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Zhang SY, Zhao BG, Shen Z, Mei YC, Li G, Dong FQ, Zhang J, Chao Q, Wang BC. Integrating ATAC-seq and RNA-seq to identify differentially expressed genes with chromatin-accessible changes during photosynthetic establishment in Populus leaves. PLANT MOLECULAR BIOLOGY 2023; 113:59-74. [PMID: 37634200 DOI: 10.1007/s11103-023-01375-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Accepted: 08/03/2023] [Indexed: 08/29/2023]
Abstract
Leaves are the primary photosynthetic organs, providing essential substances for tree growth. It is important to obtain an anatomical understanding and regulatory network analysis of leaf development. Here, we studied leaf development in Populus Nanlin895 along a development gradient from the newly emerged leaf from the shoot apex to the sixth leaf (L1 to L6) using anatomical observations and RNA-seq analysis. It indicated that mesophyll cells possess obvious vascular, palisade, and spongy tissue with distinct intercellular spaces after L3. Additionally, vacuoles fuse while epidermal cells expand to form pavement cells. RNA-seq analysis indicated that genes highly expressed in L1 and L2 were related to cell division and differentiation, while those highly expressed in L3 were enriched in photosynthesis. Therefore, we selected L1 and L3 to integrate ATAC-seq and RNA-seq and identified 735 differentially expressed genes (DEGs) with changes in chromatin accessibility regions within their promoters, of which 87 were transcription factors (TFs), such as ABI3VP1, AP-EREBP, MYB, NAC, and GRF. Motif enrichment analysis revealed potential regulatory functions for the DEGs through upstream TFs including TCP, bZIP, HD-ZIP, Dof, BBR-BPC, and MYB. Overall, our research provides a potential molecular foundation for regulatory network exploration in leaf development during photosynthesis establishment.
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Affiliation(s)
- Sheng-Ying Zhang
- Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Biligen-Gaowa Zhao
- Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Zhuo Shen
- Guangdong Key Laboratory for New Technology Research of Vegetables, Vegetable Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou, 510640, China
- State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, 150040, China
| | - Ying-Chang Mei
- Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Guo Li
- Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Feng-Qin Dong
- University of Chinese Academy of Sciences, Beijing, 100049, China
- The Key Laboratory of Plant Molecular Physiology, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Jiao Zhang
- Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Qing Chao
- Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
- University of Chinese Academy of Sciences, Beijing, 100049, China.
| | - Bai-Chen Wang
- Photosynthesis Research Center, Key Laboratory of Photobiology, Institute of Botany, Chinese Academy of Sciences, Beijing, 100093, China.
- University of Chinese Academy of Sciences, Beijing, 100049, China.
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Bajpai A, Mahawar H, Dubey G, Atoliya N, Parmar R, Devi MH, Kollah B, Mohanty SR. Prospect of pink pigmented facultative methylotrophs in mitigating abiotic stress and climate change. J Basic Microbiol 2022; 62:889-899. [DOI: 10.1002/jobm.202200087] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2022] [Revised: 03/03/2022] [Accepted: 03/13/2022] [Indexed: 11/11/2022]
Affiliation(s)
- Apekcha Bajpai
- Indian Institute of Soil Science Indian Council of Agricultural Research Bhopal India
- Department of Microbiology Barkatullah University Bhopal India
| | - Himanshu Mahawar
- Indian Institute of Soil Science Indian Council of Agricultural Research Bhopal India
- ICAR‐Directorate of Weed Research Jabalpur India
| | - Garima Dubey
- Indian Institute of Soil Science Indian Council of Agricultural Research Bhopal India
| | - Nagvanti Atoliya
- Indian Institute of Soil Science Indian Council of Agricultural Research Bhopal India
| | - Rakesh Parmar
- Indian Institute of Soil Science Indian Council of Agricultural Research Bhopal India
| | - Mayanglambam H. Devi
- Indian Institute of Soil Science Indian Council of Agricultural Research Bhopal India
| | - Bharati Kollah
- Indian Institute of Soil Science Indian Council of Agricultural Research Bhopal India
| | - Santosh R. Mohanty
- Indian Institute of Soil Science Indian Council of Agricultural Research Bhopal India
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3
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Cai M, An C, Guy C, Lu C, Mafakheri F. Assessing the regional biogenic methanol emission from spring wheat during the growing season: A Canadian case study. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2021; 287:117602. [PMID: 34182392 DOI: 10.1016/j.envpol.2021.117602] [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: 03/31/2021] [Revised: 06/03/2021] [Accepted: 06/13/2021] [Indexed: 06/13/2023]
Abstract
As a volatile organic compound existing in the atmosphere, methanol plays a key role in atmospheric chemistry due to its comparatively high abundance and long lifetime. Croplands are a significant source of biogenic methanol, but there is a lack of systematic assessment for the production and emission of methanol from crops in various phases. In this study, methanol emissions from spring wheat during the growing period were estimated using a developed emission model. The temporal and spatial variations of methanol emissions of spring wheat in a Canadian province were investigated. The averaged methanol emission of spring wheat is found to be 37.94 ± 7.5 μg·m-2·h-1, increasing from north to south and exhibiting phenological peak to valley characteristics. Moreover, cold crop districts are projected to be with higher increase in air temperature and consequent methanol emissions during 2020-2099. Furthermore, the seasonality of methanol emissions is found to be positively correlated to concentrations of CO, filterable particulate matter, and PM10 but negatively related to NO2 and O3. The uncertainty and sensitivity analysis results suggest that methanol emissions show a Gamma probabilistic distribution, and growth length, air temperature, solar radiation and leafage are the most important influencing variables. In most cases, methanol emissions increase with air temperature in the range of 3-35 °C while the excessive temperature may result in decreased methanol emissions because of inactivated enzyme activity or increased instant methanol emissions due to heat injury. Notably, induced emission might be the major source of biogenic methanol of mature leaves. The results of this study can be used to develop appropriate strategies for regional emission management of cropping systems.
