras, Portugal
| | - Inês Chaves
- Forest Genomics & Molecular Genetics Lab, BioISI-Biosystems & Integrative Sciences Institute, Faculty of Sciences, University of Lisboa, 1749-016, Lisboa, Portugal
- Instituto de Biologia Experimental e Tecnológica (iBET), 2780-157, Oeiras, Portugal
| | - Carla António
- Plant Metabolomics Laboratory, GreenIT-Bioresources for Sustainability, Instituto de Tecnologia Química e Biológica António Xavie, Universidade Nova de Lisboa (ITQB NOVA) Avenida da República, Oeiras, 2780-157, Portugal
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Sousa AO, Camillo LR, Assis ETCM, Lima NS, Silva GO, Kirch RP, Silva DC, Ferraz A, Pasquali G, Costa MGC. EgPHI-1, a PHOSPHATE-INDUCED-1 gene from Eucalyptus globulus, is involved in shoot growth, xylem fiber length and secondary cell wall properties. PLANTA 2020; 252:45. [PMID: 32880001 DOI: 10.1007/s00425-020-03450-x] [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: 05/30/2020] [Accepted: 08/27/2020] [Indexed: 05/15/2023]
Abstract
MAIN CONCLUSION EgPHI-1 is a member of PHI-1/EXO/EXL protein family. Its overexpression in tobacco resulted in changes in biomass partitioning, xylem fiber length, secondary cell wall thickening and composition, and lignification. Here, we report the functional characterization of a PHOSPHATE-INDUCED PROTEIN 1 homologue showing differential expression in xylem cells from Eucalyptus species of contrasting phenotypes for wood quality and growth traits. Our results indicated that this gene is a member of the PHI-1/EXO/EXL family. Analysis of the promoter cis-acting regulatory elements and expression responses to different treatments revealed that the Eucalyptus globulus PHI-1 (EgPHI-1) is transcriptionally regulated by auxin, cytokinin, wounding and drought. EgPHI-1 overexpression in transgenic tobacco changed the partitioning of biomass, favoring its allocation to shoots in detriment of roots. The stem of the transgenic plants showed longer xylem fibers and reduced cellulose content, while the leaf xylem had enhanced secondary cell wall thickness. UV microspectrophotometry of individual cell wall layers of fibers and vessels has shown that the transgenic plants exhibit differences in the lignification of S2 layer in both cell types. Taken together, the results suggest that EgPHI-1 mediates the elongation of secondary xylem fibers, secondary cell wall thickening and composition, and lignification, making it an attractive target for biotechnological applications in forestry and biofuel crops.
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Affiliation(s)
- Aurizangela O Sousa
- Centro Multidisciplinar do Campus de Luís Eduardo Magalhães, Universidade Federal do Oeste da Bahia, Luís Eduardo Magalhães, Bahia, 47850-000, Brazil
| | - Luciana R Camillo
- Centro de Biotecnologia e Genética, Departamento de Ciências Biológicas, Universidade Estadual de Santa Cruz, Ilhéus, Bahia, 45662-900, Brazil
| | - Elza Thaynara C M Assis
- Centro de Biotecnologia e Genética, Departamento de Ciências Biológicas, Universidade Estadual de Santa Cruz, Ilhéus, Bahia, 45662-900, Brazil
| | - Nathália S Lima
- Centro de Biotecnologia e Genética, Departamento de Ciências Biológicas, Universidade Estadual de Santa Cruz, Ilhéus, Bahia, 45662-900, Brazil
| | - Genilson O Silva
- Centro de Biotecnologia e Genética, Departamento de Ciências Biológicas, Universidade Estadual de Santa Cruz, Ilhéus, Bahia, 45662-900, Brazil
| | - Rochele P Kirch
- Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, 91501-970, Brazil
| | - Delmira C Silva
- Centro de Biotecnologia e Genética, Departamento de Ciências Biológicas, Universidade Estadual de Santa Cruz, Ilhéus, Bahia, 45662-900, Brazil
| | - André Ferraz
- Departamento de Biotecnologia, Escola de Engenharia de Lorena, Universidade de São Paulo- USP, Lorena, São Paulo, 12602-810, Brazil
| | - Giancarlo Pasquali
- Centro de Biotecnologia, Universidade Federal do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, 91501-970, Brazil
| | - Marcio G C Costa
- Centro de Biotecnologia e Genética, Departamento de Ciências Biológicas, Universidade Estadual de Santa Cruz, Ilhéus, Bahia, 45662-900, Brazil.
