1
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Foresti C, Orduña L, Matus JT, Vandelle E, Danzi D, Bellon O, Tornielli GB, Amato A, Zenoni S. NAC61 regulates late- and post-ripening osmotic, oxidative, and biotic stress responses in grapevine. JOURNAL OF EXPERIMENTAL BOTANY 2024; 75:2330-2350. [PMID: 38159048 PMCID: PMC11016852 DOI: 10.1093/jxb/erad507] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2023] [Accepted: 12/29/2023] [Indexed: 01/03/2024]
Abstract
During late- and post-ripening stages, grape berry undergoes profound biochemical and physiological changes whose molecular control is poorly understood. Here, we report the role of NAC61, a grapevine NAC transcription factor, in regulating different processes involved in berry ripening progression. NAC61 is highly expressed during post-harvest berry dehydration and its expression pattern is closely related to sugar concentration. The ectopic expression of NAC61 in Nicotiana benthamiana leaves resulted in low stomatal conductance, high leaf temperature, tissue collapse and a higher relative water content. Transcriptome analysis of grapevine leaves transiently overexpressing NAC61 and DNA affinity purification and sequencing analyses allowed us to narrow down a list of NAC61-regulated genes. Direct regulation of the stilbene synthase regulator MYB14, the osmotic stress-related gene DHN1b, the Botrytis cinerea susceptibility gene WRKY52, and NAC61 itself was validated. We also demonstrate that NAC61 interacts with NAC60, a proposed master regulator of grapevine organ maturation, in the activation of MYB14 and NAC61 expression. Overall, our findings establish NAC61 as a key player in a regulatory network that governs stilbenoid metabolism and osmotic, oxidative, and biotic stress responses that are the hallmark of late- and post-ripening grape stages.
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Affiliation(s)
- Chiara Foresti
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Luis Orduña
- Institute for Integrative Systems Biology (I2SysBio), Universitat de València-CSIC, Valencia, Spain
| | - José Tomás Matus
- Institute for Integrative Systems Biology (I2SysBio), Universitat de València-CSIC, Valencia, Spain
| | - Elodie Vandelle
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Davide Danzi
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Oscar Bellon
- Department of Biotechnology, University of Verona, Verona, Italy
| | | | - Alessandra Amato
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Sara Zenoni
- Department of Biotechnology, University of Verona, Verona, Italy
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2
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Wang C, Chen X, Ren Y, Xuan X, Pervaiz T, Shangguan L, Fang J. Geographical location influence 'Cabernet Franc' fruit quality in Shandong province. Sci Rep 2024; 14:2382. [PMID: 38287081 PMCID: PMC10824735 DOI: 10.1038/s41598-023-50140-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2023] [Accepted: 12/15/2023] [Indexed: 01/31/2024] Open
Abstract
Grape quality is a key factor in determining wine quality, and it depends not only on management skills, but also on the geographic location of the producing area. In China, Shandong is the province with the largest wine production, and 'Cabernet Franc' is widely planted. This study evaluated the 'Cabernet Franc' fruit quality in relation to geographical conditions in five 'Cabernet Franc' producing districts of Shandong province, China, including Dezhou Aodeman Winery (DZ), Tai'an Zhongqingsongshi Winery (TA), Penglai Longhu Winery (PL), Rushan Taiyihu Winery (RS), and Rizhao Taiyangcheng Winery (RZ). At the time of veraison and maturity, fruit was harvested from five areas, and compared for cosmetic and internal fruit quality. The soluble sugar content in the Rizhao area was rich, and the weight and volume of single fruit were relatively large. The titratable acid of the berries in Tai'an area was high. RNA-seq analysis showed that the number of genes in the véraison stage was 19,571-20,750, and the number of genes in the mature stage was 19,176-20,735. The analysis found that areas with multiple high-quality characteristics tended to have more DEGs (differential expressed genes). And the DEGs in different areas were mainly distributed on chromosome 7, and at least on chromosome 15. DEGs in 5 areas were enriched on 855 GO terms and 116 KEGG pathways during berries development. Among them, it was found that the up/down-regulation of DEGs was related to the formation of berry quality, which helps to explain the impact of environment on grape quality components. In summary, this study is helpful to understand the influence of cultivation location on the quality of 'Cabernet Franc' in different production areas in Shandong province, and further provide a reference for the production of high-quality wine grapes and winemaking.
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Affiliation(s)
- Chaoping Wang
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu Province, China
- Shandong Academy of Grape, Jinan, Shandong Province, China
| | - Xueqin Chen
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu Province, China
| | - Yanhua Ren
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu Province, China
| | - Xuxian Xuan
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu Province, China
| | - Tariq Pervaiz
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu Province, China
| | - Lingfei Shangguan
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu Province, China
| | - Jinggui Fang
- College of Horticulture, Nanjing Agricultural University, Nanjing, Jiangsu Province, China.
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3
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Ferrandino A, Pagliarani C, Pérez-Álvarez EP. Secondary metabolites in grapevine: crosstalk of transcriptional, metabolic and hormonal signals controlling stress defence responses in berries and vegetative organs. FRONTIERS IN PLANT SCIENCE 2023; 14:1124298. [PMID: 37404528 PMCID: PMC10315584 DOI: 10.3389/fpls.2023.1124298] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Accepted: 05/26/2023] [Indexed: 07/06/2023]
Abstract
Abiotic stresses, such as temperature, heat waves, water limitation, solar radiation and the increase in atmospheric CO2 concentration, significantly influence the accumulation of secondary metabolites in grapevine berries at different developmental stages, and in vegetative organs. Transcriptional reprogramming, miRNAs, epigenetic marks and hormonal crosstalk regulate the secondary metabolism of berries, mainly the accumulation of phenylpropanoids and of volatile organic compounds (VOCs). Currently, the biological mechanisms that control the plastic response of grapevine cultivars to environmental stress or that occur during berry ripening have been extensively studied in many worlds viticultural areas, in different cultivars and in vines grown under various agronomic managements. A novel frontier in the study of these mechanisms is the involvement of miRNAs whose target transcripts encode enzymes of the flavonoid biosynthetic pathway. Some miRNA-mediated regulatory cascades, post-transcriptionally control key MYB transcription factors, showing, for example, a role in influencing the anthocyanin accumulation in response to UV-B light during berry ripening. DNA methylation profiles partially affect the berry transcriptome plasticity of different grapevine cultivars, contributing to the modulation of berry qualitative traits. Numerous hormones (such as abscisic and jasmomic acids, strigolactones, gibberellins, auxins, cytokynins and ethylene) are involved in triggering the vine response to abiotic and biotic stress factors. Through specific signaling cascades, hormones mediate the accumulation of antioxidants that contribute to the quality of the berry and that intervene in the grapevine defense processes, highlighting that the grapevine response to stressors can be similar in different grapevine organs. The expression of genes responsible for hormone biosynthesis is largely modulated by stress conditions, thus resulting in the numeourous interactions between grapevine and the surrounding environment.
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Affiliation(s)
- Alessandra Ferrandino
- Department of Agricultural, Forest and Food Sciences (DISAFA), University of Torino, Grugliasco, Italy
| | - Chiara Pagliarani
- National Research Council, Institute for Sustainable Plant Protection (CNR-IPSP), Torino, Italy
| | - Eva Pilar Pérez-Álvarez
- Grupo VIENAP. Finca La Grajera, Instituto de Ciencias de la Vid y del Vino (ICVV), Logroño, La Rioja, Spain
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4
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Tornielli GB, Sandri M, Fasoli M, Amato A, Pezzotti M, Zuccolotto P, Zenoni S. A molecular phenology scale of grape berry development. HORTICULTURE RESEARCH 2023; 10:uhad048. [PMID: 37786435 PMCID: PMC10541565 DOI: 10.1093/hr/uhad048] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/27/2022] [Accepted: 03/07/2023] [Indexed: 10/04/2023]
Abstract
Fruit growth and development consist of a continuous succession of physical, biochemical, and physiological changes driven by a genetic program that dynamically responds to environmental cues. Establishing recognizable stages over the whole fruit lifetime represents a fundamental requirement for research and fruit crop cultivation. This is especially relevant in perennial crops like grapevine (Vitis vinifera L.) to scale the development of its fruit across genotypes and growing conditions. In this work, molecular-based information from several grape berry transcriptomic datasets was exploited to build a molecular phenology scale (MPhS) and to map the ontogenic development of the fruit. The proposed statistical pipeline consisted of an unsupervised learning procedure yielding an innovative combination of semiparametric, smoothing, and dimensionality reduction tools. The transcriptomic distance between fruit samples was precisely quantified by means of the MPhS that also enabled to highlight the complex dynamics of the transcriptional program over berry development through the calculation of the rate of variation of MPhS stages by time. The MPhS allowed the alignment of time-series fruit samples proving to be a complementary method for mapping the progression of grape berry development with higher detail compared to classic time- or phenotype-based approaches.
