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Lukić I, Markeš M, Butorac A, Delač Salopek D, Horvat I, Jeromel A, Mihaljević Žulj M, Carlin S, Vrhovsek U. Complexity of the effects of pre-fermentation oxygenation, skin contact and use of pectolytic enzymes in white winemaking as revealed by comprehensive proteomics and volatilomics analysis. Food Chem 2024; 440:138266. [PMID: 38150900 DOI: 10.1016/j.foodchem.2023.138266] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2023] [Revised: 12/03/2023] [Accepted: 12/21/2023] [Indexed: 12/29/2023]
Abstract
Ion exchange chromatography and SDS-PAGE followed by identification by MALDI-TOF/TOF, and two-dimensional gas chromatography with time-of-flight mass spectrometry (GC × GC-TOF-MS) were used for comprehensive proteomics and volatilomics evaluation of the effects of pre-fermentative oxygenation, skin contact and use of pectolytic enzymes in production of Malvazija istarska white wine, respectively. Many protein species and an unprecedented number of volatiles have been identified and (semi)quantified, revealing high complexity of the observed effects. Compared to a standard control wine, oxygenation treatment modulated the protein composition and resulted with a volatilome characterized by decreased levels of several important volatiles. Skin contact treatments, especially in combination with pectolytic enzymes, significantly increased the levels of a large number of proteins, but were also deprived of particular protein species found in other wines. Wines obtained by skin contact with exogenous enzymes exhibited the most complex volatile composition with increased levels of many key monoterpenoids, alcohols and esters.
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Affiliation(s)
- Igor Lukić
- Institute of Agriculture and Tourism, Karla Huguesa 8, 52440 Poreč, Croatia; Centre of Excellence for Biodiversity and Molecular Plant Breeding, Svetošimunska 25, 10000 Zagreb, Croatia.
| | - Marina Markeš
- BICRO BIOCentre, Ltd., Borongajska cesta 83 H, 10000 Zagreb, Croatia.
| | - Ana Butorac
- BICRO BIOCentre, Ltd., Borongajska cesta 83 H, 10000 Zagreb, Croatia.
| | - Doris Delač Salopek
- Institute of Agriculture and Tourism, Karla Huguesa 8, 52440 Poreč, Croatia.
| | - Ivana Horvat
- Institute of Agriculture and Tourism, Karla Huguesa 8, 52440 Poreč, Croatia.
| | - Ana Jeromel
- Department of Viticulture and Enology, Faculty of Agriculture, University of Zagreb, Svetošimunska Cesta 25, 10000 Zagreb, Croatia.
| | - Marin Mihaljević Žulj
- Department of Viticulture and Enology, Faculty of Agriculture, University of Zagreb, Svetošimunska Cesta 25, 10000 Zagreb, Croatia.
| | - Silvia Carlin
- Metabolomics Unit, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via Edmund Mach 1, 38098 San Michele all'Adige, Italy.
| | - Urska Vrhovsek
- Metabolomics Unit, Research and Innovation Centre, Fondazione Edmund Mach (FEM), Via Edmund Mach 1, 38098 San Michele all'Adige, Italy.
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Garrido A, Conde A, Serôdio J, De Vos RCH, Cunha A. Fruit Photosynthesis: More to Know about Where, How and Why. PLANTS (BASEL, SWITZERLAND) 2023; 12:2393. [PMID: 37446953 DOI: 10.3390/plants12132393] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2023] [Revised: 06/13/2023] [Accepted: 06/15/2023] [Indexed: 07/15/2023]
Abstract
Not only leaves but also other plant organs and structures typically considered as carbon sinks, including stems, roots, flowers, fruits and seeds, may exhibit photosynthetic activity. There is still a lack of a coherent and systematized body of knowledge and consensus on the role(s) of photosynthesis in these "sink" organs. With regard to fruits, their actual photosynthetic activity is influenced by a range of properties, including fruit anatomy, histology, physiology, development and the surrounding microclimate. At early stages of development fruits generally contain high levels of chlorophylls, a high density of functional stomata and thin cuticles. While some plant species retain functional chloroplasts in their fruits upon subsequent development or ripening, most species undergo a disintegration of the fruit chloroplast grana and reduction in stomata functionality, thus limiting gas exchange. In addition, the increase in fruit volume hinders light penetration and access to CO2, also reducing photosynthetic activity. This review aimed to compile information on aspects related to fruit photosynthesis, from fruit characteristics to ecological drivers, and to address the following challenging biological questions: why does a fruit show photosynthetic activity and what could be its functions? Overall, there is a body of evidence to support the hypothesis that photosynthesis in fruits is key to locally providing: ATP and NADPH, which are both fundamental for several demanding biosynthetic pathways (e.g., synthesis of fatty acids); O2, to prevent hypoxia in its inner tissues including seeds; and carbon skeletons, which can fuel the biosynthesis of primary and secondary metabolites important for the growth of fruits and for spreading, survival and germination of their seed (e.g., sugars, flavonoids, tannins, lipids). At the same time, both primary and secondary metabolites present in fruits and seeds are key to human life, for instance as sources for nutrition, bioactives, oils and other economically important compounds or components. Understanding the functions of photosynthesis in fruits is pivotal to crop management, providing a rationale for manipulating microenvironmental conditions and the expression of key photosynthetic genes, which may help growers or breeders to optimize development, composition, yield or other economically important fruit quality aspects.
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Affiliation(s)
- Andreia Garrido
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal
| | - Artur Conde
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal
| | - João Serôdio
- Centre for Environmental and Marine Studies (CESAM), Department of Biology, University of Aveiro, Campus de Santiago, 3810-193 Aveiro, Portugal
| | - Ric C H De Vos
- Business Unit Bioscience, Wageningen Plant Research, Wageningen University and Research Centre (Wageningen-UR), P.O. Box 16, 6700 AA Wageningen, The Netherlands
| | - Ana Cunha
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Campus de Gualtar, 4710-057 Braga, Portugal
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Moreno D, Alarcón MV, Uriarte D, Mancha LA, Valdés ME. Vine Irrigation through Two Shoot Densities in Flavonoid and Non-Flavonoid Compounds in ‘Tempranillo’ Grapes. PLANTS 2022; 11:plants11101378. [PMID: 35631803 PMCID: PMC9145098 DOI: 10.3390/plants11101378] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/30/2022] [Revised: 05/17/2022] [Accepted: 05/17/2022] [Indexed: 11/20/2022]
Abstract
This study aims to analyze the effects of non-limiting irrigation (I) vs. rainfed (R) through two different shoot densities, high-load (H) and low-load (L), on vegetative growth, agronomic parameters, flavonoid and non-flavonoid polyphenol substances of cv. Tempranillo grown in a semi-arid climate during three consecutive seasons (2014–2016). Under these conditions, in the 2015 and 2016 seasons, irrigation showed significant increases in berry weight (14.7% and 13.4% in H and L, respectively, in 2015, and 35.6% and 23.5% in the same treatments in 2016) and yield (66.7% and 48.5 in 2015; 27.9% and 177.5% in 2016). Additionally, a general decreasing trend is observed in anthocyanins with the exception of peonidin derivates, almost all flavonol compounds, cinnamic acid and resveratrol values with different degrees and statistical significance depending on the shoot density of the vines. A slight variation is observed in 2014 in these parameters. On the other hand, no general trends are established either in flavanol compounds or hydroxybenzoic acid. Thus, the effect of irrigation depends on the parameter considered, the shoot density of the vine and the season considered.
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Affiliation(s)
- Daniel Moreno
- Center for Scientific and Technological Research of Extremadura (CICYTEX), Food and Agriculture Technology Institute of Extremadura (INTAEX), Avenue Adolfo Suárez s/n, 06071 Badajoz, Spain;
| | - María Victoria Alarcón
- Agricultural Research Center “Finca La Orden-Valdesequera”, Center for Scientific and Technological Research of Extremadura (CICYTEX), Crta. A-V, Km 372, 06187 Badajoz, Spain; (M.V.A.); (D.U.); (L.A.M.)
| | - David Uriarte
- Agricultural Research Center “Finca La Orden-Valdesequera”, Center for Scientific and Technological Research of Extremadura (CICYTEX), Crta. A-V, Km 372, 06187 Badajoz, Spain; (M.V.A.); (D.U.); (L.A.M.)
| | - Luis A. Mancha
- Agricultural Research Center “Finca La Orden-Valdesequera”, Center for Scientific and Technological Research of Extremadura (CICYTEX), Crta. A-V, Km 372, 06187 Badajoz, Spain; (M.V.A.); (D.U.); (L.A.M.)
| | - María Esperanza Valdés
- Center for Scientific and Technological Research of Extremadura (CICYTEX), Food and Agriculture Technology Institute of Extremadura (INTAEX), Avenue Adolfo Suárez s/n, 06071 Badajoz, Spain;
- Correspondence: ; Tel.: +34-924012671
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Transcriptomic Analysis of Root Restriction Effects on the Primary Metabolites during Grape Berry Development and Ripening. Genes (Basel) 2022; 13:genes13020281. [PMID: 35205325 PMCID: PMC8872613 DOI: 10.3390/genes13020281] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Revised: 01/23/2022] [Accepted: 01/28/2022] [Indexed: 02/01/2023] Open
Abstract
Root restriction (RR) has been reported to enhance grape berry quality in diverse aspects of grape life. In this study, RR-induced increases in the main primary metabolites in the grape berry and the expression of their related genes were studied at different developmental stages. Mainly the transcriptomic and metabolomic level were analyzed using ‘Summer Black’ grape berry as a material. The main results were as follows: A total of 11 transcripts involved in the primary metabolic pathways were significantly changed by the RR treatment. Metabolites such as sugars, organic acids, amino acids, starch, pectin, and cellulose were qualitatively and quantitatively analyzed along with their metabolic pathways. Sucrose synthase (VIT_07s0005g00750, VIT_11s0016g00470) and sucrose phosphate synthase (VIT_18s0089g00410) were inferred to play critical roles in the accumulation of starch, sucrose, glucose, and fructose, which was induced by the RR treatment. RR treatment also promoted the malic acid and tartaric acid accumulation in the young berry. In addition, the grape berries after the RR treatment tended to have lower pectin and cellulose content.
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Teixeira A, Noronha H, Sebastiana M, Fortes AM, Gerós H. A proteomic analysis shows the stimulation of light reactions and inhibition of the Calvin cycle in the skin chloroplasts of ripe red grape berries. FRONTIERS IN PLANT SCIENCE 2022; 13:1014532. [PMID: 36388544 PMCID: PMC9641181 DOI: 10.3389/fpls.2022.1014532] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Accepted: 09/21/2022] [Indexed: 05/10/2023]
Abstract
The role of photosynthesis in fruits still challenges scientists. This is especially true in the case of mature grape berries of red varieties lined by an anthocyanin-enriched exocarp (skin) almost impermeable to gases. Although chlorophylls are degraded and replaced by carotenoids in several fruits, available evidence suggests that they may persist in red grapes at maturity. In the present study, chloroplasts were isolated from the skin of red grape berries (cv. Vinhão) to measure chlorophyll levels and the organelle proteome. The results showed that chloroplasts (and chlorophylls) are maintained in ripe berries masked by anthocyanin accumulation and that the proteome of chloroplasts from green and mature berries is distinct. Several proteins of the light reactions significantly accumulated in chloroplasts at the mature stage including those of light-harvesting complexes of photosystems I (PSI) and II (PSII), redox chain, and ATP synthase, while chloroplasts at the green stage accumulated more proteins involved in the Calvin cycle and the biosynthesis of amino acids, including precursors of secondary metabolism. Taken together, results suggest that although chloroplasts are more involved in biosynthetic reactions in green berries, at the mature stage, they may provide ATP for cell maintenance and metabolism or even O2 to feed the respiratory demand of inner tissues.
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Affiliation(s)
- António Teixeira
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Braga, Portugal
- *Correspondence: António Teixeira, ; Henrique Noronha,
| | - Henrique Noronha
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Braga, Portugal
- *Correspondence: António Teixeira, ; Henrique Noronha,
| | - Mónica Sebastiana
- BioISI – Instituto de Biosistemas e Ciências Integrativas, Faculdade de Ciências, Universidade de Lisboa, Lisbon, Portugal
| | - Ana Margarida Fortes
- BioISI – Instituto de Biosistemas e Ciências Integrativas, Faculdade de Ciências, Universidade de Lisboa, Lisbon, Portugal
| | - Hernâni Gerós
- Centre of Molecular and Environmental Biology (CBMA), Department of Biology, University of Minho, Braga, Portugal
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Zhang Z, Timmerman E, Impens F, Van Breusegem F. Characterization of RBPome in Oxidative Stress Conditions. Methods Mol Biol 2022; 2526:259-275. [PMID: 35657526 DOI: 10.1007/978-1-0716-2469-2_19] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Cellular redox signaling is triggered by accumulation of various reactive oxygen species (ROS) that integrate with other signaling cascades to enable plants to ultimately respond to (a)biotic stresses. The identification of key regulators underlying redox signaling networks is therefore of high priority. This chapter describes an improved mRNA interactome capture method that allows to systematically detect oxidative stress responsive regulators in the post-transcriptional gene regulation (PTGR) pathway. The protocol includes PSB-D suspension cell culture preparation, setup of oxidative stress conditions, short-term exposure to UV irradiation, cell lysis, pull-down and purification of crosslinked messenger ribonucleoproteins, their mass spectrometric analyses, and identification of proteome by statistical analyses. As result, a comprehensive inventory of the functional oxidative stress responsive RBPome (OxRBPome) is generated, which paves the way toward new insights into PTGR processes in redox signaling.
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Affiliation(s)
- Zhicheng Zhang
- Department of Plant Biotechnology and Bioinformatics, Ghent, Belgium
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium
| | - Evy Timmerman
- VIB Center for Medical Biotechnology, Ghent, Belgium
- UGent Department of Biomolecular Medicine, Ghent, Belgium
- VIB Proteomics Core, Ghent, Belgium
| | - Francis Impens
- VIB Center for Medical Biotechnology, Ghent, Belgium
- UGent Department of Biomolecular Medicine, Ghent, Belgium
- VIB Proteomics Core, Ghent, Belgium
| | - Frank Van Breusegem
- VIB-UGent Center for Plant Systems Biology, Ghent, Belgium.
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium.