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Bouffaud ML, Herrmann S, Tarkka MT, Bönn M, Feldhahn L, Buscot F. Oak displays common local but specific distant gene regulation responses to different mycorrhizal fungi. BMC Genomics 2020; 21:399. [PMID: 32532205 PMCID: PMC7291512 DOI: 10.1186/s12864-020-06806-5] [Citation(s) in RCA: 10] [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: 01/10/2020] [Accepted: 06/05/2020] [Indexed: 12/23/2022] Open
Abstract
BACKGROUND Associations of tree roots with diverse symbiotic mycorrhizal fungi have distinct effects on whole plant functioning. An untested explanation might be that such effect variability is associated with distinct impacts of different fungi on gene expression in local and distant plant organs. Using a large scale transcriptome sequencing approach, we compared the impact of three ectomycorrhizal (EMF) and one orchid mycorrhizal fungi (OMF) on gene regulation in colonized roots (local), non-colonized roots (short distance) and leaves (long distance) of the Quercus robur clone DF159 with reference to the recently published oak genome. Since different mycorrhizal fungi form symbiosis in a different time span and variable extents of apposition structure development, we sampled inoculated but non-mycorrhizal plants, for which however markedly symbiotic effects have been reported. Local root colonization by the fungi was assessed by fungal transcript analysis. RESULTS The EMF induced marked and species specific effects on plant development in the analysed association stage, but the OMF did not. At local level, a common set of plant differentially expressed genes (DEG) was identified with similar patterns of responses to the three EMF, but not to the OMF. Most of these core DEG were down-regulated and correspond to already described but also new functions related to establishment of EMF symbiosis. Analysis of the fungal transcripts of two EMF in highly colonized roots also revealed onset of a symbiosis establishment. In contrast, in the OMF, the DEG were mainly related to plant defence. Already at short distances, high specificities in transcriptomic responses to the four fungi were detected, which were further enhanced at long distance in leaves, where almost no common DEG were found between the treatments. Notably, no correlation between phylogeny of the EMF and gene expression patterns was observed. CONCLUSIONS Use of clonal oaks allowed us to identify a core transcriptional program in roots colonized by three different EMF, supporting the existence of a common EMF symbiotic pathway. Conversely, the specific responses in non-colonized organs were more closely related to the specific impacts of the different of EMF on plant performance.
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Affiliation(s)
- Marie-Lara Bouffaud
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, D-04103, Leipzig, Germany
- Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, D-06120, Halle/Saale, Germany
| | - Sylvie Herrmann
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, D-04103, Leipzig, Germany.
- Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, D-06120, Halle/Saale, Germany.
| | - Mika T Tarkka
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, D-04103, Leipzig, Germany
- Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, D-06120, Halle/Saale, Germany
| | - Markus Bönn
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, D-04103, Leipzig, Germany
- Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, D-06120, Halle/Saale, Germany
| | - Lasse Feldhahn
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, D-04103, Leipzig, Germany
- Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, D-06120, Halle/Saale, Germany
| | - François Buscot
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, D-04103, Leipzig, Germany
- Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, D-06120, Halle/Saale, Germany
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9
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Soltani N, Best T, Grace D, Nelms C, Shumaker K, Romero-Severson J, Moses D, Schuster S, Staton M, Carlson J, Gwinn K. Transcriptome profiles of Quercus rubra responding to increased O 3 stress. BMC Genomics 2020; 21:160. [PMID: 32059640 PMCID: PMC7023784 DOI: 10.1186/s12864-020-6549-5] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2019] [Accepted: 01/31/2020] [Indexed: 11/18/2022] Open
Abstract
BACKGROUND Climate plays an essential role in forest health, and climate change may increase forest productivity losses due to abiotic and biotic stress. Increased temperature leads to the increased formation of ozone (O3). Ozone is formed by the interaction of sunlight, molecular oxygen and by the reactions of chemicals commonly found in industrial and automobile emissions such as nitrogen oxides and volatile organic compounds. Although it is well known that productivity of Northern red oak (Quercus rubra) (NRO), an ecologically and economically important species in the forests of eastern North America, is reduced by exposure to O3, limited information is available on its responses to exogenous stimuli at the level of gene expression. RESULTS RNA sequencing yielded more than 323 million high-quality raw sequence reads. De novo assembly generated 52,662 unigenes, of which more than 42,000 sequences could be annotated through homology-based searches. A total of 4140 differential expressed genes (DEGs) were detected in response to O3 stress, as compared to their respective controls. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses of the O3-response DEGs revealed perturbation of several biological pathways including energy, lipid, amino acid, carbohydrate and terpenoid metabolism as well as plant-pathogen interaction. CONCLUSION This study provides the first reference transcriptome for NRO and initial insights into the genomic responses of NRO to O3. Gene expression profiling reveals altered primary and secondary metabolism of NRO seedlings, including known defense responses such as terpenoid biosynthesis.