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Affiliation(s)
| | - Marco Sandri
- Department of Biotechnology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy
- Big & Open Data Innovation Laboratory, University of Brescia, C.da S. Chiara 50, 25122 Brescia, Italy
| | - Marianna Fasoli
- Department of Biotechnology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Alessandra Amato
- Department of Biotechnology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Mario Pezzotti
- Department of Biotechnology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy
| | - Paola Zuccolotto
- Big & Open Data Innovation Laboratory, University of Brescia, C.da S. Chiara 50, 25122 Brescia, Italy
| | - Sara Zenoni
- Department of Biotechnology, University of Verona, Strada Le Grazie 15, 37134 Verona, Italy
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5
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Vannozzi A, Perin C, Palumbo F, Sandri M, Zuccolotto P, Zenoni S, Farinati S, Barcaccia G, Pindo M, Sonego P, Cestaro A, Lucchin M. Dissecting the effect of soil on plant phenology and berry transcriptional plasticity in two Italian grapevine varieties ( Vitis vinifera L.). HORTICULTURE RESEARCH 2023; 10:uhad056. [PMID: 37213682 PMCID: PMC10199706 DOI: 10.1093/hr/uhad056] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/25/2022] [Accepted: 03/23/2023] [Indexed: 05/23/2023]
Abstract
Grapevine embodies a fascinating species as regards phenotypic plasticity and genotype-per-environment interactions. The terroir, namely the set of agri-environmental factors to which a variety is subjected, can influence the phenotype at the physiological, molecular, and biochemical level, representing an important phenomenon connected to the typicality of productions. We investigated the determinants of plasticity by conducting a field-experiment where all terroir variables, except soil, were kept as constant as possible. We isolated the effect of soils collected from different areas, on phenology, physiology, and transcriptional responses of skin and flesh of a red and a white variety of great economic value: Corvina and Glera. Molecular results, together with physio-phenological parameters, suggest a specific effect of soil on grapevine plastic response, highlighting a higher transcriptional plasticity of Glera in respect to Corvina and a marked response of skin compared to flesh. Using a novel statistical approach, we identified clusters of plastic genes subjected to the specific influence of soil. These findings could represent an issue of applicative value, posing the basis for targeted agricultural practices to enhance the desired characteristics for any soil/cultivar combination, to improve vineyards management for a better resource usage and to valorize vineyards uniqueness maximizing the terroir-effect.
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Affiliation(s)
| | - Corrado Perin
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova Agripolis, 35020 Legnaro, Italy
| | - Fabio Palumbo
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova Agripolis, 35020 Legnaro, Italy
| | - Marco Sandri
- Department of biotechnology, University of Verona, I-37034, Verona, Italy
| | - Paola Zuccolotto
- Big&Open Data Innovation Laboratory, University of Brescia, 25122 Brescia, Italy
| | - Sara Zenoni
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Silvia Farinati
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova Agripolis, 35020 Legnaro, Italy
| | - Gianni Barcaccia
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova Agripolis, 35020 Legnaro, Italy
| | - Massimo Pindo
- Research and Innovation Centre, Fondazione Edmund Mach, via E. Mach 1, 38010, San Michele all'Adige, Italy
| | - Paolo Sonego
- 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
| | - Margherita Lucchin
- Department of Agronomy, Food, Natural resources, Animals and Environment (DAFNAE), University of Padova Agripolis, 35020 Legnaro, Italy
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6
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Perin C, Verma PK, Harari G, Suued Y, Harel M, Ferman-Mintz D, Drori E, Netzer Y, Fait A. Influence of late pruning practice on two red skin grapevine cultivars in a semi-desert climate. FRONTIERS IN PLANT SCIENCE 2023; 14:1114696. [PMID: 36844090 PMCID: PMC9945113 DOI: 10.3389/fpls.2023.1114696] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/02/2022] [Accepted: 01/25/2023] [Indexed: 06/18/2023]
Abstract
Continually increasing global temperature could severely affect grape berry metabolite accumulation and ultimately wine polyphenol concentration and color intensity. To explore the effect of late shoot pruning on grape berry and wine metabolite composition, field trials were carried out on Vitis vinifera cv. Malbec and cv. Syrah grafted on 110 Richter rootstock. Fifty-one metabolites were detected and unequivocally annotated employing UPLC-MS based metabolite profiling. Integrating the data using hierarchical clustering showed a significant effect of late pruning treatments on must and wine metabolites. Syrah metabolite profiles were characterized by a general trend of higher metabolite content in the late shoot pruning treatments, while Malbec profiles did not show a consistent trend. In summary, late shoot pruning exerts a significant effect, though varietal specific, on must and wine quality-related metabolites, possibly related to enhanced photosynthetic efficiency, which should be taken into consideration when planning mitigating strategies in warm climates.
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Affiliation(s)
- Corrado Perin
- Dipartimento di Agronomia Animali Alimenti Risorse Naturali e Ambiente, University of Padova, Padova, Italy
| | - Pankaj Kumar Verma
- Albert Katz International School for Desert Studies, Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Midreshet Ben-Gurion, Israel
| | | | | | | | | | - Elyashiv Drori
- Eastern Regional R&D Center, Ariel, Israel
- Chemical engineering Department, Ariel University, Ariel, Israel
| | - Yishai Netzer
- Eastern Regional R&D Center, Ariel, Israel
- Chemical engineering Department, Ariel University, Ariel, Israel
| | - Aaron Fait
- Albert Katz International School for Desert Studies, Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Midreshet Ben-Gurion, Israel
- Albert Katz Department of Dryland Biotechnologies, French Associates Institute for Agriculture and Biotechnology of Drylands, Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Midreshet Ben-Gurion, Israel
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7
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D'Incà E, Foresti C, Orduña L, Amato A, Vandelle E, Santiago A, Botton A, Cazzaniga S, Bertini E, Pezzotti M, Giovannoni J, Vrebalov J, Matus JT, Tornielli GB, Zenoni S. The transcription factor VviNAC60 regulates senescence- and ripening-related processes in grapevine. PLANT PHYSIOLOGY 2023:kiad050. [PMID: 36718552 DOI: 10.1093/plphys/kiad050] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Revised: 10/03/2022] [Accepted: 12/11/2022] [Indexed: 06/18/2023]
Abstract
Grapevine (Vitis vinifera L.) is one of the most widely cultivated fruit crops because the winemaking industry has huge economic relevance worldwide. Uncovering the molecular mechanisms controlling the developmental progression of plant organs will prove essential for maintaining high-quality grapes, expressly in the context of climate change, which impairs the ripening process. Through a deep inspection of transcriptomic data, we identified VviNAC60, a member of the NAC transcription factor family, as a putative regulator of grapevine organ maturation. We explored VviNAC60 binding landscapes through DNA affinity purification followed by sequencing and compared bound genes with transcriptomics datasets from grapevine plants stably and transiently overexpressing VviNAC60 to define a set of high-confidence targets. Among these, we identified key molecular markers associated with organ senescence and fruit ripening. Physiological, metabolic, and promoter activation analyses showed that VviNAC60 induces chlorophyll degradation and anthocyanin accumulation through the up-regulation of STAY-GREEN PROTEIN 1 (VviSGR1) and VviMYBA1, respectively, with the latter being up-regulated through a VviNAC60-VviNAC03 regulatory complex. Despite sharing a closer phylogenetic relationship with senescence-related homologues to the NAC transcription factor AtNAP, VviNAC60 complemented the non-ripening(nor) mutant phenotype in tomato (Solanum lycopersicum), suggesting a dual role as an orchestrator of both ripening- and senescence-related processes. Our data support VviNAC60 as a regulator of processes initiated in the grapevine vegetative- to mature-phase organ transition and therefore as a potential target for enhancing the environmental resilience of grapevine by fine-tuning the duration of the vegetative phase.
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Affiliation(s)
- Erica D'Incà
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - Chiara Foresti
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - Luis Orduña
- Institute for Integrative Systems Biology (I2SysBio), Universitat de València-CSIC, Paterna, 46908, Valencia, Spain
| | - Alessandra Amato
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - Elodie Vandelle
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - Antonio Santiago
- Institute for Integrative Systems Biology (I2SysBio), Universitat de València-CSIC, Paterna, 46908, Valencia, Spain
| | - Alessandro Botton
- Department of Agronomy, Food, Natural resources, Animals and Environment, University of Padova, Italy
| | - Stefano Cazzaniga
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - Edoardo Bertini
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - Mario Pezzotti
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - James Giovannoni
- USDA-ARS Robert W. Holley Center and Boyce Thompson Institute for Plant Research, Tower Road, Cornell Campus, Ithaca, NY 14853, USA
| | - Julia Vrebalov
- USDA-ARS Robert W. Holley Center and Boyce Thompson Institute for Plant Research, Tower Road, Cornell Campus, Ithaca, NY 14853, USA
| | - José Tomás Matus
- Institute for Integrative Systems Biology (I2SysBio), Universitat de València-CSIC, Paterna, 46908, Valencia, Spain
| | | | - Sara Zenoni
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
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8
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Serni E, Tomada S, Haas F, Robatscher P. Characterization of phenolic profile in dried grape skin of Vitis vinifera L. cv. Pinot Blanc with UHPLC-MS/MS and its development during ripening. J Food Compost Anal 2022. [DOI: 10.1016/j.jfca.2022.104731] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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9
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Savoi S, Santiago A, Orduña L, Matus JT. Transcriptomic and metabolomic integration as a resource in grapevine to study fruit metabolite quality traits. FRONTIERS IN PLANT SCIENCE 2022; 13:937927. [PMID: 36340350 PMCID: PMC9630917 DOI: 10.3389/fpls.2022.937927] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/06/2022] [Accepted: 09/09/2022] [Indexed: 06/16/2023]
Abstract
Transcriptomics and metabolomics are methodologies being increasingly chosen to perform molecular studies in grapevine (Vitis vinifera L.), focusing either on plant and fruit development or on interaction with abiotic or biotic factors. Currently, the integration of these approaches has become of utmost relevance when studying key plant physiological and metabolic processes. The results from these analyses can undoubtedly be incorporated in breeding programs whereby genes associated with better fruit quality (e.g., those enhancing the accumulation of health-promoting compounds) or with stress resistance (e.g., those regulating beneficial responses to environmental transition) can be used as selection markers in crop improvement programs. Despite the vast amount of data being generated, integrative transcriptome/metabolome meta-analyses (i.e., the joint analysis of several studies) have not yet been fully accomplished in this species, mainly due to particular specificities of metabolomic studies, such as differences in data acquisition (i.e., different compounds being investigated), unappropriated and unstandardized metadata, or simply no deposition of data in public repositories. These meta-analyses require a high computational capacity for data mining a priori, but they also need appropriate tools to explore and visualize the integrated results. This perspective article explores the universe of omics studies conducted in V. vinifera, focusing on fruit-transcriptome and metabolome analyses as leading approaches to understand berry physiology, secondary metabolism, and quality. Moreover, we show how omics data can be integrated in a simple format and offered to the research community as a web resource, giving the chance to inspect potential gene-to-gene and gene-to-metabolite relationships that can later be tested in hypothesis-driven research. In the frame of the activities promoted by the COST Action CA17111 INTEGRAPE, we present the first grapevine transcriptomic and metabolomic integrated database (TransMetaDb) developed within the Vitis Visualization (VitViz) platform (https://tomsbiolab.com/vitviz). This tool also enables the user to conduct and explore meta-analyses utilizing different experiments, therefore hopefully motivating the community to generate Findable, Accessible, Interoperable and Reusable (F.A.I.R.) data to be included in the future.