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Navarro JM, Botía P, Romero P. Changes in Berry Tissues in Monastrell Grapevines Grafted on Different Rootstocks and Their Relationship with Berry and Wine Phenolic Content. PLANTS (BASEL, SWITZERLAND) 2021; 10:plants10122585. [PMID: 34961055 PMCID: PMC8705433 DOI: 10.3390/plants10122585] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2021] [Revised: 11/11/2021] [Accepted: 11/22/2021] [Indexed: 06/12/2023]
Abstract
Monastrell grapevines grafted on the rootstocks 140Ru, 1103P, 41B, 110R, and 161-49C were subjected to regulated deficit irrigation (RDI) and partial root-zone irrigation (PRI). We analyzed the effects of the rootstock and irrigation method on the phenolic concentration in different berry tissues, its dilution/concentration due to the berry size, the anatomical and morphological traits of berries related to the phenolic compounds concentration, and the relationships of all these parameters with the final berry and wine phenolic content. The rootstock had an important effect on the accumulation of total phenolic compounds and anthocyanins in the skin (berries from 110R and 140Ru had the highest values). Moreover, the rootstock modified some anatomical and morphological characteristics that had a direct relationship with the final phenolic compounds concentration in the must. Large grapes and high must percentages (110R and 140Ru) produced a dilution effect, whereas small berries and a low must percentage increased the concentration (161-49C). For 110R, the small size of the cells of the epidermis and hypodermis in the grapes also could have contributed to the high phenolic compounds concentration in the skin. The percentage of cells in the skin with a uniform coloration was positively correlated with its total phenolic compounds and anthocyanins concentration and also with the phenolic quality of the wine. The PRI modified some specific morphological/anatomical skin/berry traits, and these may have contributed to important changes in the final concentration of phenolic compounds, depending on the rootstock. The better phenolic quality of the must and wines observed in some rootstocks under PRI could be due to smaller cells in the epidermis and hypodermis of the skin (161-49C), a higher percentage of cells with a uniform coloration in the hypodermis (110R), or a lower number of seeds per berry (161-49C). In contrast, the lower phenolic compounds concentration in the must of grapes observed in the most vigorous rootstocks under PRI could be due to a greater thickness of the epidermis (140Ru), greater cuticle thickness (41B), a higher number of seeds (140Ru), a lower skin/pulp ratio and percentage of skin (140Ru), a greater percentage of cells in the epidermis without coloration or with large inclusions, and a lower percentage of cells with a uniform coloration in the epidermis (140Ru). The final quality of the grape is related to some changes in histological and morphological aspects of the grape produced by the rootstock and irrigation strategy.
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8
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Sørensen M, Møller BL. Metabolic Engineering of Photosynthetic Cells – in Collaboration with Nature. Metab Eng 2021. [DOI: 10.1002/9783527823468.ch21] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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Leng F, Duan S, Song S, Zhao L, Xu W, Zhang C, Ma C, Wang L, Wang S. Comparative Metabolic Profiling of Grape Pulp during the Growth Process Reveals Systematic Influences under Root Restriction. Metabolites 2021; 11:metabo11060377. [PMID: 34208022 PMCID: PMC8230651 DOI: 10.3390/metabo11060377] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2021] [Revised: 05/07/2021] [Accepted: 05/13/2021] [Indexed: 11/29/2022] Open
Abstract
The compositions and contents of metabolites in the pulp tissue play critical roles in the fruit quality for table grape. In this study, the effects of root restriction (RR) on the primary and secondary metabolites of pulp tissue at five developmental stages were studied at the metabolomics level, using “Red Alexandria” grape berry (Vitis vinifera L.) as materials. The main results were as follows: 283 metabolites were annotated by using ultra-high performance liquid chromatography-mass spectrometry (UPLC-MS); 28 and 16 primary metabolites contents were increased and decreased, and 11 and 19 secondary metabolites contents were increased and decreased, respectively, along the berry development; RR significantly decreased 12 metabolites (four amino acids and derivatives, three organic acids, four flavonoids and one other compound) contents, and improved 40 metabolites (22 amino acids and derivatives, six nucleotides, four carbohydrates, four cofactors, three cinnamic acids and one other compound) accumulation at the different developmental stages. Altogether, our study would be helpful to increase our understanding of grape berry’s responses to RR stress.
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Affiliation(s)
- Feng Leng
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China; (F.L.); (S.D.); (S.S.); (L.Z.); (W.X.); (C.Z.); (C.M.); (S.W.)
- College of Horticulture and Plant Protection, Yangzhou University, Yangzhou 225009, China
| | - Shuyan Duan
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China; (F.L.); (S.D.); (S.S.); (L.Z.); (W.X.); (C.Z.); (C.M.); (S.W.)
| | - Shiren Song
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China; (F.L.); (S.D.); (S.S.); (L.Z.); (W.X.); (C.Z.); (C.M.); (S.W.)
| | - Liping Zhao
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China; (F.L.); (S.D.); (S.S.); (L.Z.); (W.X.); (C.Z.); (C.M.); (S.W.)
| | - Wenping Xu
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China; (F.L.); (S.D.); (S.S.); (L.Z.); (W.X.); (C.Z.); (C.M.); (S.W.)
| | - Caixi Zhang
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China; (F.L.); (S.D.); (S.S.); (L.Z.); (W.X.); (C.Z.); (C.M.); (S.W.)
| | - Chao Ma
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China; (F.L.); (S.D.); (S.S.); (L.Z.); (W.X.); (C.Z.); (C.M.); (S.W.)
| | - Lei Wang
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China; (F.L.); (S.D.); (S.S.); (L.Z.); (W.X.); (C.Z.); (C.M.); (S.W.)
- Correspondence: ; Tel.: +86-021-5474-0271
| | - Shiping Wang
- Department of Plant Science, School of Agriculture and Biology, Shanghai Jiao Tong University, Shanghai 200240, China; (F.L.); (S.D.); (S.S.); (L.Z.); (W.X.); (C.Z.); (C.M.); (S.W.)
- Key Laboratory of Agro-Products Processing Technology of Shandong, Institute of Agro-Food Science and Technology, Shandong Academy of Agricultural Sciences, Jinan 250100, China
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Arrizabalaga-Arriazu M, Gomès E, Morales F, Irigoyen JJ, Pascual I, Hilbert G. Impact of 2100-Projected Air Temperature, Carbon Dioxide, and Water Scarcity on Grape Primary and Secondary Metabolites of Different Vitis vinifera cv. Tempranillo Clones. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2021; 69:6172-6185. [PMID: 34033469 DOI: 10.1021/acs.jafc.1c01412] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The exploration of the grapevine (Vitis vinifera L.) intra-varietal diversity can be an interesting approach for the adaptation of viticulture to climate change. We evaluated the response of four Tempranillo clones to simulated year-2100-expected air temperature, CO2, and relative humidity (RH) conditions: climate change (CC; 28 °C/18 °C, 700 μmol mol-1 CO2, and 35%/53% RH) vs current situation conditions (CS; 24 °C/14 °C, 400 μmol mol-1 CO2, and 45%/63% RH), under two irrigation regimes, "well-watered" (WW) vs "water deficit" (WD). The treatments were applied to fruit-bearing cuttings grown under research-oriented greenhouse controlled conditions. CC increased sugar accumulation and hastened grape phenology, an effect that was mitigated by water deficit. Both CC and water deficit modified amino acid concentrations and accumulation profiles with different intensities, depending on the clone. Combined CC and water deficit decreased anthocyanins and the anthocyanin to total soluble solids (TSS) ratio. The results suggest differences in the response of the clones to the 2100-projected conditions, which are not always solely explained by differences observed in the ripening dynamics. Among the clones studied, RJ43 and CL306 were the most affected by CC/WD conditions; meanwhile, 1084 was globally less affected than the other clones.
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Affiliation(s)
- Marta Arrizabalaga-Arriazu
- Faculty of Sciences, Plant Stress Physiology Group, Associated Unit to CSIC (EEAD, Zaragoza, and ICVV, Logroño), Universidad de Navarra, Irunlarrea, 1, 31008 Pamplona, Spain
- EGFV, Univ. Bordeaux, Bordeaux Sciences Agro, INRAE, ISVV, F-33882 Villenave d'Ornon, France
| | - Eric Gomès
- EGFV, Univ. Bordeaux, Bordeaux Sciences Agro, INRAE, ISVV, F-33882 Villenave d'Ornon, France
| | - Fermín Morales
- Instituto de Agrobiotecnología (IdAB), Consejo Superior de Investigaciones Científicas (CSIC)-Gobierno de Navarra, Avenida Pamplona 123, 31192 Mutilva, Spain
| | - Juan José Irigoyen
- Faculty of Sciences, Plant Stress Physiology Group, Associated Unit to CSIC (EEAD, Zaragoza, and ICVV, Logroño), Universidad de Navarra, Irunlarrea, 1, 31008 Pamplona, Spain
| | - Inmaculada Pascual
- Faculty of Sciences, Plant Stress Physiology Group, Associated Unit to CSIC (EEAD, Zaragoza, and ICVV, Logroño), Universidad de Navarra, Irunlarrea, 1, 31008 Pamplona, Spain
| | - Ghislaine Hilbert
- EGFV, Univ. Bordeaux, Bordeaux Sciences Agro, INRAE, ISVV, F-33882 Villenave d'Ornon, France
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Burbidge CA, Ford CM, Melino VJ, Wong DCJ, Jia Y, Jenkins CLD, Soole KL, Castellarin SD, Darriet P, Rienth M, Bonghi C, Walker RP, Famiani F, Sweetman C. Biosynthesis and Cellular Functions of Tartaric Acid in Grapevines. FRONTIERS IN PLANT SCIENCE 2021; 12:643024. [PMID: 33747023 PMCID: PMC7970118 DOI: 10.3389/fpls.2021.643024] [Citation(s) in RCA: 26] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/17/2020] [Accepted: 02/09/2021] [Indexed: 05/29/2023]
Abstract
Tartaric acid (TA) is an obscure end point to the catabolism of ascorbic acid (Asc). Here, it is proposed as a "specialized primary metabolite", originating from carbohydrate metabolism but with restricted distribution within the plant kingdom and lack of known function in primary metabolic pathways. Grapes fall into the list of high TA-accumulators, with biosynthesis occurring in both leaf and berry. Very little is known of the TA biosynthetic pathway enzymes in any plant species, although recently some progress has been made in this space. New technologies in grapevine research such as the development of global co-expression network analysis tools and genome-wide association studies, should enable more rapid progress. There is also a lack of information regarding roles for this organic acid in plant metabolism. Therefore this review aims to briefly summarize current knowledge about the key intermediates and enzymes of TA biosynthesis in grapes and the regulation of its precursor, ascorbate, followed by speculative discussion around the potential roles of TA based on current knowledge of Asc metabolism, TA biosynthetic enzymes and other aspects of fruit metabolism.
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Affiliation(s)
| | | | | | - Darren Chern Jan Wong
- Division of Ecology and Evolution, Research School of Biology, The Australian National University, Acton, ACT, Australia
| | - Yong Jia
- Western Barley Genetic Alliance, Murdoch University, Perth, WA, Australia
| | | | - Kathleen Lydia Soole
- College of Science and Engineering, Flinders University, Bedford Park, SA, Australia
| | - Simone Diego Castellarin
- Wine Research Centre, Faculty of Land and Food Systems, The University of British Columbia, Vancouver, BC, Canada
| | - Philippe Darriet
- Université Bordeaux, Unité de recherche OEnologie, EA 4577, USC 1366 INRAE, Institut des Sciences de la Vigne et du Vin, Villenave d’Ornon, France
| | - Markus Rienth
- University of Sciences and Art Western Switzerland, Changins College for Viticulture and Oenology, Nyon, Switzerland
| | - Claudio Bonghi
- Department of Agronomy, Food, Natural Resources, Animals and Environment, University of Padova, Legnaro, Italy
| | - Robert Peter Walker
- Dipartimento di Scienze Agrarie, Alimentari e Ambientali, Università degli Studi di Perugia, Perugia, Italy
| | - Franco Famiani
- Dipartimento di Scienze Agrarie, Alimentari e Ambientali, Università degli Studi di Perugia, Perugia, Italy
| | - Crystal Sweetman
- College of Science and Engineering, Flinders University, Bedford Park, SA, Australia
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12
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Escobar MR, Feussner I, Valle EM. Mitochondrial Small Heat Shock Proteins Are Essential for Normal Growth of Arabidopsis thaliana. FRONTIERS IN PLANT SCIENCE 2021; 12:600426. [PMID: 33643342 PMCID: PMC7902927 DOI: 10.3389/fpls.2021.600426] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2020] [Accepted: 01/04/2021] [Indexed: 05/24/2023]
Abstract
Mitochondria play important roles in the plant stress responses and the detoxification of the reactive oxygen species generated in the electron transport chain. Expression of genes encoding stress-related proteins such as the mitochondrial small heat shock proteins (M-sHSP) is upregulated in response to different abiotic stresses. In Arabidopsis thaliana, three M-sHSPs paralogous genes were identified, although their function under physiological conditions remains elusive. The aim of this work is to uncover the in vivo function of all three M-sHSPs at the whole plant level. To accomplish this goal, we analyzed the phenotype, proteomic, and metabolic profiles of Arabidopsis knock-down lines of M-sHSPs (single, double, and triple knock-down lines) during normal plant growth. The triple knock-down plants showed the most prominent altered phenotype at vegetative and reproductive stages without any externally applied stress. They displayed chlorotic leaves, growth arrest, and low seed production. Concomitantly, they exhibited increased levels of sugars, proline, and citric, malic, and ascorbic acid, among other metabolites. In contrast, single and double knock-down plants displayed a few changes in their phenotype. A redundant function among the three M-sHSPs is indicated by the impairment in vegetative and reproductive growth associated with the simultaneous loss of all three M-sHSPs genes. The triple knock-down lines showed alteration of proteins mainly involved in photosynthesis and antioxidant defense compared to the control plants. On the other hand, heat stress triggered a distinct cytosolic response pattern and the upregulation of other sHSP members, in the knock-down plants. Overall, depletion of all three M-sHSPs in Arabidopsis severely impacted fundamental metabolic processes, leading to alterations in the correct plant growth and development. These findings expand our knowledge about the contribution of organelle-specific M-sHSPs to healthy plant growth under non-stress conditions.