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Affiliation(s)
- Mengfan Cai
- Department of Building, Civil and Environmental Engineering, Faculty of Engineering and Computer Science, Concordia University, Montreal, QC H3G 1M8, Canada
| | - Chunjiang An
- Department of Building, Civil and Environmental Engineering, Faculty of Engineering and Computer Science, Concordia University, Montreal, QC H3G 1M8, Canada.
| | - Christophe Guy
- Department of Chemical and Materials Engineering, Concordia University, Montreal, QC H3G 1M8, Canada
| | - Chen Lu
- Institute for Energy, Environment and Sustainable Communities, University of Regina, Regina, SK S4S 0A2, Canada
| | - Fereshteh Mafakheri
- Concordia Institute for Information Systems Engineering, Concordia University, Montreal, H3G 1M8, Canada
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Macey MC, Pratscher J, Crombie AT, Murrell JC. Impact of plants on the diversity and activity of methylotrophs in soil. MICROBIOME 2020; 8:31. [PMID: 32156318 PMCID: PMC7065363 DOI: 10.1186/s40168-020-00801-4] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Accepted: 02/10/2020] [Indexed: 05/16/2023]
Abstract
BACKGROUND Methanol is the second most abundant volatile organic compound in the atmosphere, with the majority produced as a metabolic by-product during plant growth. There is a large disparity between the estimated amount of methanol produced by plants and the amount which escapes to the atmosphere. This may be due to utilisation of methanol by plant-associated methanol-consuming bacteria (methylotrophs). The use of molecular probes has previously been effective in characterising the diversity of methylotrophs within the environment. Here, we developed and applied molecular probes in combination with stable isotope probing to identify the diversity, abundance and activity of methylotrophs in bulk and in plant-associated soils. RESULTS Application of probes for methanol dehydrogenase genes (mxaF, xoxF, mdh2) in bulk and plant-associated soils revealed high levels of diversity of methylotrophic bacteria within the bulk soil, including Hyphomicrobium, Methylobacterium and members of the Comamonadaceae. The community of methylotrophic bacteria captured by this sequencing approach changed following plant growth. This shift in methylotrophic diversity was corroborated by identification of the active methylotrophs present in the soils by DNA stable isotope probing using 13C-labelled methanol. Sequencing of the 16S rRNA genes and construction of metagenomes from the 13C-labelled DNA revealed members of the Methylophilaceae as highly abundant and active in all soils examined. There was greater diversity of active members of the Methylophilaceae and Comamonadaceae and of the genus Methylobacterium in plant-associated soils compared to the bulk soil. Incubating growing pea plants in a 13CO2 atmosphere revealed that several genera of methylotrophs, as well as heterotrophic genera within the Actinomycetales, assimilated plant exudates in the pea rhizosphere. CONCLUSION In this study, we show that plant growth has a major impact on both the diversity and the activity of methanol-utilising methylotrophs in the soil environment, and thus, the study contributes significantly to efforts to balance the terrestrial methanol and carbon cycle. Video abstract.
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Affiliation(s)
- Michael C. Macey
- School of Environmental Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ UK
- AstrobiologyOU, Faculty of Science, Technology, Engineering and Mathematics, The Open University, Milton Keynes, Buckinghamshire MK7 6AA UK
| | - Jennifer Pratscher
- The Lyell Centre, School of Energy, Geoscience, Infrastructure and Society, Heriot-Watt University, Research Avenue South, Edinburgh, EH14 4AP UK
| | - Andrew T. Crombie
- School of Biological Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ UK
| | - J. Colin Murrell
- School of Environmental Sciences, University of East Anglia, Norwich Research Park, Norwich, NR4 7TJ UK
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Huang J, Hartmann H, Hellén H, Wisthaler A, Perreca E, Weinhold A, Rücker A, van Dam NM, Gershenzon J, Trumbore S, Behrendt T. New Perspectives on CO 2, Temperature, and Light Effects on BVOC Emissions Using Online Measurements by PTR-MS and Cavity Ring-Down Spectroscopy. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2018; 52:13811-13823. [PMID: 30335995 DOI: 10.1021/acs.est.8b01435] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
Volatile organic compounds (VOC) play important roles in atmospheric chemistry, plant ecology, and physiology, and biogenic VOC (BVOC) emitted by plants is the largest VOC source. Our knowledge about how environmental drivers (e.g., carbon, light, and temperature) may regulate BVOC emissions is limited because they are often not controlled. We combined a greenhouse facility to manipulate atmospheric CO2 ([CO2]) with proton-transfer-reaction mass spectrometry (PTR-MS) and cavity ring-down spectroscopy to investigate the regulation of BVOC in Norway spruce. Our results indicate a direct relationship between [CO2] and methanol and acetone emissions, and their temperature and light dependencies, possibly related to substrate availability. The composition of monoterpenes stored in needles remained constant, but emissions of mono-(linalool) and sesquiterpenes (β-farnesene) increased at lower [CO2], with the effects being most pronounced at the highest air temperature. Pulse-labeling suggested an immediate incorporation of recently assimilated carbon into acetone, mono- and sesquiterpene emissions even under 50 ppm [CO2]. Our results provide new perspectives on CO2, temperature and light effects on BVOC emissions, in particular how they depend on stored pools and recent photosynthetic products. Future studies using smaller but more seedlings may allow sufficient replication to examine the physiological mechanisms behind the BVOC responses.
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Affiliation(s)
- Jianbei Huang
- Max-Planck-Institute for Biogeochemistry , Jena , Germany
| | | | - Heidi Hellén
- Finnish Meteorological Institute , Helsinki , Finland
| | - Armin Wisthaler
- Department of Chemistry , University of Oslo , Oslo , Norway
| | - Erica Perreca
- Max Planck Institute for Chemical Ecology , Jena , Germany
| | | | | | - Nicole M van Dam
- German Centre for Integrative Biodiversity Research , Leipzig , Germany
- Institute of Ecology , Friedrich Schiller University , Jena , Germany
| | | | - Susan Trumbore
- Max-Planck-Institute for Biogeochemistry , Jena , Germany
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Bibbiani S, Colzi I, Taiti C, Guidi Nissim W, Papini A, Mancuso S, Gonnelli C. Smelling the metal: Volatile organic compound emission under Zn excess in the mint Tetradenia riparia. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2018; 271:1-8. [PMID: 29650146 DOI: 10.1016/j.plantsci.2018.03.006] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2018] [Revised: 02/27/2018] [Accepted: 03/06/2018] [Indexed: 06/08/2023]
Abstract
This work investigated the effect of Zn excess on growth, metal accumulation and photosynthetic changes in Tetradenia riparia, in relation to possible variations in the composition of the plant volatilome. Experiments were carried out in hydroponics exposing plants to a range of Zn concentrations. Zinc excess negatively affected plant growth in a dose-dependent manner. The metal was accumulated proportionally to its concentration in the medium and preferentially allocated to roots. All the photosynthetic parameters and the concentration of some photosynthetic pigments were negatively affected by Zn, whereas the level of leaf total soluble sugars remained unchanged. Twenty-three different VOCs were identified in the plant volatilome. Each compound was emitted at a different level and intensity of emission was manifold increased by the presence of Zn in the growth medium. The Zn-induced compounds could represent both an adaptive response (f.i. methanol, acetylene, C6-aldehydes, isoprene, terpenes) and a damage by-product (f.i. propanal, acetaldehyde, alkyl fragments) of the metal presence in the culture medium. Given that the Zn-mediated induction of those VOCs, considered protective, occurred even under a Zn-limited photosynthetic capacity, our work supports the hypothesis of an active role of such molecules in an adaptive plant response to trace metal stress.