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Affiliation(s)
- Stefania Savoi
- Department of Agricultural, Forest and Food Sciences, University of Turin, Grugliasco, Italy
| | - Antonio Santiago
- Institute for Integrative Systems Biology (I2SysBio), Universitat de València-CSIC, Paterna, Spain
| | - Luis Orduña
- Institute for Integrative Systems Biology (I2SysBio), Universitat de València-CSIC, Paterna, Spain
| | - José Tomás Matus
- Institute for Integrative Systems Biology (I2SysBio), Universitat de València-CSIC, Paterna, Spain
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10
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Boutet S, Barreda L, Perreau F, Totozafy JC, Mauve C, Gakière B, Delannoy E, Martin-Magniette ML, Monti A, Lepiniec L, Zanetti F, Corso M. Untargeted metabolomic analyses reveal the diversity and plasticity of the specialized metabolome in seeds of different Camelina sativa genotypes. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2022; 110:147-165. [PMID: 34997644 DOI: 10.1111/tpj.15662] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/05/2021] [Accepted: 12/20/2021] [Indexed: 06/14/2023]
Affiliation(s)
- Stéphanie Boutet
- Institut Jean-Pierre Bourgin, Université Paris-Saclay, INRAE, AgroParisTech, 78000, Versailles, France
| | - Léa Barreda
- Institut Jean-Pierre Bourgin, Université Paris-Saclay, INRAE, AgroParisTech, 78000, Versailles, France
| | - François Perreau
- Institut Jean-Pierre Bourgin, Université Paris-Saclay, INRAE, AgroParisTech, 78000, Versailles, France
| | - Jean-Chrisologue Totozafy
- Institut Jean-Pierre Bourgin, Université Paris-Saclay, INRAE, AgroParisTech, 78000, Versailles, France
| | - Caroline Mauve
- Institute of Plant Sciences Paris-Saclay (IPS2), Université Paris-Saclay, CNRS, INRAE, University of Evry, Orsay, France
- Institute of Plant Sciences Paris Saclay (IPS2), Université de Paris, CNRS, INRAE, 91405, Orsay, France
| | - Bertrand Gakière
- Institute of Plant Sciences Paris-Saclay (IPS2), Université Paris-Saclay, CNRS, INRAE, University of Evry, Orsay, France
- Institute of Plant Sciences Paris Saclay (IPS2), Université de Paris, CNRS, INRAE, 91405, Orsay, France
| | - Etienne Delannoy
- Institute of Plant Sciences Paris-Saclay (IPS2), Université Paris-Saclay, CNRS, INRAE, University of Evry, Orsay, France
- Institute of Plant Sciences Paris Saclay (IPS2), Université de Paris, CNRS, INRAE, 91405, Orsay, France
| | - Marie-Laure Martin-Magniette
- Institute of Plant Sciences Paris-Saclay (IPS2), Université Paris-Saclay, CNRS, INRAE, University of Evry, Orsay, France
- Institute of Plant Sciences Paris Saclay (IPS2), Université de Paris, CNRS, INRAE, 91405, Orsay, France
- UMR MIA-Paris, AgroParisTech, INRAE, Université Paris-Saclay, 75005, Paris, France
| | - Andrea Monti
- Department of Agricultural and Food Sciences, Alma Mater Studiorum - Università di Bologna, Viale G. Fanin 44, 40127, Bologna, Italy
| | - Loïc Lepiniec
- Institut Jean-Pierre Bourgin, Université Paris-Saclay, INRAE, AgroParisTech, 78000, Versailles, France
| | - Federica Zanetti
- Department of Agricultural and Food Sciences, Alma Mater Studiorum - Università di Bologna, Viale G. Fanin 44, 40127, Bologna, Italy
| | - Massimiliano Corso
- Institut Jean-Pierre Bourgin, Université Paris-Saclay, INRAE, AgroParisTech, 78000, Versailles, France
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11
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Gashu K, Song C, Dubey AK, Acuña T, Sagi M, Agam N, Bustan A, Fait A. The Effect of Topo-Climate Variation on the Secondary Metabolism of Berries in White Grapevine Varieties ( Vitis vinifera). FRONTIERS IN PLANT SCIENCE 2022; 13:847268. [PMID: 35350300 PMCID: PMC8958008 DOI: 10.3389/fpls.2022.847268] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/01/2022] [Accepted: 02/09/2022] [Indexed: 06/14/2023]
Abstract
Exploiting consistent differences in radiation and average air temperature between two experimental vineyards (Ramat Negev, RN and Mitzpe Ramon, MR), we examined the impact of climate variations on total carotenoids, redox status, and phenylpropanoid metabolism in the berries of 10 white wine grapevine (Vitis vinifera) cultivars across three consecutive seasons (2017-2019). The differences in carotenoid and phenylpropanoid contents between sites were seasonal and varietal dependent. However, the warmer RN site was generally associated with higher H2O2 levels and carotenoid degradation, and lower flavonol contents than the cooler MR site. Enhanced carotenoid degradation was positively correlated with radiation and daily degree days, leading to a greater drop in content from véraison to harvest in Colombard, Sauvignon Blanc, and Semillon berries. Analyses of berry H2O2 and phenylpropanoids suggested differences between cultivars in the links between H2O2 and flavonol contents. Generally, however, grapes with higher H2O2 content seem to have lower flavonol contents. Correlative network analyses revealed that phenylpropanoids at the warmer RN site are tightly linked to the radiation and temperature regimes during fruit ripening, indicating potentially harmful effect of warmer climates on berry quality. Specifically, flavan-3-ols were negatively correlated with radiation at RN. Principal component analysis showed that Muscat Blanc, Riesling, Semillon, and Sauvignon Blanc were the most site sensitive cultivars. Our results suggest that grapevine biodiversity is likely the key to withstand global warming hazards.
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Affiliation(s)
- Kelem Gashu
- Albert Katz International School for Desert Studies, Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Beersheba, Israel
| | - Chao Song
- Albert Katz International School for Desert Studies, Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Beersheba, Israel
| | - Arvind Kumar Dubey
- Albert Katz International School for Desert Studies, Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Beersheba, Israel
| | - Tania Acuña
- Albert Katz Department of Dryland Biotechnologies, French Associates Institute for Agriculture and Biotechnology of Drylands, Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Beersheba, Israel
| | - Moshe Sagi
- Albert Katz Department of Dryland Biotechnologies, French Associates Institute for Agriculture and Biotechnology of Drylands, Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Beersheba, Israel
| | - Nurit Agam
- Wyler Department of Dryland Agriculture, French Associates Institute for Agriculture and Biotechnology of Drylands, Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Beersheba, Israel
| | - Amnon Bustan
- Ramat Negev Desert Agro-Research Center, Ramat Negev Works Ltd., Halutza, Israel
| | - Aaron Fait
- Albert Katz Department of Dryland Biotechnologies, French Associates Institute for Agriculture and Biotechnology of Drylands, Jacob Blaustein Institutes for Desert Research, Ben-Gurion University of the Negev, Beersheba, Israel
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12
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Effect of Shading Nets on Yield, Leaf Biomass and Petiole Nutrients of a Muscat of Alexandria Vineyard Growing under Hyper-Arid Conditions. HORTICULTURAE 2021. [DOI: 10.3390/horticulturae7110445] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Background: Currently, viticulture is exposed to extreme weather fluctuations and global warming, thus the implementation of short-term adaptation strategies to mitigate climate change impacts will be of a wide importance for the sustainability and competitiveness of wine industry. This research aimed to study the effect of shading nets on the viticultural performance of a Muscat of Alexandria vineyard growing under hyper-arid conditions. Methods: Three treatments were randomly arranged in the vineyard: (i) a control (without shading), (ii) a white shading net (25% of shading), and (iii) a black shading net (40% of shading). Subsequently, yield, vine vigor, berry composition, leaf biomass and petiole nutrient content were assessed. Results: Both shading nets decreased the incidence of solar radiation in vines. The application of white shading nets induced a high bunch weight and a higher number of berries per bunch than the black shading nets. Black shading nets increased pruning weight, decreased Ravaz index and induced a considerably accumulation of soluble solids in grapes. This treatment also decreased bunch weight and the number of berries per bunch, and increased rachis length compared to control. Black shading nets decreased Mg petiole content, leaf dry weight and leaf biomass at flowering compared to uncovered vines. Conclusions: Shading considerably affected the viticultural performance of Muscat of Alexandria vines growing under hyper-arid conditions, modifying yield, leaf biomass and petiole nutrients.