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Affiliation(s)
- Mariela R. Escobar
- Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET-UNR), Rosario, Argentina
| | - Ivo Feussner
- Department of Plant Biochemistry, Albrecht-von-Haller-Institute for Plant Sciences, Göttingen Center for Molecular Biosciences (GZMB), University of Göttingen, Göttingen, Germany
| | - Estela M. Valle
- Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET-UNR), Rosario, Argentina
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13
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Optimization of Protein Extraction of Oenological Interest from Grape Seed Meal Using Design of Experiments and Response Surface Methodology. Foods 2021; 10:foods10010079. [PMID: 33406586 PMCID: PMC7823490 DOI: 10.3390/foods10010079] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2020] [Revised: 12/21/2020] [Accepted: 12/29/2020] [Indexed: 11/17/2022] Open
Abstract
After grape processing, large amounts of seeds are produced as a side product. Grape seeds are rich in proteins that could be extracted and revalorized by the wine industry due to their high techno-functional value for modulating quality features of red wines or as an alternative to the use of other stabilizers, which are also proteins but submitted to legal restrictions. Box–Behnken design and response surface methodology were used to optimize the protein extraction from defatted grape seed meal to maximize the protein purity of the isolate under practical operating conditions of pH, temperature, meal/water ratio and extraction time. The most significant factor was pH, both in the linear and quadratic forms. Additionally, the interaction between pH and temperature exhibited a significant effect on protein content. The removal of phenolic compounds from grapeseed meal, before optimizing protein extraction, led to a significant increase of 7.70% in the protein purity of grape seed protein concentrate. Therefore, grape seeds can be used as a sustainable way for protein production in the oenological sector due to the availability of grape seeds, their low cost as a grape-processing by-product, and the protein purity reached thanks to the described procedure for optimization of protein extraction.
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14
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Lucini L, Miras-Moreno B, Busconi M, Marocco A, Gatti M, Poni S. Molecular basis of rootstock-related tolerance to water deficit in Vitis vinifera L. cv. Sangiovese: A physiological and metabolomic combined approach. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2020; 299:110600. [PMID: 32900438 DOI: 10.1016/j.plantsci.2020.110600] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2020] [Revised: 07/09/2020] [Accepted: 07/14/2020] [Indexed: 06/11/2023]
Abstract
The rootstock M4 (V. vinifera × V. berlandieri) × V. berlandieri cv. Resseguier n.1) is a recent selection reported to confer improved drought tolerance to grafted V. vinifera scions, a very desired feature in the era of global warming. Therefore, a short-term study was performed on a batch of 12 potted cv. Sangiovese vines grafted either on M4 or on the drought susceptible SO4 rootstock. Ecophysiological assessments as whole canopy net CO2 exchange rate (NCER), transpiration (Tc), and pre-dawn leaf water potential (Ψpd) and UHPLC-ESI/QTOF-MS metabolomics were then used to investigate the different vine responses during water limiting conditions. Water stress was induced by applying 50 % of estimated daily water use from days of year 184-208. M4 was able to deliver similar CO2, at a significantly reduced water use, compared to SO4 grafting. In turn, this resulted in enhanced canopy water use efficiency (NCER/Tc ratio) quantified as +15.1 % during water stress and +21.7 % at re-watering. Untargeted metabolomics showed a similar modulation of brassinosteroids and ABA between the two rootstocks, whereas the up accumulation of cytokinins and gibberellins under drought was peculiar of M4 grafted vines. The increase in gibberellins, together with a concurrent down accumulation of chlorophyll precursors and catabolites and an up accumulation of folates in M4 rootstock suggests that the capacity of limiting reactive-oxygen-species and redox imbalance under drought stress was improved. Finally, distinctive osmolyte accumulation patterns could be observed, with SO4 investing more on proline and glycine-betaine content and M4 primarily showing polyols accumulation.
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Affiliation(s)
- Luigi Lucini
- Department for Sustainable Food Process, Università Cattolica del Sacro Cuore, Piacenza, Italy.
| | - Begona Miras-Moreno
- Department for Sustainable Food Process, Università Cattolica del Sacro Cuore, Piacenza, Italy
| | - Matteo Busconi
- Department of Sustainable Crop Production, Università Cattolica del Sacro Cuore, Piacenza, Italy
| | - Adriano Marocco
- Department of Sustainable Crop Production, Università Cattolica del Sacro Cuore, Piacenza, Italy
| | - Matteo Gatti
- Department of Sustainable Crop Production, Università Cattolica del Sacro Cuore, Piacenza, Italy
| | - Stefano Poni
- Department of Sustainable Crop Production, Università Cattolica del Sacro Cuore, Piacenza, Italy
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15
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Chitarrini G, Riccadonna S, Zulini L, Vecchione A, Stefanini M, Larger S, Pindo M, Cestaro A, Franceschi P, Magris G, Foria S, Morgante M, Di Gaspero G, Vrhovsek U. Two-omics data revealed commonalities and differences between Rpv12- and Rpv3-mediated resistance in grapevine. Sci Rep 2020; 10:12193. [PMID: 32699241 PMCID: PMC7376207 DOI: 10.1038/s41598-020-69051-6] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2020] [Accepted: 06/30/2020] [Indexed: 12/19/2022] Open
Abstract
Plasmopara viticola is the causal agent of grapevine downy mildew (DM). DM resistant varieties deploy effector-triggered immunity (ETI) to inhibit pathogen growth, which is activated by major resistance loci, the most common of which are Rpv3 and Rpv12. We previously showed that a quick metabolome response lies behind the ETI conferred by Rpv3 TIR-NB-LRR genes. Here we used a grape variety operating Rpv12-mediated ETI, which is conferred by an independent locus containing CC-NB-LRR genes, to investigate the defence response using GC/MS, UPLC, UHPLC and RNA-Seq analyses. Eighty-eight metabolites showed significantly different concentration and 432 genes showed differential expression between inoculated resistant leaves and controls. Most metabolite changes in sugars, fatty acids and phenols were similar in timing and direction to those observed in Rpv3-mediated ETI but some of them were stronger or more persistent. Activators, elicitors and signal transducers for the formation of reactive oxygen species were early observed in samples undergoing Rpv12-mediated ETI and were paralleled and followed by the upregulation of genes belonging to ontology categories associated with salicylic acid signalling, signal transduction, WRKY transcription factors and synthesis of PR-1, PR-2, PR-5 pathogenesis-related proteins.
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Affiliation(s)
- Giulia Chitarrini
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Samantha Riccadonna
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Luca Zulini
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Antonella Vecchione
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Marco Stefanini
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Simone Larger
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Massimo Pindo
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Alessandro Cestaro
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Pietro Franceschi
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Gabriele Magris
- Dipartimento di Scienze Agroalimentari, Ambientali e Animali, Università di Udine, via delle Scienze 208, 33100, Udine, Italy.,Istituto di Genomica Applicata, via Jacopo Linussio 51, 33100, Udine, Italy
| | - Serena Foria
- Dipartimento di Scienze Agroalimentari, Ambientali e Animali, Università di Udine, via delle Scienze 208, 33100, Udine, Italy
| | - Michele Morgante
- Dipartimento di Scienze Agroalimentari, Ambientali e Animali, Università di Udine, via delle Scienze 208, 33100, Udine, Italy.,Istituto di Genomica Applicata, via Jacopo Linussio 51, 33100, Udine, Italy
| | - Gabriele Di Gaspero
- Istituto di Genomica Applicata, via Jacopo Linussio 51, 33100, Udine, Italy.
| | - Urska Vrhovsek
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy.
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16
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Daldoul S, Boubakri H, Gargouri M, Mliki A. Recent advances in biotechnological studies on wild grapevines as valuable resistance sources for smart viticulture. Mol Biol Rep 2020; 47:3141-3153. [PMID: 32130616 DOI: 10.1007/s11033-020-05363-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2019] [Accepted: 02/28/2020] [Indexed: 12/11/2022]
Abstract
Cultivated grapevines, Vitis vinifera subsp. sativa, are thought to have been domesticated from wild populations of Vitis vinifera subsp. sylvestris in Central Asia. V. vinifera subsp. sativa is one of the most economically important fruit crops worldwide. Since cultivated grapevines are susceptible to multiple biotic and abiotic soil factors, they also need to be grafted on resistant rootstocks that are mostly developed though hybridization between American wild grapevine species (V. berlandieri, V. riparia, and V. rupestris). Therefore, wild grapevine species are essential genetic materials for viticulture to face biotic and abiotic stresses in both cultivar and rootstock parts. Actually, viticulture faces several environmental constraints that are further intensified by climate change. Recently, several reports on biotic and abiotic stresses-response in wild grapevines revealed accessions tolerant to different constraints. The emergence of advanced techniques such as omics technologies, marker-assisted selection (MAS), and functional analysis tools allowed a more detailed characterization of resistance mechanisms in these wild grapevines and suggest a number of species (V. rotundifolia, V. rupestris, V. riparia, V. berlandieri and V. amurensis) have untapped potential for new resistance traits including disease resistance loci and key tolerance genes. The present review reports on the importance of different biotechnological tools in exploring and examining wild grapevines tolerance mechanisms that can be employed to promote elite cultivated grapevines under climate change conditions.
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Affiliation(s)
- Samia Daldoul
- Laboratory of Plant Molecular Physiology, Centre of Biotechnology of Borj-Cedria, BP 901, 2050, Hammam-lif, Tunisia.
| | - Hatem Boubakri
- Laboratory of Legumes, Centre of Biotechnology of Borj-Cedria, 2050, BP 901, Hammam-lif, Tunisia
| | - Mahmoud Gargouri
- Laboratory of Plant Molecular Physiology, Centre of Biotechnology of Borj-Cedria, BP 901, 2050, Hammam-lif, Tunisia
| | - Ahmed Mliki
- Laboratory of Plant Molecular Physiology, Centre of Biotechnology of Borj-Cedria, BP 901, 2050, Hammam-lif, Tunisia
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17
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Knudsen C, Bavishi K, Viborg KM, Drew DP, Simonsen HT, Motawia MS, Møller BL, Laursen T. Stabilization of dhurrin biosynthetic enzymes from Sorghum bicolor using a natural deep eutectic solvent. PHYTOCHEMISTRY 2020; 170:112214. [PMID: 31794881 DOI: 10.1016/j.phytochem.2019.112214] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2019] [Revised: 11/14/2019] [Accepted: 11/16/2019] [Indexed: 06/10/2023]
Abstract
In recent years, ionic liquids and deep eutectic solvents (DESs) have gained increasing attention due to their ability to extract and solubilize metabolites and biopolymers in quantities far beyond their solubility in oil and water. The hypothesis that naturally occurring metabolites are able to form a natural deep eutectic solvent (NADES), thereby constituting a third intracellular phase in addition to the aqueous and lipid phases, has prompted researchers to study the role of NADES in living systems. As an excellent solvent for specialized metabolites, formation of NADES in response to dehydration of plant cells could provide an appropriate environment for the functional storage of enzymes during drought. Using the enzymes catalyzing the biosynthesis of the defense compound dhurrin as an experimental model system, we demonstrate that enzymes involved in this pathway exhibit increased stability in NADES compared with aqueous buffer solutions, and that enzyme activity is restored upon rehydration. Inspired by nature, application of NADES provides a biotechnological approach for long-term storage of entire biosynthetic pathways including membrane-anchored enzymes.
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Affiliation(s)
- Camilla Knudsen
- Plant Biochemistry Laboratory, Department of Plant and Environmental Science, University of Copenhagen, Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; Center for Synthetic Biology "bioSYNergy", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; VILLUM Research Center "Plant Plasticity", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark
| | - Krutika Bavishi
- Plant Biochemistry Laboratory, Department of Plant and Environmental Science, University of Copenhagen, Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; Center for Synthetic Biology "bioSYNergy", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; VILLUM Research Center "Plant Plasticity", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; Department of Molecular Biology and Genetics, Structural Biology, Gustav Wieds Vej 10, 8000, Aarhus C, Denmark
| | - Ketil Mathiasen Viborg
- Plant Biochemistry Laboratory, Department of Plant and Environmental Science, University of Copenhagen, Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; Center for Synthetic Biology "bioSYNergy", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; VILLUM Research Center "Plant Plasticity", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark
| | - Damian Paul Drew
- Plant Biochemistry Laboratory, Department of Plant and Environmental Science, University of Copenhagen, Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; Lyell McEwin Hospital, Elizabeth Vale, SA 5112, Australia
| | - Henrik Toft Simonsen
- Plant Biochemistry Laboratory, Department of Plant and Environmental Science, University of Copenhagen, Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; Department of Biotechnology and Biomedicine, Technical University of Denmark, Søltofts Plads 223, DK-2800, Kgs. Lyngby, Denmark
| | - Mohammed Saddik Motawia
- Plant Biochemistry Laboratory, Department of Plant and Environmental Science, University of Copenhagen, Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; Center for Synthetic Biology "bioSYNergy", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; VILLUM Research Center "Plant Plasticity", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark
| | - Birger Lindberg Møller
- Plant Biochemistry Laboratory, Department of Plant and Environmental Science, University of Copenhagen, Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; Center for Synthetic Biology "bioSYNergy", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; VILLUM Research Center "Plant Plasticity", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; Carlsberg Research Laboratory, J. C. Jacobsen Gade, DK-1799, Copenhagen V, Denmark.
| | - Tomas Laursen
- Plant Biochemistry Laboratory, Department of Plant and Environmental Science, University of Copenhagen, Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; Center for Synthetic Biology "bioSYNergy", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark; VILLUM Research Center "Plant Plasticity", Thorvaldsensvej 40, DK-1871, Frederiksberg C, Copenhagen, Denmark.
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18
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Patil S, Shinde M, Prashant R, Kadoo N, Upadhyay A, Gupta V. Comparative Proteomics Unravels the Differences in Salt Stress Response of Own-Rooted and 110R-Grafted Thompson Seedless Grapevines. J Proteome Res 2019; 19:583-599. [PMID: 31808345 DOI: 10.1021/acs.jproteome.9b00420] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
Thompson Seedless, a commonly grown table grape variety, is sensitive to salinity when grown on its own roots, and therefore, it is frequently grafted onto salinity-tolerant wild grapevine rootstocks. Rising soil salinity is a growing concern in irrigated agricultural systems. The accumulation of salts near the root zone severely hampers plant growth, leading to a decrease in the productive lifespan of grapevine and causing heavy yield losses to the farmer. In the present study, we investigated the differences in response to salinity between own-rooted Thompson Seedless (TSOR) and 110R-grafted Thompson Seedless (TS110R) grapevines, wherein 110R is reported to be a salt-tolerant rootstock. The grapevines were subjected to salt stress by treating them with a 150 mM NaCl solution. The stress-induced changes in protein abundance were investigated using a label-free shotgun proteomics approach at three time-points viz. 6 h, 48 h, and 7 days of salt treatment. A total of 2793 proteins were identified, of which 246 were differentially abundant at various time-points in TSOR and TS110R vines. The abundance of proteins involved in several biological processes such as photosynthesis, amino acid metabolism, translation, chlorophyll biosynthesis, and generation of precursor metabolites was significantly affected by salt stress in both the vines but at different stages of stress. The results revealed that TSOR vines responded fervently to salt stress, while TS110R vines adopted a preventive approach. The findings of this study add to the knowledge of salinity response in woody and grafted plants and hence open the scope for further studies on salt stress-specific differences induced by grafting.