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Affiliation(s)
- Susanna Bibbiani
- Department of Agrifood Production and Environmental Sciences - Università degli Studi di Firenze, Viale delle Idee 30, 50019 Sesto Fiorentino, Florence, Italy.
| | - Ilaria Colzi
- Department of Biology, Università degli Studi di Firenze, via Micheli 1, 50121 Florence, Italy.
| | - Cosimo Taiti
- Department of Agrifood Production and Environmental Sciences - Università degli Studi di Firenze, Viale delle Idee 30, 50019 Sesto Fiorentino, Florence, Italy.
| | - Werther Guidi Nissim
- Department of Agrifood Production and Environmental Sciences - Università degli Studi di Firenze, Viale delle Idee 30, 50019 Sesto Fiorentino, Florence, Italy.
| | - Alessio Papini
- Department of Biology, Università degli Studi di Firenze, via Micheli 1, 50121 Florence, Italy.
| | - Stefano Mancuso
- Department of Agrifood Production and Environmental Sciences - Università degli Studi di Firenze, Viale delle Idee 30, 50019 Sesto Fiorentino, Florence, Italy.
| | - Cristina Gonnelli
- Department of Biology, Università degli Studi di Firenze, via Micheli 1, 50121 Florence, Italy.
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Dorokhov YL, Sheshukova EV, Komarova TV. Methanol in Plant Life. FRONTIERS IN PLANT SCIENCE 2018; 9:1623. [PMID: 30473703 PMCID: PMC6237831 DOI: 10.3389/fpls.2018.01623] [Citation(s) in RCA: 53] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2018] [Accepted: 10/18/2018] [Indexed: 05/19/2023]
Abstract
Until recently, plant-emitted methanol was considered a biochemical by-product, but studies in the last decade have revealed its role as a signal molecule in plant-plant and plant-animal communication. Moreover, methanol participates in metabolic biochemical processes during growth and development. The purpose of this review is to determine the impact of methanol on the growth and immunity of plants. Plants generate methanol in the reaction of the demethylation of macromolecules including DNA and proteins, but the main source of plant-derived methanol is cell wall pectins, which are demethylesterified by pectin methylesterases (PMEs). Methanol emissions increase in response to mechanical wounding or other stresses due to damage of the cell wall, which is the main source of methanol production. Gaseous methanol from the wounded plant induces defense reactions in intact leaves of the same and neighboring plants, activating so-called methanol-inducible genes (MIGs) that regulate plant resistance to biotic and abiotic factors. Since PMEs are the key enzymes in methanol production, their expression increases in response to wounding, but after elimination of the stress factor effects, the plant cell should return to the original state. The amount of functional PMEs in the cell is strictly regulated at both the gene and protein levels. There is negative feedback between one of the MIGs, aldose epimerase-like protein, and PME gene transcription; moreover, the enzymatic activity of PMEs is modulated and controlled by PME inhibitors (PMEIs), which are also induced in response to pathogenic attack.
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Affiliation(s)
- Yuri L. Dorokhov
- N.I. Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia
- A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russia
- *Correspondence: Yuri L. Dorokhov,
| | | | - Tatiana V. Komarova
- N.I. Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia
- A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russia
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Molecular Mechanisms Affecting Cell Wall Properties and Leaf Architecture. THE LEAF: A PLATFORM FOR PERFORMING PHOTOSYNTHESIS 2018. [DOI: 10.1007/978-3-319-93594-2_8] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/09/2022]
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Integration of C₁ and C₂ Metabolism in Trees. Int J Mol Sci 2017; 18:ijms18102045. [PMID: 28946627 PMCID: PMC5666727 DOI: 10.3390/ijms18102045] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2017] [Revised: 09/16/2017] [Accepted: 09/21/2017] [Indexed: 12/19/2022] Open
Abstract
C1 metabolism in plants is known to be involved in photorespiration, nitrogen and amino acid metabolism, as well as methylation and biosynthesis of metabolites and biopolymers. Although the flux of carbon through the C1 pathway is thought to be large, its intermediates are difficult to measure and relatively little is known about this potentially ubiquitous pathway. In this study, we evaluated the C1 pathway and its integration with the central metabolism using aqueous solutions of 13C-labeled C1 and C2 intermediates delivered to branches of the tropical species Inga edulis via the transpiration stream. Delivery of [13C]methanol and [13C]formaldehyde rapidly stimulated leaf emissions of [13C]methanol, [13C]formaldehyde, [13C]formic acid, and 13CO2, confirming the existence of the C1 pathway and rapid interconversion between methanol and formaldehyde. However, while [13C]formate solutions stimulated emissions of 13CO2, emissions of [13C]methanol or [13C]formaldehyde were not detected, suggesting that once oxidation to formate occurs it is rapidly oxidized to CO2 within chloroplasts. 13C-labeling of isoprene, a known photosynthetic product, was linearly related to 13CO2 across C1 and C2 ([13C2]acetate and [2-13C]glycine) substrates, consistent with reassimilation of C1, respiratory, and photorespiratory CO2. Moreover, [13C]methanol and [13C]formaldehyde induced a quantitative labeling of both carbon atoms of acetic acid emissions, possibly through the rapid turnover of the chloroplastic acetyl-CoA pool via glycolate oxidation. The results support a role of the C1 pathway to provide an alternative carbon source for glycine methylation in photorespiration, enhance CO2 concentrations within chloroplasts, and produce key C2 intermediates (e.g., acetyl-CoA) central to anabolic and catabolic metabolism.