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Muñoz F, Urvieta R, Buscema F, Rasse M, Fontana A, Berli F. Phenolic Characterization of Cabernet Sauvignon Wines From Different Geographical Indications of Mendoza, Argentina: Effects of Plant Material and Environment. FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2021. [DOI: 10.3389/fsufs.2021.700642] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
The chemical and sensory characteristics of the wines are related to the geographical origin of the grape, as a result of the interplay between the plant material (G), its acclimatization to the environment (E) and the human factor that influences both the vineyard and the winery. The range of phenotypes that a single genotype can express depending on its environment is known as phenotypic plasticity and is the result of G × E interaction. The present study evaluated the independent and interactive effects of Cabernet Sauvignon plant materials (G: Clone 7 and Mount Eden) implanted in different geographical indications of Mendoza, Argentina (E: Agrelo, Pampa El Cepillo, Altamira and Gualtallary) according to fruit yield and phenolic profiles of wines. The experiment was carried out during 2018 and 2019 vintages using a multifactorial design. When berries reached 24 °Brix, the clusters were harvested, analyzed and wines elaborated by a standardized procedure. Then, the anthocyanin and non-anthocyanin phenolic profiles of wines were determined by high-performance liquid chromatography with diode array and fluorescence detection (HPLC-DAD–FLD). The results revealed significant G × E interactions for yield traits, including the number of clusters per plant. Differential chemical composition and quality parameters of the resulting wines, markedly affected by E, were observed; that is the geographical location of the vineyards. There were similarities in the phenolic composition between Pampa El Cepillo and Altamira, while larger differences between Agrelo and Gualtallary were observed. Gualtallary presented the highest levels of anthocyanins, quercetin and trans-resveratrol. The increased amount of these compounds in Gualtallary was associated with an increased UV-B exposure of plants at this high altitude environment. This is the first report that characterizes the effects of plant material and environment for Cabernet Sauvignon. These results are of oenological and viticulture interest for the wine industry demonstrating that the selection of the plant material and the vineyard location for Cabernet Sauvignon can considerably affect the quality attributes of wines.
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14
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Fajardo TVM, Quecini V. Comparative transcriptome analyses between cultivated and wild grapes reveal conservation of expressed genes but extensive rewiring of co-expression networks. PLANT MOLECULAR BIOLOGY 2021; 106:1-20. [PMID: 33538951 DOI: 10.1007/s11103-021-01122-2] [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] [Received: 07/23/2020] [Accepted: 01/17/2021] [Indexed: 06/12/2023]
Abstract
The transcriptomes of wild and cultivated grapes consists of similar expressed genes but distinct wiring of co-expressed modules associated with environmental conditions. Grapevine is an important fruit crop worldwide, with high economic value and widespread distribution. Commercial production is based on Vitis vinifera, and, to a lesser extent, on hybrids with American grapes, such as V. labrusca. Wild grape relatives are important sources of resistance against biotic and abiotic factors; however, their global gene expression patterns remain poorly characterized. We associated genome-wide transcript profiling to phenotypic analyses to investigate the responses of cultivated and wild vines to vineyard conditions. The expressed genes in the Vitis reference transcriptome are largely shared by wild grapes, V. labrusca hybrids and vinifera cultivars. In contrast, significant differential regulation between wild and vinifera genotypes represents 80% of gene expression variation, regardless of the environment. In wild grapes, genes associated to regulatory processes are downregulated, whereas those involved in metabolic pathways are upregulated, in comparison to vinifera. Photosynthesis-related ontologies are overrepresented in the induced genes, in agreement with higher contents of chlorophyll in wild grapes. Co-regulated gene network analyses provide evidence of more complex transcriptome organization in vinifera. In wild grapes, genes involved in signaling pathways of stress-related hormones are overrepresented in modules associated with the environment. Consensus network analyses revealed high preservation within co-regulated gene modules between cultivated and wild grapes, but divergent relationships among the expression clusters. In conclusion, the distinct phenotypes of wild and cultivated grapes are underlain by differences in gene expression, but also by distinct higher-order organization of the transcriptome and contrasting association of co-expressed gene clusters with the environment.
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Affiliation(s)
- Thor V M Fajardo
- Embrapa Uva e Vinho (Brazilian Agricultural Research Corporation, Grape and Wine Research Center), Rua Livramento, 515, Bento Gonçalves, RS, 95701-008, Brazil
| | - Vera Quecini
- Embrapa Uva e Vinho (Brazilian Agricultural Research Corporation, Grape and Wine Research Center), Rua Livramento, 515, Bento Gonçalves, RS, 95701-008, Brazil.
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15
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Secondary Metabolism and Defense Responses Are Differently Regulated in Two Grapevine Cultivars during Ripening. Int J Mol Sci 2021; 22:ijms22063045. [PMID: 33802641 PMCID: PMC8002507 DOI: 10.3390/ijms22063045] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2021] [Revised: 03/12/2021] [Accepted: 03/14/2021] [Indexed: 12/31/2022] Open
Abstract
Vitis vinifera ‘Nebbiolo’ is one of the most important wine grape cultivars used to produce prestigious high-quality wines known throughout the world, such as Barolo and Barbaresco. ‘Nebbiolo’ is a distinctive genotype characterized by medium/high vigor, long vegetative and ripening cycles, and limited berry skin color rich in 3′-hydroxylated anthocyanins. To investigate the molecular basis of these characteristics, ‘Nebbiolo’ berries collected at three different stages of ripening (berry pea size, véraison, and harvest) were compared with V. vinifera ‘Barbera’ berries, which are rich in 3′,5′-hydroxylated anthocyanins, using transcriptomic and analytical approaches. In two consecutive seasons, the two genotypes confirmed their characteristic anthocyanin profiles associated with a different modulation of their transcriptomes during ripening. Secondary metabolism and response to stress were the functional categories that most differentially changed between ‘Nebbiolo’ and ‘Barbera’. The profile rich in 3′-hydroxylated anthocyanins of ‘Nebbiolo’ was likely linked to a transcriptional downregulation of key genes of anthocyanin biosynthesis. In addition, at berry pea size, the defense metabolism was more active in ‘Nebbiolo’ than ‘Barbera’ in absence of biotic attacks. Accordingly, several pathogenesis-related proteins, WRKY transcription factors, and stilbene synthase genes were overexpressed in ‘Nebbiolo’, suggesting an interesting specific regulation of defense pathways in this genotype that deserves to be further explored.
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16
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Gutiérrez-Gamboa G, Zheng W, Martínez de Toda F. Strategies in vineyard establishment to face global warming in viticulture: a mini review. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2021; 101:1261-1269. [PMID: 32914423 DOI: 10.1002/jsfa.10813] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2020] [Revised: 07/24/2020] [Accepted: 09/10/2020] [Indexed: 05/26/2023]
Abstract
Different technological solutions are developing in the wine industry to mitigate the negative effects of the current global warming to mainly achieve wines with a lower alcohol content. These proposed solutions mostly act at the oenological level and are focused on intervening in the raw material to be transformed; that is, on reducing the concentration of sugar in the must using filtration techniques or also on wine dealcoholizing by physical processes. These techniques are intended to offer solutions and respond to new consumer expectations, but they may be considered too artificial to be widely accepted. In this way, viticultural strategies may offer a natural solution to obtain grapes with low sugar content, maximizing their quality by delaying ripening. This mini review surveys the viticultural strategies that can be applied in the establishment of a vineyard - that is, when it comes to planting of a new vineyard - such as vineyard altitude, latitude, orientation, and slope, as well as rootstock, variety, clone, training system, and row orientation and slope, with the aim to mitigate the negative effects of climate change on grape and wine quality and to delay grape maturation. Finally, we propose a ponderation of the strategies discussed to contextualize its importance to face global warming in viticulture. © 2020 Society of Chemical Industry.
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Affiliation(s)
| | - Wei Zheng
- Faculty of Functional Food and Wine, Shenyang Pharmaceutical University, Shenyang, China
| | - Fernando Martínez de Toda
- Instituto de Ciencias de la Vid y del Vino (CSIC, Gobierno de La Rioja, Universidad de La Rioja), Logroño, Spain
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17
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Varela A, Ibañez VN, Alonso R, Zavallo D, Asurmendi S, Gomez Talquenca S, Marfil CF, Berli FJ. Vineyard environments influence Malbec grapevine phenotypic traits and DNA methylation patterns in a clone-dependent way. PLANT CELL REPORTS 2021; 40:111-125. [PMID: 33068175 DOI: 10.1007/s00299-020-02617-w] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2020] [Accepted: 09/30/2020] [Indexed: 05/14/2023]
Abstract
By studying three cv. Malbec clones cultivated in two vineyards with contrasting environmental conditions, we demonstrated that DNA methylation has an important role in the phenotypic plasticity and that epigenetic modulation is clone-dependent. Clonal selection and vegetative propagation determine low genetic variability in grapevine cultivars, although it is common to observe diverse phenotypes. Environmental signals may induce epigenetic changes altering gene expression and phenotype. The range of phenotypes that a genotype expresses in different environments is known as phenotypic plasticity. DNA methylation is the most studied epigenetic mechanism, but only few works evaluated this novel source of variability in grapevines. In the present study, we analyzed the effects on phenotypic traits and epigenome of three Vitis vinifera cv. Malbec clones cultivated in two contrasting vineyards of Mendoza, Argentina. Anonymous genome regions were analyzed using methylation-sensitive amplified polymorphism (MSAP) markers. Clone-dependent phenotypic and epigenetic variability between vineyards were found. The clone that presented the clearer MSAP differentiation between vineyards was selected and analyzed through reduced representation bisulfite sequencing. Twenty-nine differentially methylated regions between vineyards were identified and associated to genes and/or promoters. We discuss about a group of genes related to hormones homeostasis and sensing that could provide a hint of the epigenetic role in the determination of the different phenotypes observed between vineyards and conclude that DNA methylation has an important role in the phenotypic plasticity and that epigenetic modulation is clone-dependent.