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Affiliation(s)
- Nourolah Soltani
- The Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN, 37996, USA
| | - Teo Best
- The Department of Ecosystem Science and Management, Pennsylvania State University, University Park, PA, 16802, USA
| | - Dantria Grace
- Department of Biological & Environmental Sciences, University of West Alabama, Livingston, AL, 35470, USA
| | - Christen Nelms
- Department of Biological & Environmental Sciences, University of West Alabama, Livingston, AL, 35470, USA
| | - Ketia Shumaker
- Department of Biological & Environmental Sciences, University of West Alabama, Livingston, AL, 35470, USA
| | | | - Daniela Moses
- Singapore Centre for Environmental Life Sciences Engineering (SCELSE) Nanyang Technological University, Nanyang Avenue, 637551, Singapore
| | - Stephan Schuster
- Singapore Centre for Environmental Life Sciences Engineering (SCELSE) Nanyang Technological University, Nanyang Avenue, 637551, Singapore
| | - Margaret Staton
- The Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN, 37996, USA.
| | - John Carlson
- The Department of Ecosystem Science and Management, Pennsylvania State University, University Park, PA, 16802, USA.
| | - Kimberly Gwinn
- The Department of Entomology and Plant Pathology, University of Tennessee, Knoxville, TN, 37996, USA.
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10
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Li F, Wu C, Gao M, Jiao M, Qu C, Gonzalez-Uriarte A, Luo C. Transcriptome sequencing, molecular markers, and transcription factor discovery of Platanus acerifolia in the presence of Corythucha ciliata. Sci Data 2019; 6:128. [PMID: 31332220 PMCID: PMC6646373 DOI: 10.1038/s41597-019-0111-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2018] [Accepted: 05/29/2019] [Indexed: 12/03/2022] Open
Abstract
The London Planetree (Platanus acerifolia) are present throughout the world. The tree is considered a greening plant and is commonly planted in streets, parks, and courtyards. The Sycamore lace bug (Corythucha ciliata) is a serious pest of this tree. To determine the molecular mechanism behind the interaction between the London Planetree and the Sycamore lace bug, we generated a comprehensive RNA-seq dataset (630,835,762 clean reads) for P. acerifolia by sequencing both infected and non-infected leaves of C. ciliata using the Illumina Hiseq 4000 system. We assembled the transcriptomes using the Trinity De Novo assembly followed by annotation. In total, 121,136 unigenes were obtained, and 80,559 unigenes were successfully annotated. From the 121,136 unigenes, we identified 3,010,256 SNPs, 39,097 microsatellites locus, and 1,916 transcription factors. The transcriptomic dataset we present are the first reports of transcriptome information in Platanus species and will be incredibly useful in future studies with P. acerifolia and other Platanus species, especially in the areas of genomics, molecular biology, physiology, and population genetics.
