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Pugliese G, Ingrisch J, Meredith LK, Pfannerstill EY, Klüpfel T, Meeran K, Byron J, Purser G, Gil-Loaiza J, van Haren J, Dontsova K, Kreuzwieser J, Ladd SN, Werner C, Williams J. Effects of drought and recovery on soil volatile organic compound fluxes in an experimental rainforest. Nat Commun 2023; 14:5064. [PMID: 37604817 PMCID: PMC10442410 DOI: 10.1038/s41467-023-40661-8] [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: 09/02/2022] [Accepted: 08/02/2023] [Indexed: 08/23/2023] Open
Abstract
Drought can affect the capacity of soils to emit and consume biogenic volatile organic compounds (VOCs). Here we show the impact of prolonged drought followed by rewetting and recovery on soil VOC fluxes in an experimental rainforest. Under wet conditions the rainforest soil acts as a net VOC sink, in particular for isoprenoids, carbonyls and alcohols. The sink capacity progressively decreases during drought, and at soil moistures below ~19%, the soil becomes a source of several VOCs. Position specific 13C-pyruvate labeling experiments reveal that soil microbes are responsible for the emissions and that the VOC production is higher during drought. Soil rewetting induces a rapid and short abiotic emission peak of carbonyl compounds, and a slow and long biotic emission peak of sulfur-containing compounds. Results show that, the extended drought periods predicted for tropical rainforest regions will strongly affect soil VOC fluxes thereby impacting atmospheric chemistry and climate.
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Affiliation(s)
- Giovanni Pugliese
- Ecosystem Physiology, Faculty of Environment and Natural Resources, University of Freiburg, Freiburg, Germany.
- Atmospheric Chemistry Department, Max Planck Institute for Chemistry, Mainz, Germany.
| | - Johannes Ingrisch
- Ecosystem Physiology, Faculty of Environment and Natural Resources, University of Freiburg, Freiburg, Germany
- Universität Innsbruck, Department of Ecology, Innsbruck, Austria
| | - Laura K Meredith
- School of Natural Resources and the Environment, University of Arizona, Tucson, AZ, USA
- Biosphere 2, University of Arizona, Oracle, AZ, USA
| | - Eva Y Pfannerstill
- Atmospheric Chemistry Department, Max Planck Institute for Chemistry, Mainz, Germany
- Department of Environmental Science, Policy, and Management, University of California at Berkeley, Berkeley, CA, USA
| | - Thomas Klüpfel
- Atmospheric Chemistry Department, Max Planck Institute for Chemistry, Mainz, Germany
| | | | - Joseph Byron
- Atmospheric Chemistry Department, Max Planck Institute for Chemistry, Mainz, Germany
| | - Gemma Purser
- UK Centre for Ecology & Hydrology, Penicuik, Edinburgh, UK
- School of Chemistry, The University of Edinburgh, Edinburgh, UK
| | - Juliana Gil-Loaiza
- School of Natural Resources and the Environment, University of Arizona, Tucson, AZ, USA
| | - Joost van Haren
- School of Natural Resources and the Environment, University of Arizona, Tucson, AZ, USA
- Biosphere 2, University of Arizona, Oracle, AZ, USA
| | - Katerina Dontsova
- Biosphere 2, University of Arizona, Oracle, AZ, USA
- Department of Environmental Science, University of Arizona, Tucson, AZ, USA
| | - Jürgen Kreuzwieser
- Ecosystem Physiology, Faculty of Environment and Natural Resources, University of Freiburg, Freiburg, Germany
| | - S Nemiah Ladd
- Ecosystem Physiology, Faculty of Environment and Natural Resources, University of Freiburg, Freiburg, Germany
- Department of Environmental Sciences, University of Basel, Basel, Switzerland
| | - Christiane Werner
- Ecosystem Physiology, Faculty of Environment and Natural Resources, University of Freiburg, Freiburg, Germany
| | - Jonathan Williams
- Atmospheric Chemistry Department, Max Planck Institute for Chemistry, Mainz, Germany
- Climate and Atmosphere Research Center, The Cyprus Institute, Nicosia, Cyprus
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Meischner M, Haberstroh S, Daber LE, Kreuzwieser J, Caldeira MC, Schnitzler JP, Werner C. Soil VOC emissions of a Mediterranean woodland are sensitive to shrub invasion. PLANT BIOLOGY (STUTTGART, GERMANY) 2022; 24:967-978. [PMID: 35661369 DOI: 10.1111/plb.13445] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Accepted: 05/25/2022] [Indexed: 06/15/2023]
Abstract
Many belowground processes, such as soil respiration and soil-atmosphere VOC (volatile organic compounds) exchange, are closely linked to soil microbiological processes. However, little is known about how changes in plant species cover, i.e. after plant invasion, alter these soil processes. In particular, the response of soil VOC emissions to plant invasion is not well understood. We analysed soil VOC emissions and soil respiration of a Mediterranean cork oak (Quercus suber) ecosystem, comparing soil VOC emissions from a non-invaded Q. suber woodland to one invaded by the shrub Cistus ladanifer. Soil VOC emissions were determined under controlled conditions using online proton-transfer time-of-flight mass spectrometry. Net soil VOC emissions were measured by exposing soils with or without litter to different temperature and soil moisture conditions. Soil VOC emissions were sensitive to C. ladanifer invasion. Highest net emission rates were determined for oxygenated VOC (acetaldehyde, acetone, methanol, acetic acid), and high temperatures enhanced total VOC emissions. Invasion affected the relative contribution of various VOC. Methanol and acetaldehyde were emitted exclusively from litter and were associated with the non-invaded sites. In contrast, acetone emissions increased in response to shrub presence. Interestingly, low soil moisture enhanced the effect of shrub invasion on VOC emissions. Our results indicate that shrub invasion substantially influences important belowground processes in cork oak ecosystems, in particular soil VOC emissions. High soil moisture is suggested to diminish the invasion effect through a moisture-induced increase in microbial decomposition rates of soil VOC.
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Affiliation(s)
- M Meischner
- Ecosystem Physiology, University of Freiburg, Freiburg, Germany
| | - S Haberstroh
- Ecosystem Physiology, University of Freiburg, Freiburg, Germany
| | - L E Daber
- Ecosystem Physiology, University of Freiburg, Freiburg, Germany
| | - J Kreuzwieser
- Ecosystem Physiology, University of Freiburg, Freiburg, Germany
| | - M C Caldeira
- Forest Research Centre, School of Agriculture, University of Lisbon, Lisbon, Portugal
| | - J-P Schnitzler
- Research Unit Environmental Simulation, Institute of Biochemical Plant Pathology, Helmholtz Zentrum München, Neuherberg, Germany
| | - C Werner
- Ecosystem Physiology, University of Freiburg, Freiburg, Germany
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Gualtieri L, Monti MM, Mele F, Russo A, Pedata PA, Ruocco M. Volatile Organic Compound (VOC) Profiles of Different Trichoderma Species and Their Potential Application. J Fungi (Basel) 2022; 8:jof8100989. [PMID: 36294554 PMCID: PMC9605199 DOI: 10.3390/jof8100989] [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: 07/26/2022] [Revised: 09/07/2022] [Accepted: 09/15/2022] [Indexed: 12/04/2022] Open
Abstract
Fungi emit a broad spectrum of volatile organic compounds (VOCs), sometimes producing species-specific volatile profiles. Volatilomes have received over the last decade increasing attention in ecological, environmental and agricultural studies due to their potential to be used in the biocontrol of plant pathogens and pests and as plant growth-promoting factors. In the present study, we characterised and compared the volatilomes from four different Trichoderma species: T. asperellum B6; T. atroviride P1; T. afroharzianum T22; and T. longibrachiatum MK1. VOCs were collected from each strain grown both on PDA and in soil and analysed using proton transfer reaction quadrupole interface time-of-flight mass spectrometry (PTR-Qi-TOF-MS). Analysis of the detected volatiles highlighted a clear separation of the volatilomes of all the four species grown on PDA whereas the volatilomes of the soil-grown fungi could be only partially separated. Moreover, a limited number of species-specific peaks were found and putatively identified. In particular, each of the four Trichoderma species over-emitted somevolatiles involved in resistance induction, promotion of plant seed germination and seedling development and antimicrobial activity, as 2-pentyl-furan, 6PP, acetophenone and p-cymene by T. asperellum B6, T. atroviride P1, T. afroharzianum T22 and T. longibrachiatum MK1, respectively. Their potential role in interspecific interactions from the perspective of biological control is briefly discussed.