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Affiliation(s)
- Sucheta Patil
- Biochemical Sciences Division , CSIR-National Chemical Laboratory , Pune 411008 , India.,Academy of Scientific and Innovative Research , Ghaziabad 201002 , India
| | - Manisha Shinde
- ICAR-National Research Centre for Grapes , Pune 412307 , India
| | - Ramya Prashant
- Biochemical Sciences Division , CSIR-National Chemical Laboratory , Pune 411008 , India
| | - Narendra Kadoo
- Biochemical Sciences Division , CSIR-National Chemical Laboratory , Pune 411008 , India.,Academy of Scientific and Innovative Research , Ghaziabad 201002 , India
| | | | - Vidya Gupta
- Biochemical Sciences Division , CSIR-National Chemical Laboratory , Pune 411008 , India.,Academy of Scientific and Innovative Research , Ghaziabad 201002 , India
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19
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Bielsa B, Sanz MÁ, Rubio-Cabetas MJ. Uncovering early response to drought by proteomic, physiological and biochemical changes in the almond × peach rootstock 'Garnem'. FUNCTIONAL PLANT BIOLOGY : FPB 2019; 46:994-1008. [PMID: 31526467 DOI: 10.1071/fp19050] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/14/2019] [Accepted: 06/15/2019] [Indexed: 06/10/2023]
Abstract
Drought affects growth and metabolism in plants. To investigate the changes in root protein function involved in the early response to drought stress, a proteomic analysis in combination to a physiological and biochemical analysis was performed in plants of 'Garnem', an almond × peach hybrid rootstock, subjected to short-term drought stress. Abscisic acid (ABA) accumulation levels increased during the drought exposure, which induced stomatal closure, and thus, minimised water losses. These effects were reflected in stomatal conductance and leaf water potential levels. However, 'Garnem' was able to balance water content and maintain an osmotic adjustment in cell membranes, suggesting a dehydration avoidance strategy. The proteomic analysis revealed significant abundance changes in 29 and 24 spots after 2 and 24 h of drought stress respectively. Out of these, 15 proteins were identified by LC-ESI-MS/MS. The abundance changes of these proteins suggest the influence in drought-responsive mechanisms present in 'Garnem', allowing its adaptation to drought conditions. Overall, our study improves existing knowledge on the root proteomic changes in the early response to drought. This will lead to a better understanding of dehydration avoidance and tolerance strategies, and finally, help in new drought-tolerance breeding approaches.
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Affiliation(s)
- Beatriz Bielsa
- Unidad de Hortofruticultura, Centro de Investigación y Tecnología Agroalimentaria de Aragón (CITA) - IA2 (CITA-Universidad de Zaragoza), Av. Montañana 930, 50059, Zaragoza, Spain
| | - María Á Sanz
- Área de Laboratorios de Análisis y Asistencia Tecnológica, Centro de Investigación y Tecnología Agroalimentaria de Aragón (CITA), Av. Montañana 930, 50059, Zaragoza, Spain
| | - María J Rubio-Cabetas
- Unidad de Hortofruticultura, Centro de Investigación y Tecnología Agroalimentaria de Aragón (CITA) - IA2 (CITA-Universidad de Zaragoza), Av. Montañana 930, 50059, Zaragoza, Spain; and Corresponding author.
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20
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Kuang L, Chen S, Guo Y, Ma H. Quantitative Proteome Analysis Reveals Changes in the Protein Landscape During Grape Berry Development With a Focus on Vacuolar Transport Proteins. FRONTIERS IN PLANT SCIENCE 2019; 10:641. [PMID: 31156689 PMCID: PMC6530609 DOI: 10.3389/fpls.2019.00641] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2019] [Accepted: 04/29/2019] [Indexed: 05/08/2023]
Abstract
The vacuole plays a central role in fruit growth and quality formation, yet its proteomic landscape is largely unknown. In the present study, a protocol for isolating intact vacuoles from grape flesh tissue was successfully established. Quantitative proteome analysis identified 2533 proteins from five sampling dates along Cabernet Sauvignon berry development from stage I to III; among them, 1443 proteins were identified on all five sampling dates in at least two biological replicates per sample and were designated core proteome, and 1820 were recruited as differentially abundant proteins (DAPs) by sequential pairwise comparisons using arbitrary fold change of >1.5 and P < 0.05. Metabolism consistently constituted the largest category of identified proteins for both core proteome and DAPs, together with a consistently high proportion of protein-fate category proteins, indicating that the classic lytic functions of vegetative cell vacuoles are maintained throughout berry development; accumulation of metabolites involved in high sugar and other berry qualities in the late developmental stage added to the conventional lytic role of the flesh cell vacuoles. Overall increases in abundance of the DAPs were seen in the transporter proteins, membrane fusion/vesicle trafficking, and protein-fate categories, and decreased abundance was seen for DAPs in the stress, energy and cytoskeleton categories as berry development progressed. A very pronounced proteomic change was revealed between late stage I and mid stage II, with 915 increased and 114 decreased DAPs, demonstrating a significant surge of the vacuolar proteome underlying the rather static phenotypical and physiological phase. We identified 161 transport proteins with differential abundance, including proton pumps, aquaporins, sugar transporters, ATP-binding cassette transporters and ion transport proteins, together with organic compound transport proteins, the highest number and variety of berry tonoplast transporters found in grape proteome efforts to date. We further found a pre-positive increment of 96 transport proteins from the middle of stage II, before the berry undergoes its dramatic physiological changes at and following véraison. Our results are the first to describe the proteome of a vacuole-enriched preparation, toward understanding the functions of the largest compartment in berry cells during grape growth and ripening.
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Affiliation(s)
- Liuqing Kuang
- Department of Fruit Tree Sciences, College of Horticulture, China Agricultural University, Beijing, China
| | - Shangwu Chen
- College of Food Science and Nutritional Engineering, China Agricultural University, Beijing, China
| | - Yan Guo
- College of Biological Sciences, China Agricultural University, Beijing, China
| | - Huiqin Ma
- Department of Fruit Tree Sciences, College of Horticulture, China Agricultural University, Beijing, China
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21
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Catacchio CR, Alagna F, Perniola R, Bergamini C, Rotunno S, Calabrese FM, Crupi P, Antonacci D, Ventura M, Cardone MF. Transcriptomic and genomic structural variation analyses on grape cultivars reveal new insights into the genotype-dependent responses to water stress. Sci Rep 2019; 9:2809. [PMID: 30809001 PMCID: PMC6391451 DOI: 10.1038/s41598-019-39010-x] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2018] [Accepted: 12/12/2018] [Indexed: 12/29/2022] Open
Abstract
Grapevine (Vitis vinifera L.) is importantly cultivated worldwide for table grape and wine production. Its cultivation requires irrigation supply, especially in arid and semiarid areas. Water deficiency can affect berry and wine quality mostly depending on the extent of plant perceived stress, which is a cultivar-specific trait. We tested the physiological and molecular responses to water deficiency of two table grape cultivars, Italia and Autumn royal, and we highlighted their different adaptation. Microarray analyses revealed that Autumn royal reacts involving only 29 genes, related to plant stress response and ABA/hormone signal transduction, to modulate the response to water deficit. Instead, cultivar Italia orchestrates a very broad response (we found 1037 differentially expressed genes) that modifies the cell wall organization, carbohydrate metabolism, response to reactive oxygen species, hormones and osmotic stress. For the first time, we integrated transcriptomic data with cultivar-specific genomics and found that ABA-perception and -signalling are key factors mediating the varietal-specific behaviour of the early response to drought. We were thus able to isolate candidate genes for the genotype-dependent response to drought. These insights will allow the identification of reliable plant stress indicators and the definition of sustainable cultivar-specific protocols for water management.
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Affiliation(s)
- C R Catacchio
- Dipartimento di Biologia, Università degli Studi di Bari "Aldo Moro", Bari, Italy
| | - F Alagna
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CREA), Centro di ricerca Viticoltura ed Enologia, Turi (BA), Italy
- ENEA, Agenzia nazionale per le nuove tecnologie, l'energia e lo sviluppo economico sostenibile, Centro Ricerche Trisaia, Rotondella (MT), Italy
| | - R Perniola
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CREA), Centro di ricerca Viticoltura ed Enologia, Turi (BA), Italy
| | - C Bergamini
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CREA), Centro di ricerca Viticoltura ed Enologia, Turi (BA), Italy
| | - S Rotunno
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CREA), Centro di ricerca Viticoltura ed Enologia, Turi (BA), Italy
| | - F M Calabrese
- Dipartimento di Biologia, Università degli Studi di Bari "Aldo Moro", Bari, Italy
| | - P Crupi
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CREA), Centro di ricerca Viticoltura ed Enologia, Turi (BA), Italy
| | - D Antonacci
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CREA), Centro di ricerca Viticoltura ed Enologia, Turi (BA), Italy
| | - M Ventura
- Dipartimento di Biologia, Università degli Studi di Bari "Aldo Moro", Bari, Italy.
| | - M F Cardone
- Consiglio per la ricerca in agricoltura e l'analisi dell'economia agraria (CREA), Centro di ricerca Viticoltura ed Enologia, Turi (BA), Italy.
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Carpentieri A, Sebastianelli A, Melchiorre C, Pinto G, Staropoli A, Trifuoggi M, Amoresano A. Mass spectrometry based proteomics for the molecular fingerprinting of Fiano, Greco and Falanghina cultivars. Food Res Int 2019; 120:26-32. [PMID: 31000238 DOI: 10.1016/j.foodres.2019.02.020] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2018] [Revised: 12/20/2018] [Accepted: 02/08/2019] [Indexed: 02/06/2023]
Abstract
The official methodologies used for the identification and comparison of vine cultivars are ampelography and ampelometry. These methodologies are essentially based on qualitative assessments or biometric dependent morphological features of the plant. The heterogeneity of cultivars and consequently the increasing demand for a more detailed product typization, led to the introduction of new methodologies for the varietal characterization. In this scenario, proteomics has already proved to be a very useful discipline for the typization of many kinds of edible products. In this paper, we present a proteomic study carried out on three cultivars of Vitis vinifera peculiar of south Italy (Campania) used for white wine production (Fiano, Greco and Falanghina) by advanced biomolecular mass spectrometry approach. Our data highlight variations in the proteomic profiles during ripening for each cultivar and between analyzed cultivars, thus suggesting a new way to outline the biomolecular signature of vines.
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Affiliation(s)
- Andrea Carpentieri
- Department of Chemical Sciences, University of Naples Federico II, Italy.
| | | | - Chiara Melchiorre
- Department of Chemical Sciences, University of Naples Federico II, Italy
| | - Gabriella Pinto
- Department of Chemical Sciences, University of Naples Federico II, Italy
| | - Alessia Staropoli
- Department of Chemical Sciences, University of Naples Federico II, Italy
| | - Marco Trifuoggi
- Department of Chemical Sciences, University of Naples Federico II, Italy
| | - Angela Amoresano
- Department of Chemical Sciences, University of Naples Federico II, Italy
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23
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Jack CN, Rowe SL, Porter SS, Friesen ML. A high-throughput method of analyzing multiple plant defensive compounds in minimized sample mass. APPLICATIONS IN PLANT SCIENCES 2019; 7:e01210. [PMID: 30693156 PMCID: PMC6342235 DOI: 10.1002/aps3.1210] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/10/2018] [Accepted: 11/19/2018] [Indexed: 06/09/2023]
Abstract
PREMISE OF THE STUDY Current methods for quantifying herbivore-induced alterations in plant biochemistry are often unusable by researchers due to practical constraints. We present a cost-effective, high-throughput protocol to quantify multiple biochemical responses from small plant tissue samples using spectrophotometric techniques. METHODS AND RESULTS Using Solanum lycopersicum and Medicago polymorpha leaves pre- and post-herbivory, we demonstrate that our protocol quantifies common plant defense responses: peroxidase production, polyphenol oxidase production, reactive oxygen species production, total protein production, and trypsin-like protease inhibition activity. CONCLUSIONS Current protocols can require 500 mg of tissue, but our assays detect activity in less than 10 mg. Our protocol takes two people 6 h to run any of the assays on 300 samples in triplicate, or all of the assays on 20 samples. Our protocol enables researchers to plan complex experiments that compare local versus systemic plant responses, quantify environmental and genetic variation, and measure population-level variation.
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Affiliation(s)
- Chandra N. Jack
- Department of Plant PathologyWashington State UniversityPullmanWashington99164USA
| | - Shawna L. Rowe
- Department of Plant BiologyMichigan State UniversityEast LansingMichigan48824USA
| | - Stephanie S. Porter
- School of Biological SciencesWashington State UniversityVancouverWashington98686USA
| | - Maren L. Friesen
- Department of Plant PathologyWashington State UniversityPullmanWashington99164USA
- Department of Crop and Soil SciencesWashington State UniversityPullmanWashington99164USA
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24
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Torres N, Goicoechea N, Zamarreño AM, Carmen Antolín M. Mycorrhizal symbiosis affects ABA metabolism during berry ripening in Vitis vinifera L. cv. Tempranillo grown under climate change scenarios. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2018; 274:383-393. [PMID: 30080626 DOI: 10.1016/j.plantsci.2018.06.009] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/09/2018] [Revised: 05/15/2018] [Accepted: 06/14/2018] [Indexed: 06/08/2023]
Abstract
Arbuscular mycorrhizal symbiosis is a promising tool for improving the quality of grapes under changing environments. Therefore, the aim of this research was to determine if the ability of arbuscular mycorrhizal fungi (AMF) to enhance phenolic content (specifically, anthocyanins) in a climate change framework could be mediated by alterations in berry ABA metabolism during ripening. The study was carried out on fruit-bearing cuttings of cv. Tempranillo (CL-1048 and CL-1089) inoculated (+M) or not (-M) with AMF. Two experimental designs were implemented. In the first experiment +M and -M plants were subjected to two temperatures (24/14 °C or 28/18 °C (day/night)) from fruit set to berry maturity. In the second experiment, +M and -M plants were subjected to two temperatures (24/14 °C or 28/18 °C (day/night)) combined with two irrigation regimes (late water deficit (LD) and full irrigation (FI)). At 28/18 °C AMF contributed to an increase in berry anthocyanins and modulated ABA metabolism, leading to higher ABA-GE and 7'OH-ABA and lower phaseic acid (PA) in berries compared to -M plants. Under the most stressful scenario (LD and 28/18 °C), at harvest +M plants exhibited higher berry anthocyanins and 7´OH-ABA and lower PA and dihydrophaseic acid (DPA) levels than -M plants. These findings highlight the involvement of ABA metabolism into the ability of AMF to improve some traits involved in the quality of grapes under global warming scenarios.