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Affiliation(s)
- Fengqi Li
- Institute of Plant and Environment Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China
| | - Chunyan Wu
- College of Life Sciences, Capital Normal University, Beijing, 100037, China
| | - Mengzhu Gao
- Institute of Plant and Environment Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China
| | - Mengmeng Jiao
- Institute of Plant and Environment Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China
| | - Cheng Qu
- Institute of Plant and Environment Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China
| | - Asier Gonzalez-Uriarte
- Rothamsted Research, Computational and Analytical Sciences Department, Harpenden, AL5 2JQ, UK.
| | - Chen Luo
- Institute of Plant and Environment Protection, Beijing Academy of Agriculture and Forestry Sciences, Beijing, 100097, China.
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11
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Bacht M, Tarkka MT, López IF, Bönn M, Brandl R, Buscot F, Feldhahn L, Grams TEE, Herrmann S, Schädler M. Tree Response to Herbivory Is Affected by Endogenous Rhythmic Growth and Attenuated by Cotreatment With a Mycorrhizal Fungus. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2019; 32:770-781. [PMID: 30753106 DOI: 10.1094/mpmi-10-18-0290-r] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Herbivores and mycorrhizal fungi interactively influence growth, resource utilization, and plant defense responses. We studied these interactions in a tritrophic system comprising Quercus robur, the herbivore Lymantria dispar, and the ectomycorrhizal fungus Piloderma croceum under controlled laboratory conditions at the levels of gene expression and carbon and nitrogen (C/N) allocation. Taking advantage of the endogenous rhythmic growth displayed by oak, we thereby compared gene transcript abundances and resource shifts during shoot growth with those during the alternating root growth flushes. During root flush, herbivore feeding on oak leaves led to an increased expression of genes related to plant growth and enriched gene ontology terms related to cell wall, DNA replication, and defense. C/N-allocation analyses indicated an increased export of resources from aboveground plant parts to belowground. Accordingly, the expression of genes related to the transport of carbohydrates increased upon herbivore attack in leaves during the root flush stage. Inoculation with an ectomycorrhizal fungus attenuated these effects but, instead, caused an increased expression of genes related to the production of volatile organic compounds. We conclude that oak defense response against herbivory is strong in root flush at the transcriptomic level but this response is strongly inhibited by inoculation with ectomycorrhizal fungi and it is extremely weak at shoot flush.
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Affiliation(s)
- Michael Bacht
- 1 Animal Ecology, Department of Ecology, Faculty of Biology, Philipps-Universität Marburg, Karl-von-Frisch Str. 8, 35032, Marburg, Germany
| | - Mika T Tarkka
- 2 Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
- 3 German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
| | - Iván Fernández López
- 2 Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
- 3 German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
| | - Markus Bönn
- 2 Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
| | - Roland Brandl
- 1 Animal Ecology, Department of Ecology, Faculty of Biology, Philipps-Universität Marburg, Karl-von-Frisch Str. 8, 35032, Marburg, Germany
| | - François Buscot
- 2 Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
- 3 German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
| | - Lasse Feldhahn
- 2 Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
| | - Thorsten E E Grams
- 4 Ecophysiology of Plants, Technical University Munich, Hans-Carl-von-Carlowitz-Platz 2, 85354 Freising, Germany
| | - Sylvie Herrmann
- 2 Department of Soil Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
| | - Martin Schädler
- 3 German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
- 5 Department of Community Ecology, UFZ-Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
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12
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Shinde S, Zerbs S, Collart FR, Cumming JR, Noirot P, Larsen PE. Pseudomonas fluorescens increases mycorrhization and modulates expression of antifungal defense response genes in roots of aspen seedlings. BMC PLANT BIOLOGY 2019; 19:4. [PMID: 30606121 PMCID: PMC6318872 DOI: 10.1186/s12870-018-1610-0] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/19/2018] [Accepted: 12/20/2018] [Indexed: 05/22/2023]
Abstract