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Affiliation(s)
- Liberata Gualtieri
- Institute for Sustainable Plant Protection (CNR-IPSP), Piazzale Enrico Fermi 1, 80055 Portici, Naples, Italy
| | - Maurilia Maria Monti
- Institute for Sustainable Plant Protection (CNR-IPSP), Piazzale Enrico Fermi 1, 80055 Portici, Naples, Italy
- Correspondence: ; Tel.: +39-06-499-327-824
| | - Francesca Mele
- Institute for Sustainable Plant Protection (CNR-IPSP), Piazzale Enrico Fermi 1, 80055 Portici, Naples, Italy
| | - Assunta Russo
- Institute for Sustainable Plant Protection (CNR-IPSP), Piazzale Enrico Fermi 1, 80055 Portici, Naples, Italy
- Department of Agricultural Sciences, University of Naples Federico II, 80055 Portici, Naples, Italy
| | - Paolo Alfonso Pedata
- Institute for Sustainable Plant Protection (CNR-IPSP), Piazzale Enrico Fermi 1, 80055 Portici, Naples, Italy
| | - Michelina Ruocco
- Institute for Sustainable Plant Protection (CNR-IPSP), Piazzale Enrico Fermi 1, 80055 Portici, Naples, Italy
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Ali A, Ali MF, Javed T, Abidi SH, Syed Q, Zulfiqar U, Alotaibi SS, Siuta D, Adamski R, Wolny P. Mitigating Ammonia and Greenhouse Gaseous Emission From Arable Land by Co-application of Zeolite and Biochar. FRONTIERS IN PLANT SCIENCE 2022; 13:950944. [PMID: 35845639 PMCID: PMC9280913 DOI: 10.3389/fpls.2022.950944] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/23/2022] [Accepted: 06/07/2022] [Indexed: 05/03/2023]
Abstract
The intensive use of chemical fertilizers in arable farming dramatically increased environmental pollution through anthropogenic ammonia (NH3) and greenhouse gaseous emissions. Therefore, there is a need to develop improved fertilizer management practices that can reduce these losses. An experiment was conducted to assess the mitigating effects of sole or combined application of zeolite with biochar on gaseous emissions from arable land. For this purpose, zeolite (clinoptilolite) was mixed with different doses of biochar (produced from Dalbergia Sissoo wood chips) and applied along with the recommended dose of chemical fertilizer (NPK @ 150, 100, and 60 kg ha-1, respectively) on arable land in years 2013-14 and 2014-15. Immediately after application, these were incorporated into the top 10 cm of the soil layer and wheat was sown. Treatments were as follows: C = control, Z = zeolite @ 5 t ha-1, B1Z = biochar @ 3 t ha-1 + zeolite @ 5 t ha-1, B2Z = biochar @ 6 t ha-1 + zeolite @ 5 t ha-1, and B3Z = biochar @ 9 t ha-1 + zeolite @ 5 t ha-1. The experiment was laid out in a randomized complete block design (RCBD) with three replicates. The experimental plot size was 6 m × 4 m. Randomly, ten soil samples from each plot were taken at a depth of 0-15 cm and mixed to get a composite sample. All the samples were immediately stored in a freezer at -18°C until gaseous analysis in order to prevent N transformations. Each soil sample was analyzed for emission of NH3, CO2, and CH4 by using a selected-ion flow-tube mass spectrometer (SIFT-MS). Co-application of zeolite and biochar reduced NH3 and CH4 emissions by an average of 87 and 58% compared to the control, respectively. However, CO2 emission was increased by 104% relative to the control. The NH3 emission was decreased by an average of 61, 78, 90, and 92% by Z, B1Z, B2Z, and B3Z treatments compared to the control. Similarly, the decrement in CH4 emission was 47, 54, 55, and 65%. In contrast, the increment in CO2 emission was 42, 110, and 160% for B1Z, B2Z, and B3Z, respectively, while interestingly, a reduction of 12% was observed in Z treatment. Besides, co-application of zeolite and biochar at the highest dose (B3Z) improved soil chemical properties such as soil EC, OM, total N, as well as available P and K relative to zeolite alone. It is concluded that the combined application of zeolite and biochar can mitigate NH3 and greenhouse emissions and improve soil chemical characteristics, thus enhancing the environmental worth of arable farming.
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Affiliation(s)
- Awais Ali
- Department of Agronomy, Faculty of Crop and Food Sciences, PMAS Arid Agriculture University, Rawalpindi, Pakistan
- Pakistan Council of Scientific and Industrial Research Laboratories Complex, Lahore, Pakistan
| | - Muhammad Fraz Ali
- Department of Agronomy, University of Agriculture, Faisalabad, Pakistan
| | - Talha Javed
- Department of Agronomy, University of Agriculture, Faisalabad, Pakistan
- College of Agriculture, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Syed Hussain Abidi
- Pakistan Council of Scientific and Industrial Research Laboratories Complex, Islamabad, Pakistan
| | - Quratulain Syed
- Pakistan Council of Scientific and Industrial Research Laboratories Complex, Lahore, Pakistan
| | - Usman Zulfiqar
- Department of Agronomy, University of Agriculture, Faisalabad, Pakistan
| | - Saqer S Alotaibi
- Department of Biotechnology, College of Science, Taif University, Taif, Saudi Arabia
| | - Dorota Siuta
- Faculty of Process and Environmental Engineering, Łódź University of Technology, Łódź, Poland
| | - Robert Adamski
- Faculty of Process and Environmental Engineering, Łódź University of Technology, Łódź, Poland
| | - Paweł Wolny
- Faculty of Process and Environmental Engineering, Łódź University of Technology, Łódź, Poland
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Haines SR, Hall EC, Marciniak K, Misztal PK, Goldstein AH, Adams RI, Dannemiller KC. Microbial growth and volatile organic compound (VOC) emissions from carpet and drywall under elevated relative humidity conditions. MICROBIOME 2021; 9:209. [PMID: 34666813 PMCID: PMC8524935 DOI: 10.1186/s40168-021-01158-y] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/15/2021] [Accepted: 08/27/2021] [Indexed: 06/13/2023]
Abstract
BACKGROUND Microbes can grow in indoor environments if moisture is available, and we need an improved understanding of how this growth contributes to emissions of microbial volatile organic compounds (mVOCs). The goal of this study was to measure how moisture levels, building material type, collection site, and microbial species composition impact microbial growth and emissions of mVOCs. We subjected two common building materials, drywall, and carpet, to treatments with varying moisture availability and measured microbial communities and mVOC emissions. RESULTS Fungal growth occurred in samples at >75% equilibrium relative humidity (ERH) for carpet with dust and >85% ERH for inoculated painted drywall. In addition to incubated relative humidity level, dust sample collection site (adonis p=0.001) and material type (drywall, carpet, adonis p=0.001) drove fungal and bacterial species composition. Increased relative humidity was associated with decreased microbial species diversity in samples of carpet with dust (adonis p= 0.005). Abundant volatile organic compounds (VOCs) that accounted for >1% emissions were likely released from building materials and the dust itself. However, certain mVOCs were associated with microbial growth from carpet with dust such as C10H16H+ (monoterpenes) and C2H6SH+ (dimethyl sulfide and ethanethiol). CO2 production from samples of carpet with dust at 95% ERH averaged 5.92 mg hr-1 kg-1, while the average for carpet without dust at 95% ERH was 2.55 mg hr-1 kg-1. CONCLUSION Microbial growth and mVOC emissions occur at lower relative humidity in carpet and floor dust compared to drywall, which has important implications for human exposure. Even under elevated relative humidity conditions, the VOC emissions profile is dominated by non-microbial VOCs, although potential mVOCs may dominate odor production. Video Abstract.
