1
|
Xue Y, Zhou Z, Feng F, Zhao H, Tan S, Li J, Wu S, Ju Z, He S, Ding L. Genomic Analysis of Kitasatospora setae to Explore Its Biosynthetic Potential Regarding Secondary Metabolites. Antibiotics (Basel) 2024; 13:459. [PMID: 38786187 PMCID: PMC11117518 DOI: 10.3390/antibiotics13050459] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2024] [Revised: 05/14/2024] [Accepted: 05/15/2024] [Indexed: 05/25/2024] Open
Abstract
Actinomycetes have long been recognized as important sources of clinical antibiotics. However, the exploration of rare actinomycetes, despite their potential for producing bioactive molecules, has remained relatively limited compared to the extensively studied Streptomyces genus. The extensive investigation of Streptomyces species and their natural products has led to a diminished probability of discovering novel bioactive compounds from this group. Consequently, our research focus has shifted towards less explored actinomycetes, beyond Streptomyces, with particular emphasis on Kitasatospora setae (K. setae). The genome of K. setae was annotated and analyzed through whole-genome sequencing using multiple bio-informatics tools, revealing an 8.6 Mbp genome with a 74.42% G + C content. AntiSMASH analysis identified 40 putative biosynthetic gene clusters (BGCs), approximately half of which were recessive and unknown. Additionally, metabolomic mining utilizing mass spectrometry demonstrated the potential for this rare actinomycete to generate numerous bioactive compounds such as glycosides and macrolides, with bafilomycin being the major compound produced. Collectively, genomics- and metabolomics-based techniques confirmed K. setae's potential as a bioactive secondary metabolite producer that is worthy of further exploration.
Collapse
Affiliation(s)
- Yutong Xue
- Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, China; (Y.X.); (F.F.); (H.Z.); (S.T.); (J.L.)
| | - Zhiyan Zhou
- School of Pharmacy, Ningbo University, Ningbo 315211, China;
| | - Fangjian Feng
- Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, China; (Y.X.); (F.F.); (H.Z.); (S.T.); (J.L.)
| | - Hang Zhao
- Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, China; (Y.X.); (F.F.); (H.Z.); (S.T.); (J.L.)
| | - Shuangling Tan
- Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, China; (Y.X.); (F.F.); (H.Z.); (S.T.); (J.L.)
| | - Jinling Li
- Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, China; (Y.X.); (F.F.); (H.Z.); (S.T.); (J.L.)
| | - Sitong Wu
- School of Pharmaceutical Sciences, Zhejiang University of Technology, Hangzhou 310014, China; (S.W.); (Z.J.)
| | - Zhiran Ju
- School of Pharmaceutical Sciences, Zhejiang University of Technology, Hangzhou 310014, China; (S.W.); (Z.J.)
| | - Shan He
- Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, China; (Y.X.); (F.F.); (H.Z.); (S.T.); (J.L.)
- School of Pharmacy, Ningbo University, Ningbo 315211, China;
| | - Lijian Ding
- Li Dak Sum Yip Yio Chin Kenneth Li Marine Biopharmaceutical Research Center, Ningbo University, Ningbo 315211, China; (Y.X.); (F.F.); (H.Z.); (S.T.); (J.L.)
- School of Pharmacy, Ningbo University, Ningbo 315211, China;
| |
Collapse
|
2
|
Mumin R, Wang DD, Zhao W, Huang KC, Li JN, Sun YF, Cui BK. Spatial Distribution Patterns and Assembly Processes of Abundant and Rare Fungal Communities in Pinus sylvestris var. mongolica Forests. Microorganisms 2024; 12:977. [PMID: 38792806 PMCID: PMC11124154 DOI: 10.3390/microorganisms12050977] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2024] [Revised: 05/09/2024] [Accepted: 05/11/2024] [Indexed: 05/26/2024] Open
Abstract
Revealing the biogeography and community assembly mechanisms of soil microorganisms is crucial in comprehending the diversity and maintenance of Pinus sylvestris var. mongolica forests. Here, we used high-throughput sequencing techniques and null model analysis to explore the distribution patterns and assembly processes of abundant, rare, and total fungal communities in P. sylvestris var. mongolica forests based on a large-scale soil survey across northern China. Compared to the abundant and total taxa, the diversity and composition of rare taxa were found to be more strongly influenced by regional changes and environmental factors. At the level of class, abundant and total taxa were dominated by Agaricomycetes and Leotiomycetes, while Agaricomycetes and Sordariomycetes were dominant in the rare taxa. In the functional guilds, symbiotrophic fungi were advantaged in the abundant and total taxa, and saprotrophic fungi were advantaged in the rare taxa. The null model revealed that the abundant, rare, and total taxa were mainly governed by stochastic processes. However, rare taxa were more influenced by deterministic processes. Precipitation and temperature were the key drivers in regulating the balance between stochastic and deterministic processes. This study provides new insights into both the biogeographical patterns and assembly processes of soil fungi in P. sylvestris var. mongolica forests.