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Affiliation(s)
- Nazareth Torres
- Universidad de Navarra, Facultades de Ciencias y Farmacia y Nutrición, Grupo de Fisiología del Estrés en Plantas (Departamento de Biología Ambiental), Unidad Asociada al CSIC (EEAD, Zaragoza, ICVV, Logroño), c/ Irunlarrea 1, 31008, Pamplona, Spain
| | - Nieves Goicoechea
- Universidad de Navarra, Facultades de Ciencias y Farmacia y Nutrición, Grupo de Fisiología del Estrés en Plantas (Departamento de Biología Ambiental), Unidad Asociada al CSIC (EEAD, Zaragoza, ICVV, Logroño), c/ Irunlarrea 1, 31008, Pamplona, Spain
| | - Angel M Zamarreño
- Universidad de Navarra, Facultades de Ciencias y Farmacia y Nutrición, Grupo de Biología y Química Agrícola (Departamento de Biología Ambiental), c/ Irunlarrea 1, 31008, Pamplona, Spain
| | - M Carmen Antolín
- Universidad de Navarra, Facultades de Ciencias y Farmacia y Nutrición, Grupo de Fisiología del Estrés en Plantas (Departamento de Biología Ambiental), Unidad Asociada al CSIC (EEAD, Zaragoza, ICVV, Logroño), c/ Irunlarrea 1, 31008, Pamplona, Spain.
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25
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Prinsi B, Negri AS, Failla O, Scienza A, Espen L. Root proteomic and metabolic analyses reveal specific responses to drought stress in differently tolerant grapevine rootstocks. BMC PLANT BIOLOGY 2018; 18:126. [PMID: 29925320 PMCID: PMC6011575 DOI: 10.1186/s12870-018-1343-0] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Accepted: 06/06/2018] [Indexed: 05/15/2023]
Abstract
BACKGROUND Roots play a central role in plant response to water stress (WS). They are involved in its perception and signalling to the leaf as well as in allowing the plant to adapt to maintaining an adequate water balance. Only a few studies have investigated the molecular/biochemical responses to WS in roots of perennial plants, such as grapevine. This study compares two grapevine rootstock genotypes (i.e. 101.14 and M4) with different tolerance to WS, evaluating the responses at proteomic and metabolite levels. RESULTS WS induced changes in the abundance of several proteins in both genotypes (17 and 22% of the detected proteins in 101.14 and M4, respectively). The proteomic analysis revealed changes in many metabolic pathways that fitted well with the metabolite data. M4 showed metabolic responses which were potentially able to counteract the WS effects, such as the drop in cell turgor, increased oxidative stress and loss of cell structure integrity/functionality. However, in 101.14 it was evident that the roots were suffering more severely from these effects. We found that many proteins classified as active in energy metabolism, hormone metabolism, protein, secondary metabolism and stress functional classes showed particular differences between the two rootstocks. CONCLUSION The proteomic/metabolite comparative analysis carried out provides new information on the possible biochemical and molecular strategies adopted by grapevine roots to counteract WS. Although further work is needed to define in detail the role(s) of the proteins and metabolites that characterize WS response, this study, involving the M4 rootstock genotype, highlights that osmotic responses, modulations of C metabolism, mitochondrial functionality and some specific responses to stress occurring in the roots play a primary role in Vitis spp. tolerance to this type of abiotic stress.
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Affiliation(s)
- Bhakti Prinsi
- Dipartimento di Scienze Agrarie e Ambientali - Produzione, Territorio, Agroenergia (DiSAA), Università degli Studi di Milano, Via Celoria, 2, 20133 Milano, Italy
| | - Alfredo Simone Negri
- Dipartimento di Scienze Agrarie e Ambientali - Produzione, Territorio, Agroenergia (DiSAA), Università degli Studi di Milano, Via Celoria, 2, 20133 Milano, Italy
| | - Osvaldo Failla
- Dipartimento di Scienze Agrarie e Ambientali - Produzione, Territorio, Agroenergia (DiSAA), Università degli Studi di Milano, Via Celoria, 2, 20133 Milano, Italy
| | - Attilio Scienza
- Dipartimento di Scienze Agrarie e Ambientali - Produzione, Territorio, Agroenergia (DiSAA), Università degli Studi di Milano, Via Celoria, 2, 20133 Milano, Italy
| | - Luca Espen
- Dipartimento di Scienze Agrarie e Ambientali - Produzione, Territorio, Agroenergia (DiSAA), Università degli Studi di Milano, Via Celoria, 2, 20133 Milano, Italy
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26
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Shotgun proteomic analysis of photoperiod regulated dormancy induction in grapevine. J Proteomics 2018; 187:13-24. [PMID: 29857064 DOI: 10.1016/j.jprot.2018.05.014] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2017] [Revised: 04/24/2018] [Accepted: 05/23/2018] [Indexed: 11/22/2022]
Abstract
Certain grapevine genotypes become dormant in response to decreasing photoperiod and others require low temperature or both environmental cues to induce dormancy. This study used a proteomic approach to gain an understanding of the underlying molecular events involved in bud dormancy commitment. Two F2 siblings (F2-110 and F2-040) with differences in photoperiod induced dormancy responsiveness were subjected to long day (LD, 15 h, paradormancy maintenance or dormancy inhibition) or short day (SD, 13 h, endodormancy commitment) treatment. Proteins were extracted at two time points (28 days and 42 days) of LD and SD photoperiod exposure, and label-free quantitative shotgun proteomic analysis was performed for three biological replicates of each treatment and time point. A total of 1577 non-redundant proteins were identified in the combined dataset of eight different conditions (2 genotypes, 2 photoperiods and 2 timepoints, available via ProteomeXchange with identifier PXD001627). Genotype specific patterns of budbreak and protein expression were detected in response to the differential photoperiod treatment at the two time points. Peroxidases, dehydrogenases and superoxide dismutases were more abundant at 42 SD than at 28 SD in the dormancy responsive F2-110, suggesting that oxidative stress response related proteins could be markers of endodormancy commitment in grapevine buds.
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27
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Drought-tolerant and drought-sensitive genotypes of maize (Zea mays L.) differ in contents of endogenous brassinosteroids and their drought-induced changes. PLoS One 2018; 13:e0197870. [PMID: 29795656 PMCID: PMC5967837 DOI: 10.1371/journal.pone.0197870] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2018] [Accepted: 05/09/2018] [Indexed: 01/24/2023] Open
Abstract
The contents of endogenous brassinosteroids (BRs) together with various aspects of plant morphology, water management, photosynthesis and protection against cell damage were assessed in two maize genotypes that differed in their drought sensitivity. The presence of 28-norbrassinolide in rather high quantities (1-2 pg mg-1 fresh mass) in the leaves of monocot plants is reported for the first time. The intraspecific variability in the presence/content of the individual BRs in drought-stressed plants is also described for the first time. The drought-resistant genotype was characterised by a significantly higher content of total endogenous BRs (particularly typhasterol and 28-norbrassinolide) compared with the drought-sensitive genotype. On the other hand, the drought-sensitive genotype showed higher levels of 28-norcastasterone. Both genotypes also differed in the drought-induced reduction/elevation of the levels of 28-norbrassinolide, 28-norcastasterone, 28-homocastasterone and 28-homodolichosterone. The differences observed between both genotypes in the endogenous BR content are probably correlated with their different degrees of drought sensitivity, which was demonstrated at various levels of plant morphology, physiology and biochemistry.
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28
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Thangella PAV, Pasumarti SNBS, Pullakhandam R, Geereddy BR, Daggu MR. Differential expression of leaf proteins in four cultivars of peanut ( Arachis hypogaea L.) under water stress. 3 Biotech 2018; 8:157. [PMID: 29515963 PMCID: PMC5834407 DOI: 10.1007/s13205-018-1180-8] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2017] [Accepted: 02/20/2018] [Indexed: 11/25/2022] Open
Abstract
Drought is a major constraint to the productivity of many crops affecting various physiological and biochemical processes. Seventy percent of the peanuts are grown in semiarid tropics that are frequently prone to drought stress. So, we analyzed its effect in 4 cultivars of peanut, with different degrees of drought tolerance, under 10 and 20 days of water stress using two-dimensional gel electrophoresis and mass spectrometry. A total of 189 differentially expressed protein spots were identified in the leaf proteome of all the 4 cultivars using PD Quest Basic software; 74 in ICGV 91114, 41 in ICGS 76, 44 in J 11 and 30 in JL 24. Of these, 30 protein spots were subjected to in-gel trypsin digestion followed by MALDI-TOF that are functionally categorized into 5 groups: molecular chaperones, signal transducers, photosynthetic proteins, defense proteins and detoxification proteins. Of these, 12 proteins were sequenced. Late embryogenesis abundant protein, calcium ion binding protein, sucrose synthase isoform-1, 17.3 kDa heat shock protein and structural maintenance of chromosome proteins were overexpressed only in the 15 and 20 days stressed plants of ICGV 91114 cultivar while cytosolic ascorbate peroxidase was expressed with varying levels in the 10 and 20 days stressed plants of all the 4 cultivars. Signaling protein like 14-3-3 and defense proteins like alpha-methyl-mannoside-specific lectin and mannose/glucose-binding lectins were differentially expressed in the 4 cultivars. Photosynthetic protein like Rubisco was down-regulated in the stressed plants of all 4 cultivars while Photosystem-I reaction center subunit-II of chloroplast precursor protein was overexpressed in only 20 days stressed plants of ICGV 91114, ICGS 76 and J11 cultivars. These differentially expressed proteins could potentially be used as protein markers for screening the peanut germplasm and further crop improvement.
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Affiliation(s)
- Padmavathi A. V. Thangella
- Department of Genetics, Osmania University, Hyderabad, India
- Department of Microbiology and Plant Biology, University of Oklahoma, Norman, OK USA
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29
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Riebel M, Fronk P, Distler U, Tenzer S, Decker H. Proteomic profiling of German Dornfelder grape berries using data-independent acquisition. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2017; 118:64-70. [PMID: 28618374 DOI: 10.1016/j.plaphy.2017.06.003] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/14/2017] [Revised: 05/29/2017] [Accepted: 06/01/2017] [Indexed: 06/07/2023]
Abstract
Grapevine is one of the most important fruit plants throughout the world. Sequencing of the grape genome in 2007 enabled in-depth analyses of the grape proteome. Whereas many studies addressed changes in proteomic composition of grapes during ripening, we focused on the proteome of mature grape berries from Dornfelder, a characteristic red wine grape for Germany. Current data-independent acquisition proteomics technology enables the analysis of proteomic compositions in a degree of accuracy that was unreachable only a few years ago. Using a label-free proteomics approach, we quantified 712 proteins in mature Dornfelder grape berries, of which 650 could be annotated by the Blast2GO software. Besides identification of proteins, our analysis provides protein amounts using the TOP3 absolute quantification approach. Most of the proteins (200) in mature Dornfelder grape berries are involved in stress response. In addition, all glycolytic key enzymes were detected in mature grape berries suggesting that glycolysis is still active, whereas sugar accumulation through gluconeogenesis utilizing malate as substrate seems to play a minor role.
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Affiliation(s)
- Matthias Riebel
- Institute for Molecular Physiology, Molecular Biophysics, Johannes Gutenberg University Mainz, Jakob-Welder-Weg, 26, D-55128 Mainz, Germany.
| | - Petra Fronk
- Institute for Molecular Physiology, Molecular Biophysics, Johannes Gutenberg University Mainz, Jakob-Welder-Weg, 26, D-55128 Mainz, Germany.
| | - Ute Distler
- Institute for Immunology, University Medical Center of the Johannes Gutenberg University Mainz, Langenbeckstr. 1, D-55131 Mainz, Germany.
| | - Stefan Tenzer
- Institute for Immunology, University Medical Center of the Johannes Gutenberg University Mainz, Langenbeckstr. 1, D-55131 Mainz, Germany.
| | - Heinz Decker
- Institute for Molecular Physiology, Molecular Biophysics, Johannes Gutenberg University Mainz, Jakob-Welder-Weg, 26, D-55128 Mainz, Germany.
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30
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Li R, Xie X, Ma F, Wang D, Wang L, Zhang J, Xu Y, Wang X, Zhang C, Wang Y. Resveratrol accumulation and its involvement in stilbene synthetic pathway of Chinese wild grapes during berry development using quantitative proteome analysis. Sci Rep 2017; 7:9295. [PMID: 28839259 PMCID: PMC5571159 DOI: 10.1038/s41598-017-10171-x] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2016] [Accepted: 08/03/2017] [Indexed: 12/18/2022] Open
Abstract
Attention has become focused on resveratrol not only because of its role in grapevine fungal resistance but also because of its benefits in human health. This report describes the Chinese wild grapevine Vitis quinquangularis accession Danfeng-2 in relation to the high resveratrol content of its ripe berries. In this study, we used isobaric tags for relative and absolute quantification (iTRAQ) tandem mass spectrometry strategy to quantify and identify proteome changes, resulting in the detection of a total of 3,751 proteins produced under natural conditions. Among the proteins quantified, a total of 578 differentially expressed proteins were detected between Danfeng-2 and Cabernet Sauvignon during berry development. Differentially expressed proteins are involved in secondary metabolism, biotic stress, abiotic stress and transport activity and indicate novel biological processes in Chinese wild grapevine. Eleven proteins involved in phenylpropanoid metabolism and stilbene synthesis were differently expressed between Danfeng-2 and Cabernet Sauvignon at the veraison stage of berry development. These findings suggest that Chinese wild V. quinquangularis accession Danfeng-2 is an extremely important genetic resource for grape breeding and especially for increasing the resveratrol content of European grape cultivars for disease resistance and for improved human nutritional benefits.