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Affiliation(s)
- Sarah R. Haines
- Department of Civil & Mineral Engineering, University of Toronto, Toronto, Ontario M5S 1A4 Canada
| | - Emma C. Hall
- Department of Civil, Architectural and Environmental Engineering, University of Texas at Austin, Austin, TX 78712 USA
| | | | - Pawel K. Misztal
- Department of Civil, Architectural and Environmental Engineering, University of Texas at Austin, Austin, TX 78712 USA
| | - Allen H. Goldstein
- Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720 USA
| | - Rachel I. Adams
- Department of Plant and Microbial Biology, University of California, Berkeley, CA 94720 USA
| | - Karen C. Dannemiller
- Department of Civil, Environmental & Geodetic Engineering, College of Engineering, Ohio State University, Columbus, OH 43210 USA
- Division of Environmental Health Sciences, College of Public Health, Ohio State University, Columbus, OH 43210 USA
- Sustainability Institute, Ohio State University, Columbus, OH 43210 USA
- Department of Civil, Environmental & Geodetic Engineering, Environmental Health Sciences, Ohio State University, 470 Hitchcock Hall, 2070 Neil Ave, Columbus, OH 43210 USA
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6
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Short-Term Effect of Green Waste and Sludge Amendment on Soil Microbial Diversity and Volatile Organic Compound Emissions. Appl Microbiol 2021. [DOI: 10.3390/applmicrobiol1010010] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Soil amendments with organic waste products (OWPs) have been widely supported in Europe to improve soil fertility, causing wide changes in the microbial community structure and diversity, especially in the short-term period. Those changes are known to affect the volatile organic compound (VOC) emissions by soil. This work aimed to characterize, in terms of quantity and composition, the effect of green waste and sludge (GWS) application on soil VOC emissions and microbial community 49 h after the last GWS application. Two different soil samples were compared to test the effect of the soil history on VOC emissions and microbial communities. For this reason, we chose a soil that received GWS input for 20 years (GWS sample) and one that did not receive any organic input during the same period (CN sample). Furthermore, samples were manipulated to generate three microbial dilution diversity gradients (low, medium, and high). Results showed that Bacteroidetes phyla took advantage of the GWS application in all samples, increasing their relative abundance by 22% after 49 h, while the Proteobacteria phylum was penalized by the GWS amendment, passing from 58% to 49% relative abundance 49 h after the GWS application. Microbial structure differences between microbial diversity dilution levels remained even after the GWS application. GWS amendment induced a change in the emitted VOC profiles, especially in samples used to receiving GWS. GWS amendment doubled the VOC emissions from samples used to receiving GWS after 49 h. Finally, the microbial community was strongly correlated to the VOC emissions. Firmicutes, Proteobacteria, Actinobacteria, and Crenarchaeota were positively correlated (Pearson coefficient > 0.6), while other phyla, such as Bacteroidetes and Verrucomicrobia, were found to be negatively correlated (Pearson coefficient < −0.6) to the VOC emissions. After the addition of GWS, these correlations shifted from positive to negative and from negative to positive.
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High-Throughput Volatilome Fingerprint Using PTR-ToF-MS Shows Species-Specific Patterns in Mortierella and Closely Related Genera. J Fungi (Basel) 2021; 7:jof7010066. [PMID: 33478017 PMCID: PMC7835917 DOI: 10.3390/jof7010066] [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: 12/07/2020] [Revised: 12/28/2020] [Accepted: 01/14/2021] [Indexed: 11/16/2022] Open
Abstract
In ecology, Volatile Organic Compounds (VOCs) have a high bioactive and signaling potential. VOCs are not only metabolic products, but are also relevant in microbial cross talk and plant interaction. Here, we report the first large-scale VOC study of 13 different species of Mortierella sensu lato (s.
l.) isolated from a range of different alpine environments. Proton Transfer Reaction-Time-of-Flight Mass Spectrometry (PTR-ToF-MS) was applied for a rapid, high-throughput and non-invasive VOC fingerprinting of 72 Mortierella s.
l. isolates growing under standardized conditions. Overall, we detected 139 mass peaks in the headspaces of all 13 Mortierella s.
l. species studied here. Thus, Mortierella
s.
l. species generally produce a high number of different VOCs. Mortierella species could clearly be discriminated based on their volatilomes, even if only high-concentration mass peaks were considered. The volatilomes were partially phylogenetically conserved. There were no VOCs produced by only one species, but the relative concentrations of VOCs differed between species. From a univariate perspective, we detected mass peaks with distinctively high concentrations in single species. Here, we provide initial evidence that VOCs may provide a competitive advantage and modulate Mortierella s.
l. species distribution on a global scale.
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Guo Y, Jud W, Ghirardo A, Antritter F, Benz JP, Schnitzler JP, Rosenkranz M. Sniffing fungi - phenotyping of volatile chemical diversity in Trichoderma species. THE NEW PHYTOLOGIST 2020; 227:244-259. [PMID: 32155672 DOI: 10.1111/nph.16530] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2019] [Accepted: 02/26/2020] [Indexed: 05/23/2023]
Abstract
Volatile organic compounds (VOCs) play vital roles in the interaction of fungi with plants and other organisms. A systematic study of the global fungal VOC profiles is still lacking, though it is a prerequisite for elucidating the mechanisms of VOC-mediated interactions. Here we present a versatile system enabling a high-throughput screening of fungal VOCs under controlled temperature. In a proof-of-principle experiment, we characterized the volatile metabolic fingerprints of four Trichoderma spp. over a 48 h growth period. The developed platform allows automated and fast detection of VOCs from up to 14 simultaneously growing fungal cultures in real time. The comprehensive analysis of fungal odors is achieved by employing proton transfer reaction-time of flight-MS and GC-MS. The data-mining strategy based on multivariate data analysis and machine learning allows the volatile metabolic fingerprints to be uncovered. Our data revealed dynamic, development-dependent and extremely species-specific VOC profiles from the biocontrol genus Trichoderma. The two mass spectrometric approaches were highly complementary to each other, together revealing a novel, dynamic view to the fungal VOC release. This analytical system could be used for VOC-based chemotyping of diverse small organisms, or more generally, for any in vivo and in vitro real-time headspace analysis.
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Affiliation(s)
- Yuan Guo
- Research Unit Environmental Simulation, Institute of Biochemical Plant Pathology, Helmholtz Zentrum München, D-85764, Neuherberg, Germany
| | - Werner Jud
- Research Unit Environmental Simulation, Institute of Biochemical Plant Pathology, Helmholtz Zentrum München, D-85764, Neuherberg, Germany
| | - Andrea Ghirardo
- Research Unit Environmental Simulation, Institute of Biochemical Plant Pathology, Helmholtz Zentrum München, D-85764, Neuherberg, Germany
| | - Felix Antritter
- Research Unit Environmental Simulation, Institute of Biochemical Plant Pathology, Helmholtz Zentrum München, D-85764, Neuherberg, Germany
| | - J Philipp Benz
- Holzforschung München, TUM School of Life Sciences Weihenstephan, Technical University of Munich, D-85354, Freising, Germany
| | - Jörg-Peter Schnitzler
- Research Unit Environmental Simulation, Institute of Biochemical Plant Pathology, Helmholtz Zentrum München, D-85764, Neuherberg, Germany
| | - Maaria Rosenkranz
- Research Unit Environmental Simulation, Institute of Biochemical Plant Pathology, Helmholtz Zentrum München, D-85764, Neuherberg, Germany
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de Boer W, Li X, Meisner A, Garbeva P. Pathogen suppression by microbial volatile organic compounds in soils. FEMS Microbiol Ecol 2020; 95:5527321. [PMID: 31265069 DOI: 10.1093/femsec/fiz105] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2019] [Accepted: 06/30/2019] [Indexed: 12/15/2022] Open
Abstract
There is increasing evidence that microbial volatile organic compounds (mVOCs) play an important role in interactions between microbes in soils. In this minireview, we zoom in on the possible role of mVOCs in the suppression of plant-pathogenic soil fungi. In particular, we have screened the literature to see what the actual evidence is that mVOCs in soil atmospheres can contribute to pathogen suppression. Furthermore, we discuss biotic and abiotic factors that influence the production of suppressive mVOCs in soils. Since microbes producing mVOCs in soils are part of microbial communities, community ecological aspects such as diversity and assembly play an important role in the composition of produced mVOC blends. These aspects have not received much attention so far. In addition, the fluctuating abiotic conditions in soils, such as changing moisture contents, influence mVOC production and activity. The biotic and abiotic complexity of the soil environment hampers the extrapolation of the production and suppressing activity of mVOCs by microbial isolates on artificial growth media. Yet, several pathogen suppressive mVOCs produced by pure cultures do also occur in soil atmospheres. Therefore, an integration of lab and field studies on the production of mVOCs is needed to understand and predict the composition and dynamics of mVOCs in soil atmospheres. This knowledge, together with the knowledge of the chemistry and physical behaviour of mVOCs in soils, forms the basis for the development of sustainable management strategies to enhance the natural control of soil-borne pathogens with mVOCs. Possibilities for the mVOC-based control of soil-borne pathogens are discussed.