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Affiliation(s)
- Anabella Varela
- Facultad de Ciencias Agrarias, Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Alte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina
| | - Verónica N Ibañez
- Facultad de Ciencias Agrarias, Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Alte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina
| | - Rodrigo Alonso
- Catena Institute of Wine (CIW), Bodega Catena Zapata, Cobos w/n, M5509, Agrelo, Mendoza, Argentina
| | - Diego Zavallo
- Instituto de Agrobiotecnología y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), De Losos Reseros y N. Repetto w/n, Hurlingham B1686IGC, Buenos Aires, Argentina
| | - Sebastián Asurmendi
- Instituto de Agrobiotecnología y Biología Molecular (IABIMO), Instituto Nacional de Tecnología Agropecuaria (INTA), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), De Losos Reseros y N. Repetto w/n, Hurlingham B1686IGC, Buenos Aires, Argentina
| | | | - Carlos F Marfil
- Facultad de Ciencias Agrarias, Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Alte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina.
- Facultad de Ciencias Agrarias, Universidad Nacional de Cuyo, Alte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina.
| | - Federico J Berli
- Facultad de Ciencias Agrarias, Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Alte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina.
- Facultad de Ciencias Agrarias, Universidad Nacional de Cuyo, Alte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina.
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18
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Zhong H, Zhang F, Pan M, Wu X, Zhang W, Han S, Xie H, Zhou X, Wang M, Ai CM, He T. Comparative phenotypic and transcriptomic analysis of Victoria and flame seedless grape cultivars during berry ripening. FEBS Open Bio 2020; 10:2616-2630. [PMID: 33090714 PMCID: PMC7714085 DOI: 10.1002/2211-5463.12996] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2020] [Revised: 09/07/2020] [Accepted: 10/05/2020] [Indexed: 11/18/2022] Open
Abstract
Grape berry development is a highly coordinated and intricate process. Herein, we analyzed the phenotypic and transcriptomic patterns of Victoria (VT) and Flame Seedless (FS) grape varieties during berry development. Physiological analysis and transcriptomic sequencing were performed at four berry developmental phases. VT berry size was comparatively larger to the FS variety. At maturity, 80 days postanthesis (DPA), the FS soluble solids were 61.8% higher than VT. Further, 4889 and 2802 differentially expressed genes were identified from VT and FS 40 DPA to 80 DPA development stages, respectively. VvSWEET15, VvHXK, and MYB44 genes were up‐regulated during the postanthesis period, while bHLH14, linked to glucose metabolism, was gradually down‐regulated during berry development. These genes may have significant roles in berry development, ripening, and sugar accumulation.
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Affiliation(s)
- Haixia Zhong
- College of Forestry and Horticulture, Xinjiang Agricultural University, Urumqi, China.,Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Fuchun Zhang
- Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Mingqi Pan
- Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Xinyu Wu
- Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Wen Zhang
- Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Shouan Han
- Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Hui Xie
- Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Xiaoming Zhou
- Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Min Wang
- Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Caikasimu Maikeer Ai
- Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi, China
| | - Tianming He
- College of Forestry and Horticulture, Xinjiang Agricultural University, Urumqi, China
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19
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Balestrini R, Ghignone S, Quiroga G, Fiorilli V, Romano I, Gambino G. Long-Term Impact of Chemical and Alternative Fungicides Applied to Grapevine cv Nebbiolo on Berry Transcriptome. Int J Mol Sci 2020; 21:ijms21176067. [PMID: 32842492 PMCID: PMC7504522 DOI: 10.3390/ijms21176067] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2020] [Revised: 08/11/2020] [Accepted: 08/20/2020] [Indexed: 11/16/2022] Open
Abstract
Viticulture is one of the horticultural systems in which antifungal treatments can be extremely frequent, with substantial economic and environmental costs. New products, such as biofungicides, resistance inducers and biostimulants, may represent alternative crop protection strategies respectful of the environmental sustainability and food safety. Here, the main purpose was to evaluate the systemic molecular modifications induced by biocontrol products as laminarin, resistance inducers (i.e., fosetyl-Al and potassium phosphonate), electrolyzed water and a standard chemical fungicide (i.e., metiram), on the transcriptomic profile of ‘Nebbiolo’ grape berries at harvest. In addition to a validation of the sequencing data through real-time polymerase chain reaction (PCR), for the first-time the expression of some candidate genes in different cell-types of berry skin (i.e., epidermal and hypodermal layers) was evaluated using the laser microdissection approach. Results showed that several considered antifungal treatments do not strongly affect the berry transcriptome profile at the end of season. Although some treatments do not activate long lasting molecular defense priming features in berry, some compounds appear to be more active in long-term responses. In addition, genes differentially expressed in the two-cell type populations forming the berry skin were found, suggesting a different function for the two-cell type populations.
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Affiliation(s)
- Raffaella Balestrini
- National Research Council, Institute for Sustainable Plant Protection, 10125 Turin, Italy; (S.G.); (G.Q.); (I.R.); (G.G.)
- Correspondence: ; Tel.: +39-011-650-2927
| | - Stefano Ghignone
- National Research Council, Institute for Sustainable Plant Protection, 10125 Turin, Italy; (S.G.); (G.Q.); (I.R.); (G.G.)
| | - Gabriela Quiroga
- National Research Council, Institute for Sustainable Plant Protection, 10125 Turin, Italy; (S.G.); (G.Q.); (I.R.); (G.G.)
| | - Valentina Fiorilli
- Department of Life Science and Systems Biology, Turin University, 10125 Turin, Italy;
| | - Irene Romano
- National Research Council, Institute for Sustainable Plant Protection, 10125 Turin, Italy; (S.G.); (G.Q.); (I.R.); (G.G.)
| | - Giorgio Gambino
- National Research Council, Institute for Sustainable Plant Protection, 10125 Turin, Italy; (S.G.); (G.Q.); (I.R.); (G.G.)
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20
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Perin C, Fait A, Palumbo F, Lucchin M, Vannozzi A. The Effect of Soil on the Biochemical Plasticity of Berry Skin in Two Italian Grapevine ( V. vinifera L.) Cultivars. FRONTIERS IN PLANT SCIENCE 2020; 11:822. [PMID: 32676084 PMCID: PMC7333541 DOI: 10.3389/fpls.2020.00822] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/16/2020] [Accepted: 05/22/2020] [Indexed: 05/30/2023]
Abstract
Grapevine represents a particularly interesting species as concerns phenotypic plasticity, considering that the terroir, meaning the contribution of the geography, geology, and climate of a certain place, together with the agronomical practices utilized, may deeply influence the berry phenotype at the physiological, molecular, and biochemical levels. This phenomenon leads to the production of wines that, although produced from the same variety, exhibit different enological profiles and represents an issue of increasing interest from both a biological and an economic point of view. The main objective of the present study was to deepen the understanding of phenotypic plasticity in grapevine, trying to dissect the role of one its important components - the soil - by investigating the singular effect that different physico-chemical soil properties can produce in terms of berry plasticity at the phenological, physiological, and biochemical levels in a red and a white variety of great economic importance in Italy and overseas: Corvina and Glera. The results indicated a genotype-dependent response to the soil factor, with higher biochemical plasticity in Corvina with respect to Glera and suggested a key role of specific soil properties, including the skeleton, texture, and mineral composition, on the metabolite profile of berry skin.