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Affiliation(s)
- Ruimin Li
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
- Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, The People's Republic of China
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
| | - Xiaoqing Xie
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
- Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, The People's Republic of China
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
| | - Fuli Ma
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
- Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, The People's Republic of China
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
| | - Dan Wang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
- Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, The People's Republic of China
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
| | - Lan Wang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
- Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, The People's Republic of China
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
| | - Jianxia Zhang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
- Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, The People's Republic of China
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
| | - Yan Xu
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
- Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, The People's Republic of China
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
| | - Xiping Wang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
- Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, The People's Republic of China
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China
| | - Chaohong Zhang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China.
- Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, The People's Republic of China.
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China.
| | - Yuejin Wang
- College of Horticulture, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China.
- Key Laboratory of Horticultural Plant Biology and Germplasm Innovation in Northwest China, Ministry of Agriculture, Yangling, Shaanxi, 712100, The People's Republic of China.
- State Key Laboratory of Crop Stress Biology in Arid Areas, Northwest A&F University, Yangling, Shaanxi, 712100, The People's Republic of China.
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31
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Bouzas-Cid Y, Falqué E, Orriols I, Mirás-Avalos JM. Effects of irrigation over three years on the amino acid composition of Treixadura (Vitis vinifera L.) musts and wines, and on the aromatic composition and sensory profiles of its wines. Food Chem 2017; 240:707-716. [PMID: 28946333 DOI: 10.1016/j.foodchem.2017.08.013] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2017] [Revised: 08/02/2017] [Accepted: 08/02/2017] [Indexed: 11/16/2022]
Abstract
Amino acids and volatile compounds play an important role in wine aroma and sensory characteristics. The concentrations of these compounds might be altered by climate interanual variability and by management practices such as irrigation. The aim of the current study was to assess the amino acid profile of musts and wines, volatile composition and sensory profile of wines from Vitis vinifera (L.) cultivar 'Treixadura' obtained from vines under rain-fed and irrigation conditions over three consecutive vintages (2012-2014). Musts and wines from the irrigation treatment tended to be higher in acidity than those from rain-fed. However, amino acid and aromatic profiles were mostly affected by climate conditions of each year; although irrigation exerted a significant effect on several compounds (proline, cysteine, tryptophan, phenylalanine, α-terpineol and geraniol). Wines from both treatments received similar marks in the sensory tests, suggesting that irrigation did not greatly modify wine quality under the conditions of this study.
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Affiliation(s)
- Yolanda Bouzas-Cid
- Estación de Viticultura e Enoloxía de Galicia (EVEGA-INGACAL), Ponte San Clodio s/n, 32428 Leiro, Ourense, Spain; Depto. Química Analítica, Facultad de Ciencias, Universidade de Vigo, As Lagoas s/n, 32004 Ourense, Spain
| | - Elena Falqué
- Depto. Química Analítica, Facultad de Ciencias, Universidade de Vigo, As Lagoas s/n, 32004 Ourense, Spain
| | - Ignacio Orriols
- Estación de Viticultura e Enoloxía de Galicia (EVEGA-INGACAL), Ponte San Clodio s/n, 32428 Leiro, Ourense, Spain; Servizo de Prevención e Análise de Riscos, Dirección Xeral de Innovación e Industrias Agrarias e Forestais, Rúa Roma 25-27, 15703 Santiago de Compostela, Spain
| | - José M Mirás-Avalos
- Estación de Viticultura e Enoloxía de Galicia (EVEGA-INGACAL), Ponte San Clodio s/n, 32428 Leiro, Ourense, Spain.
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Herrera JC, Hochberg U, Degu A, Sabbatini P, Lazarovitch N, Castellarin SD, Fait A, Alberti G, Peterlunger E. Grape Metabolic Response to Postveraison Water Deficit Is Affected by Interseason Weather Variability. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2017; 65:5868-5878. [PMID: 28661689 DOI: 10.1021/acs.jafc.7b01466] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Postveraison water deficit is a common strategy implemented to improve fruit composition in many wine-growing regions. However, contrasting results are often reported on fruit size and composition, a challenge for generalizing the positive impact of this technique. Our research investigated the effect of water deficit (WD) imposed at veraison on Merlot grapevines, during two experimental seasons (2014-2015). In both years WD resulted in reduced carbon assimilation rates and leaf shedding. However, the treatment effect on the analyzed berry parameters varied between seasons. Modification of skin metabolites was more evident in 2015 than in 2014, despite the similar soil water content and water stress physiological parameters (gas exchange, water potential) recorded in the two experimental years. Higher solar radiation and air temperature in 2015 than in 2014 hint for the involvement of atmospheric parameters in fulfilling the potential effect of WD. Our results suggest that the interaction between water availability and weather conditions plays a crucial role in modulating the grape berry composition.
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Affiliation(s)
- Jose C Herrera
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine , 33100 Udine, Italy
- Division of Viticulture and Pomology, University of Natural Resources and Life Sciences, Vienna , 3430 Tulln an der Donau, Austria
| | - Uri Hochberg
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine , 33100 Udine, Italy
- Department of Organismic and Evolutionary Biology, Harvard University , Cambridge, Massachusetts 02138, United States
| | - Asfaw Degu
- The French Associates Institute for Agriculture and Biotechnology of Drylands, Ben-Gurion University of the Negev , 849900 Sede Boqer Campus, Israel
| | - Paolo Sabbatini
- Department of Horticulture, Michigan State University , East Lansing, Michigan 48824, United States
| | - Naftali Lazarovitch
- The French Associates Institute for Agriculture and Biotechnology of Drylands, Ben-Gurion University of the Negev , 849900 Sede Boqer Campus, Israel
| | - Simone D Castellarin
- Wine Research Centre, The University of British Columbia , V6T 1Z4 Vancouver, BC, Canada
| | - Aaron Fait
- The French Associates Institute for Agriculture and Biotechnology of Drylands, Ben-Gurion University of the Negev , 849900 Sede Boqer Campus, Israel
| | - Giorgio Alberti
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine , 33100 Udine, Italy
| | - Enrico Peterlunger
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine , 33100 Udine, Italy
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Król A, Weidner S. Changes in the proteome of grapevine leaves (Vitis vinifera L.) during long-term drought stress. JOURNAL OF PLANT PHYSIOLOGY 2017; 211:114-126. [PMID: 28178572 DOI: 10.1016/j.jplph.2016.11.016] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2016] [Revised: 11/28/2016] [Accepted: 11/29/2016] [Indexed: 05/21/2023]
Abstract
The essence of exploring and understanding mechanisms of plant adaptation to environmental stresses lies in the determination of patterns of the expression of proteins, identification of stress proteins and their association with the specific functions in metabolic pathways. To date, little information has been provided about the proteomic response of grapevine to the persistent influence of adverse environmental conditions. This article describes changes in the profile of protein accumulation in leaves of common grapevine (Vitis vinifera L.) seedlings in response to prolonged drought. Isolated proteins were separated by two-dimensional electrophoresis (2 DE), and the proteins whose level of accumulation changed significantly due to the applied stress factors were identified with tandem mass spectrometry MALDI TOF/TOF type. Analysis of the proteome of grapevine leaves led to the detection of many proteins whose synthesis changed in response to the applied stressor. Drought caused the most numerous changes in the accumulation of proteins associated with carbohydrate and energy metabolism, mostly connected with the pathways of glycolysis and photosystem II protein components. The biological function of the identified proteins is discussed with reference to the stress of drought. Some of the identified proteins, especially the ones whose accumulation increased during drought stress, may be responsible for the adaptation of grapevine to drought.
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Affiliation(s)
- Angelika Król
- Department of Biology and Biotechnology, Chair of Biochemistry, University of Warmia and Mazury in Olsztyn, M. Oczapowskiego St. 1A, 10-957 Olsztyn, Kortowo, Poland.
| | - Stanisław Weidner
- Department of Biology and Biotechnology, Chair of Biochemistry, University of Warmia and Mazury in Olsztyn, M. Oczapowskiego St. 1A, 10-957 Olsztyn, Kortowo, Poland
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Zhang Y, Ma XM, Wang XC, Liu JH, Huang BY, Guo XY, Xiong SP, La GX. UPLC-QTOF analysis reveals metabolomic changes in the flag leaf of wheat (Triticum aestivum L.) under low-nitrogen stress. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2017; 111:30-38. [PMID: 27894005 DOI: 10.1016/j.plaphy.2016.11.009] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2016] [Accepted: 11/15/2016] [Indexed: 05/14/2023]
Abstract
Wheat is one of the most important grain crop plants worldwide. Nitrogen (N) is an essential macronutrient for the growth and development of wheat and exerts a marked influence on its metabolites. To investigate the influence of low nitrogen stress on various metabolites of the flag leaf of wheat (Triticum aestivum L.), a metabolomic analysis of two wheat cultivars under different induced nitrogen levels was conducted during two important growth periods based on large-scale untargeted metabolomic analysis using ultra-performance liquid chromatography-quadrupole time-of-flight mass spectrometry (UPLC-QTOF). Multivariate analyses-such as principle components analysis (PCA) and orthogonal partial least square discriminant analysis (OPLS-DA)-were used for data analysis. PCA yielded distinctive clustering information among the samples, classifying the wheat flag samples into two categories: those under normal N treatment and low N treatment. By processing OPLS-DA, eleven secondary metabolites were shown to be responsible for classifying the two groups. The secondary metabolites may be considered potential biomarkers of low nitrogen stress. Chemical analyses showed that most of the identified secondary metabolites were flavonoids and their related derivatives, such as iso-vitexin, iso-orientin and methylisoorientin-2″-O-rhamnoside, etc. This study confirmed the effect of low nitrogen stress on the metabolism of wheat, and revealed that the accumulation of secondary metabolites is a response to abiotic stresses. Meanwhile, we aimed to identify markers which could be used to monitor the nitrogen status of wheat crops, presumably to guide appropriate fertilization regimens. Furthermore, the UPLC-QTOF metabolic platform technology can be used to study metabolomic variations of wheat under abiotic stresses.
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Affiliation(s)
- Yang Zhang
- College of Agronomy, Henan Agricultural University, Zhengzhou 450002, China
| | - Xin-Ming Ma
- College of Agronomy, Henan Agricultural University, Zhengzhou 450002, China.
| | - Xiao-Chun Wang
- College of Life Science, Henan Agricultural University, Zhengzhou, Henan 450002, China
| | - Ji-Hong Liu
- Institute of Agricultural Quality Standards and Testing Techniques, Henan Academy of Agricultural Sciences, Zhengzhou 450002, China
| | - Bing-Yan Huang
- Industrial Crops Research Institute, Henan Academy of Agricultural Sciences, Zhengzhou 450002, China
| | - Xiao-Yang Guo
- College of Agronomy, Henan Agricultural University, Zhengzhou 450002, China
| | - Shu-Ping Xiong
- College of Agronomy, Henan Agricultural University, Zhengzhou 450002, China
| | - Gui-Xiao La
- Industrial Crops Research Institute, Henan Academy of Agricultural Sciences, Zhengzhou 450002, China
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Alaimo S, Marceca GP, Giugno R, Ferro A, Pulvirenti A. Current Knowledge and Computational Techniques for Grapevine Meta-Omics Analysis. FRONTIERS IN PLANT SCIENCE 2017; 8:2241. [PMID: 29375610 PMCID: PMC5767322 DOI: 10.3389/fpls.2017.02241] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2017] [Accepted: 12/20/2017] [Indexed: 05/03/2023]
Abstract
Growing grapevine (Vitis vinifera) is a key contribution to the economy of many countries. Tools provided by genomics and bioinformatics did help researchers in obtaining biological knowledge about the different cultivars. Several genetic markers for common diseases were identified. Recently, the impact of microbiome has been proved to be of fundamental importance both in humans and in plants for its ability to confer protection or induce diseases. In this review we report current knowledge about grapevine microbiome, together with a description of the available computational methodologies for meta-omics analysis.