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Affiliation(s)
- Wietse de Boer
- Department of Microbial Ecology, Netherlands Institute of Ecology, NIOO-KNAW, Droevendaalsesteeg 10, 6708PB Wageningen, The Netherlands.,Soil Biology Group, Wageningen University, Droevendaalsesteeg 3, 6708PB Wageningen, The Netherlands
| | - Xiaogang Li
- Co-Innovation Center for Sustainable Forestry in Southern China, College of Biology and the Environment, Nanjing Forestry University, Longpan Road 159, 210037 Nanjing, China
| | - Annelein Meisner
- Department of Microbial Ecology, Netherlands Institute of Ecology, NIOO-KNAW, Droevendaalsesteeg 10, 6708PB Wageningen, The Netherlands.,Microbial Ecology, Department of Biology, Lund University, Ecology Building, Sölvegatan 37, SE-22363 Lund, Sweden
| | - Paolina Garbeva
- Department of Microbial Ecology, Netherlands Institute of Ecology, NIOO-KNAW, Droevendaalsesteeg 10, 6708PB Wageningen, The Netherlands
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Garcia-Alcega S, Nasir ZA, Cipullo S, Ferguson R, Yan C, Whitby C, Dumbrell AJ, Drew G, Colbeck I, Tyrrel S, Coulon F. Fingerprinting ambient air to understand bioaerosol profiles in three different environments in the south east of England. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 719:137542. [PMID: 32120091 DOI: 10.1016/j.scitotenv.2020.137542] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2020] [Revised: 02/23/2020] [Accepted: 02/23/2020] [Indexed: 06/10/2023]
Abstract
Molecular and chemical fingerprints from 10 contrasting outdoor air environments, including three agricultural farms, three urban parks and four industrial sites were investigated to advance our understanding of bioaerosol distribution and emissions. Both phospholipid fatty acids (PLFA) and microbial volatile organic compounds (MVOC) profiles showed a different distribution in summer compared to winter. Further to this, a strong positive correlation was found between the total concentration of MVOCs and PLFAs (r = 0.670, p = 0.004 in winter and r = 0.767, p = 0.001 in summer) demonstrating that either chemical or molecular fingerprints of outdoor environments can provide good insights into the sources and distribution of bioaerosols. Environment specific variables and most representative MVOCs were identified and linked to microbial species emissions via a MVOC database and PLFAs taxonomical classification. While similar MVOCs and PLFAs were identified across all the environments suggesting common microbial communities, specific MVOCs were identified for each contrasting environment. Specifically, 3,4-dimethylpent-1-yn-3-ol, ethoxyethane and propanal were identified as key MVOCs for the industrial areas (and were correlated to fungi, Staphylococcus aureus (Gram positive bacteria) and Gram negative bacteria, R = 0.863, R = 0.618 and R = 0.676, respectively) while phthalic acid, propene and isobutane were key for urban environments (correlated to Gram negative bacteria, fungi and bacteria, R = 0.874, R = 0.962 and R = 0.969 respectively); and ethanol, 2-methyl-2-propanol, 2-methyl-1-pentene, butane, isoprene and methyl acetate were key for farms (correlated to fungi, Gram positive bacteria and bacteria, R = 0.690 and 0.783, R = 0.706 and R = 0.790, 0.761 and 0.768). The combination of MVOCs and PLFAs markers can assist in rapid microbial fingerprinting of distinct environmental influences on ambient air quality.
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Affiliation(s)
- Sonia Garcia-Alcega
- Cranfield University, School of Water, Energy and Environment, Cranfield MK43 0AL, UK
| | - Zaheer Ahmad Nasir
- Cranfield University, School of Water, Energy and Environment, Cranfield MK43 0AL, UK
| | - Sabrina Cipullo
- Cranfield University, School of Water, Energy and Environment, Cranfield MK43 0AL, UK
| | - Robert Ferguson
- University of Essex, School of Biological Sciences, Wivenhoe Park, Colchester CO4 3SQ, UK
| | - Cheng Yan
- Cranfield University, School of Water, Energy and Environment, Cranfield MK43 0AL, UK; China University of Geosciences, School of Environmental Studies, Wuhan 430074, PR China
| | - Corinne Whitby
- University of Essex, School of Biological Sciences, Wivenhoe Park, Colchester CO4 3SQ, UK
| | - Alex J Dumbrell
- University of Essex, School of Biological Sciences, Wivenhoe Park, Colchester CO4 3SQ, UK
| | - Gillian Drew
- Cranfield University, School of Water, Energy and Environment, Cranfield MK43 0AL, UK
| | - Ian Colbeck
- University of Essex, School of Biological Sciences, Wivenhoe Park, Colchester CO4 3SQ, UK
| | - Sean Tyrrel
- Cranfield University, School of Water, Energy and Environment, Cranfield MK43 0AL, UK
| | - Frederic Coulon
- Cranfield University, School of Water, Energy and Environment, Cranfield MK43 0AL, UK.
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11
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Vita F, Giuntoli B, Bertolini E, Taiti C, Marone E, D'Ambrosio C, Trovato E, Sciarrone D, Zoccali M, Balestrini R, Scaloni A, Mondello L, Mancuso S, Alessio M, Alpi A. Tuberomics: a molecular profiling for the adaption of edible fungi (Tuber magnatum Pico) to different natural environments. BMC Genomics 2020; 21:90. [PMID: 31996138 PMCID: PMC6988325 DOI: 10.1186/s12864-020-6522-3] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2019] [Accepted: 01/21/2020] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Truffles are symbiotic fungi that develop underground in association with plant roots, forming ectomycorrhizae. They are primarily known for the organoleptic qualities of their hypogeous fruiting bodies. Primarily, Tuber magnatum Pico is a greatly appreciated truffle species mainly distributed in Italy and Balkans. Its price and features are mostly depending on its geographical origin. However, the genetic variation within T. magnatum has been only partially investigated as well as its adaptation to several environments. RESULTS Here, we applied an integrated omic strategy to T. magnatum fruiting bodies collected during several seasons from three different areas located in the North, Center and South of Italy, with the aim to distinguish them according to molecular and biochemical traits and to verify the impact of several environments on these properties. With the proteomic approach based on two-dimensional electrophoresis (2-DE) followed by mass spectrometry, we were able to identify proteins specifically linked to the sample origin. We further associated the proteomic results to an RNA-seq profiling, which confirmed the possibility to differentiate samples according to their source and provided a basis for the detailed analysis of genes involved in sulfur metabolism. Finally, geographical specificities were associated with the set of volatile compounds produced by the fruiting bodies, as quantitatively and qualitatively determined through proton transfer reaction-mass spectrometry (PTR-MS) and gas-chromatography-mass spectrometry (GC-MS). In particular, a partial least squares-discriminant analysis (PLS-DA) model built from the latter data was able to return high confidence predictions of sample source. CONCLUSIONS Results provide a characterization of white fruiting bodies by a wide range of different molecules, suggesting the role for specific compounds in the responses and adaptation to distinct environments.