Collapse
Affiliation(s)
| | | | | | | | | | - Yi-Fei Sun
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing 100083, China; (R.M.); (D.-D.W.); (W.Z.); (K.-C.H.); (J.-N.L.)
| | - Bao-Kai Cui
- State Key Laboratory of Efficient Production of Forest Resources, School of Ecology and Nature Conservation, Beijing Forestry University, Beijing 100083, China; (R.M.); (D.-D.W.); (W.Z.); (K.-C.H.); (J.-N.L.)
| |
Collapse
|
3
|
Maitra P, Hrynkiewicz K, Szuba A, Jagodziński AM, Al-Rashid J, Mandal D, Mucha J. Metabolic niches in the rhizosphere microbiome: dependence on soil horizons, root traits and climate variables in forest ecosystems. FRONTIERS IN PLANT SCIENCE 2024; 15:1344205. [PMID: 38645395 PMCID: PMC11026606 DOI: 10.3389/fpls.2024.1344205] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/25/2023] [Accepted: 03/18/2024] [Indexed: 04/23/2024]
Abstract
Understanding belowground plant-microbial interactions is important for biodiversity maintenance, community assembly and ecosystem functioning of forest ecosystems. Consequently, a large number of studies were conducted on root and microbial interactions, especially in the context of precipitation and temperature gradients under global climate change scenarios. Forests ecosystems have high biodiversity of plants and associated microbes, and contribute to major primary productivity of terrestrial ecosystems. However, the impact of root metabolites/exudates and root traits on soil microbial functional groups along these climate gradients is poorly described in these forest ecosystems. The plant root system exhibits differentiated exudation profiles and considerable trait plasticity in terms of root morphological/phenotypic traits, which can cause shifts in microbial abundance and diversity. The root metabolites composed of primary and secondary metabolites and volatile organic compounds that have diverse roles in appealing to and preventing distinct microbial strains, thus benefit plant fitness and growth, and tolerance to abiotic stresses such as drought. Climatic factors significantly alter the quantity and quality of metabolites that forest trees secrete into the soil. Thus, the heterogeneities in the rhizosphere due to different climate drivers generate ecological niches for various microbial assemblages to foster beneficial rhizospheric interactions in the forest ecosystems. However, the root exudations and microbial diversity in forest trees vary across different soil layers due to alterations in root system architecture, soil moisture, temperature, and nutrient stoichiometry. Changes in root system architecture or traits, e.g. root tissue density (RTD), specific root length (SRL), and specific root area (SRA), impact the root exudation profile and amount released into the soil and thus influence the abundance and diversity of different functional guilds of microbes. Here, we review the current knowledge about root morphological and functional (root exudation) trait changes that affect microbial interactions along drought and temperature gradients. This review aims to clarify how forest trees adapt to challenging environments by leveraging their root traits to interact beneficially with microbes. Understanding these strategies is vital for comprehending plant adaptation under global climate change, with significant implications for future research in plant biodiversity conservation, particularly within forest ecosystems.
Collapse
Affiliation(s)
- Pulak Maitra
- Institute of Dendrology, Polish Academy of Sciences, Kórnik, Poland
| | - Katarzyna Hrynkiewicz
- Department of Microbiology, Faculty of Biological and Veterinary Sciences, Nicolaus Copernicus University, Toruń, Poland
| | - Agnieszka Szuba
- Institute of Dendrology, Polish Academy of Sciences, Kórnik, Poland
| | - Andrzej M. Jagodziński
- Institute of Dendrology, Polish Academy of Sciences, Kórnik, Poland
- Department of Game Management and Forest Protection, Faculty of Forestry and Wood Technology, Poznań University of Life Sciences, Poznań, Poland
| | - Jubair Al-Rashid
- Tianjin Institute of Industrial Biotechnology, University of Chinese Academy of Sciences, Tianjin, China
| | - Dipa Mandal
- Institute of Microbiology, University of Chinese Academy of Sciences, Beijing, China
| | - Joanna Mucha
- Institute of Dendrology, Polish Academy of Sciences, Kórnik, Poland
- Department of Forest Entomology and Pathology, Faculty of Forestry and Wood Technology, Poznań University of Life Sciences, Poznań, Poland
| |
Collapse
|
4
|
Plett JM, Wojtalewicz D, Plett KL, Collin S, Kohler A, Jacob C, Martin F. Sesquiterpenes of the ectomycorrhizal fungus Pisolithus microcarpus alter root growth and promote host colonization. MYCORRHIZA 2024; 34:69-84. [PMID: 38441669 PMCID: PMC10998793 DOI: 10.1007/s00572-024-01137-9] [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: 06/09/2023] [Accepted: 02/01/2024] [Indexed: 04/07/2024]
Abstract
Trees form symbioses with ectomycorrhizal (ECM) fungi, maintained in part through mutual benefit to both organisms. Our understanding of the signaling events leading to the successful interaction between the two partners requires further study. This is especially true for understanding the role of volatile signals produced by ECM fungi. Terpenoids are a predominant class of volatiles produced by ECM fungi. While several ECM genomes are enriched in the enzymes responsible for the production of these volatiles (i.e., terpene synthases (TPSs)) when compared to other fungi, we have limited understanding of the biochemical products associated with each enzyme and the physiological impact of specific terpenes on plant growth. Using a combination of phylogenetic analyses, RNA sequencing, and functional characterization of five TPSs from two distantly related ECM fungi (Laccaria bicolor and Pisolithus microcarpus), we investigated the role of these secondary metabolites during the establishment of symbiosis. We found that despite phylogenetic divergence, these TPSs produced very similar terpene profiles. We focused on the role of P. microcarpus terpenes and found that the fungus expressed a diverse array of mono-, di-, and sesquiterpenes prior to contact with the host. However, these metabolites were repressed following physical contact with the host Eucalyptus grandis. Exposure of E. grandis to heterologously produced terpenes (enriched primarily in γ -cadinene) led to a reduction in the root growth rate and an increase in P. microcarpus-colonized root tips. These results support a very early putative role of fungal-produced terpenes in the establishment of symbiosis between mycorrhizal fungi and their hosts.