BACKGROUND Plants, fungi, and bacteria form complex, mutually-beneficial communities within the soil environment. In return for photosynthetically derived sugars in the form of exudates from plant roots, the microbial symbionts in these rhizosphere communities provide their host plants access to otherwise inaccessible nutrients in soils and help defend the plant against biotic and abiotic stresses. One role that bacteria may play in these communities is that of Mycorrhizal Helper Bacteria (MHB). MHB are bacteria that facilitate the interactions between plant roots and symbiotic mycorrhizal fungi and, while the effects of MHB on the formation of plant-fungal symbiosis and on plant health have been well documented, the specific molecular mechanisms by which MHB drive gene regulation in plant roots leading to these benefits remain largely uncharacterized. RESULTS Here, we investigate the effects of the bacterium Pseudomonas fluorescens SBW25 (SBW25) on aspen root transcriptome using a tripartite laboratory community comprised of Populus tremuloides (aspen) seedlings and the ectomycorrhizal fungus Laccaria bicolor (Laccaria). We show that SBW25 has MHB activity and promotes mycorrhization of aspen roots by Laccaria. Using transcriptomic analysis of aspen roots under multiple community compositions, we identify clusters of co-regulated genes associated with mycorrhization, the presence of SBW25, and MHB-associated functions, and we generate a combinatorial logic network that links causal relationships in observed patterns of gene expression in aspen seedling roots in a single Boolean circuit diagram. The predicted regulatory circuit is used to infer regulatory mechanisms associated with MHB activity. CONCLUSIONS In our laboratory conditions, SBW25 increases the ability of Laccaria to form ectomycorrhizal interactions with aspen seedling roots through the suppression of aspen root antifungal defense responses. Analysis of transcriptomic data identifies that potential molecular mechanisms in aspen roots that respond to MHB activity are proteins with homology to pollen recognition sensors. Pollen recognition sensors integrate multiple environmental signals to down-regulate pollenization-associated gene clusters, making proteins with homology to this system an excellent fit for a predicted mechanism that integrates information from the rhizosphere to down-regulate antifungal defense response genes in the root. These results provide a deeper understanding of aspen gene regulation in response to MHB and suggest additional, hypothesis-driven biological experiments to validate putative molecular mechanisms of MHB activity in the aspen-Laccaria ectomycorrhizal symbiosis.
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Affiliation(s)
- Shalaka Shinde
- Argonne National Laboratory, Biosciences Division, 9700 S. Cass Ave., Argonne, IL 60439 USA
- Present address: Oil-Dri Innovation Center, 777 Forest Edge Rd., Vernon Hills, IL 60061 USA
| | - Sarah Zerbs
- Argonne National Laboratory, Biosciences Division, 9700 S. Cass Ave., Argonne, IL 60439 USA
| | - Frank R. Collart
- Argonne National Laboratory, Biosciences Division, 9700 S. Cass Ave., Argonne, IL 60439 USA
| | - Jonathan R. Cumming
- Department of Biology, West Virginia University, 53 Campus Dr, Morgantown, WV 26506 USA
| | - Philippe Noirot
- Argonne National Laboratory, Biosciences Division, 9700 S. Cass Ave., Argonne, IL 60439 USA
| | - Peter E. Larsen
- Argonne National Laboratory, Biosciences Division, 9700 S. Cass Ave., Argonne, IL 60439 USA
- Department of Bioengineering, University of Illinois at Chicago, 851 South Morgan St., Chicago, IL 60612 USA
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13
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Deveau A, Bonito G, Uehling J, Paoletti M, Becker M, Bindschedler S, Hacquard S, Hervé V, Labbé J, Lastovetsky OA, Mieszkin S, Millet LJ, Vajna B, Junier P, Bonfante P, Krom BP, Olsson S, van Elsas JD, Wick LY. Bacterial-fungal interactions: ecology, mechanisms and challenges. FEMS Microbiol Rev 2018; 42:335-352. [PMID: 29471481 DOI: 10.1093/femsre/fuy008] [Citation(s) in RCA: 320] [Impact Index Per Article: 53.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2017] [Accepted: 02/16/2018] [Indexed: 12/14/2022] Open
Abstract
Fungi and bacteria are found living together in a wide variety of environments. Their interactions are significant drivers of many ecosystem functions and are important for the health of plants and animals. A large number of fungal and bacterial families engage in complex interactions that lead to critical behavioural shifts of the microorganisms ranging from mutualism to antagonism. The importance of bacterial-fungal interactions (BFI) in environmental science, medicine and biotechnology has led to the emergence of a dynamic and multidisciplinary research field that combines highly diverse approaches including molecular biology, genomics, geochemistry, chemical and microbial ecology, biophysics and ecological modelling. In this review, we discuss recent advances that underscore the roles of BFI across relevant habitats and ecosystems. A particular focus is placed on the understanding of BFI within complex microbial communities and in regard of the metaorganism concept. We also discuss recent discoveries that clarify the (molecular) mechanisms involved in bacterial-fungal relationships, and the contribution of new technologies to decipher generic principles of BFI in terms of physical associations and molecular dialogues. Finally, we discuss future directions for research in order to stimulate synergy within the BFI research area and to resolve outstanding questions.