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Affiliation(s)
- Federico Vita
- Dipartimento di Scienze e Tecnologie Agrarie, Alimentari, Ambientali e Forestali (DAGRI), University of Florence, Viale delle idee 30, 50019, Florence, Italy. .,A.R.E.A. Foundation, via Tavoleria 28, 56125, Pisa, Italy.
| | - Beatrice Giuntoli
- Department of Biology, Università di Pisa, via L. Ghini 13, 56126, Pisa, Italy.,Institute of Life Sciences, Scuola Superiore Sant'Anna, Piazza Martiri della Libertà 33, 56127, Pisa, Italy
| | - Edoardo Bertolini
- Institute of Life Sciences, Scuola Superiore Sant'Anna, Piazza Martiri della Libertà 33, 56127, Pisa, Italy.,Present address: Donald Danforth Plant Science Center, 975 North Warson Road, Saint Louis, MO, 63132, USA
| | - Cosimo Taiti
- Dipartimento di Scienze e Tecnologie Agrarie, Alimentari, Ambientali e Forestali (DAGRI), University of Florence, Viale delle idee 30, 50019, Florence, Italy
| | - Elettra Marone
- Faculty of Biosciences and Technologies for Agriculture Food and Environment, University of Teramo, Via R. Balzarini 1, 64100, Teramo, Italy
| | - Chiara D'Ambrosio
- Proteomics and Mass Spectrometry Laboratory, I.S.P.A.A.M., National Research Council, 80147, Napoli, Italy
| | - Emanuela Trovato
- Chromaleont Srl, c/o Department of Chemical, Biological, Pharmaceutical and Environmental Sciences Polo Annunziata, University of Messina, viale Annunziata, 98168, Messina, Italy
| | - Danilo Sciarrone
- Department of Chemical, Biological, Pharmaceutical and Environmental Sciences, Polo Annunziata, University of Messina, viale Annunziata, 98168, Messina, Italy
| | - Mariosimone Zoccali
- Department of Chemical, Biological, Pharmaceutical and Environmental Sciences, Polo Annunziata, University of Messina, viale Annunziata, 98168, Messina, Italy
| | - Raffaella Balestrini
- National Research Council of Italy, Institute for Sustainable Plant Protection (CNR-IPSP), Viale P.A. Mattioli 25, 10125, Torino, Italy
| | - Andrea Scaloni
- Proteomics and Mass Spectrometry Laboratory, I.S.P.A.A.M., National Research Council, 80147, Napoli, Italy
| | - Luigi Mondello
- Chromaleont Srl, c/o Department of Chemical, Biological, Pharmaceutical and Environmental Sciences Polo Annunziata, University of Messina, viale Annunziata, 98168, Messina, Italy
| | - Stefano Mancuso
- Dipartimento di Scienze e Tecnologie Agrarie, Alimentari, Ambientali e Forestali (DAGRI), University of Florence, Viale delle idee 30, 50019, Florence, Italy
| | - Massimo Alessio
- Division of Genetics and Cell Biology, IRCCS-Ospedale San Raffaele, Milan, Italy
| | - Amedeo Alpi
- A.R.E.A. Foundation, via Tavoleria 28, 56125, Pisa, Italy
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12
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Mäki M, Aalto J, Hellén H, Pihlatie M, Bäck J. Interannual and Seasonal Dynamics of Volatile Organic Compound Fluxes From the Boreal Forest Floor. FRONTIERS IN PLANT SCIENCE 2019; 10:191. [PMID: 30853968 PMCID: PMC6395408 DOI: 10.3389/fpls.2019.00191] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/26/2018] [Accepted: 02/05/2019] [Indexed: 06/09/2023]
Abstract
In the northern hemisphere, boreal forests are a major source of biogenic volatile organic compounds (BVOCs), which drive atmospheric processes and lead to cloud formation and changes in the Earth's radiation budget. Although forest vegetation is known to be a significant source of BVOCs, the role of soil and the forest floor, and especially interannual variations in fluxes, remains largely unknown due to a lack of long-term measurements. Our aim was to determine the interannual, seasonal and diurnal dynamics of boreal forest floor volatile organic compound (VOC) fluxes and to estimate how much they contribute to ecosystem VOC fluxes. We present here an 8-year data set of forest floor VOC fluxes, measured with three automated chambers connected to the quadrupole proton transfer reaction mass spectrometer (quadrupole PTR-MS). The exceptionally long data set shows that forest floor fluxes were dominated by monoterpenes and methanol, with relatively comparable emission rates between the years. Weekly mean monoterpene fluxes from the forest floor were highest in spring and in autumn (maximum 59 and 86 μg m-2 h-1, respectively), whereas the oxygenated VOC fluxes such as methanol had highest weekly mean fluxes in spring and summer (maximum 24 and 79 μg m-2 h-1, respectively). Although the chamber locations differed from each other in emission rates, the inter-annual dynamics were very similar and systematic. Accounting for this chamber location dependent variability, temperature and relative humidity, a mixed effects linear model was able to explain 79-88% of monoterpene, methanol, acetone, and acetaldehyde fluxes from the boreal forest floor. The boreal forest floor was a significant contributor in the forest stand fluxes, but its importance varies between seasons, being most important in autumn. The forest floor emitted 2-93% of monoterpene fluxes in spring and autumn and 1-72% of methanol fluxes in spring and early summer. The forest floor covered only a few percent of the forest stand fluxes in summer.
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Affiliation(s)
- Mari Mäki
- Institute for Atmospheric and Earth System Research/Forest Sciences, Helsinki, Finland
- Department of Forest Sciences, Faculty of Agriculture and Forestry, University of Helsinki, Helsinki, Finland
| | - Juho Aalto
- Institute for Atmospheric and Earth System Research/Forest Sciences, Helsinki, Finland
- Department of Physics, Faculty of Science, University of Helsinki, Helsinki, Finland
| | - Heidi Hellén
- Finnish Meteorological Institute, Helsinki, Finland
| | - Mari Pihlatie
- Institute for Atmospheric and Earth System Research/Forest Sciences, Helsinki, Finland
- Department of Agricultural Sciences, Faculty of Agriculture and Forestry, University of Helsinki, Helsinki, Finland
- Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
| | - Jaana Bäck
- Institute for Atmospheric and Earth System Research/Forest Sciences, Helsinki, Finland
- Department of Forest Sciences, Faculty of Agriculture and Forestry, University of Helsinki, Helsinki, Finland
- Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
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13
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Markovic D, Colzi I, Taiti C, Ray S, Scalone R, Gregory Ali J, Mancuso S, Ninkovic V. Airborne signals synchronize the defenses of neighboring plants in response to touch. JOURNAL OF EXPERIMENTAL BOTANY 2019; 70:691-700. [PMID: 30380091 PMCID: PMC6322579 DOI: 10.1093/jxb/ery375] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2018] [Accepted: 10/17/2018] [Indexed: 05/19/2023]
Abstract
Plants activate defense-related pathways in response to subtle abiotic or biotic disturbances, changing their volatile profile rapidly. How such perturbations reach and potentially affect neighboring plants is less understood. We evaluated whether brief and light touching had a cascade effect on the profile of volatiles and gene expression of the focal plant and a neighboring untouched plant. Within minutes after contact, Zea mays showed an up-regulation of certain defense genes and increased the emission of specific volatiles that primed neighboring plants, making them less attractive for aphids. Exposure to volatiles from touched plants activated many of the same defense-related genes in non-touched neighboring plants, demonstrating a transcriptional mirroring effect for expression of genes up-regulated by brief contact. Perception of so-far-overlooked touch-induced volatile organic compounds was of ecological significance as these volatiles are directly involved in plant-plant communication as an effective trigger for rapid defense synchronization among nearby plants. Our findings shed new light on mechanisms of plant responses to mechanical contact at the molecular level and on the ecological role of induced volatiles as airborne signals in plant-plant interactions.