Collapse
Affiliation(s)
- Jonathan M Plett
- Hawkesbury Institute for the Environment, Western Sydney University, Richmond, NSW, 2753, Australia.
| | - Dominika Wojtalewicz
- Hawkesbury Institute for the Environment, Western Sydney University, Richmond, NSW, 2753, Australia
| | - Krista L Plett
- Hawkesbury Institute for the Environment, Western Sydney University, Richmond, NSW, 2753, Australia
- Elizabeth Macarthur Agricultural Institute, NSW Department of Primary Industries, Menangle, NSW, 2568, Australia
| | - Sabrina Collin
- Université de Lorraine, CNRS, IMoPA, F-54000, Nancy, France
| | - Annegret Kohler
- Université de Lorraine, INRAE, UMR Interactions Arbres-Microorganismes, Centre INRAE Grand Est-Nancy, 54280, Champenoux, France
| | | | - Francis Martin
- Université de Lorraine, INRAE, UMR Interactions Arbres-Microorganismes, Centre INRAE Grand Est-Nancy, 54280, Champenoux, France
| |
Collapse
|
5
|
Harvey DJ, Vuts J, Hooper A, Caulfield JC, Finch P, Woodcock CM, Gange AC, Chapman JW, Birkett MA, Pickett JA. Novel pheromone-mediated reproductive behaviour in the stag beetle, Lucanus cervus. Sci Rep 2024; 14:6037. [PMID: 38472207 DOI: 10.1038/s41598-024-55985-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2023] [Accepted: 02/29/2024] [Indexed: 03/14/2024] Open
Abstract
The iconic European stag beetle (Lucanus cervus) (Coleoptera: Lucanidae) is one of the largest terrestrial beetles in Europe. Due to decreasing population numbers, thought to be a consequence of habitat loss, this beetle has become a near-threatened species across much of Europe, and a reliable monitoring system is required to measure its future population trends. As part of a programme aimed at conserving UK populations, we have investigated the chemical ecology of the beetle, with a view to developing an efficient semiochemical-based monitoring system. Such a scheme will be beneficial not only in the UK but across the European range of the species, where the beetle is of conservation concern. Here, we report on a surprising discovery of a male-produced pheromone, which provokes initial sexual receptivity in females, and which has not been previously identified in the animal kingdom. Furthermore, we assign sex pheromone function to a previously described female-specific compound.
Collapse
Affiliation(s)
- Deborah J Harvey
- Department of Biological Sciences, Royal Holloway University of London, Egham, TW20 0EX, UK.
| | - József Vuts
- Protecting Crops and the Environment, Rothamsted Research, Harpenden, AL5 2JQ, UK
| | - Antony Hooper
- Protecting Crops and the Environment, Rothamsted Research, Harpenden, AL5 2JQ, UK
| | - John C Caulfield
- Protecting Crops and the Environment, Rothamsted Research, Harpenden, AL5 2JQ, UK
| | - Paul Finch
- Department of Biological Sciences, Royal Holloway University of London, Egham, TW20 0EX, UK
| | - Christine M Woodcock
- Protecting Crops and the Environment, Rothamsted Research, Harpenden, AL5 2JQ, UK
| | - Alan C Gange
- Department of Biological Sciences, Royal Holloway University of London, Egham, TW20 0EX, UK
| | - Jason W Chapman
- Centre for Ecology and Conservation, University of Exeter, Penryn Campus, Penryn, Cornwall, TR10 9FE, UK
| | - Michael A Birkett
- Protecting Crops and the Environment, Rothamsted Research, Harpenden, AL5 2JQ, UK
| | - John A Pickett
- School of Chemistry, Cardiff University, Cardiff, CF10 3AT, UK.
| |
Collapse
|
6
|
Razo-Belmán R, Ángeles-López YI, García-Ortega LF, León-Ramírez CG, Ortiz-Castellanos L, Yu H, Martínez-Soto D. Fungal volatile organic compounds: mechanisms involved in their sensing and dynamic communication with plants. FRONTIERS IN PLANT SCIENCE 2023; 14:1257098. [PMID: 37810383 PMCID: PMC10559904 DOI: 10.3389/fpls.2023.1257098] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Accepted: 09/05/2023] [Indexed: 10/10/2023]
Abstract
Microbial volatile organic compounds (MVOCs) are mixtures of gas-phase hydrophobic carbon-based molecules produced by microorganisms such as bacteria and fungi. They can act as airborne signals sensed by plants being crucial players in triggering signaling cascades influencing their secondary metabolism, development, and growth. The role of fungal volatile organic compounds (FVOCs) from beneficial or detrimental species to influence the physiology and priming effect of plants has been well studied. However, the plants mechanisms to discern between FVOCs from friend or foe remains significantly understudied. Under this outlook, we present an overview of the VOCs produced by plant-associate fungal species, with a particular focus on the challenges faced in VOCs research: i) understanding how plants could perceive FVOCs, ii) investigating the differential responses of plants to VOCs from beneficial or detrimental fungal strains, and finally, iii) exploring practical aspects related to the collection of VOCs and their eco-friendly application in agriculture.