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Affiliation(s)
- Corrado Perin
- Department of Agronomy, Food, Natural Resources, Animals and Environment, University of Padova, Legnaro PD, Italy
| | - Aaron Fait
- The French Associates Institute for Agriculture and Biotechnology of Drylands, the Jacob Blaustein Institute for Desert Research, Ben-Gurion University of the Negev, Sede Boqer, Israel
| | - Fabio Palumbo
- Department of Agronomy, Food, Natural Resources, Animals and Environment, University of Padova, Legnaro PD, Italy
| | - Margherita Lucchin
- Department of Agronomy, Food, Natural Resources, Animals and Environment, University of Padova, Legnaro PD, Italy
| | - Alessandro Vannozzi
- Department of Agronomy, Food, Natural Resources, Animals and Environment, University of Padova, Legnaro PD, Italy
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21
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Dono G, Rambla JL, Frusciante S, Granell A, Diretto G, Mazzucato A. Color Mutations Alter the Biochemical Composition in the San Marzano Tomato Fruit. Metabolites 2020; 10:E110. [PMID: 32183449 PMCID: PMC7143285 DOI: 10.3390/metabo10030110] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2020] [Revised: 03/07/2020] [Accepted: 03/12/2020] [Indexed: 01/16/2023] Open
Abstract
San Marzano (SM) is a traditional Italian landrace characterized by red elongated fruits, originating in the province of Naples (Italy) and cultivated worldwide. Three mutations, yellow flesh (r), green flesh (gf) and colorless fruit epidermis (y) were introduced into SM by backcross and the resulting introgression lines (ILs) produced the expected yellow, brown and pink fruit variants. In addition, ILs carrying double combinations of those mutations were obtained. The six ILs plus the SM reference were analyzed for volatile (VOC), non-polar (NP) and polar (P) metabolites. Sixty-eight VOCs were identified, and several differences evidenced in the ILs; overall gf showed epistasis over r and y and r over y. Analysis of the NP component identified 54 metabolites; variation in early carotenoids (up to lycopene) and chlorophylls characterized respectively the ILs containing r and gf. In addition, compounds belonging to the quinone and xanthophyll classes were present in genotypes carrying the r mutation at levels higher than SM. Finally, the analysis of 129 P metabolites evidenced different levels of vitamins, amino acids, lipids and phenylpropanoids in the ILs. A correlation network approach was used to investigate metabolite-metabolite relationships in the mutant lines. Altogether these differences potentially modified the hedonistic and nutritional value of the berry. In summary, single and combined mutations in gf, r and y generated interesting visual and compositional diversity in the SM landrace, while maintaining its original typology.
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Affiliation(s)
- Gabriella Dono
- DAFNE Dept. of Agriculture and Forest Sciences, University of Tuscia, Via S.C. de Lellis snc, 01100 Viterbo, Italy;
| | - Jose Luis Rambla
- IBMCP Institute for Plant Molecular and Cell Biology (CSIC-UPV), Carrer de l’Enginyer Fausto Elio, s/n, 46022 Valencia, Spain; (J.L.R.); (A.G.)
- Department of Agricultural and Environmental Sciences, Jaume I University, Av. Vicent Sos Baynat, s/n. 12071 Castellòn de la Plana, Spain
| | - Sarah Frusciante
- ENEA, Casaccia Research Center, Via Anguillarese 301, S. Maria di Galeria, 00123 Rome, Italy; (S.F.); (G.D.)
| | - Antonio Granell
- IBMCP Institute for Plant Molecular and Cell Biology (CSIC-UPV), Carrer de l’Enginyer Fausto Elio, s/n, 46022 Valencia, Spain; (J.L.R.); (A.G.)
| | - Gianfranco Diretto
- ENEA, Casaccia Research Center, Via Anguillarese 301, S. Maria di Galeria, 00123 Rome, Italy; (S.F.); (G.D.)
| | - Andrea Mazzucato
- DAFNE Dept. of Agriculture and Forest Sciences, University of Tuscia, Via S.C. de Lellis snc, 01100 Viterbo, Italy;
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Foria S, Copetti D, Eisenmann B, Magris G, Vidotto M, Scalabrin S, Testolin R, Cipriani G, Wiedemann-Merdinoglu S, Bogs J, Di Gaspero G, Morgante M. Gene duplication and transposition of mobile elements drive evolution of the Rpv3 resistance locus in grapevine. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2020; 99:895-909. [PMID: 31571285 DOI: 10.1111/tpj.14370] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2018] [Revised: 02/19/2019] [Accepted: 03/19/2019] [Indexed: 05/17/2023]
Abstract
A wild grape haplotype (Rpv3-1) confers resistance to Plasmopara viticola. We mapped the causal factor for resistance to an interval containing a TIR-NB-LRR (TNL) gene pair that originated 1.6-2.6 million years ago by a tandem segmental duplication. Transient coexpression of the TNL pair in Vitis vinifera leaves activated pathogen-induced necrosis and reduced sporulation compared with control leaves. Even though transcripts of the TNL pair from the wild haplotype appear to be partially subject to nonsense-mediated mRNA decay, mature mRNA levels in a homozygous resistant genotype were individually higher than the mRNA trace levels observed for the orthologous single-copy TNL in sensitive genotypes. Allelic expression imbalance in a resistant heterozygote confirmed that cis-acting regulatory variation promotes expression in the wild haplotype. The movement of transposable elements had a major impact on the generation of haplotype diversity, altering the DNA context around similar TNL coding sequences and the GC-content in their proximal 5'-intergenic regions. The wild and domesticated haplotypes also diverged in conserved single-copy intergenic DNA, but the highest divergence was observed in intraspecific and not in interspecific comparisons. In this case, introgression breeding did not transgress the genetic boundaries of the domesticated species, because haplotypes present in modern varieties sometimes predate speciation events between wild and cultivated species.
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Affiliation(s)
- Serena Foria
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle scienze 208, 33100, Udine, Italy
| | - Dario Copetti
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle scienze 208, 33100, Udine, Italy
- Istituto di Genomica Applicata, via Jacopo Linussio 51, 33100, Udine, Italy
- Institute of Agricultural Sciences, ETH Zürich, Universitätstrasse 2, 8092, Zürich, Switzerland
- Department of Evolutionary Biology and Environmental Studies, University of Zurich, Winterthurerstrasse 190, 8057, Zürich, Switzerland
| | - Birgit Eisenmann
- State Education and Research Center of Viticulture, Horticulture and Rural Development, Breitenweg 71, 67435, Neustadt an der Weinstraße, Germany
- Centre for Organismal Studies Heidelberg, University of Heidelberg, 69120, Heidelberg, Germany
| | - Gabriele Magris
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle scienze 208, 33100, Udine, Italy
- Istituto di Genomica Applicata, via Jacopo Linussio 51, 33100, Udine, Italy
| | - Michele Vidotto
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle scienze 208, 33100, Udine, Italy
| | - Simone Scalabrin
- Istituto di Genomica Applicata, via Jacopo Linussio 51, 33100, Udine, Italy
| | - Raffaele Testolin
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle scienze 208, 33100, Udine, Italy
| | - Guido Cipriani
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle scienze 208, 33100, Udine, Italy
| | | | - Jochen Bogs
- State Education and Research Center of Viticulture, Horticulture and Rural Development, Breitenweg 71, 67435, Neustadt an der Weinstraße, Germany
- Technische Hochschule Bingen, 55411, Bingen am Rhein, Germany
| | | | - Michele Morgante
- Department of Agricultural, Food, Environmental and Animal Sciences, University of Udine, via delle scienze 208, 33100, Udine, Italy
- Istituto di Genomica Applicata, via Jacopo Linussio 51, 33100, Udine, Italy
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23
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Cramer GR, Cochetel N, Ghan R, Destrac-Irvine A, Delrot S. A sense of place: transcriptomics identifies environmental signatures in Cabernet Sauvignon berry skins in the late stages of ripening. BMC PLANT BIOLOGY 2020; 20:41. [PMID: 31992236 PMCID: PMC6986057 DOI: 10.1186/s12870-020-2251-7] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2019] [Accepted: 01/14/2020] [Indexed: 05/29/2023]
Abstract
BACKGROUND Grape berry ripening is influenced by climate, the main component of the "terroir" of a place. Light and temperature are major factors in the vineyard that affect berry development and fruit metabolite composition. RESULTS To better understand the effect of "place" on transcript abundance during the late stages of berry ripening, Cabernet Sauvignon berries grown in Bordeaux and Reno were compared at similar sugar levels (19 to 26 °Brix (total soluble solids)). Day temperatures were warmer and night temperatures were cooler in Reno. °Brix was lower in Bordeaux berries compared to Reno at maturity levels considered optimum for harvest. RNA-Seq analysis identified 5528 differentially expressed genes between Bordeaux and Reno grape skins at 22°Brix. Weighted Gene Coexpression Network Analysis for all expressed transcripts for all four °Brix levels measured indicated that the majority (75%) of transcript expression differed significantly between the two locations. Top gene ontology categories for the common transcript sets were translation, photosynthesis, DNA metabolism and catabolism. Top gene ontology categories for the differentially expressed genes at 22°Brix involved response to stimulus, biosynthesis and response to stress. Some differentially expressed genes encoded terpene synthases, cell wall enzymes, kinases, transporters, transcription factors and photoreceptors. Most circadian clock genes had higher transcript abundance in Bordeaux. Bordeaux berries had higher transcript abundance with differentially expressed genes associated with seed dormancy, light, auxin, ethylene signaling, powdery mildew infection, phenylpropanoid, carotenoid and terpenoid metabolism, whereas Reno berries were enriched with differentially expressed genes involved in water deprivation, cold response, ABA signaling and iron homeostasis. CONCLUSIONS Transcript abundance profiles in the berry skins at maturity were highly dynamic. RNA-Seq analysis identified a smaller (25% of total) common core set of ripening genes that appear not to depend on rootstock, vineyard management, plant age, soil and climatic conditions. Much of the gene expression differed between the two locations and could be associated with multiple differences in environmental conditions that may have affected the berries in the two locations; some of these genes may be potentially controlled in different ways by the vinegrower to adjust final berry composition and reach a desired result.