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Affiliation(s)
- Aurélie Deveau
- Université de Lorraine, INRA, UMR IAM, 54280 Champenoux, France
| | - Gregory Bonito
- Department of Plant Soil and Microbial Sciences, Michigan State University, East Lansing, MI 48824, USA
| | - Jessie Uehling
- Biology Department, Duke University, Box 90338, Durham, NC 27705, USA.,Plant and Microbial Biology, University of California, Berkeley, CA 94703, USA
| | - Mathieu Paoletti
- Institut de Biologie et Génétique Cellulaire, UMR 5095 CNRS et Université de Bordeaux, 1 rue Camille Saint-Saëns, 33077 Bordeaux cedex, France
| | - Matthias Becker
- IGZ, Leibniz-Institute of Vegetable and Ornamental Crops, 14979 Großbeeren, Germany
| | - Saskia Bindschedler
- Laboratory of Microbiology, Institute of Biology, University of Neuchâtel, CH-2000 Neuchâtel, Switzerland
| | - Stéphane Hacquard
- Department of Plant Microbe Interactions, Max Planck Institute for Plant Breeding Research, 50829 Cologne, Germany
| | - Vincent Hervé
- Laboratory of Microbiology, Institute of Biology, University of Neuchâtel, CH-2000 Neuchâtel, Switzerland.,Laboratory of Biogeosciences, Institute of Earth Surface Dynamics, University of Lausanne, CH-1015 Lausanne, Switzerland
| | - Jessy Labbé
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA.,Department of Biochemistry and Cellular and Molecular Biology, University of Tennessee, Knoxville, TN 37996, USA
| | - Olga A Lastovetsky
- Graduate Field of Microbiology, Cornell University, Ithaca, NY 14853, USA
| | - Sophie Mieszkin
- Université de Lorraine, INRA, UMR IAM, 54280 Champenoux, France
| | - Larry J Millet
- Joint Institute for Biological Science, University of Tennessee, and the Biosciences Division of Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA
| | - Balázs Vajna
- Department of Microbiology, Eötvös Loránd University, Pázmány Péter sétány 1/C, 1117 Budapest, Hungary
| | - Pilar Junier
- Laboratory of Microbiology, Institute of Biology, University of Neuchâtel, CH-2000 Neuchâtel, Switzerland
| | - Paola Bonfante
- Department of Life Science and Systems Biology, University of Torino, 10125 Torino, Italy
| | - Bastiaan P Krom
- Department of Preventive Dentistry, Academic Centre for Dentistry, G. Mahlerlaan 3004, 1081 LA, Amsterdam, The Netherlands
| | - Stefan Olsson
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, Fujian Agriculture and Forestry University (FAFU), Fuzhou 350002, China
| | - Jan Dirk van Elsas
- Microbial Ecology group, GELIFES, University of Groningen, 9747 Groningen, The Netherlands
| | - Lukas Y Wick
- Helmholtz Centre for Environmental Research-UFZ, Department of Environmental Microbiology, Permoserstraße 15, 04318 Leipzig, Germany
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14
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Manirajan BA, Maisinger C, Ratering S, Rusch V, Schwiertz A, Cardinale M, Schnell S. Diversity, specificity, co-occurrence and hub taxa of the bacterial–fungal pollen microbiome. FEMS Microbiol Ecol 2018; 94:5033679. [DOI: 10.1093/femsec/fiy112] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2018] [Accepted: 05/31/2018] [Indexed: 01/05/2023] Open
Affiliation(s)
- Binoy Ambika Manirajan
- Institute of Applied Microbiology, Research Center for BioSystems, Land Use, and Nutrition (IFZ), Justus-Liebig-University Giessen, Giessen, Germany
| | - Corinna Maisinger
- Institute of Applied Microbiology, Research Center for BioSystems, Land Use, and Nutrition (IFZ), Justus-Liebig-University Giessen, Giessen, Germany