Collapse
Affiliation(s)
- Rosario Razo-Belmán
- Departamento de Alimentos, División de Ciencias de la Vida, Universidad de Guanajuato, Irapuato, Guanajuato, Mexico
| | | | - Luis Fernando García-Ortega
- Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados del IPN, Unidad Irapuato, Irapuato, Mexico
| | - Claudia Geraldine León-Ramírez
- Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados del IPN, Unidad Irapuato, Irapuato, Mexico
| | - Lucila Ortiz-Castellanos
- Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados del IPN, Unidad Irapuato, Irapuato, Mexico
| | - Houlin Yu
- Department of Biochemistry and Molecular Biology, University of Massachusetts Amherst, Amherst, MA, United States
| | - Domingo Martínez-Soto
- Departamento de Microbiología, Centro de Investigación Científica y de Educación Superior de Ensenada, Ensenada, Baja California, Mexico
| |
Collapse
|
7
|
Embacher J, Zeilinger S, Kirchmair M, Rodriguez-R LM, Neuhauser S. Wood decay fungi and their bacterial interaction partners in the built environment – A systematic review on fungal bacteria interactions in dead wood and timber. FUNGAL BIOL REV 2023. [DOI: 10.1016/j.fbr.2022.100305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
|
8
|
Garbeva P, Avalos M, Ulanova D, van Wezel GP, Dickschat JS. Volatile sensation: The chemical ecology of the earthy odorant geosmin. Environ Microbiol 2023; 25:1565-1574. [PMID: 36999338 DOI: 10.1111/1462-2920.16381] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2022] [Accepted: 03/21/2023] [Indexed: 04/01/2023]
Abstract
Geosmin may be the most familiar volatile compound, as it lends the earthy smell to soil. The compound is a member of the largest family of natural products, the terpenoids. The broad distribution of geosmin among bacteria in both terrestrial and aquatic environments suggests that this compound has an important ecological function, for example, as a signal (attractant or repellent) or as a protective specialized metabolite against biotic and abiotic stresses. While geosmin is part of our everyday life, scientists still do not understand the exact biological function of this omnipresent natural product. This minireview summarizes the current general observations regarding geosmin in prokaryotes and introduces new insights into its biosynthesis and regulation, as well as its biological roles in terrestrial and aquatic environments.
Collapse
Affiliation(s)
- Paolina Garbeva
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands
| | - Mariana Avalos
- Institute of Biology, Leiden University, Sylviusweg 72, 2333 BE, Leiden, The Netherlands
| | - Dana Ulanova
- Faculty of Agriculture and Marine Science, Kochi University, 200 Otsu, Monobe, Nankoku, Kochi, 783-8502, Japan
| | - Gilles P van Wezel
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, The Netherlands
- Institute of Biology, Leiden University, Sylviusweg 72, 2333 BE, Leiden, The Netherlands
| | - Jeroen S Dickschat
- University of Bonn, Kekulé-Institute of Organic Chemistry and Biochemistry, Gerhard-Domagk-Straße 1, 53121, Bonn, Germany
| |
Collapse
|
9
|
Vigneaud J, Kohler A, Sow MD, Delaunay A, Fauchery L, Guinet F, Daviaud C, Barry KW, Keymanesh K, Johnson J, Singan V, Grigoriev I, Fichot R, Conde D, Perales M, Tost J, Martin FM, Allona I, Strauss SH, Veneault-Fourrey C, Maury S. DNA hypomethylation of the host tree impairs interaction with mutualistic ectomycorrhizal fungus. THE NEW PHYTOLOGIST 2023; 238:2561-2577. [PMID: 36807327 DOI: 10.1111/nph.18734] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2022] [Accepted: 12/21/2022] [Indexed: 05/19/2023]
Abstract
Ectomycorrhizas are an intrinsic component of tree nutrition and responses to environmental variations. How epigenetic mechanisms might regulate these mutualistic interactions is unknown. By manipulating the level of expression of the chromatin remodeler DECREASE IN DNA METHYLATION 1 (DDM1) and two demethylases DEMETER-LIKE (DML) in Populus tremula × Populus alba lines, we examined how host DNA methylation modulates multiple parameters of the responses to root colonization with the mutualistic fungus Laccaria bicolor. We compared the ectomycorrhizas formed between transgenic and wild-type (WT) trees and analyzed their methylomes and transcriptomes. The poplar lines displaying lower mycorrhiza formation rate corresponded to hypomethylated overexpressing DML or RNAi-ddm1 lines. We found 86 genes and 288 transposable elements (TEs) differentially methylated between WT and hypomethylated lines (common to both OX-dml and RNAi-ddm1) and 120 genes/1441 TEs in the fungal genome suggesting a host-induced remodeling of the fungal methylome. Hypomethylated poplar lines displayed 205 differentially expressed genes (cis and trans effects) in common with 17 being differentially methylated (cis). Our findings suggest a central role of host and fungal DNA methylation in the ability to form ectomycorrhizas including not only poplar genes involved in root initiation, ethylene and jasmonate-mediated pathways, and immune response but also terpenoid metabolism.