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Affiliation(s)
- Grant R. Cramer
- Department of Biochemistry and Molecular Biology, University of Nevada, Reno, NV 89557 USA
| | - Noé Cochetel
- Department of Biochemistry and Molecular Biology, University of Nevada, Reno, NV 89557 USA
| | - Ryan Ghan
- Department of Biochemistry and Molecular Biology, University of Nevada, Reno, NV 89557 USA
| | - Agnès Destrac-Irvine
- UMR Ecophysiology and Grape Functional Genomics, Institut des Sciences de la Vigne et du Vin, University of Bordeaux, Villenave d’Ornon, France
| | - Serge Delrot
- UMR Ecophysiology and Grape Functional Genomics, Institut des Sciences de la Vigne et du Vin, University of Bordeaux, Villenave d’Ornon, France
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24
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Pagliarani C, Boccacci P, Chitarra W, Cosentino E, Sandri M, Perrone I, Mori A, Cuozzo D, Nerva L, Rossato M, Zuccolotto P, Pezzotti M, Delledonne M, Mannini F, Gribaudo I, Gambino G. Distinct Metabolic Signals Underlie Clone by Environment Interplay in "Nebbiolo" Grapes Over Ripening. FRONTIERS IN PLANT SCIENCE 2019; 10:1575. [PMID: 31867031 PMCID: PMC6904956 DOI: 10.3389/fpls.2019.01575] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/05/2019] [Accepted: 11/11/2019] [Indexed: 05/05/2023]
Abstract
Several research studies were focused to understand how grapevine cultivars respond to environment; nevertheless, the biological mechanisms tuning this phenomenon need to be further deepened. Particularly, the molecular processes underlying the interplay between clones of the same cultivar and environment were poorly investigated. To address this issue, we analyzed the transcriptome of berries from three "Nebbiolo" clones grown in different vineyards, during two ripening seasons. RNA-sequencing data were implemented with analyses of candidate genes, secondary metabolites, and agronomical parameters. This multidisciplinary approach helped to dissect the complexity of clone × environment interactions, by identifying the molecular responses controlled by genotype, vineyard, phenological phase, or a combination of these factors. Transcripts associated to sugar signalling, anthocyanin biosynthesis, and transport were differently modulated among clones, according to changes in berry agronomical features. Conversely, genes involved in defense response, such as stilbene synthase genes, were significantly affected by vineyard, consistently with stilbenoid accumulation. Thus, besides at the cultivar level, clone-specific molecular responses also contribute to shape the agronomic features of grapes in different environments. This reveals a further level of complexity in the regulation of genotype × environment interactions that has to be considered for orienting viticultural practices aimed at enhancing the quality of grape productions.
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Affiliation(s)
- Chiara Pagliarani
- Institute for Sustainable Plant Protection, National Research Council (IPSP-CNR), Torino, Italy
| | - Paolo Boccacci
- Institute for Sustainable Plant Protection, National Research Council (IPSP-CNR), Torino, Italy
| | - Walter Chitarra
- Institute for Sustainable Plant Protection, National Research Council (IPSP-CNR), Torino, Italy
- Council for Agricultural Research and Economics, Centre of Viticultural and Enology Research (CREA-VE), Conegliano, Italy
| | | | - Marco Sandri
- DMS StatLab, University of Brescia, Brescia, Italy
| | - Irene Perrone
- Institute for Sustainable Plant Protection, National Research Council (IPSP-CNR), Torino, Italy
| | - Alessia Mori
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Danila Cuozzo
- Institute for Sustainable Plant Protection, National Research Council (IPSP-CNR), Torino, Italy
- Department of Agricultural, Forest and Food Sciences, University of Torino, Grugliasco, Italy
| | - Luca Nerva
- Institute for Sustainable Plant Protection, National Research Council (IPSP-CNR), Torino, Italy
- Council for Agricultural Research and Economics, Centre of Viticultural and Enology Research (CREA-VE), Conegliano, Italy
| | - Marzia Rossato
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Paola Zuccolotto
- Big&Open Data Innovation Laboratory, University of Brescia, Brescia, Italy
| | - Mario Pezzotti
- Department of Biotechnology, University of Verona, Verona, Italy
| | | | - Franco Mannini
- Institute for Sustainable Plant Protection, National Research Council (IPSP-CNR), Torino, Italy
| | - Ivana Gribaudo
- Institute for Sustainable Plant Protection, National Research Council (IPSP-CNR), Torino, Italy
| | - Giorgio Gambino
- Institute for Sustainable Plant Protection, National Research Council (IPSP-CNR), Torino, Italy
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25
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Amato A, Cavallini E, Walker AR, Pezzotti M, Bliek M, Quattrocchio F, Koes R, Ruperti B, Bertini E, Zenoni S, Tornielli GB. The MYB5-driven MBW complex recruits a WRKY factor to enhance the expression of targets involved in vacuolar hyper-acidification and trafficking in grapevine. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2019; 99:1220-1241. [PMID: 31125454 DOI: 10.1111/tpj.14419] [Citation(s) in RCA: 42] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2019] [Revised: 04/24/2019] [Accepted: 05/09/2019] [Indexed: 06/09/2023]
Abstract
The accumulation of secondary metabolites and the regulation of tissue acidity contribute to the important traits of grape berry and influence plant performance in response to abiotic and biotic factors. In several plant species a highly conserved MYB-bHLH-WD (MBW) transcriptional regulatory complex controls flavonoid pigment synthesis and transport, and vacuolar acidification in epidermal cells. An additional component, represented by a WRKY-type transcription factor, physically interacts with the complex increasing the expression of some target genes and adding specificity for other targets. Here we investigated the function of MBW(W) complexes involving two MYBs (VvMYB5a and VvMYB5b) and the WRKY factor VvWRKY26 in grapevine (Vitis vinifera L.). Using transgenic grapevine plants we showed that these complexes affected different aspects of morphology, plant development, pH regulation, and pigment accumulation. Transcriptomic analysis identified a core set of putative target genes controlled by VvMYB5a, VvMYB5b, and VvWRKY26 in different tissues. Our data indicated that VvWRKY26 enhances the expression of selected target genes induced by VvMYB5a/b. Among these targets are genes involved in vacuolar hyper-acidification, such as the P-type ATPases VvPH5 and VvPH1, and trafficking, and genes involved in the biosynthesis of flavonoids. In addition, VvWRKY26 is recruited specifically by VvMYB5a, reflecting the functional diversification of VvMYB5a and VvMYB5b. The expression of MBWW complexes in vegetative organs, such as leaves, indicates a possible function of vacuolar hyper-acidification in the repulsion of herbivores and/or in developmental processes, as shown by defects in transgenic grape plants where the complex is inactivated.
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Affiliation(s)
- Alessandra Amato
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Erika Cavallini
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Amanda R Walker
- CSIRO Agriculture & Food, Waite Campus, Urrbrae, South Australia, Australia
| | - Mario Pezzotti
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Mattijs Bliek
- Swammerdam Institute of Life Sciences, University of Amsterdam, 1090GE, Amsterdam, the Netherlands
| | - Francesca Quattrocchio
- Swammerdam Institute of Life Sciences, University of Amsterdam, 1090GE, Amsterdam, the Netherlands
| | - Ronald Koes
- Swammerdam Institute of Life Sciences, University of Amsterdam, 1090GE, Amsterdam, the Netherlands
| | - Benedetto Ruperti
- Department of Agriculture, Food, Natural Resources, Animals and Environment, University of Padova, Padova, Italy
| | - Edoardo Bertini
- Department of Biotechnology, University of Verona, Verona, Italy
| | - Sara Zenoni
- Department of Biotechnology, University of Verona, Verona, Italy
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26
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Marfil C, Ibañez V, Alonso R, Varela A, Bottini R, Masuelli R, Fontana A, Berli F. Changes in grapevine DNA methylation and polyphenols content induced by solar ultraviolet-B radiation, water deficit and abscisic acid spray treatments. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2019; 135:287-294. [PMID: 30599305 DOI: 10.1016/j.plaphy.2018.12.021] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2018] [Revised: 12/19/2018] [Accepted: 12/19/2018] [Indexed: 05/21/2023]
Abstract
Environment and crop management shape plant's phenotype. Argentinean high-altitude vineyards are characterized by elevated solar ultraviolet-B radiation (UVB) and water deficit (D) that enhance enological quality for red winemaking. These signals promote phenolics accumulation in leaves and berries, being the responses mediated by abscisic acid (ABA). DNA methylation is an epigenetic mechanism that regulates gene expression and may affect grapevine growth, development and acclimation, since methylation patterns are mitotically heritable. Berry skins low molecular weight polyphenols (LMWP) were characterized in field grown Vitis vinifera L. cv. Malbec plants exposed to contrasting UV-B, D, and ABA treatments during one season. The next season early fruit shoots were epigenetically (methylation-sensitive amplification polymorphism; MSAP) and biochemically (LMWP) characterized. Unstable epigenetic patterns and/or stochastic stress-induced methylation changes were observed. UV-B and D were the treatments that induced greater number of DNA methylation changes respect to Control; and UV-B promoted global hypermethylation of MSAP epiloci. Sequenced MSAP fragments associated with UV-B and ABA showed similarities with transcriptional regulators and ubiquitin ligases proteins activated by light. UV-B was associated with flavonols accumulation in berries and with hydroxycinnamic acids in the next season fruit shoots, suggesting that DNA methylation could regulate the LMWP accumulation and participate in acclimation mechanisms.
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Affiliation(s)
- Carlos Marfil
- Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Facultad de Ciencias Agrarias, Almte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina
| | - Verónica Ibañez
- Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Facultad de Ciencias Agrarias, Almte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina
| | - Rodrigo Alonso
- Catena Institute of Wine (CIW), Bodega Catena Zapata, Cobos S/n, M5509, Agrelo, Mendoza, Argentina
| | - Anabella Varela
- Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Facultad de Ciencias Agrarias, Almte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina
| | - Rubén Bottini
- Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Facultad de Ciencias Agrarias, Almte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina
| | - Ricardo Masuelli
- Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Facultad de Ciencias Agrarias, Almte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina
| | - Ariel Fontana
- Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Facultad de Ciencias Agrarias, Almte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina
| | - Federico Berli
- Instituto de Biología Agrícola de Mendoza, CONICET-Universidad Nacional de Cuyo, Facultad de Ciencias Agrarias, Almte. Brown 500, M5507, Chacras de Coria, Mendoza, Argentina.