| | - Stefan Ratering
- Institute of Applied Microbiology, Research Center for BioSystems, Land Use, and Nutrition (IFZ), Justus-Liebig-University Giessen, Giessen, Germany
| | - Volker Rusch
- Institut für Integrative Biologie, Stiftung Old Herborn University, Herborn, Germany
| | - Andreas Schwiertz
- MVZ Institut für Mikroökologie GmbH, D-35745 Herborn, Auf den Lüppen 8, Germany,
| | - Massimiliano Cardinale
- Institute of Applied Microbiology, Research Center for BioSystems, Land Use, and Nutrition (IFZ), Justus-Liebig-University Giessen, Giessen, Germany
| | - Sylvia Schnell
- Institute of Applied Microbiology, Research Center for BioSystems, Land Use, and Nutrition (IFZ), Justus-Liebig-University Giessen, Giessen, Germany
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15
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Shi Y, Niu K, Huang B, Liu W, Ma H. Transcriptional Responses of Creeping Bentgrass to 2,3-Butanediol, a Bacterial Volatile Compound (BVC) Analogue. Molecules 2017; 22:molecules22081318. [PMID: 28813015 PMCID: PMC6152298 DOI: 10.3390/molecules22081318] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2017] [Revised: 07/27/2017] [Accepted: 08/05/2017] [Indexed: 11/23/2022] Open
Abstract
Bacterial volatile compounds (BVCs) have been reported to enhance plant growth and elicit plant defenses against fungal infection and insect damage. The objective of this study was to determine transcriptomic changes in response to synthetic BVC that could be associated with plant resistance to Rhizoctonia solani in creeping bentgrass. The 2,3-butanediol (BD) (250 µM) was sprayed on creeping bentgrass leaves grown in jam jars. The result showed that synthetic BD induced plant defense against R. solani for creeping bentgrass. Transcriptomic analysis demonstrated that more genes were repressed by BD while less showed up-regulation. BD suppressed the expression of some regular stress-related genes in creeping bentgrass, such as pheromone activity, calcium channel activity, photosystem II oxygen evolving complex, and hydrolase activity, while up-regulated defense related transcription factors (TFs), such as basic helix-loop-helix (bHLH) TFs, cysteine2-cysteine2-contans-like (C2C2-CO) and no apical meristem TFs (NAC). Other genes related to disease resistance, such as jasmonic acid (JA) signaling, leucine rich repeats (LRR)-transmembrane protein kinase, pathogen-related (PR) gene 5 receptor kinase and nucleotide binding site-leucine rich repeats (NBS-LRR) domain containing plant resistance gene (R-gene) were also significantly up-regulated. These results suggest that BD may induce changes to the plant transcriptome in induced systemic resistance (ISR) pathways.
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Affiliation(s)
- Yi Shi
- College of Grassland Science, Gansu Agricultural University, Lanzhou 730070, China.
- Key Laboratory of Grassland Ecosystems, The Ministry of Education of China, Lanzhou 730070, China.
| | - Kuiju Niu
- College of Grassland Science, Gansu Agricultural University, Lanzhou 730070, China.
- Key Laboratory of Grassland Ecosystems, The Ministry of Education of China, Lanzhou 730070, China.
| | - Bingru Huang
- Department of Plant Biology and Pathology, Rutgers University, New Brunswick, NJ 08901, USA.
| | - Wenhui Liu
- Key Laboratory of Superior Forage Germplasm in the Qinghai-Tibetan Plateau, Qinghai Academy of Animal Science and Veterinary Medicine, Xining 810016, China.
| | - Huiling Ma
- College of Grassland Science, Gansu Agricultural University, Lanzhou 730070, China.