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Affiliation(s)
- Dimitrije Markovic
- Department of Crop Production Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden
- Faculty of Agriculture, University of Banja Luka, Banja Luka, Bosnia and Herzegovina
| | - Ilaria Colzi
- Department of Biology, University of Florence, Florence, Italy
| | - Cosimo Taiti
- Department of Biology, University of Florence, Florence, Italy
| | - Swayamjit Ray
- Department of Entomology, The Pennsylvania State University, University Park, PA, USA
| | - Romain Scalone
- Department of Crop Production Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Jared Gregory Ali
- Department of Entomology, The Pennsylvania State University, University Park, PA, USA
| | - Stefano Mancuso
- Department of Biology, University of Florence, Florence, Italy
| | - Velemir Ninkovic
- Department of Ecology, Swedish University of Agricultural Sciences, Uppsala, Sweden
- Correspondence:
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14
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Abis L, Loubet B, Ciuraru R, Lafouge F, Dequiedt S, Houot S, Maron PA, Bourgeteau-Sadet S. Profiles of volatile organic compound emissions from soils amended with organic waste products. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 636:1333-1343. [PMID: 29913594 DOI: 10.1016/j.scitotenv.2018.04.232] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2018] [Revised: 04/17/2018] [Accepted: 04/17/2018] [Indexed: 05/24/2023]
Abstract
Volatile Organic Compounds (VOCs) are reactive compounds essential to atmospheric chemistry. They are mainly emitted by living organisms, and mostly by plants. Soil microbes also contribute to emissions of VOCs. However, these emissions have not yet been characterised in terms of quality and quantity. Furthermore, long-term organic matter amendments are known to affect the microbial content of soils, and hence the quantity and quality of VOC emissions. This study investigates which and how much of these VOCs are emitted from soil amended with organic waste products (OWPs). Four OWPs were investigated: municipal solid waste compost (MSW), green waste and sludge co-compost (GWS), bio-waste compost (BIOW) and farmyard manure (FYM). These OWPs have been amended every two years since 1998 until now at a rate of ~4 tC ha-1. A soil receiving no organic inputs was used as a reference (CN). VOCs emissions were measured under laboratory conditions using a Proton Transfer Reaction-Quadrupole ion guide Time of Flight-Mass Spectrometry (PTR-QiToF-MS). A laboratory system was set up made of two Pyrex chambers, one for samples and the second empty, to be used as a blank. Our results showed that total VOC emissions were higher in BIOW than in MSW. Further findings outlined that the most emitted compounds were acetone, butanone and acetaldehyde in all treatments, suggesting a common production mechanism for these compounds, meaning they were not affected by the OWP amendment. We isolated 21 VOCs that had statistically different emissions between the treatments and could therefore be considered as good markers of soil biological functioning. Our results suggest that organic matter and pH jointly influenced total VOC emissions. In conclusion, OWPs in soil affect the type of VOC emissions and the total flux also depends on the pH of the soil and the quantity of organic matter.
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Affiliation(s)
- Letizia Abis
- Sorbonne Université, UPMC, France; INRA, UMR ECOSYS, INRA, AgroParisTech, Université Paris-Saclay, 78850 Thiverval-Grignon, France.
| | - Benjamin Loubet
- INRA, UMR ECOSYS, INRA, AgroParisTech, Université Paris-Saclay, 78850 Thiverval-Grignon, France
| | - Raluca Ciuraru
- INRA, UMR ECOSYS, INRA, AgroParisTech, Université Paris-Saclay, 78850 Thiverval-Grignon, France
| | - Florence Lafouge
- INRA, UMR ECOSYS, INRA, AgroParisTech, Université Paris-Saclay, 78850 Thiverval-Grignon, France
| | - Samuel Dequiedt
- INRA, UMR AgroEcologie, AgroSup Dijon, BP 87999, 21079 Dijon cedex, France
| | - Sabine Houot
- INRA, UMR ECOSYS, INRA, AgroParisTech, Université Paris-Saclay, 78850 Thiverval-Grignon, France
| | - Pierre Alain Maron
- INRA, UMR AgroEcologie, AgroSup Dijon, BP 87999, 21079 Dijon cedex, France
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15
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Vannier N, Mony C, Bittebiere AK, Michon-Coudouel S, Biget M, Vandenkoornhuyse P. A microorganisms' journey between plant generations. MICROBIOME 2018; 6:79. [PMID: 29695286 PMCID: PMC5918900 DOI: 10.1186/s40168-018-0459-7] [Citation(s) in RCA: 43] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2017] [Accepted: 04/09/2018] [Indexed: 05/27/2023]
Abstract
BACKGROUND Plants are colonized by a great diversity of microorganisms which form a microbiota and perform additional functions for their host. This microbiota can thus be considered a toolbox enabling plants to buffer local environmental changes, with a positive influence on plant fitness. In this context, the transmission of the microbiota to the progeny represent a way to ensure the presence of beneficial symbionts within the habitat. Examples of such transmission have been mainly described for seed transmission and concern a few pathogenic microorganisms. We investigated the transmission of symbiotic partners to plant progeny within clonal plant network. METHODS We used the clonal plant Glechoma hederacea as plant model and forced newly emitted clonal progeny to root in separated pots while controlling the presence of microorganisms. We used an amplicon sequencing approach of 16S and 18S rRNA targeting bacteria/archaea and fungi respectively to describe the root microbiota of mother and clonal-plant offspring. RESULTS We demonstrated the vertical transmission of a significant proportion of the mother plants' symbiotic bacteria and fungi to the daughters. Interestingly, archaea were not transmitted to the daughter plants. Transmitted communities had lower richness, suggesting a filtration during transmission. We found that the transmitted pool of microorganisms was similar among daughters, constituting the heritability of a specific cohort of microorganisms, opening a new understanding of the plant holobiont. We also found significant effects of distance to the mother plant and of growth time on the richness of the microbiota transmitted. CONCLUSIONS In this clonal plant, microorganisms are transmitted between individuals through connections, thereby ensuring the availability of microbe partners for the newborn plants as well as the dispersion between hosts for the microorganisms. This previously undescribed ecological process allows the dispersal of microorganisms in space and across plant generations. As the vast majority of plants are clonal, this process might be therefore a strong driver of ecosystem functioning and assembly of plant and microorganism communities in a wide range of ecosystems.
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Affiliation(s)
- Nathan Vannier
- Université de Rennes 1, CNRS, UMR 6553 EcoBio, campus Beaulieu, Avenue du Général Leclerc, 35042, Rennes Cedex, France.