Collapse
Affiliation(s)
- Julien Vigneaud
- LBLGC, INRAE, Université d'Orleans, EA 1207 USC 1328, Orléans, 45067, France
| | - Annegret Kohler
- UMR 1136 Interactions Arbres-Microorganismes, Centre INRAE Grand Est-Nancy, INRAE, Université de Lorraine, Champenoux, 54280, France
| | - Mamadou Dia Sow
- LBLGC, INRAE, Université d'Orleans, EA 1207 USC 1328, Orléans, 45067, France
| | - Alain Delaunay
- LBLGC, INRAE, Université d'Orleans, EA 1207 USC 1328, Orléans, 45067, France
| | - Laure Fauchery
- UMR 1136 Interactions Arbres-Microorganismes, Centre INRAE Grand Est-Nancy, INRAE, Université de Lorraine, Champenoux, 54280, France
| | - Frederic Guinet
- UMR 1136 Interactions Arbres-Microorganismes, Centre INRAE Grand Est-Nancy, INRAE, Université de Lorraine, Champenoux, 54280, France
| | - Christian Daviaud
- Laboratory for Epigenetics and Environment Centre National de Recherche en Génomique Humaine, CEA-Institut de Biologie Francois Jacob, Université Paris-Saclay, Evry, 91000, France
| | - Kerrie W Barry
- Lawrence Berkeley National Laboratory, US Department of Energy Joint Genome Institute, Berkeley, CA, 94720, USA
| | - Keykhosrow Keymanesh
- Lawrence Berkeley National Laboratory, US Department of Energy Joint Genome Institute, Berkeley, CA, 94720, USA
| | - Jenifer Johnson
- Lawrence Berkeley National Laboratory, US Department of Energy Joint Genome Institute, Berkeley, CA, 94720, USA
| | - Vasanth Singan
- Lawrence Berkeley National Laboratory, US Department of Energy Joint Genome Institute, Berkeley, CA, 94720, USA
| | - Igor Grigoriev
- Lawrence Berkeley National Laboratory, US Department of Energy Joint Genome Institute, Berkeley, CA, 94720, USA
- Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, CA, 94720, USA
| | - Régis Fichot
- LBLGC, INRAE, Université d'Orleans, EA 1207 USC 1328, Orléans, 45067, France
| | - Daniel Conde
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM)-Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA-CSIC), Campus de Montegancedo UPM, Pozuelo de Alarcón, Madrid, 28223, Spain
| | - Mariano Perales
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM)-Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA-CSIC), Campus de Montegancedo UPM, Pozuelo de Alarcón, Madrid, 28223, Spain
- Departamento de Biotecnología-Biología Vegetal, Escuela Técnica Superior de Ingeniería Agronómica, Alimentaria y de Biosistemas, Universidad Politécnica de Madrid (UPM), Madrid, 28040, Spain
| | - Jörg Tost
- Laboratory for Epigenetics and Environment Centre National de Recherche en Génomique Humaine, CEA-Institut de Biologie Francois Jacob, Université Paris-Saclay, Evry, 91000, France
| | - Francis M Martin
- UMR 1136 Interactions Arbres-Microorganismes, Centre INRAE Grand Est-Nancy, INRAE, Université de Lorraine, Champenoux, 54280, France
| | - Isabel Allona
- Centro de Biotecnología y Genómica de Plantas, Universidad Politécnica de Madrid (UPM)-Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA-CSIC), Campus de Montegancedo UPM, Pozuelo de Alarcón, Madrid, 28223, Spain
- Departamento de Biotecnología-Biología Vegetal, Escuela Técnica Superior de Ingeniería Agronómica, Alimentaria y de Biosistemas, Universidad Politécnica de Madrid (UPM), Madrid, 28040, Spain
| | - Steven H Strauss
- Department of Forest Ecosystems and Society, Oregon State University, Corvallis, OR, 97331-5752, USA
| | - Claire Veneault-Fourrey
- UMR 1136 Interactions Arbres-Microorganismes, Centre INRAE Grand Est-Nancy, INRAE, Université de Lorraine, Champenoux, 54280, France
| | - Stéphane Maury
- LBLGC, INRAE, Université d'Orleans, EA 1207 USC 1328, Orléans, 45067, France
| |
Collapse
|
10
|
Pichler G, Muggia L, Carniel FC, Grube M, Kranner I. How to build a lichen: from metabolite release to symbiotic interplay. THE NEW PHYTOLOGIST 2023; 238:1362-1378. [PMID: 36710517 PMCID: PMC10952756 DOI: 10.1111/nph.18780] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2022] [Accepted: 12/28/2022] [Indexed: 06/18/2023]
Abstract
Exposing their vegetative bodies to the light, lichens are outstanding amongst other fungal symbioses. Not requiring a pre-established host, 'lichenized fungi' build an entirely new structure together with microbial photosynthetic partners that neither can form alone. The signals involved in the transition of a fungus and a compatible photosynthetic partner from a free-living to a symbiotic state culminating in thallus formation, termed 'lichenization', and in the maintenance of the symbiosis, are poorly understood. Here, we synthesise the puzzle pieces of the scarce knowledge available into an updated concept of signalling involved in lichenization, comprising five main stages: (1) the 'pre-contact stage', (2) the 'contact stage', (3) 'envelopment' of algal cells by the fungus, (4) their 'incorporation' into a pre-thallus and (5) 'differentiation' into a complex thallus. Considering the involvement of extracellularly released metabolites in each phase, we propose that compounds such as fungal lectins and algal cyclic peptides elicit early contact between the symbionts-to-be, whereas phytohormone signalling, antioxidant protection and carbon exchange through sugars and sugar alcohols are of continued importance throughout all stages. In the fully formed lichen thallus, secondary lichen metabolites and mineral nutrition are suggested to stabilize the functionalities of the thallus, including the associated microbiota.