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Lambais MR, Barrera SE, Santos EC, Crowley DE, Jumpponen A. Phyllosphere Metaproteomes of Trees from the Brazilian Atlantic Forest Show High Levels of Functional Redundancy. MICROBIAL ECOLOGY 2017; 73:123-134. [PMID: 27853840 DOI: 10.1007/s00248-016-0878-6] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2016] [Accepted: 10/10/2016] [Indexed: 05/11/2023]
Abstract
The phyllosphere of the Brazilian Atlantic Forest has been estimated to contain several million bacterial species that are associated with approximately 20000 plant species. Despite the high bacterial diversity in the phyllosphere, the function of these microorganisms and the mechanisms driving their community assembly are largely unknown. In this study, we characterized the bacterial communities in the phyllospheres of four tree species of the Atlantic Forest (Mollinedia schottiana, Ocotea dispersa, Ocotea teleiandra, and Tabebuia serratifolia) and their metaproteomes to examine the basic protein functional groups expressed in the phyllosphere. Bacterial community analyses using 16S rRNA gene sequencing confirmed prior observations that plant species harbor distinct bacterial communities and that plants of the same taxon have more similar communities than more distantly related taxa. Using LC-ESI-Q-TOF, we identified 216 nonredundant proteins, based on 3503 peptide mass spectra. Most protein families were shared among the phyllosphere communities, suggesting functional redundancy despite differences in the species compositions of the bacterial communities. Proteins involved in glycolysis and anaerobic carbohydrate metabolism, solute transport, protein metabolism, cell motility, stress and antioxidant responses, nitrogen metabolism, and iron homeostasis were among the most frequently detected. In contrast to prior studies on crop plants and Arabidopsis, a low abundance of OTUs related to Methylobacterium and no proteins associated with the metabolism of one-carbon molecules were detected in the phyllospheres of the tree species studied here. Our data suggest that even though the phyllosphere bacterial communities of different tree species are phylogenetically diverse, their metaproteomes are functionally convergent with respect to traits required for survival on leaf surfaces.
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Affiliation(s)
- M R Lambais
- Departamento de Ciência do Solo, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, SP, 13418-900, Brazil.
| | - S E Barrera
- Departamento de Ciência do Solo, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, SP, 13418-900, Brazil
| | - E C Santos
- Departamento de Ciência do Solo, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, SP, 13418-900, Brazil
| | - D E Crowley
- Department of Environmental Sciences, University of California, 900 University Ave, Riverside, CA, 92521, USA
| | - A Jumpponen
- Division of Biology, Kansas State University, 116 Ackert Hall, Manhattan, KS, 66506, USA
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Sheshukova EV, Komarova TV, Pozdyshev DV, Ershova NM, Shindyapina AV, Tashlitsky VN, Sheval EV, Dorokhov YL. The Intergenic Interplay between Aldose 1-Epimerase-Like Protein and Pectin Methylesterase in Abiotic and Biotic Stress Control. FRONTIERS IN PLANT SCIENCE 2017; 8:1646. [PMID: 28993784 PMCID: PMC5622589 DOI: 10.3389/fpls.2017.01646] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2017] [Accepted: 09/07/2017] [Indexed: 05/22/2023]
Abstract
The mechanical damage that often precedes the penetration of a leaf by a pathogen promotes the activation of pectin methylesterase (PME); the activation of PME leads to the emission of methanol, resulting in a "priming" effect on intact leaves, which is accompanied by an increased sensitivity to Tobacco mosaic virus (TMV) and resistance to bacteria. In this study, we revealed that mRNA levels of the methanol-inducible gene encoding Nicotiana benthamiana aldose 1-epimerase-like protein (NbAELP) in the leaves of intact plants are very low compared with roots. However, stress and pathogen attack increased the accumulation of the NbAELP mRNA in the leaves. Using transiently transformed plants, we obtained data to support the mechanism underlying AELP/PME-related negative feedback The insertion of the NbAELP promoter sequence (proNbAELP) into the N. benthamiana genome resulted in the co-suppression of the natural NbAELP gene expression, accompanied by a reduction in the NbAELP mRNA content and increased PME synthesis. Knockdown of NbAELP resulted in high activity of PME in the cell wall and a decrease in the leaf glucose level, creating unfavorable conditions for Agrobacterium tumefaciens reproduction in injected leaves. Our results showed that NbAELP is capable of binding the TMV movement protein (MPTMV) in vitro and is likely to affect the cellular nucleocytoplasmic transport, which may explain the sensitivity of NbAELP knockdown plants to TMV. Although NbAELP was primarily detected in the cell wall, the influence of this protein on cellular PME mRNA levels might be associated with reduced transcriptional activity of the PME gene in the nucleus. To confirm this hypothesis, we isolated the N. tabacum PME gene promoter (proNtPME) and showed the inhibition of proNtPME-directed GFP and GUS expression in leaves when co-agroinjected with the NbAELP-encoding plasmid. We hypothesized that plant wounding and/or pathogen attack lead to PME activation and increased methanol emission, followed by increased NbAELP expression, which results in reversion of PME mRNA level and methanol emission to levels found in the intact plant.
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Affiliation(s)
| | - Tatiana V. Komarova
- Vavilov Institute of General Genetics (RAS)Moscow, Russia
- A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State UniversityMoscow, Russia
| | | | - Natalia M. Ershova
- Vavilov Institute of General Genetics (RAS)Moscow, Russia
- A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State UniversityMoscow, Russia
| | - Anastasia V. Shindyapina
- Vavilov Institute of General Genetics (RAS)Moscow, Russia
- A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State UniversityMoscow, Russia
| | | | - Eugene V. Sheval
- A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State UniversityMoscow, Russia
| | - Yuri L. Dorokhov
- Vavilov Institute of General Genetics (RAS)Moscow, Russia
- A.N. Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State UniversityMoscow, Russia
- *Correspondence: Yuri L. Dorokhov
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Brilli F, Gioli B, Fares S, Terenzio Z, Zona D, Gielen B, Loreto F, Janssens IA, Ceulemans R. Rapid leaf development drives the seasonal pattern of volatile organic compound (VOC) fluxes in a 'coppiced' bioenergy poplar plantation. PLANT, CELL & ENVIRONMENT 2016; 39:539-555. [PMID: 26386252 DOI: 10.1111/pce.12638] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2015] [Revised: 09/06/2015] [Accepted: 09/09/2015] [Indexed: 06/05/2023]
Abstract
Leaves of fast-growing, woody bioenergy crops often emit volatile organic compounds (VOC). Some reactive VOC (especially isoprene) play a key role in climate forcing and may negatively affect local air quality. We monitored the seasonal exchange of VOC using the eddy covariance technique in a 'coppiced' poplar plantation. The complex interactions of VOC fluxes with climatic and physiological variables were also explored by using an artificial neural network (Self Organizing Map). Isoprene and methanol were the most abundant VOC emitted by the plantation. Rapid development of the canopy (and thus of the leaf area index, LAI) was associated with high methanol emissions and high rates of gross primary production (GPP) since the beginning of the growing season, while the onset of isoprene emission was delayed. The highest emissions of isoprene, and of isoprene photo-oxidation products (Methyl Vinyl Ketone and Methacrolein, iox ), occurred on the hottest and sunniest days, when GPP and evapotranspiration were highest, and formaldehyde was significantly deposited. Canopy senescence enhanced the exchange of oxygenated VOC. The accuracy of methanol and isoprene emission simulations with the Model of Emissions of Gases and Aerosols from Nature increased by applying a function to modify their basal emission factors, accounting for seasonality of GPP or LAI.