| | - Cendrine Mony
- Université de Rennes 1, CNRS, UMR 6553 EcoBio, campus Beaulieu, Avenue du Général Leclerc, 35042, Rennes Cedex, France
| | - Anne-Kristel Bittebiere
- Université de Lyon 1, CNRS, UMR 5023 LEHNA, 43 Boulevard du 11 Novembre 1918, 69622, Villeurbanne Cedex, France
| | - Sophie Michon-Coudouel
- Université de Rennes 1, CNRS, UMS3343 OSUR, campus Beaulieu, Avenue du Général Leclerc, 35042, Rennes Cedex, France
| | - Marine Biget
- Université de Rennes 1, CNRS, UMS3343 OSUR, campus Beaulieu, Avenue du Général Leclerc, 35042, Rennes Cedex, France
| | - Philippe Vandenkoornhuyse
- Université de Rennes 1, CNRS, UMR 6553 EcoBio, campus Beaulieu, Avenue du Général Leclerc, 35042, Rennes Cedex, France
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16
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Taiti C, Costa C, Figorilli S, Billi M, Caparrotta S, Comparini D, Mancuso S. Volatome analysis approach for the taxonomic classification of tree exudate collection using Proton Transfer Reaction Time of Flight Mass Spectrometry. FLAVOUR FRAG J 2018. [DOI: 10.1002/ffj.3439] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Cosimo Taiti
- Department of Agrifood Production and Environmental Sciences; University of Florence; Viale delle Idee 30, Sesto F.no 50019 Florence Italy
| | - Corrado Costa
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CREA); Unità di ricerca per l'ingegneria agraria (CREA-ING); via della Pascolare 16, Monterotondo Scalo 00015 Roma Italy
| | - Simone Figorilli
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CREA); Unità di ricerca per l'ingegneria agraria (CREA-ING); via della Pascolare 16, Monterotondo Scalo 00015 Roma Italy
| | - Marco Billi
- Shangri-la Association; Via XXV Aprile 132, Sesto F.no 50019 Florence Italy
| | - Stefania Caparrotta
- Department of Agrifood Production and Environmental Sciences; University of Florence; Viale delle Idee 30, Sesto F.no 50019 Florence Italy
| | - Diego Comparini
- Department of Agrifood Production and Environmental Sciences; University of Florence; Viale delle Idee 30, Sesto F.no 50019 Florence Italy
| | - Stefano Mancuso
- Department of Agrifood Production and Environmental Sciences; University of Florence; Viale delle Idee 30, Sesto F.no 50019 Florence Italy
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17
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Colzi I, Taiti C, Marone E, Magnelli S, Gonnelli C, Mancuso S. Covering the different steps of the coffee processing: Can headspace VOC emissions be exploited to successfully distinguish between Arabica and Robusta? Food Chem 2017; 237:257-263. [DOI: 10.1016/j.foodchem.2017.05.071] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2017] [Revised: 04/05/2017] [Accepted: 05/15/2017] [Indexed: 01/10/2023]
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18
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Vivaldo G, Masi E, Taiti C, Caldarelli G, Mancuso S. The network of plants volatile organic compounds. Sci Rep 2017; 7:11050. [PMID: 28887468 PMCID: PMC5591229 DOI: 10.1038/s41598-017-10975-x] [Citation(s) in RCA: 77] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2017] [Accepted: 08/11/2017] [Indexed: 12/22/2022] Open
Abstract
Plants emission of Volatile Organic Compounds (VOCs) is involved in a wide class of ecological functions, as VOCs play a crucial role in plants interactions with biotic and abiotic factors. Accordingly, they vary widely across species and underpin differences in ecological strategy. In this paper, VOCs spontaneously emitted by 109 plant species (belonging to 56 different families) have been qualitatively and quantitatively analysed in order to provide an alternative classification of plants species. In particular, by using bipartite networks methodology from Complex Network Theory, and through the application of community detection algorithms, we show that is possible to classify species according to chemical classes such as terpenes and sulfur compounds. Such complex network analysis allows to uncover hidden plants relationships related to their evolutionary and adaptation to the environment story.
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Affiliation(s)
- Gianna Vivaldo
- National Research Council, Geosciences and Earth Resources (IGG), Pisa, Italy
| | - Elisa Masi
- Università di Firenze, Dipartimento di Scienze delle Produzioni Agroalimentari e dell'Ambiente (DISPAA), Viale delle Idee, 30, 50019, Sesto Fiorentino (Firenze), Italy.
| | - Cosimo Taiti
- Università di Firenze, Dipartimento di Scienze delle Produzioni Agroalimentari e dell'Ambiente (DISPAA), Viale delle Idee, 30, 50019, Sesto Fiorentino (Firenze), Italy
| | - Guido Caldarelli
- IMT School for Advanced Studies, Piazza San Francesco 19, 55100, Lucca, Italy.,Istituto dei Sistemi Complessi (ISC), Roma, Italy.,London Institute for Mathematical Sciences, 35a South St. Mayfair, W1K 2XF, London, UK
| | - Stefano Mancuso
- Università di Firenze, Dipartimento di Scienze delle Produzioni Agroalimentari e dell'Ambiente (DISPAA), Viale delle Idee, 30, 50019, Sesto Fiorentino (Firenze), Italy
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19
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Marone E, Masi E, Taiti C, Pandolfi C, Bazihizina N, Azzarello E, Fiorino P, Mancuso S. Sensory, spectrometric (PTR-ToF-MS) and chemometric analyses to distinguish extra virgin from virgin olive oils. Journal of Food Science and Technology 2017; 54:1368-1376. [PMID: 28559595 DOI: 10.1007/s13197-017-2541-8] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Revised: 10/13/2016] [Accepted: 02/08/2017] [Indexed: 11/30/2022]
Abstract
Olive oil samples were obtained from six cultivars grown in different environments, and graded by chemical analyses as extra virgin (EVOOs). These were evaluated for flavors and off-flavors, and relative VOCs spectrum as determined by PTR-ToF-MS. A hierarchical clustering of Panel test data separated olive oil in three groups, one including the samples with perceived off-flavor (VOOs), regardless of cultivar and environment. The Pearson's correlation coefficients between the mass data from PTR-ToF-MS and the sensory characteristics perceived by the Panel test were determined. A mass-to-sensory attributes correlation index was calculated. A color-coded card was built up based on the intensities (ncps) of five selected protonated mass data that was able to distinguish EVOOs from VOOs olive oil samples.
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Affiliation(s)
- Elettra Marone
- Faculty of Biosciences and Technologies for Agriculture Food and Environment, University of Teramo, Via R. Balzarini, 1, 64100 Teramo, Italy
| | - Elisa Masi
- Department of Agrifood Production and Environmental Science, University of Florence, Viale delle Idee, 30, 50019 Sesto Fiorentino, Florence Italy
| | - Cosimo Taiti
- Department of Agrifood Production and Environmental Science, University of Florence, Viale delle Idee, 30, 50019 Sesto Fiorentino, Florence Italy
| | - Camilla Pandolfi
- Department of Agrifood Production and Environmental Science, University of Florence, Viale delle Idee, 30, 50019 Sesto Fiorentino, Florence Italy
| | - Nadia Bazihizina
- Department of Agrifood Production and Environmental Science, University of Florence, Viale delle Idee, 30, 50019 Sesto Fiorentino, Florence Italy
| | - Elisa Azzarello
- Department of Agrifood Production and Environmental Science, University of Florence, Viale delle Idee, 30, 50019 Sesto Fiorentino, Florence Italy
| | - Piero Fiorino
- Department of Agrifood Production and Environmental Science, University of Florence, Viale delle Idee, 30, 50019 Sesto Fiorentino, Florence Italy
| | - Stefano Mancuso
- Department of Agrifood Production and Environmental Science, University of Florence, Viale delle Idee, 30, 50019 Sesto Fiorentino, Florence Italy
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20
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Luti S, Caselli A, Taiti C, Bazihizina N, Gonnelli C, Mancuso S, Pazzagli L. PAMP Activity of Cerato-Platanin during Plant Interaction: An -Omic Approach. Int J Mol Sci 2016; 17:ijms17060866. [PMID: 27271595 PMCID: PMC4926400 DOI: 10.3390/ijms17060866] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2016] [Revised: 05/12/2016] [Accepted: 05/21/2016] [Indexed: 12/25/2022] Open
Abstract
Cerato-platanin (CP) is the founder of a fungal protein family consisting in non-catalytic secreted proteins, which work as virulence factors and/or as elicitors of defense responses and systemic resistance, thus acting as PAMPs (pathogen-associated molecular patterns). Moreover, CP has been defined an expansin-like protein showing the ability to weaken cellulose aggregates, like the canonical plant expansins do. Here, we deepen the knowledge on CP PAMP activity by the use of a multi-disciplinary approach: proteomic analysis, VOC (volatile organic compound) measurements, and gas exchange determination. The treatment of Arabidopsis with CP induces a differential profile either in protein expression or in VOC emission, as well changes in photosynthetic activity. In agreement with its role of defense activator, CP treatment induces down-expression of enzymes related to primary metabolism, such as RuBisCO, triosephosphate isomerase, and ATP-synthase, and reduces the photosynthesis rate. Conversely, CP increases expression of defense-related proteins and emission of some VOCs. Interestingly, CP exposure triggered the increase in enzymes involved in GSH metabolism and redox homeostasis (glutathione S-transferase, thioredoxin, Cys-peroxiredoxin, catalase) and in enzymes related to the “glucosinolate-myrosinase” system, which are the premise for synthesis of defence compounds, such as camalexin and some VOCs, respectively. The presented results are in agreement with the accepted role of CP as a PAMP and greatly increase the knowledge of plant primary defences induced by a purified fungal elicitor.