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Affiliation(s)
- Salvatore Alaimo
- Bioinformatics Unit, Department of Clinical and Experimental Medicine, University of Catania, Catania, Italy
| | - Gioacchino P. Marceca
- Bioinformatics Unit, Department of Clinical and Experimental Medicine, University of Catania, Catania, Italy
| | - Rosalba Giugno
- Department of Computer Science, University of Verona, Verona, Italy
| | - Alfredo Ferro
- Bioinformatics Unit, Department of Clinical and Experimental Medicine, University of Catania, Catania, Italy
| | - Alfredo Pulvirenti
- Bioinformatics Unit, Department of Clinical and Experimental Medicine, University of Catania, Catania, Italy
- *Correspondence: Alfredo Pulvirenti
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Kambiranda D, Basha SM, Singh RK, He H, Calvin K, Mercer R. In Depth Proteome Analysis of Ripening Muscadine Grape Berry cv. Carlos Reveals Proteins Associated with Flavor and Aroma Compounds. J Proteome Res 2016; 15:2910-23. [DOI: 10.1021/acs.jproteome.5b01064] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Devaiah Kambiranda
- Center for Viticulture and Small Fruit Research, Florida A&M University, 6505 Mahan Drive, Tallahassee, Florida 32317, United States
| | - Sheikh M. Basha
- Center for Viticulture and Small Fruit Research, Florida A&M University, 6505 Mahan Drive, Tallahassee, Florida 32317, United States
| | - Rakesh K. Singh
- Translational
Science Laboratory, Florida State University College of Medicine, 1115 W. Call Street, Tallahassee, Florida 32306, United States
| | - Huan He
- Institute
of Molecular Biophysics, 91 Chieftan Way, Florida State University, Tallahassee, Florida 32306, United States
| | - Kate Calvin
- Translational
Science Laboratory, Florida State University College of Medicine, 1115 W. Call Street, Tallahassee, Florida 32306, United States
| | - Roger Mercer
- Translational
Science Laboratory, Florida State University College of Medicine, 1115 W. Call Street, Tallahassee, Florida 32306, United States
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Diaz-Vivancos P, Faize L, Nicolás E, Clemente-Moreno MJ, Bru-Martinez R, Burgos L, Hernández JA. Transformation of plum plants with a cytosolic ascorbate peroxidase transgene leads to enhanced water stress tolerance. ANNALS OF BOTANY 2016; 117:1121-31. [PMID: 27059431 PMCID: PMC4904172 DOI: 10.1093/aob/mcw045] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2015] [Revised: 12/18/2015] [Accepted: 01/22/2016] [Indexed: 05/18/2023]
Abstract
BACKGROUND AND AIMS Water deficit is the most serious environmental factor limiting agricultural production. In this work, the tolerance to water stress (WS) of transgenic plum lines harbouring transgenes encoding cytosolic antioxidant enzymes was studied, with the aim of achieving the durable resistance of commercial plum trees. METHODS The acclimatization process was successful for two transgenic lines: line C3-1, co-expressing superoxide dismutase (two copies) and ascorbate peroxidase (one copy) transgenes simultaneously; and line J8-1, harbouring four copies of the cytosolic ascorbate peroxidase gene (cytapx). Plant water relations, chlorophyll fluorescence and the levels of antioxidant enzymes were analysed in both lines submitted to moderate (7 d) and severe (15 d) WS conditions. Additionally, in line J8-1, showing the best response in terms of stress tolerance, a proteomic analysis and determination of the relative gene expression of two stress-responsive genes were carried out. KEY RESULTS Line J8-1 exhibited an enhanced stress tolerance that correlated with better photosynthetic performance and a tighter control of water-use efficiency. Furthermore, this WS tolerance also correlated with a higher enzymatic antioxidant capacity than wild-type (WT) and line C3-1 plum plants. On the other hand, line C3-1 displayed an intermediate phenotype between WT plants and line J8-1 in terms of WS tolerance. Under severe WS, the tolerance displayed by J8-1 plants could be due to an enhanced capacity to cope with drought-induced oxidative stress. Moreover, proteomic analysis revealed differences between WT and J8-1 plants, mainly in terms of the abundance of proteins related to carbohydrate metabolism, photosynthesis, antioxidant defences and protein fate. CONCLUSIONS The transformation of plum plants with cytapx has a profound effect at the physiological, biochemical, proteomic and genetic levels, enhancing WS tolerance. Although further experiments under field conditions will be required, it is proposed that J8-1 plants would be an interesting Prunus rootstock for coping with climate change.
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Affiliation(s)
- Pedro Diaz-Vivancos
- Group of Fruit Trees Biotechnology, Department of Plant Breeding, CEBAS-CSIC, Campus Universitario de Espinardo, Murcia, PO Box 164, E-30100, Spain
| | - Lydia Faize
- Group of Fruit Trees Biotechnology, Department of Plant Breeding, CEBAS-CSIC, Campus Universitario de Espinardo, Murcia, PO Box 164, E-30100, Spain
| | - Emilio Nicolás
- Departamento de Riego, CEBAS-CSIC, Campus Universitario de Espinardo, Murcia, PO Box 164, E-30100, Spain
| | - Maria José Clemente-Moreno
- Group of Fruit Trees Biotechnology, Department of Plant Breeding, CEBAS-CSIC, Campus Universitario de Espinardo, Murcia, PO Box 164, E-30100, Spain Grupo de Biología de las Plantas en Condiciones Mediterráneas, Departament de Biologia (UIB-IMEDEA), Universitat de les Illes Balears, 07122 Palma de Mallorca, Spain
| | - Roque Bru-Martinez
- Grupo de Proteómica y Genómica Funcional de Plantas, Departamento de Agroquímica y Bioquímica, Facultad de Ciencias, Universidad de Alicante, Alicante, Spain
| | - Lorenzo Burgos
- Group of Fruit Trees Biotechnology, Department of Plant Breeding, CEBAS-CSIC, Campus Universitario de Espinardo, Murcia, PO Box 164, E-30100, Spain
| | - José Antonio Hernández
- Group of Fruit Trees Biotechnology, Department of Plant Breeding, CEBAS-CSIC, Campus Universitario de Espinardo, Murcia, PO Box 164, E-30100, Spain
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Katam R, Sakata K, Suravajhala P, Pechan T, Kambiranda DM, Naik KS, Guo B, Basha SM. Comparative leaf proteomics of drought-tolerant and -susceptible peanut in response to water stress. J Proteomics 2016; 143:209-226. [DOI: 10.1016/j.jprot.2016.05.031] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2016] [Revised: 05/25/2016] [Accepted: 05/28/2016] [Indexed: 12/22/2022]
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40
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Impact of drought stress on concentration and composition of wine proteins in Riesling. Eur Food Res Technol 2016. [DOI: 10.1007/s00217-016-2688-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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41
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Cuadros-Inostroza A, Ruíz-Lara S, González E, Eckardt A, Willmitzer L, Peña-Cortés H. GC-MS metabolic profiling of Cabernet Sauvignon and Merlot cultivars during grapevine berry development and network analysis reveals a stage- and cultivar-dependent connectivity of primary metabolites. Metabolomics 2016; 12:39. [PMID: 26848290 PMCID: PMC4723623 DOI: 10.1007/s11306-015-0927-z] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/24/2015] [Accepted: 10/10/2015] [Indexed: 11/06/2022]
Abstract
Information about the total chemical composition of primary metabolites during grape berry development is scarce, as are comparative studies trying to understand to what extent metabolite modifications differ between cultivars during ripening. Thus, correlating the metabolic profiles with the changes occurring in berry development and ripening processes is essential to progress in their comprehension as well in the development of new approaches to improve fruit attributes. Here, the developmental metabolic profiling analysis across six stages from flowering to fully mature berries of two cultivars, Cabernet Sauvignon and Merlot, is reported at metabolite level. Based on a gas chromatography-mass spectrometry untargeted approach, 115 metabolites were identified and relative quantified in both cultivars. Sugars and amino acids levels show an opposite behaviour in both cultivars undergoing a highly coordinated shift of metabolite associated to primary metabolism during the stages involved in growth, development and ripening of berries. The changes are characteristic for each stage, the most pronounced ones occuring at fruit setting and pre-Veraison. They are associated to a reduction of the levels of metabolites present in the earlier corresponding stage, revealing a required catabolic activity of primary metabolites for grape berry developmental process. Network analysis revealed that the network connectivity of primary metabolites is stage- and cultivar-dependent, suggesting differences in metabolism regulation between both cultivars as the maturity process progresses. Furthermore, network analysis may represent an appropriate method to display the association between primary metabolites during berry developmental processes among different grapevine cultivars and for identifying potential biologically relevant metabolites.
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Affiliation(s)
- Alvaro Cuadros-Inostroza
- Max-Planck Institute for Plant Molecular Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
- MetasysX, Am Mühlenberg 11, 14476 Potsdam-Golm, Germany
| | - Simón Ruíz-Lara
- Instituto de Ciencias Biológicas, Universidad de Talca, 2 Norte 685, Talca, Chile
| | - Enrique González
- Instituto de Ciencias Biológicas, Universidad de Talca, 2 Norte 685, Talca, Chile
| | - Aenne Eckardt
- Max-Planck Institute for Plant Molecular Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
| | - Lothar Willmitzer
- Max-Planck Institute for Plant Molecular Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
| | - Hugo Peña-Cortés
- Max-Planck Institute for Plant Molecular Physiology, Am Mühlenberg 1, 14476 Potsdam-Golm, Germany
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Lorenzini M, Mainente F, Zapparoli G, Cecconi D, Simonato B. Post-harvest proteomics of grapes infected by Penicillium during withering to produce Amarone wine. Food Chem 2015; 199:639-47. [PMID: 26776019 DOI: 10.1016/j.foodchem.2015.12.032] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2015] [Revised: 11/18/2015] [Accepted: 12/08/2015] [Indexed: 11/19/2022]
Abstract
The study of withered grape infection by Penicillium, a potentially toxigenic fungus, is relevant to preserve grape quality during the post-harvest dehydration process. This report describes the first proteomic analysis of Amarone wine grapes, infected by two strains of Penicillium expansum (Pe1) and Penicillium crustosum (Pc4). Protein identification by MS analysis allowed a better understanding of physiological mechanisms underlying the pathogen attack. The Pe1 strain had a major impact on Vitis vinifera protein expression inducing pathogenesis-related proteins and other protein species involved in energy metabolism. A greater expression of new Penicillium proteins involved in energy metabolism and some protein species related to redox homeostasis has been observed on grapes infected by Pc4 strain. Moreover, the new induced proteins in infected grapes could represent potential markers in withered grapes, thus creating the chance to develop case-sensitive prevention strategies to inhibit fungal growth.
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Affiliation(s)
- Marilinda Lorenzini
- Department of Biotechnology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Federica Mainente
- Department of Biotechnology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Giacomo Zapparoli
- Department of Biotechnology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Daniela Cecconi
- Department of Biotechnology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Barbara Simonato
- Department of Biotechnology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy.
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Ghan R, Van Sluyter SC, Hochberg U, Degu A, Hopper DW, Tillet RL, Schlauch KA, Haynes PA, Fait A, Cramer GR. Five omic technologies are concordant in differentiating the biochemical characteristics of the berries of five grapevine (Vitis vinifera L.) cultivars. BMC Genomics 2015; 16:946. [PMID: 26573226 PMCID: PMC4647476 DOI: 10.1186/s12864-015-2115-y] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2015] [Accepted: 10/20/2015] [Indexed: 11/23/2022] Open
Abstract
Background Grape cultivars and wines are distinguishable by their color, flavor and aroma profiles. Omic analyses (transcripts, proteins and metabolites) are powerful tools for assessing biochemical differences in biological systems. Results Berry skins of red- (Cabernet Sauvignon, Merlot, Pinot Noir) and white-skinned (Chardonnay, Semillon) wine grapes were harvested near optimum maturity (°Brix-to-titratable acidity ratio) from the same experimental vineyard. The cultivars were exposed to a mild, seasonal water-deficit treatment from fruit set until harvest in 2011. Identical sample aliquots were analyzed for transcripts by grapevine whole-genome oligonucleotide microarray and RNAseq technologies, proteins by nano-liquid chromatography-mass spectroscopy, and metabolites by gas chromatography-mass spectroscopy and liquid chromatography-mass spectroscopy. Principal components analysis of each of five Omic technologies showed similar results across cultivars in all Omic datasets. Comparison of the processed data of genes mapped in RNAseq and microarray data revealed a strong Pearson’s correlation (0.80). The exclusion of probesets associated with genes with potential for cross-hybridization on the microarray improved the correlation to 0.93. The overall concordance of protein with transcript data was low with a Pearson’s correlation of 0.27 and 0.24 for the RNAseq and microarray data, respectively. Integration of metabolite with protein and transcript data produced an expected model of phenylpropanoid biosynthesis, which distinguished red from white grapes, yet provided detail of individual cultivar differences. The mild water deficit treatment did not significantly alter the abundance of proteins or metabolites measured in the five cultivars, but did have a small effect on gene expression. Conclusions The five Omic technologies were consistent in distinguishing cultivar variation. There was high concordance between transcriptomic technologies, but generally protein abundance did not correlate well with transcript abundance. The integration of multiple high-throughput Omic datasets revealed complex biochemical variation amongst five cultivars of an ancient and economically important crop species. Electronic supplementary material The online version of this article (doi:10.1186/s12864-015-2115-y) contains supplementary material, which is available to authorized users.
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Affiliation(s)
- Ryan Ghan
- Department of Biochemistry and Molecular Biology, University of Nevada, Reno, Reno, NV, 89557, USA.
| | - Steven C Van Sluyter
- Department of Biological Sciences, Macquarie University, North Ryde, NSW, 2109, Australia.
| | - Uri Hochberg
- Ben-Gurion University of the Negev, Jacob Blaustein Institutes for Desert Research, Midreshet Ben-Gurion, 84990, Israel.
| | - Asfaw Degu
- Ben-Gurion University of the Negev, Jacob Blaustein Institutes for Desert Research, Midreshet Ben-Gurion, 84990, Israel.
| | - Daniel W Hopper
- Department of Biochemistry and Molecular Biology, University of Nevada, Reno, Reno, NV, 89557, USA.
| | - Richard L Tillet
- Nevada Center for Bioinformatics, University of Nevada, Reno, Reno, NV, 89557, USA.
| | - Karen A Schlauch
- Department of Biochemistry and Molecular Biology, University of Nevada, Reno, Reno, NV, 89557, USA. .,Nevada Center for Bioinformatics, University of Nevada, Reno, Reno, NV, 89557, USA.
| | - Paul A Haynes
- Department of Chemistry and Biomolecular Sciences, Macquarie University, North Ryde, NSW, 2109, Australia.
| | - Aaron Fait
- Ben-Gurion University of the Negev, Jacob Blaustein Institutes for Desert Research, Midreshet Ben-Gurion, 84990, Israel.
| | - Grant R Cramer
- Department of Biochemistry and Molecular Biology, University of Nevada, Reno, Reno, NV, 89557, USA.
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Negri AS, Prinsi B, Failla O, Scienza A, Espen L. Proteomic and metabolic traits of grape exocarp to explain different anthocyanin concentrations of the cultivars. FRONTIERS IN PLANT SCIENCE 2015; 6:603. [PMID: 26300900 PMCID: PMC4523781 DOI: 10.3389/fpls.2015.00603] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/29/2015] [Accepted: 07/21/2015] [Indexed: 05/28/2023]
Abstract
The role of grape berry skin as a protective barrier against damage by physical injuries and pathogen attacks requires a metabolism able to sustain biosynthetic activities such as those relating to secondary compounds (i.e., flavonoids). In order to draw the attention on these biochemical processes, a proteomic and metabolomic comparative analysis was performed among Riesling Italico, Pinot Gris, Pinot Noir, and Croatina cultivars, which are known to accumulate anthocyanins to a different extent. The application of multivariate statistics on the dataset pointed out that the cultivars were distinguishable from each other and the order in which they were grouped mainly reflected their relative anthocyanin contents. Sorting the spots according to their significance 100 proteins were characterized by LC-ESI-MS/MS. Through GC-MS, performed in Selected Ion Monitoring (SIM) mode, 57 primary metabolites were analyzed and the differences in abundance of 16 of them resulted statistically significant to ANOVA test. Considering the functional distribution, the identified proteins were involved in many physiological processes such as stress, defense, carbon metabolism, energy conversion and secondary metabolism. The trends of some metabolites were related to those of the protein data. Taken together, the results permitted to highlight the relationships between the secondary compound pathways and the main metabolism (e.g., glycolysis and TCA cycle). Moreover, the trend of accumulation of many proteins involved in stress responses, reinforced the idea that they could play a role in the cultivar specific developmental plan.