- Key Laboratory of Grassland Ecosystems, The Ministry of Education of China, Lanzhou 730070, China.
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16
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Werner S, Polle A, Brinkmann N. Belowground communication: impacts of volatile organic compounds (VOCs) from soil fungi on other soil-inhabiting organisms. Appl Microbiol Biotechnol 2016; 100:8651-65. [DOI: 10.1007/s00253-016-7792-1] [Citation(s) in RCA: 71] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2016] [Revised: 07/21/2016] [Accepted: 08/03/2016] [Indexed: 11/25/2022]
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17
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Maboreke HR, Feldhahn L, Bönn M, Tarkka MT, Buscot F, Herrmann S, Menzel R, Ruess L. Transcriptome analysis in oak uncovers a strong impact of endogenous rhythmic growth on the interaction with plant-parasitic nematodes. BMC Genomics 2016; 17:627. [PMID: 27520023 PMCID: PMC4982138 DOI: 10.1186/s12864-016-2992-8] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2016] [Accepted: 08/03/2016] [Indexed: 11/18/2022] Open
Abstract
BACKGROUND Pedunculate oak (Quercus robur L.), an important forest tree in temperate ecosystems, displays an endogenous rhythmic growth pattern, characterized by alternating shoot and root growth flushes paralleled by oscillations in carbon allocation to below- and aboveground tissues. However, these common plant traits so far have largely been neglected as a determining factor for the outcome of plant biotic interactions. This study investigates the response of oak to migratory root-parasitic nematodes in relation to rhythmic growth, and how this plant-nematode interaction is modulated by an ectomycorrhizal symbiont. Oaks roots were inoculated with the nematode Pratylenchus penetrans solely and in combination with the fungus Piloderma croceum, and the systemic impact on oak plants was assessed by RNA transcriptomic profiles in leaves. RESULTS The response of oaks to the plant-parasitic nematode was strongest during shoot flush, with a 16-fold increase in the number of differentially expressed genes as compared to root flush. Multi-layered defence mechanisms were induced at shoot flush, comprising upregulation of reactive oxygen species formation, hormone signalling (e.g. jasmonic acid synthesis), and proteins involved in the shikimate pathway. In contrast during root flush production of glycerolipids involved in signalling cascades was repressed, suggesting that P. penetrans actively suppressed host defence. With the presence of the mycorrhizal symbiont, the gene expression pattern was vice versa with a distinctly stronger effect of P. penetrans at root flush, including attenuated defence, cell and carbon metabolism, likely a response to the enhanced carbon sink strength in roots induced by the presence of both, nematode and fungus. Meanwhile at shoot flush, when nutrients are retained in aboveground tissue, oak defence reactions, such as altered photosynthesis and sugar pathways, diminished. CONCLUSIONS The results highlight that gene response patterns of plants to biotic interactions, both negative (i.e. plant-parasitic nematodes) and beneficial (i.e. mycorrhiza), are largely modulated by endogenous rhythmic growth, and that such plant traits should be considered as an important driver of these relationships in future studies.
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Affiliation(s)
- Hazel R. Maboreke
- Institute of Biology, Ecology Group, Humboldt-Universität zu Berlin, Philippstr. 13, 10115 Berlin, Germany
| | - Lasse Feldhahn
- Department of Soil Ecology, UFZ – Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
| | - Markus Bönn
- Department of Soil Ecology, UFZ – Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
| | - Mika T. Tarkka
- Department of Soil Ecology, UFZ – Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
| | - Francois Buscot
- Department of Soil Ecology, UFZ – Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
| | - Sylvie Herrmann
- Department of Soil Ecology, UFZ – Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
- Department of Community Ecology, UFZ – Helmholtz Centre for Environmental Research, Theodor-Lieser-Str. 4, 06120 Halle/Saale, Germany
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Deutscher Platz 5e, 04103 Leipzig, Germany
| | - Ralph Menzel
- Institute of Biology, Ecology Group, Humboldt-Universität zu Berlin, Philippstr. 13, 10115 Berlin, Germany
| | - Liliane Ruess
- Institute of Biology, Ecology Group, Humboldt-Universität zu Berlin, Philippstr. 13, 10115 Berlin, Germany
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