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Affiliation(s)
- Simone Luti
- Department of Biomedical Experimental and Clinical Sciences, Università di Firenze, viale Morgagni 50, 50134 Firenze, Italy.
| | - Anna Caselli
- Department of Biomedical Experimental and Clinical Sciences, Università di Firenze, viale Morgagni 50, 50134 Firenze, Italy.
| | - Cosimo Taiti
- Department of Agri-Food and Environmental Science, Università di Firenze, via delle Idee 30, 50019 Sesto Fiorentino, Italy.
| | - Nadia Bazihizina
- Department of Agri-Food and Environmental Science, Università di Firenze, via delle Idee 30, 50019 Sesto Fiorentino, Italy.
| | - Cristina Gonnelli
- Department of Biology, Università di Firenze, via Micheli 1, 50121 Firenze, Italy.
| | - Stefano Mancuso
- Department of Agri-Food and Environmental Science, Università di Firenze, via delle Idee 30, 50019 Sesto Fiorentino, Italy.
| | - Luigia Pazzagli
- Department of Biomedical Experimental and Clinical Sciences, Università di Firenze, viale Morgagni 50, 50134 Firenze, Italy.
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Taiti C, Giorni E, Colzi I, Pignattelli S, Bazihizina N, Buccianti A, Luti S, Pazzagli L, Mancuso S, Gonnelli C. Under fungal attack on a metalliferous soil: ROS or not ROS? Insights from Silene paradoxa L. growing under copper stress. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2016; 210:282-292. [PMID: 26799504 DOI: 10.1016/j.envpol.2015.12.020] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2015] [Revised: 12/09/2015] [Accepted: 12/09/2015] [Indexed: 06/05/2023]
Abstract
We investigated how the adaptation to metalliferous environments can influence the plant response to biotic stress. In a metallicolous and a non-metallicolous population of Silene paradoxa the induction of oxidative stress and the production of callose and volatiles were evaluated in the presence of copper and of the PAMP fungal protein cerato-platanin, separately and in combination. Our results showed incompatibility between the ordinary ROS-mediated response to fungal attack and the acquired mechanisms of preventing oxidative stress in the tolerant population. A similar situation was also demonstrated by the sensitive population growing in the presence of copper but, in this case, with a lack of certain responses, such as callose production. In addition, in terms of the joint behaviour of emitted volatiles, multivariate statistics showed that not only did the populations respond differently to the presence of copper or biotic stress, but also that the biotic and abiotic stresses interacted in different ways in the two populations. Our results demonstrated that the same incompatibility of hyperaccumulators in ROS-mediated biotic stress signals also seemed to be exhibited by the excluder metallophyte, but without the advantage of being able to rely on the elemental defence for plant protection from natural enemies.
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Affiliation(s)
- Cosimo Taiti
- Department of Agri-Food and Environmental Science, Università di Firenze, via delle Idee 30, 50019, Sesto Fiorentino, Italy.
| | - Elisabetta Giorni
- Department of Biology, Università di Firenze, via Micheli 1, 50121, Firenze, Italy.
| | - Ilaria Colzi
- Department of Biology, Università di Firenze, via Micheli 1, 50121, Firenze, Italy.
| | - Sara Pignattelli
- Department of Biology, Università di Firenze, via Micheli 1, 50121, Firenze, Italy.
| | - Nadia Bazihizina
- Department of Agri-Food and Environmental Science, Università di Firenze, via delle Idee 30, 50019, Sesto Fiorentino, Italy.
| | - Antonella Buccianti
- Department of Earth Science, Università di Firenze, via La Pira 4, 50121, Firenze, Italy.
| | - Simone Luti
- Department of Biomedical Experimental and Clinical Sciences, Università di Firenze, viale Morgagni 50, 50134, Firenze, Italy.
| | - Luigia Pazzagli
- Department of Biomedical Experimental and Clinical Sciences, Università di Firenze, viale Morgagni 50, 50134, Firenze, Italy.
| | - Stefano Mancuso
- Department of Agri-Food and Environmental Science, Università di Firenze, via delle Idee 30, 50019, Sesto Fiorentino, Italy.
| | - Cristina Gonnelli
- Department of Biology, Università di Firenze, via Micheli 1, 50121, Firenze, Italy.
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PTR-TOF-MS and HPLC analysis in the characterization of saffron (Crocus sativus L.) from Italy and Iran. Food Chem 2016; 192:75-81. [DOI: 10.1016/j.foodchem.2015.06.090] [Citation(s) in RCA: 66] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2015] [Revised: 06/16/2015] [Accepted: 06/26/2015] [Indexed: 11/17/2022]
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23
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Infantino A, Aureli G, Costa C, Taiti C, Antonucci F, Menesatti P, Pallottino F, De Felice S, D'Egidio M, Mancuso S. Potential application of PTR-TOFMS for the detection of deoxynivalenol (DON) in durum wheat. Food Control 2015. [DOI: 10.1016/j.foodcont.2015.03.047] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Schenkel D, Lemfack MC, Piechulla B, Splivallo R. A meta-analysis approach for assessing the diversity and specificity of belowground root and microbial volatiles. FRONTIERS IN PLANT SCIENCE 2015; 6:707. [PMID: 26442022 PMCID: PMC4568395 DOI: 10.3389/fpls.2015.00707] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2015] [Accepted: 08/24/2015] [Indexed: 05/20/2023]
Abstract
Volatile organic compounds are secondary metabolites emitted by all organisms, especially by plants and microbes. Their role as aboveground signals has been established for decades. Recent evidence suggests that they might have a non-negligible role belowground and might be involved in root-root and root-microbial/pest interactions. Our aim here was to make a comprehensive review of belowground volatile diversity using a meta-analysis approach. At first we synthesized current literature knowledge on plant root volatiles and classified them in terms of chemical diversity. In a second step, relying on the mVOC database of microbial volatiles, we classified volatiles based on their emitters (bacteria vs. fungi) and their specific ecological niche (i.e., rhizosphere, soil). Our results highlight similarities and differences among root and microbial volatiles and also suggest that some might be niche specific. We further explored the possibility that volatiles might be involved in intra- and inter-specific root-root communication and discuss the ecological implications of such scenario. Overall this work synthesizes current knowledge on the belowground volatilome and the potential signaling role of its constituents. It also highlights that the total diversity of belowground volatiles might be orders of magnitude larger that the few hundreds of compounds described to date.
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Affiliation(s)
- Denis Schenkel
- Institute for Molecular Biosciences, Goethe University FrankfurtFrankfurt, Germany
- Integrative Fungal Research ClusterFrankfurt, Germany
| | - Marie C. Lemfack
- Institute for Biological Sciences, University of RostockRostock, Germany
| | - Birgit Piechulla
- Institute for Biological Sciences, University of RostockRostock, Germany
| | - Richard Splivallo
- Institute for Molecular Biosciences, Goethe University FrankfurtFrankfurt, Germany
- Integrative Fungal Research ClusterFrankfurt, Germany
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Sometimes a Little Mango Goes a Long Way: a Rapid Approach to Assess How Different Shipping Systems Affect Fruit Commercial Quality. FOOD ANAL METHOD 2015. [DOI: 10.1007/s12161-015-0240-5] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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