Collapse
Affiliation(s)
- Gregor Pichler
- Department of BotanyUniversity of InnsbruckSternwartestraße 156020InnsbruckAustria
| | - Lucia Muggia
- Department of Life SciencesUniversity of TriesteVia L. Giorgieri 1034127TriesteItaly
| | | | - Martin Grube
- Institute of BiologyUniversity of GrazHolteigasse 68010GrazAustria
| | - Ilse Kranner
- Department of BotanyUniversity of InnsbruckSternwartestraße 156020InnsbruckAustria
| |
Collapse
|
11
|
Sarkar AK, Sadhukhan S. Unearthing the alteration in plant volatiles induced by mycorrhizal fungi: A shield against plant pathogens. PHYSIOLOGIA PLANTARUM 2023; 175:e13845. [PMID: 36546667 DOI: 10.1111/ppl.13845] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Accepted: 12/05/2022] [Indexed: 06/17/2023]
Abstract
Plants produce a large range of structurally varied low molecular weight secondary metabolites, which evaporate, known as volatile organic compounds (VOCs). Several of them are emitted in response to biotic stress as a defensive measure against pathogen attacks. Arbuscular Mycorrhizal Fungi (AMFs) can change the VOC pattern in parts of the plant and may promote plant defense via direct or indirect mechanisms. Mycorrhization of plants positively affects plant immunization along with growth and yield. The presence of AMF may raise the concentration of phenolic compounds and the activity of critical defense-related enzymes. AMF-induced changes in plant chemistry and associated volatile emissions lead to stronger immunity against pathogenic microorganisms. Despite substantial research into the origins of diversity in VOC-mediated plant communication, very little is known about the mechanism of influence of several AMFs on plant VOC emissions and modulation of plant immunization. Moreover, the molecular mechanism for VOC sensing in plants and mycorrhizal association is still unclear. In the present review, we have presented an up-to-date understanding of the cross-talk of AMF and VOC patterns in plants and the subsequent modulation of resistance against microbial pathogens.
Collapse
Affiliation(s)
- Anup Kumar Sarkar
- Department of Botany, Dukhulal Nibaran Chandra College, Murshidabad, West Bengal, India
- Plant Molecular Biology Laboratory, Department of Botany, Raiganj University, Uttar Dinajpur, West Bengal, India
| | - Sanjoy Sadhukhan
- Plant Molecular Biology Laboratory, Department of Botany, Raiganj University, Uttar Dinajpur, West Bengal, India
| |
Collapse
|
12
|
Duc NH, Vo HTN, van Doan C, Hamow KÁ, Le KH, Posta K. Volatile organic compounds shape belowground plant-fungi interactions. FRONTIERS IN PLANT SCIENCE 2022; 13:1046685. [PMID: 36561453 PMCID: PMC9763900 DOI: 10.3389/fpls.2022.1046685] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/16/2022] [Accepted: 11/09/2022] [Indexed: 06/17/2023]
Abstract
Volatile organic compounds (VOCs), a bouquet of chemical compounds released by all life forms, play essential roles in trophic interactions. VOCs can facilitate a large number of interactions with different organisms belowground. VOCs-regulated plant-plant or plant-insect interaction both below and aboveground has been reported extensively. Nevertheless, there is little information about the role of VOCs derived from soilborne pathogenic fungi and beneficial fungi, particularly mycorrhizae, in influencing plant performance. In this review, we show how plant VOCs regulate plant-soilborne pathogenic fungi and beneficial fungi (mycorrhizae) interactions. How fungal VOCs mediate plant-soilborne pathogenic and beneficial fungi interactions are presented and the most common methods to collect and analyze belowground volatiles are evaluated. Furthermore, we suggest a promising method for future research on belowground VOCs.