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Affiliation(s)
- Federico Brilli
- Department of Biology, Centre of Excellence on Plant and Vegetation Ecology (PLECO), University of Antwerp, Wilrijk, B-2610, Belgium
- National Research Council, Institute of Agro-environmental and Forest Biology (IBAF-CNR), Via Salaria Km 29,300, Monterotondo Scalo, 00016, Roma, Italy
- Institute for Sustainable Plant Protection (IPSP-CNR), National Research Council, Via Madonna del piano 10, Sesto Fiorentino, 50017, Italy
| | - Beniamino Gioli
- Biometeorology Institute (IBIMET-CNR), National Research Council, Via G. Caproni 8, Firenze, 50145, Italy
| | - Silvano Fares
- Council for Agricultural Research and Economics, Research Centre for the Soil-Plant System (RPS-CREA), Via della Navicella 2-4, Roma, 00184, Italy
| | - Zenone Terenzio
- Department of Biology, Centre of Excellence on Plant and Vegetation Ecology (PLECO), University of Antwerp, Wilrijk, B-2610, Belgium
| | - Donatella Zona
- Department of Animal and Plant Sciences, University of Sheffield, Western Bank, Sheffield, S10 2TN, UK
| | - Bert Gielen
- Department of Biology, Centre of Excellence on Plant and Vegetation Ecology (PLECO), University of Antwerp, Wilrijk, B-2610, Belgium
| | - Francesco Loreto
- Institute for Sustainable Plant Protection (IPSP-CNR), National Research Council, Via Madonna del piano 10, Sesto Fiorentino, 50017, Italy
- Department of Biology, Agriculture and Food Sciences (CNR-DISBA), National Research Council, P.le Aldo Moro, Roma, 00185, Italy
| | - Ivan A Janssens
- Department of Biology, Centre of Excellence on Plant and Vegetation Ecology (PLECO), University of Antwerp, Wilrijk, B-2610, Belgium
| | - Reinhart Ceulemans
- Department of Biology, Centre of Excellence on Plant and Vegetation Ecology (PLECO), University of Antwerp, Wilrijk, B-2610, Belgium
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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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14
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Aboveground and Belowground Herbivores Synergistically Induce Volatile Organic Sulfur Compound Emissions from Shoots but Not from Roots. J Chem Ecol 2015. [PMID: 26195194 PMCID: PMC4525197 DOI: 10.1007/s10886-015-0601-y] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Studies on aboveground (AG) plant organs have shown that volatile organic compound (VOC) emissions differ between simultaneous attack by herbivores and single herbivore attack. There is growing evidence that interactive effects of simultaneous herbivory also occur across the root-shoot interface. In our study, Brassica rapa roots were infested with root fly larvae (Delia radicum) and the shoots infested with Pieris brassicae, either singly or simultaneously, to study these root-shoot interactions. As an analytical platform, we used Proton Transfer Reaction Mass Spectrometry (PTR-MS) to investigate VOCs over a 3 day time period. Our set-up allowed us to monitor root and shoot emissions concurrently on the same plant. Focus was placed on the sulfur-containing compounds; methanethiol, dimethylsulfide (DMS), and dimethyldisulfide (DMDS), because these compounds previously have been shown to be biologically active in the interactions of Brassica plants, herbivores, parasitoids, and predators, yet have received relatively little attention. The shoots of plants simultaneously infested with AG and belowground (BG) herbivores emitted higher levels of sulfur-containing compounds than plants with a single herbivore species present. In contrast, the emission of sulfur VOCs from the plant roots increased as a consequence of root herbivory, independent of the presence of an AG herbivore. The onset of root emissions was more rapid after damage than the onset of shoot emissions. The shoots of double infested plants also emitted higher levels of methanol. Thus, interactive effects of root and shoot herbivores exhibit more strongly in the VOC emissions from the shoots than from the roots, implying the involvement of specific signaling interactions.
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15
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Dorokhov YL, Shindyapina AV, Sheshukova EV, Komarova TV. Metabolic methanol: molecular pathways and physiological roles. Physiol Rev 2015; 95:603-44. [PMID: 25834233 DOI: 10.1152/physrev.00034.2014] [Citation(s) in RCA: 122] [Impact Index Per Article: 13.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
Methanol has been historically considered an exogenous product that leads only to pathological changes in the human body when consumed. However, in normal, healthy individuals, methanol and its short-lived oxidized product, formaldehyde, are naturally occurring compounds whose functions and origins have received limited attention. There are several sources of human physiological methanol. Fruits, vegetables, and alcoholic beverages are likely the main sources of exogenous methanol in the healthy human body. Metabolic methanol may occur as a result of fermentation by gut bacteria and metabolic processes involving S-adenosyl methionine. Regardless of its source, low levels of methanol in the body are maintained by physiological and metabolic clearance mechanisms. Although human blood contains small amounts of methanol and formaldehyde, the content of these molecules increases sharply after receiving even methanol-free ethanol, indicating an endogenous source of the metabolic methanol present at low levels in the blood regulated by a cluster of genes. Recent studies of the pathogenesis of neurological disorders indicate metabolic formaldehyde as a putative causative agent. The detection of increased formaldehyde content in the blood of both neurological patients and the elderly indicates the important role of genetic and biochemical mechanisms of maintaining low levels of methanol and formaldehyde.