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Affiliation(s)
| | | | | | | | - Luca Espen
- *Correspondence: Luca Espen, Dipartimento di Scienze Agrarie e Ambientali, Produzione, Territorio, Agroenergia, Università degli Studi di Milano, via Celoria n.2, Milano 20133, Italy
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George IS, Fennell AY, Haynes PA. Protein identification and quantification from riverbank grape, Vitis riparia: Comparing SDS-PAGE and FASP-GPF techniques for shotgun proteomic analysis. Proteomics 2015; 15:3061-5. [PMID: 25929842 DOI: 10.1002/pmic.201500085] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2015] [Revised: 03/20/2015] [Accepted: 04/24/2015] [Indexed: 11/09/2022]
Abstract
Protein sample preparation optimisation is critical for establishing reproducible high throughput proteomic analysis. In this study, two different fractionation sample preparation techniques (in-gel digestion and in-solution digestion) for shotgun proteomics were used to quantitatively compare proteins identified in Vitis riparia leaf samples. The total number of proteins and peptides identified were compared between filter aided sample preparation (FASP) coupled with gas phase fractionation (GPF) and SDS-PAGE methods. There was a 24% increase in the total number of reproducibly identified proteins when FASP-GPF was used. FASP-GPF is more reproducible, less expensive and a better method than SDS-PAGE for shotgun proteomics of grapevine samples as it significantly increases protein identification across biological replicates. Total peptide and protein information from the two fractionation techniques is available in PRIDE with the identifier PXD001399 (http://proteomecentral.proteomexchange.org/dataset/PXD001399).
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Affiliation(s)
- Iniga S George
- Department of Chemistry and Biomolecular Sciences, Macquarie University, North Ryde, NSW, Australia
| | - Anne Y Fennell
- Plant Science Department, South Dakota State University, Brookings, SD, USA
| | - Paul A Haynes
- Department of Chemistry and Biomolecular Sciences, Macquarie University, North Ryde, NSW, Australia
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George IS, Pascovici D, Mirzaei M, Haynes PA. Quantitative proteomic analysis of cabernet sauvignon grape cells exposed to thermal stresses reveals alterations in sugar and phenylpropanoid metabolism. Proteomics 2015; 15:3048-60. [PMID: 25959233 DOI: 10.1002/pmic.201400541] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2014] [Revised: 04/13/2015] [Accepted: 05/07/2015] [Indexed: 11/07/2022]
Abstract
Grapes (Vitis vinifera) are a valuable fruit crop and wine production is a major industry. Global warming and expanded range of cultivation will expose grapes to more temperature stresses in future. Our study investigated protein level responses to abiotic stresses, with particular reference to proteomic changes induced by the impact of four different temperature stress regimes, including both hot and cold temperatures, on cultured grape cells. Cabernet Sauvignon cell suspension cultures grown at 26°C were subjected to 14 h of exposure to 34 and 42°C for heat stress, and 18 and 10°C for cold stress. Cells from the five temperatures were harvested in biological triplicates and label-free quantitative shotgun proteomic analysis was performed. A total of 2042 non-redundant proteins were identified from the five temperature points. Fifty-five proteins were only detected in extreme heat stress conditions (42°C) and 53 proteins were only detected at extreme cold stress conditions (10°C). Gene Ontology (GO) annotations of differentially expressed proteins provided insights into the metabolic pathways that are involved in temperature stress in grape cells. Sugar metabolism displayed switching between alternative and classical pathways during temperature stresses. Additionally, nine proteins involved in the phenylpropanoid pathway were greatly increased in abundance at extreme cold stress, and were thus found to be cold-responsive proteins. All MS data have been deposited in the ProteomeXchange with identifier PXD000977 (http://proteomecentral.proteomexchange.org/dataset/PXD000977).
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Affiliation(s)
- Iniga S George
- Department of Chemistry and Biomolecular Sciences, Macquarie University, North Ryde, Australia
| | - Dana Pascovici
- Australian Proteome Analysis Facility (APAF), Macquarie University, North Ryde, Australia
| | - Mehdi Mirzaei
- Department of Chemistry and Biomolecular Sciences, Macquarie University, North Ryde, Australia
| | - Paul A Haynes
- Department of Chemistry and Biomolecular Sciences, Macquarie University, North Ryde, Australia
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Tian B, Harrison R, Morton J, Deb-Choudhury S. Proteomic Analysis of Sauvignon Blanc Grape Skin, Pulp and Seed and Relative Quantification of Pathogenesis-Related Proteins. PLoS One 2015; 10:e0130132. [PMID: 26076362 PMCID: PMC4468203 DOI: 10.1371/journal.pone.0130132] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2015] [Accepted: 05/18/2015] [Indexed: 11/18/2022] Open
Abstract
Thaumatin-like proteins (TLPs) and chitinases are the main constituents of so-called protein hazes which can form in finished white wine and which is a great concern of winemakers. These soluble pathogenesis-related (PR) proteins are extracted from grape berries. However, their distribution in different grape tissues is not well documented. In this study, proteins were first separately extracted from the skin, pulp and seed of Sauvignon Blanc grapes, followed by trypsin digestion and analysis by liquid chromatography-electrospray ionization-tandem mass spectrometry (LC-ESI-MS/MS). Proteins identified included 75 proteins from Sauvignon Blanc grape skin, 63 from grape pulp and 35 from grape seed, mostly functionally classified as associated with metabolism and energy. Some were present exclusively in specific grape tissues; for example, proteins involved in photosynthesis were only detected in grape skin and proteins found in alcoholic fermentation were only detected in grape pulp. Moreover, proteins identified in grape seed were less diverse than those identified in grape skin and pulp. TLPs and chitinases were identified in both Sauvignon Blanc grape skin and pulp, but not in the seed. To relatively quantify the PR proteins, the protein extracts of grape tissues were seperated by HPLC first and then analysed by SDS-PAGE. The results showed that the protein fractions eluted at 9.3 min and 19.2 min under the chromatographic conditions of this study confirmed that these corresponded to TLPs and chitinases seperately. Thus, the relative quantification of TLPs and chitinases in protein extracts was carried out by comparing the area of corresponding peaks against the area of a thamautin standard. The results presented in this study clearly demonstrated the distribution of haze-forming PR proteins in grape berries, and the relative quantification of TLPs and chitinases could be applied in fast tracking of changes in PR proteins during grape growth and determination of PR proteins in berries at harvest.
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Affiliation(s)
- Bin Tian
- Department of Wine, Food and Molecular Biosciences, Lincoln University, Lincoln, 7647, Canterbury, New Zealand
- * E-mail:
| | - Roland Harrison
- Department of Wine, Food and Molecular Biosciences, Lincoln University, Lincoln, 7647, Canterbury, New Zealand
| | - James Morton
- Department of Wine, Food and Molecular Biosciences, Lincoln University, Lincoln, 7647, Canterbury, New Zealand
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Pulvirenti A, Giugno R, Distefano R, Pigola G, Mongiovi M, Giudice G, Vendramin V, Lombardo A, Cattonaro F, Ferro A. A knowledge base for Vitis vinifera functional analysis. BMC SYSTEMS BIOLOGY 2015; 9 Suppl 3:S5. [PMID: 26050794 PMCID: PMC4464603 DOI: 10.1186/1752-0509-9-s3-s5] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Background Vitis vinifera (Grapevine) is the most important fruit species in the modern world. Wine and table grapes sales contribute significantly to the economy of major wine producing countries. The most relevant goals in wine production concern quality and safety. In order to significantly improve the achievement of these objectives and to gain biological knowledge about cultivars, a genomic approach is the most reliable strategy. The recent grapevine genome sequencing offers the opportunity to study the potential roles of genes and microRNAs in fruit maturation and other physiological and pathological processes. Although several systems allowing the analysis of plant genomes have been reported, none of them has been designed specifically for the functional analysis of grapevine genomes of cultivars under environmental stress in connection with microRNA data. Description Here we introduce a novel knowledge base, called BIOWINE, designed for the functional analysis of Vitis vinifera genomes of cultivars present in Sicily. The system allows the analysis of RNA-seq experiments of two different cultivars, namely Nero d'Avola and Nerello Mascalese. Samples were taken under different climatic conditions of phenological phases, diseases, and geographic locations. The BIOWINE web interface is equipped with data analysis modules for grapevine genomes. In particular users may analyze the current genome assembly together with the RNA-seq data through a customized version of GBrowse. The web interface allows users to perform gene set enrichment by exploiting third-party databases. Conclusions BIOWINE is a knowledge base implementing a set of bioinformatics tools for the analysis of grapevine genomes. The system aims to increase our understanding of the grapevine varieties and species of Sicilian products focusing on adaptability to different climatic conditions, phenological phases, diseases, and geographic locations.
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Berdeja M, Nicolas P, Kappel C, Dai ZW, Hilbert G, Peccoux A, Lafontaine M, Ollat N, Gomès E, Delrot S. Water limitation and rootstock genotype interact to alter grape berry metabolism through transcriptome reprogramming. HORTICULTURE RESEARCH 2015; 2:15012. [PMID: 26504567 PMCID: PMC4595978 DOI: 10.1038/hortres.2015.12] [Citation(s) in RCA: 49] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2014] [Revised: 02/21/2015] [Accepted: 02/24/2015] [Indexed: 05/05/2023]
Abstract
Grapevine is a perennial crop often cultivated by grafting a scion cultivar on a suitable rootstock. Rootstocks influence scions, particularly with regard to water uptake and vigor. Therefore, one of the possibilities to adapt viticulture to the extended drought stress periods is to select rootstocks conferring increased tolerance to drought. However, the molecular mechanisms associated with the ability of rootstock/scion combination to influence grape berry metabolism under drought stress are still poorly understood. The transcriptomic changes induced by drought stress in grape berries (cv. Pinot noir) from vines grafted on either 110R (drought-tolerant) or 125AA (drought-sensitive) rootstock were compared. The experiments were conducted in the vineyard for two years and two grape berry developmental stages (50% and 100% veraison). The genome-wide microarray approach showed that water stress strongly impacts gene expression in the berries, through ontology categories that cover cell wall metabolism, primary and secondary metabolism, signaling, stress, and hormones, and that some of these effects strongly depend on the rootstock genotype. Indeed, under drought stress, berries from vines grafted on 110R displayed a different transcriptional response compared to 125AA-concerning genes related to jasmonate (JA), phenylpropanoid metabolism, and pathogenesis-related proteins. The data also suggest a link between JA and secondary metabolism in water-stressed berries. Overall, genes related to secondary metabolism and JA are more induced and/or less repressed by drought stress in the berries grafted on the drought-sensitive rootstock 125AA. These rootstock-dependent gene expression changes are relevant for berry composition and sensory properties.
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Affiliation(s)
- Mariam Berdeja
- Ecophysiologie et Génomique Fonctionnelle de la Vigne, University Bordeaux, ISVV, UMR 1287, Villenave d′Ornon F-33140, France
| | - Philippe Nicolas
- Ecophysiologie et Génomique Fonctionnelle de la Vigne, University Bordeaux, ISVV, UMR 1287, Villenave d′Ornon F-33140, France
| | - Christian Kappel
- Ecophysiologie et Génomique Fonctionnelle de la Vigne, University Bordeaux, ISVV, UMR 1287, Villenave d′Ornon F-33140, France
| | - Zhan Wu Dai
- Ecophysiologie et Génomique Fonctionnelle de la Vigne, University Bordeaux, ISVV, UMR 1287, Villenave d′Ornon F-33140, France
| | - Ghislaine Hilbert
- Ecophysiologie et Génomique Fonctionnelle de la Vigne, University Bordeaux, ISVV, UMR 1287, Villenave d′Ornon F-33140, France
| | - Anthony Peccoux
- Ecophysiologie et Génomique Fonctionnelle de la Vigne, University Bordeaux, ISVV, UMR 1287, Villenave d′Ornon F-33140, France
| | - Magali Lafontaine
- Department of General and Organic Viticulture, Hochschule Geisenheim University, Geisenheim, Germany
| | - Nathalie Ollat
- Ecophysiologie et Génomique Fonctionnelle de la Vigne, University Bordeaux, ISVV, UMR 1287, Villenave d′Ornon F-33140, France
| | - Eric Gomès
- Ecophysiologie et Génomique Fonctionnelle de la Vigne, University Bordeaux, ISVV, UMR 1287, Villenave d′Ornon F-33140, France
| | - Serge Delrot
- Ecophysiologie et Génomique Fonctionnelle de la Vigne, University Bordeaux, ISVV, UMR 1287, Villenave d′Ornon F-33140, France
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Zheng M, Meng Y, Yang C, Zhou Z, Wang Y, Chen B. Protein expression changes during cotton fiber elongation in response to drought stress and recovery. Proteomics 2015; 14:1776-95. [PMID: 24889071 DOI: 10.1002/pmic.201300123] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2013] [Revised: 04/17/2014] [Accepted: 05/20/2014] [Indexed: 11/06/2022]
Abstract
An investigation to better understand the molecular mechanism of cotton (Gossypium hirsutum L.) fiber elongation in response to drought stress and recovery was conducted using a comparative proteomics analysis. Cotton plants (cv. NuCOTN 33B) were subjected to water deprivation for 10 days followed by a recovery period (with watering) of 5 days. The temporal changes in total proteins in cotton fibers were examined using 2DE. The results revealed that 163 proteins are significantly drought responsive. MS analysis led to the identification of 132 differentially expressed proteins that include some known as well as some novel drought-responsive proteins. These drought responsive fiber proteins in NuCOTN 33B are associated with a variety of cellular functions, i.e. signal transduction, protein processing, redox homeostasis, cell wall modification, metabolisms of carbon, energy, lipid, lignin, and flavonoid. The results suggest that the enhancement of the perception of drought stress, a new balance of the metabolism of the biosynthesis of cell wall components and cytoskeleton homeostasis plays an important role in the response of cotton fibers to drought stress. Overall, the current study provides an overview of the molecular mechanism of drought response in cotton fiber cells.
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Affiliation(s)
- Mi Zheng
- College of Agriculture, Nanjing Agricultural University, Nanjing, P. R. China; State Key Laboratory of Tree Genetics and Breeding, Northeast Forestry University, Harbin, P. R. China
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