Collapse
Affiliation(s)
- Nguyen Hong Duc
- Institute of Genetics and Biotechnology, Department of Microbiology and Applied Biotechnology, Hungarian University of Agriculture and Life Sciences (MATE), Godollo, Hungary
| | - Ha T. N. Vo
- Plant Disease Laboratory, Department of Plant Protection, Faculty of Agronomy, Nong Lam University, Ho Chi Minh, Vietnam
| | - Cong van Doan
- Molecular Interaction Ecology, German Centre for Integrative Biodiversity Research (iDIV), Leipzig, Germany
| | - Kamirán Áron Hamow
- Agricultural Institute, Centre for Agricultural Research, Martonvásár, Hungary
| | - Khac Hoang Le
- Plant Disease Laboratory, Department of Plant Protection, Faculty of Agronomy, Nong Lam University, Ho Chi Minh, Vietnam
| | - Katalin Posta
- Institute of Genetics and Biotechnology, Department of Microbiology and Applied Biotechnology, Hungarian University of Agriculture and Life Sciences (MATE), Godollo, Hungary
| |
Collapse
|
13
|
Marešová J, Húdoková H, Sarvašová L, Fleischer P, Ditmarová Ľ, Blaženec M, Jamnická G. Dynamics of internal isoprenoid metabolites in young Picea abies (Norway spruce) shoots during drought stress conditions in springtime. PHYTOCHEMISTRY 2022; 203:113414. [PMID: 36057316 DOI: 10.1016/j.phytochem.2022.113414] [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: 02/16/2022] [Revised: 08/22/2022] [Accepted: 08/22/2022] [Indexed: 06/15/2023]
Abstract
Currently, large areas of Picea abies (Norway spruce) stands in Europe are increasingly affected by drought and heat waves. Moreover, early spring drought has occurred with much higher frequency. Our work focuses on physiological changes induced by drought in four-year-old spruce seedlings during shoot elongation. We investigated drought effect on photosynthetic rate, concentration of abscisic acid and its metabolites, amount and composition of monoterpenes in needles of seedlings from five different provenances (altitude range 550-1280 m above sea level) in Western Carpathians. Spruce seedlings subjected to one-month drought stress of moderate intensity (about 50% of soil water content at the end of experiment) showed significant reduction of CO2 uptake and increased concentration of ABA related to untreated controls. Induced drought affected needle monoterpene content and composition. Observed changes in drought-induced physiological parameters were influenced by seedling provenance. The provenance from 920 m above sea level showed the greatest sensitivity to drought with significantly highest ABA content and, at the same time, a clear decline of CO2 uptake and amounts of total monoterpenes. Our results indicating intra-specific provenance-related variability in physiological response of spruce seedlings to drought may provide a basis for improved reforestation strategies in drought risk areas.
Collapse
Affiliation(s)
- Jana Marešová
- Institute of Forest Ecology, Slovak Academy of Sciences, Ľ. Štúra 2, 96001, Zvolen, Slovakia
| | - Hana Húdoková
- Institute of Forest Ecology, Slovak Academy of Sciences, Ľ. Štúra 2, 96001, Zvolen, Slovakia; Technical University in Zvolen, Faculty of Ecology and Environmental Sciences, TG Masaryka 24, 96001, Zvolen, Slovakia.
| | - Lenka Sarvašová
- Institute of Forest Ecology, Slovak Academy of Sciences, Ľ. Štúra 2, 96001, Zvolen, Slovakia
| | - Peter Fleischer
- Institute of Forest Ecology, Slovak Academy of Sciences, Ľ. Štúra 2, 96001, Zvolen, Slovakia; Technical University in Zvolen, Faculty of Forestry, TG Masaryka 24, 96001, Zvolen, Slovakia
| | - Ľubica Ditmarová
- Institute of Forest Ecology, Slovak Academy of Sciences, Ľ. Štúra 2, 96001, Zvolen, Slovakia
| | - Miroslav Blaženec
- Institute of Forest Ecology, Slovak Academy of Sciences, Ľ. Štúra 2, 96001, Zvolen, Slovakia
| | - Gabriela Jamnická
- Institute of Forest Ecology, Slovak Academy of Sciences, Ľ. Štúra 2, 96001, Zvolen, Slovakia
| |
Collapse
|
14
|
Peter M, Yang Y, Li SM. A terpene cyclase from Aspergillus ustus is involved in the biosynthesis of geosmin precursor germacradienol. RSC Adv 2022; 12:28171-28177. [PMID: 36320281 PMCID: PMC9527937 DOI: 10.1039/d2ra05033a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2022] [Accepted: 09/26/2022] [Indexed: 11/07/2022] Open
Abstract
The earthy odor of geosmin with a C12 skeleton is known from bacteria, fungi and plants. The sesquiterpenoid germacradien-11-ol (germacradienol) is a crucial intermediate in the biosynthesis of geosmin. A bifunctional terpene cyclase for germacradienol formation and its degradation to geosmin had been described in bacteria. Terpene cyclases were also suggested for geosmin formation in basidiomycetes, but not reported for ascomycetes. We identified a putative terpene cyclase in Aspergillus ustus with low sequence homology to N-termini of the bacterial germacradienol/geosmin synthases. Heterologous expression in Aspergillus nidulans and biochemical characterization led to the identification of the geosmin precursor germacradienol as the sole detected enzyme product. Germacradienol synthase (GdlS) uses strictly farnesyl diphosphate as substrate for cyclization and requires Mg2+ for its reaction. Multiple sequence alignments with known enzymes indicate the presence of the highly conserved catalytic residues including the DDXXD motif for Mg2+ binding. Phylogenetic analysis suggests different clades of bacterial germacradienol/geosmin synthases and terpene cyclases from fungi. This study reports a terpene cyclase responsible for germacradienol formation in the ascomycetous fungus Aspergillus ustus. Both in vivo and in vitro data are provided.![]()
Collapse
Affiliation(s)
- Marlies Peter
- Institut für Pharmazeutische Biologie und Biotechnologie, Fachbereich Pharmazie, Philipps-Universität MarburgRobert-Koch-Straße 435037 MarburgGermany
| | - Yiling Yang
- Institut für Pharmazeutische Biologie und Biotechnologie, Fachbereich Pharmazie, Philipps-Universität MarburgRobert-Koch-Straße 435037 MarburgGermany
| | - Shu-Ming Li
- Institut für Pharmazeutische Biologie und Biotechnologie, Fachbereich Pharmazie, Philipps-Universität MarburgRobert-Koch-Straße 435037 MarburgGermany
| |
Collapse
|
15
|
Ezediokpu MN, Krause K, Kunert M, Hoffmeister D, Boland W, Kothe E. Ectomycorrhizal Influence on the Dynamics of Sesquiterpene Release by Tricholoma vaccinum. J Fungi (Basel) 2022; 8:jof8060555. [PMID: 35736037 PMCID: PMC9224709 DOI: 10.3390/jof8060555] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2022] [Revised: 05/15/2022] [Accepted: 05/23/2022] [Indexed: 02/04/2023] Open
Abstract
Tricholoma vaccinum is an ectomycorrhizal basidiomycete with high host specificity. The slow-growing fungus is able to produce twenty sesquiterpenes, including α-barbatene, sativene, isocaryophyllene, α-cuprenene, β-cedrene, ß-copaene, 4-epi-α-acoradiene, and chamigrene in axenic culture. For the three major compounds, Δ6-protoilludene, β-barbatene, and an unidentified oxygenated sesquiterpene (m/z 218.18), changed production during co-cultivation with the ectomycorrhizal partner tree, Picea abies, could be shown with distinct dynamics. During the mycorrhizal growth of T. vaccinum–P. abies, Δ6-protoilludene and the oxygenated sesquiterpene appeared at similar times, which warranted further studies of potential biosynthesis genes. In silico analyses identified a putative protoilludene synthesis gene, pie1, as being up-regulated in the mycorrhizal stage, in addition to the previously identified, co-regulated geosmin synthase, ges1. We therefore hypothesize that the sesquiterpene synthase pie1 has an important role during mycorrhization, through Δ6-protoilludene and/or its accompanied oxygenated sesquiterpene production.