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Affiliation(s)
- Yuri L Dorokhov
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, Russia; and N. I. Vavilov Institute of General Genetics, Russian Academy of Science, Moscow, Russia
| | - Anastasia V Shindyapina
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, Russia; and N. I. Vavilov Institute of General Genetics, Russian Academy of Science, Moscow, Russia
| | - Ekaterina V Sheshukova
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, Russia; and N. I. Vavilov Institute of General Genetics, Russian Academy of Science, Moscow, Russia
| | - Tatiana V Komarova
- A. N. Belozersky Institute of Physico-Chemical Biology, Moscow State University, Moscow, Russia; and N. I. Vavilov Institute of General Genetics, Russian Academy of Science, Moscow, Russia
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16
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Wohlfahrt G, Amelynck C, Ammann C, Arneth A, Bamberger I, Goldstein AH, Gu L, Guenther A, Hansel A, Heinesch B, Holst T, Hörtnagl L, Karl T, Laffineur Q, Neftel A, McKinney K, Munger JW, Pallardy SG, Schade GW, Seco R, Schoon N. An ecosystem-scale perspective of the net land methanol flux: synthesis of micrometeorological flux measurements. ATMOSPHERIC CHEMISTRY AND PHYSICS 2015; 15:2577-2613. [PMID: 25983744 PMCID: PMC4430827 DOI: 10.5194/acpd-15-2577-2015] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
Methanol is the second most abundant volatile organic compound in the troposphere and plays a significant role in atmospheric chemistry. While there is consensus about the dominant role of living plants as the major source and the reaction with OH as the major sink of methanol, global methanol budgets diverge considerably in terms of source/sink estimates reflecting uncertainties in the approaches used to model, and the empirical data used to separately constrain these terms. Here we compiled micrometeorological methanol flux data from eight different study sites and reviewed the corresponding literature in order to provide a first cross-site synthesis of the terrestrial ecosystem-scale methanol exchange and present an independent data-driven view of the land-atmosphere methanol exchange. Our study shows that the controls of plant growth on the production, and thus the methanol emission magnitude, and stomatal conductance on the hourly methanol emission variability, established at the leaf level, hold across sites at the ecosystem-level. Unequivocal evidence for bi-directional methanol exchange at the ecosystem scale is presented. Deposition, which at some sites even exceeds methanol emissions, represents an emerging feature of ecosystem-scale measurements and is likely related to environmental factors favouring the formation of surface wetness. Methanol may adsorb to or dissolve in this surface water and eventually be chemically or biologically removed from it. Management activities in agriculture and forestry are shown to increase local methanol emission by orders of magnitude; they are however neglected at present in global budgets. While contemporary net land methanol budgets are overall consistent with the grand mean of the micrometeorological methanol flux measurements, we caution that the present approach of simulating methanol emission and deposition separately is prone to opposing systematic errors and does not allow taking full advantage of the rich information content of micrometeorological flux measurements.
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Affiliation(s)
- G. Wohlfahrt
- Institute of Ecology, University of Innsbruck, Innsbruck, Austria
- European Academy of Bolzano, Bolzano, Italy
| | - C. Amelynck
- Belgian Institute for Space Aeronomy, Brussels, Belgium
| | - C. Ammann
- Research Station Agroscope, Climate and Air Pollution Group, Zürich, Switzerland
| | - A. Arneth
- Karlsruhe Institute of Technology, IMK-IFU, Garmisch-Partenkirchen, Germany
| | - I. Bamberger
- Karlsruhe Institute of Technology, IMK-IFU, Garmisch-Partenkirchen, Germany
- Institute of Agricultural Sciences, ETH Zürich, Zürich, Switzerland
| | - A. H. Goldstein
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, CA, USA
| | - L. Gu
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - A. Guenther
- Atmospheric Sciences and Global Change Division, Pacific Northwest National Laboratory, Richland, WA, USA
| | - A. Hansel
- Institute of Ion Physics and Applied Physics, University of Innsbruck, Innsbruck, Austria
| | - B. Heinesch
- Exchanges Ecosystems-Atmosphere, Department Biosystem Engineering (BIOSE), University of Liege, Gembloux, Belgium
| | - T. Holst
- Department of Physical Geography and Ecosystem Science, Lund University, Lund, Sweden
| | - L. Hörtnagl
- Institute of Agricultural Sciences, ETH Zürich, Zürich, Switzerland
| | - T. Karl
- Institute of Meteorology and Geophysics, University of Innsbruck, Innsbruck, Austria
| | - Q. Laffineur
- Royal Meteorological Institute, Brussels, Belgium
| | - A. Neftel
- Research Station Agroscope, Climate and Air Pollution Group, Zürich, Switzerland
| | - K. McKinney
- School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA
| | - J. W. Munger
- School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA
| | - S. G. Pallardy
- Department of Forestry, University of Missouri, Columbia, MO, USA
| | - G. W. Schade
- Department of Atmospheric Sciences, Texas A&M University, College Station, TX, USA
| | - R. Seco
- Department of Earth System Science, University of California, Irvine CA 92697, USA
| | - N. Schoon
- Belgian Institute for Space Aeronomy, Brussels, Belgium
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17
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Wohlfahrt G, Amelynck C, Ammann C, Arneth A, Bamberger I, Goldstein AH, Gu L, Guenther A, Hansel A, Heinesch B, Holst T, Hörtnagl L, Karl T, Laffineur Q, Neftel A, McKinney K, Munger JW, Pallardy SG, Schade GW, Seco R, Schoon N. An ecosystem-scale perspective of the net land methanol flux: synthesis of micrometeorological flux measurements. ATMOSPHERIC CHEMISTRY AND PHYSICS 2015. [PMID: 25983744 PMCID: PMC4430827 DOI: 10.5194/acp-15-7413-2015] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Methanol is the second most abundant volatile organic compound in the troposphere and plays a significant role in atmospheric chemistry. While there is consensus about the dominant role of living plants as the major source and the reaction with OH as the major sink of methanol, global methanol budgets diverge considerably in terms of source/sink estimates reflecting uncertainties in the approaches used to model, and the empirical data used to separately constrain these terms. Here we compiled micrometeorological methanol flux data from eight different study sites and reviewed the corresponding literature in order to provide a first cross-site synthesis of the terrestrial ecosystem-scale methanol exchange and present an independent data-driven view of the land-atmosphere methanol exchange. Our study shows that the controls of plant growth on the production, and thus the methanol emission magnitude, and stomatal conductance on the hourly methanol emission variability, established at the leaf level, hold across sites at the ecosystem-level. Unequivocal evidence for bi-directional methanol exchange at the ecosystem scale is presented. Deposition, which at some sites even exceeds methanol emissions, represents an emerging feature of ecosystem-scale measurements and is likely related to environmental factors favouring the formation of surface wetness. Methanol may adsorb to or dissolve in this surface water and eventually be chemically or biologically removed from it. Management activities in agriculture and forestry are shown to increase local methanol emission by orders of magnitude; they are however neglected at present in global budgets. While contemporary net land methanol budgets are overall consistent with the grand mean of the micrometeorological methanol flux measurements, we caution that the present approach of simulating methanol emission and deposition separately is prone to opposing systematic errors and does not allow taking full advantage of the rich information content of micrometeorological flux measurements.
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Affiliation(s)
- G. Wohlfahrt
- Institute of Ecology, University of Innsbruck, Innsbruck, Austria
- European Academy of Bolzano, Bolzano, Italy
| | - C. Amelynck
- Belgian Institute for Space Aeronomy, Brussels, Belgium
| | - C. Ammann
- Research Station Agroscope, Climate and Air Pollution Group, Zürich, Switzerland
| | - A. Arneth
- Karlsruhe Institute of Technology, IMK-IFU, Garmisch-Partenkirchen, Germany
| | - I. Bamberger
- Karlsruhe Institute of Technology, IMK-IFU, Garmisch-Partenkirchen, Germany
- Institute of Agricultural Sciences, ETH Zürich, Zürich, Switzerland
| | - A. H. Goldstein
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, CA, USA
| | - L. Gu
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - A. Guenther
- Atmospheric Sciences and Global Change Division, Pacific Northwest National Laboratory, Richland, WA, USA
| | - A. Hansel
- Institute of Ion Physics and Applied Physics, University of Innsbruck, Innsbruck, Austria
| | - B. Heinesch
- Exchanges Ecosystems-Atmosphere, Department Biosystem Engineering (BIOSE), University of Liege, Gembloux, Belgium
| | - T. Holst
- Department of Physical Geography and Ecosystem Science, Lund University, Lund, Sweden
| | - L. Hörtnagl
- Institute of Agricultural Sciences, ETH Zürich, Zürich, Switzerland
| | - T. Karl
- Institute of Meteorology and Geophysics, University of Innsbruck, Innsbruck, Austria
| | - Q. Laffineur
- Royal Meteorological Institute, Brussels, Belgium
| | - A. Neftel
- Research Station Agroscope, Climate and Air Pollution Group, Zürich, Switzerland
| | - K. McKinney
- School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA
| | - J. W. Munger
- School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA
| | - S. G. Pallardy
- Department of Forestry, University of Missouri, Columbia, MO, USA
| | - G. W. Schade
- Department of Atmospheric Sciences, Texas A&M University, College Station, TX, USA
| | - R. Seco
- Department of Earth System Science, University of California, Irvine CA 92697, USA
| | - N. Schoon
- Belgian Institute for Space Aeronomy, Brussels, Belgium
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18
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Peñuelas J, Asensio D, Tholl D, Wenke K, Rosenkranz M, Piechulla B, Schnitzler JP. Biogenic volatile emissions from the soil. PLANT, CELL & ENVIRONMENT 2014; 37:1866-91. [PMID: 24689847 DOI: 10.1111/pce.12340] [Citation(s) in RCA: 150] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2013] [Revised: 03/10/2014] [Accepted: 03/14/2014] [Indexed: 05/18/2023]
Abstract
Volatile compounds are usually associated with an appearance/presence in the atmosphere. Recent advances, however, indicated that the soil is a huge reservoir and source of biogenic volatile organic compounds (bVOCs), which are formed from decomposing litter and dead organic material or are synthesized by underground living organism or organs and tissues of plants. This review summarizes the scarce available data on the exchange of VOCs between soil and atmosphere and the features of the soil and particle structure allowing diffusion of volatiles in the soil, which is the prerequisite for biological VOC-based interactions. In fact, soil may function either as a sink or as a source of bVOCs. Soil VOC emissions to the atmosphere are often 1-2 (0-3) orders of magnitude lower than those from aboveground vegetation. Microorganisms and the plant root system are the major sources for bVOCs. The current methodology to detect belowground volatiles is described as well as the metabolic capabilities resulting in the wealth of microbial and root VOC emissions. Furthermore, VOC profiles are discussed as non-destructive fingerprints for the detection of organisms. In the last chapter, belowground volatile-based bi- and multi-trophic interactions between microorganisms, plants and invertebrates in the soil are discussed.
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Affiliation(s)
- J Peñuelas
- Global Ecology Unit CREAF-CEAB-CSIC-UAB, CSIC, Catalonia, Spain; CREAF, Catalonia, Spain
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19
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Ripoll J, Urban L, Staudt M, Lopez-Lauri F, Bidel LPR, Bertin N. Water shortage and quality of fleshy fruits--making the most of the unavoidable. JOURNAL OF EXPERIMENTAL BOTANY 2014; 65:4097-117. [PMID: 24821951 DOI: 10.1093/jxb/eru197] [Citation(s) in RCA: 74] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Extreme climatic events, including drought, are predicted to increase in intensity, frequency, and geographic extent as a consequence of global climate change. In general, to grow crops successfully in the future, growers will need to adapt to less available water and to take better advantage of the positive effects of drought. Fortunately, there are positive effects associated with drought. Drought stimulates the secondary metabolism, thereby potentially increasing plant defences and the concentrations of compounds involved in plant quality, particularly taste and health benefits. The role of drought on the production of secondary metabolites is of paramount importance for fruit crops. However, to manage crops effectively under conditions of limited water supply, for example by applying deficit irrigation, growers must consider not only the impact of drought on productivity but also on how plants manage the primary and secondary metabolisms. This question is obviously complex because during water deficit, trade-offs among productivity, defence, and quality depend upon the intensity, duration, and repetition of events of water deficit. The stage of plant development during the period of water deficit is also crucial, as are the effects of other stressors. In addition, growers must rely on relevant indicators of water status, i.e. parameters involved in the relevant metabolic processes, including those affecting quality. Although many reports on the effects of drought on plant function and crop productivity have been published, these issues have not been reviewed thus far. Here, we provide an up-to-date review of current knowledge of the effects of different forms of drought on fruit quality relative to the primary and secondary metabolisms and their interactions. We also review conventional and less conventional indicators of water status that could be used for monitoring purposes, such as volatile compounds. We focus on fruit crops owing to the importance of secondary metabolism in fruit quality and the importance of fruits in the human diet. The issue of defence is also briefly discussed.