Collapse
Affiliation(s)
- Marycolette Ndidi Ezediokpu
- Institute of Microbiology, Microbial Communication, Friedrich Schiller University Jena, Neugasse 25, 07743 Jena, Germany; (M.N.E.); (K.K.)
- Max Planck Institute for Chemical Ecology, Bioorganic Chemistry, Hans-Knöll-Straße 8, 07745 Jena, Germany; (M.K.); (W.B.)
| | - Katrin Krause
- Institute of Microbiology, Microbial Communication, Friedrich Schiller University Jena, Neugasse 25, 07743 Jena, Germany; (M.N.E.); (K.K.)
| | - Maritta Kunert
- Max Planck Institute for Chemical Ecology, Bioorganic Chemistry, Hans-Knöll-Straße 8, 07745 Jena, Germany; (M.K.); (W.B.)
| | - Dirk Hoffmeister
- Department of Pharmaceutical Microbiology, Hans Knöll Institute, Friedrich Schiller University Jena, Winzerlaer Strasse 2, 07745 Jena, Germany;
| | - Wilhelm Boland
- Max Planck Institute for Chemical Ecology, Bioorganic Chemistry, Hans-Knöll-Straße 8, 07745 Jena, Germany; (M.K.); (W.B.)
| | - Erika Kothe
- Institute of Microbiology, Microbial Communication, Friedrich Schiller University Jena, Neugasse 25, 07743 Jena, Germany; (M.N.E.); (K.K.)
- Correspondence: ; Tel.: +49-3641-949291
| |
Collapse
|
16
|
Abdulsalam O, Ueberschaar N, Krause K, Kothe E. Geosmin synthase ges1 knock-down by siRNA in the dikaryotic fungus Tricholoma vaccinum. J Basic Microbiol 2021; 62:109-115. [PMID: 34923651 DOI: 10.1002/jobm.202100564] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2021] [Revised: 11/23/2021] [Accepted: 12/02/2021] [Indexed: 11/08/2022]
Abstract
Genetic manipulation for generating knock-out experiments is essential in deciphering the precise function of a gene. However, dikaryotic fungi pose the inherent challenge of having two allelic versions of each gene, one in each nucleus. In addition, they often are slow-growing and do not withstand protoplasting, which is why Agrobacterium tumefaciens-mediated transformation has been adapted. To obtain knock-out strains, however, is not feasible with a mere deletion construct transformation and screening for deletions in both nuclear copies. Hence, a convenient method using chemically synthesized dicer substrate interfering RNA (DsiRNA) for posttranscriptional interference of targeted mRNA was developed, based on the fungal dicer/argonaute system inherent in fungi for sequence recognition and degradation. A proof-of-principle using this newly established method for knock-down of the volatile geosmin is presented in the dikaryotic fungus Tricholoma vaccinum that is forming ectomycorrhizal symbiosis with spruce trees. The gene ges1, a terpene synthase, was transcribed with a 50-fold reduction in transcript levels in the knockdown strain. The volatile geosmin was slightly reduced, but not absent in the fungus carrying the knockdown construct pointing at low specificity in other terpene synthases known for that class of enzymes.
Collapse
Affiliation(s)
- Oluwatosin Abdulsalam
- Faculty for Biosciences, Institute of Microbiology, Friedrich Schiller University Jena, Jena, Deutschland, Germany
| | - Nico Ueberschaar
- Faculty for Chemistry and Earth Sciences, Mass Spectrometry Platform, Friedrich Schiller University Jena, Jena, Germany
| | - Katrin Krause
- Faculty for Biosciences, Institute of Microbiology, Friedrich Schiller University Jena, Jena, Deutschland, Germany
| | - Erika Kothe
- Faculty for Biosciences, Institute of Microbiology, Friedrich Schiller University Jena, Jena, Deutschland, Germany
| |
Collapse
|