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Affiliation(s)
- Julie Ripoll
- INRA - Centre d'Avignon, UR 1115 Plantes et Systèmes de culture Horticoles, Domaine Saint Paul - Site Agroparc, 228 route de l'Aérodrome, CS 40509, 84914 Avignon Cedex 9, France Laboratoire de Physiologie des Fruits et Légumes, Université d'Avignon et des Pays du Vaucluse, Bât. Agrosciences, 301 rue Baruch de Spinoza, B.p. 21239, F-84916 Avignon Cedex 9, France
| | - Laurent Urban
- Laboratoire de Physiologie des Fruits et Légumes, Université d'Avignon et des Pays du Vaucluse, Bât. Agrosciences, 301 rue Baruch de Spinoza, B.p. 21239, F-84916 Avignon Cedex 9, France
| | - Michael Staudt
- Centre d'Ecologie Fonctionnelle et Evolutive Montpellier, CNRS, 1919 Route de Mende, 34293 Montpellier Cedex 5, France
| | - Félicie Lopez-Lauri
- Laboratoire de Physiologie des Fruits et Légumes, Université d'Avignon et des Pays du Vaucluse, Bât. Agrosciences, 301 rue Baruch de Spinoza, B.p. 21239, F-84916 Avignon Cedex 9, France
| | - Luc P R Bidel
- INRA, UMR AGAP, Place P. Viala, F-34060 Montpellier, France
| | - Nadia Bertin
- INRA - Centre d'Avignon, UR 1115 Plantes et Systèmes de culture Horticoles, Domaine Saint Paul - Site Agroparc, 228 route de l'Aérodrome, CS 40509, 84914 Avignon Cedex 9, France
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20
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Komarova TV, Pozdyshev DV, Petrunia IV, Sheshukova EV, Dorokhov YL. Pectin methylesterase-generated methanol may be involved in tobacco leaf growth. BIOCHEMISTRY. BIOKHIMIIA 2014; 79:102-10. [PMID: 24794725 DOI: 10.1134/s0006297914020035] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
Abstract
Plant leaves undergo a sink-source modification of intercellular macromolecular transport during the transition from carbon import to carbon export. After assessing the role of metabolite signaling in gene regulation in Nicotiana tabacum sink and source leaves, we observed increased pectin methylesterase (PME)-mediated methanol generation in immature leaves. Using suppression subtractive hybridization (SSH), we identified a number of genes whose activity changes from sink to source leaves. The most abundant SSH-identified genes appeared to be sensitive to methanol. We hypothesize that tobacco leaf maturation and the sink-source transition are accompanied by a change in mRNA levels of genes that function in methanol-dependent cell signaling.
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Affiliation(s)
- T V Komarova
- Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, 119991, Russia.
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21
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Hann CT, Bequette CJ, Dombrowski JE, Stratmann JW. Methanol and ethanol modulate responses to danger- and microbe-associated molecular patterns. FRONTIERS IN PLANT SCIENCE 2014; 5:550. [PMID: 25360141 PMCID: PMC4197774 DOI: 10.3389/fpls.2014.00550] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2014] [Accepted: 09/25/2014] [Indexed: 05/15/2023]
Abstract
Methanol is a byproduct of cell wall modification, released through the action of pectin methylesterases (PMEs), which demethylesterify cell wall pectins. Plant PMEs play not only a role in developmental processes but also in responses to herbivory and infection by fungal or bacterial pathogens. Molecular mechanisms that explain how methanol affects plant defenses are poorly understood. Here we show that exogenously supplied methanol alone has weak effects on defense signaling in three dicot species, however, it profoundly alters signaling responses to danger- and microbe-associated molecular patterns (DAMPs, MAMPs) such as the alarm hormone systemin, the bacterial flagellum-derived flg22 peptide, and the fungal cell wall-derived oligosaccharide chitosan. In the presence of methanol the kinetics and amplitudes of DAMP/MAMP-induced MAP kinase (MAPK) activity and oxidative burst are altered in tobacco and tomato suspension-cultured cells, in Arabidopsis seedlings and tomato leaf tissue. As a possible consequence of altered DAMP/MAMP signaling, methanol suppressed the expression of the defense genes PR-1 and PI-1 in tomato. In cell cultures of the grass tall fescue (Festuca arundinacea, Poaceae, Monocots), methanol alone activates MAPKs and increases chitosan-induced MAPK activity, and in the darnel grass Lolium temulentum (Poaceae), it alters wound-induced MAPK signaling. We propose that methanol can be recognized by plants as a sign of the damaged self. In dicots, methanol functions as a DAMP-like alarm signal with little elicitor activity on its own, whereas it appears to function as an elicitor-active DAMP in monocot grasses. Ethanol had been implicated in plant stress responses, although the source of ethanol in plants is not well established. We found that it has a similar effect as methanol on responses to MAMPs and DAMPs.
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Affiliation(s)
- Claire T. Hann
- Department of Biological Sciences, University of South CarolinaColumbia, SC, USA
| | - Carlton J. Bequette
- Department of Biological Sciences, University of South CarolinaColumbia, SC, USA
| | - James E. Dombrowski
- National Forage Seed Production Research Center, United States Department of Agriculture – Agricultural Research ServiceCorvallis, OR, USA
| | - Johannes W. Stratmann
- Department of Biological Sciences, University of South CarolinaColumbia, SC, USA
- *Correspondence: Johannes W. Stratmann, Department of Biological Sciences, University of South Carolina, 715 Sumter Street, Columbia, SC 29208, USA e-mail:
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Oikawa PY, Lerdau MT. Catabolism of volatile organic compounds influences plant survival. TRENDS IN PLANT SCIENCE 2013; 18:695-703. [PMID: 24060580 DOI: 10.1016/j.tplants.2013.08.011] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2013] [Revised: 08/26/2013] [Accepted: 08/29/2013] [Indexed: 05/08/2023]
Abstract
Plants emit a diverse array of phytogenic volatile organic compounds (VOCs). The production and emission of VOCs has been an important area of research for decades. However, recent research has revealed the importance of VOC catabolism by plants and VOC degradation in the atmosphere for plant growth and survival. Specifically, VOC catabolism and degradation have implications for plant C balance, tolerance to environmental stress, plant signaling, and plant-atmosphere interactions. Here we review recent advances in our understanding of VOC catabolism and degradation, propose experiments for investigating VOC catabolism, and suggest ways to incorporate catabolism into VOC emission models. Improving our knowledge of VOC catabolism and degradation is crucial for understanding plant metabolism and predicting plant survival in polluted environments.
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Affiliation(s)
- Patricia Y Oikawa
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA.
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