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27
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Fasoli M, Richter CL, Zenoni S, Bertini E, Vitulo N, Dal Santo S, Dokoozlian N, Pezzotti M, Tornielli GB. Timing and Order of the Molecular Events Marking the Onset of Berry Ripening in Grapevine. PLANT PHYSIOLOGY 2018; 178:1187-1206. [PMID: 30224433 PMCID: PMC6236592 DOI: 10.1104/pp.18.00559] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2018] [Accepted: 08/31/2018] [Indexed: 05/08/2023]
Abstract
Grapevine (Vitis vinifera) is a model for the investigation of physiological and biochemical changes during the formation and ripening of nonclimacteric fleshy fruits. However, the order and complexity of the molecular events during fruit development remain poorly understood. To identify the key molecular events controlling berry formation and ripening, we created a highly detailed transcriptomic and metabolomic map of berry development, based on samples collected every week from fruit set to maturity in two grapevine genotypes for three consecutive years, resulting in 219 samples. Major transcriptomic changes were represented by coordinated waves of gene expression associated with early development, veraison (onset of ripening)/midripening, and late-ripening and were consistent across vintages. The two genotypes were clearly distinguished by metabolite profiles and transcriptional changes occurring primarily at the veraison/midripening phase. Coexpression analysis identified a core network of transcripts as well as variations in the within-module connections representing varietal differences. By focusing on transcriptome rearrangements close to veraison, we identified two rapid and successive shared transitions involving genes whose expression profiles precisely locate the timing of the molecular reprogramming of berry development. Functional analyses of two transcription factors, markers of the first transition, suggested that they participate in a hierarchical cascade of gene activation at the onset of ripening. This study defined the initial transcriptional events that mark and trigger the onset of ripening and the molecular network that characterizes the whole process of berry development, providing a framework to model fruit development and maturation in grapevine.
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Affiliation(s)
| | | | - Sara Zenoni
- Biotechnology Department, University of Verona, 37134 Verona, Italy
| | - Edoardo Bertini
- Biotechnology Department, University of Verona, 37134 Verona, Italy
| | - Nicola Vitulo
- Biotechnology Department, University of Verona, 37134 Verona, Italy
| | - Silvia Dal Santo
- Biotechnology Department, University of Verona, 37134 Verona, Italy
| | | | - Mario Pezzotti
- Biotechnology Department, University of Verona, 37134 Verona, Italy
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28
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Balic I, Vizoso P, Nilo-Poyanco R, Sanhueza D, Olmedo P, Sepúlveda P, Arriagada C, Defilippi BG, Meneses C, Campos-Vargas R. Transcriptome analysis during ripening of table grape berry cv. Thompson Seedless. PLoS One 2018; 13:e0190087. [PMID: 29320527 PMCID: PMC5761854 DOI: 10.1371/journal.pone.0190087] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2017] [Accepted: 12/07/2017] [Indexed: 11/18/2022] Open
Abstract
Ripening is one of the key processes associated with the development of major organoleptic characteristics of the fruit. This process has been extensively characterized in climacteric fruit, in contrast with non-climacteric fruit such as grape, where the process is less understood. With the aim of studying changes in gene expression during ripening of non-climacteric fruit, an Illumina based RNA-Seq transcriptome analysis was performed on four developmental stages, between veraison and harvest, on table grapes berries cv Thompson Seedless. Functional analysis showed a transcriptional increase in genes related with degradation processes of chlorophyll, lipids, macromolecules recycling and nucleosomes organization; accompanied by a decrease in genes related with chloroplasts integrity and amino acid synthesis pathways. It was possible to identify several processes described during leaf senescence, particularly close to harvest. Before this point, the results suggest a high transcriptional activity associated with the regulation of gene expression, cytoskeletal organization and cell wall metabolism, which can be related to growth of berries and firmness loss characteristic to this stage of development. This high metabolic activity could be associated with an increase in the transcription of genes related with glycolysis and respiration, unexpected for a non-climacteric fruit ripening.
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Affiliation(s)
- Iván Balic
- Universidad Andrés Bello, Facultad Ciencias Biológicas, Centro de Biotecnología Vegetal, Santiago, Chile
- Universidad de Los Lagos, Departamento de Acuicultura y Recursos Agroalimentarios, Osorno, Chile
| | - Paula Vizoso
- Center of Plant Propagation and Conservation (CEPROVEG), Faculty of Sciences, Universidad Mayor, Santiago, Chile
| | | | - Dayan Sanhueza
- Universidad Andrés Bello, Facultad Ciencias Biológicas, Centro de Biotecnología Vegetal, Santiago, Chile
| | - Patricio Olmedo
- Universidad Andrés Bello, Facultad Ciencias Biológicas, Centro de Biotecnología Vegetal, Santiago, Chile
| | - Pablo Sepúlveda
- Universidad Andrés Bello, Facultad Ciencias Biológicas, Centro de Biotecnología Vegetal, Santiago, Chile
| | - Cesar Arriagada
- Laboratorio Biorremediación, Departamento de Ciencias Forestales, Facultad de Ciencias Agropecuarias y Forestales, Universidad de La Frontera, Temuco, Chile
| | - Bruno G. Defilippi
- Instituto de Investigaciones Agropecuarias, INIA La Platina, Santiago, Chile
| | - Claudio Meneses
- Universidad Andrés Bello, Facultad Ciencias Biológicas, Centro de Biotecnología Vegetal, Santiago, Chile
- FONDAP Center for Genome Regulation, Santiago, Chile
| | - Reinaldo Campos-Vargas
- Universidad Andrés Bello, Facultad Ciencias Biológicas, Centro de Biotecnología Vegetal, Santiago, Chile
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29
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Massonnet M, Fasoli M, Tornielli GB, Altieri M, Sandri M, Zuccolotto P, Paci P, Gardiman M, Zenoni S, Pezzotti M. Ripening Transcriptomic Program in Red and White Grapevine Varieties Correlates with Berry Skin Anthocyanin Accumulation. PLANT PHYSIOLOGY 2017; 174:2376-2396. [PMID: 28652263 PMCID: PMC5543946 DOI: 10.1104/pp.17.00311] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2017] [Accepted: 06/22/2017] [Indexed: 05/21/2023]
Abstract
Grapevine (Vitis vinifera) berry development involves a succession of physiological and biochemical changes reflecting the transcriptional modulation of thousands of genes. Although recent studies have investigated the dynamic transcriptome during berry development, most have focused on a single grapevine variety, so there is a lack of comparative data representing different cultivars. Here, we report, to our knowledge, the first genome-wide transcriptional analysis of 120 RNA samples corresponding to 10 Italian grapevine varieties collected at four growth stages. The 10 varieties, representing five red-skinned and five white-skinned berries, were all cultivated in the same experimental vineyard to reduce environmental variability. The comparison of transcriptional changes during berry formation and ripening allowed us to determine the transcriptomic traits common to all varieties, thus defining the core transcriptome of berry development, as well as the transcriptional dynamics underlying differences between red and white berry varieties. A greater variation among the red cultivars than between red and white cultivars at the transcriptome level was revealed, suggesting that anthocyanin accumulation during berry maturation has a direct impact on the transcriptomic regulation of multiple biological processes. The expression of genes related to phenylpropanoid/flavonoid biosynthesis clearly distinguished the behavior of red and white berry genotypes during ripening but also reflected the differential accumulation of anthocyanins in the red berries, indicating some form of cross talk between the activation of stilbene biosynthesis and the accumulation of anthocyanins in ripening berries.
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Affiliation(s)
- Mélanie Massonnet
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - Marianna Fasoli
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | | | - Mario Altieri
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - Marco Sandri
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - Paola Zuccolotto
- Big & Open Data Innovation Laboratory, University of Brescia, 25123 Brescia, Italy
| | - Paola Paci
- Institute for Systems Analysis and Computer Science Antonio Ruberti, National Research Council, 00185 Rome, Italy
- SysBio Centre for Systems Biology, 00185 Rome, Italy
| | | | - Sara Zenoni
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
| | - Mario Pezzotti
- Department of Biotechnology, University of Verona, 37134 Verona, Italy
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30
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Commisso M, Anesi A, Dal Santo S, Guzzo F. Performance comparison of electrospray ionization and atmospheric pressure chemical ionization in untargeted and targeted liquid chromatography/mass spectrometry based metabolomics analysis of grapeberry metabolites. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2017; 31:292-300. [PMID: 27935129 DOI: 10.1002/rcm.7789] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2016] [Revised: 11/03/2016] [Accepted: 11/04/2016] [Indexed: 06/06/2023]
Abstract
RATIONALE Electrospray ionization (ESI) and atmospheric pressure chemical ionization (APCI) are both used to generate ions for the analysis of metabolites by liquid chromatography/mass spectrometry (LC/MS). We compared the performance of these methods for the analysis of Corvina grapevine berry methanolic extracts, which are complex mixtures of diverse metabolites. METHODS Corvina berries representing three ripening stages (veraison, early-ripening and full-ripening) were collected during two growing seasons, powdered and extracted with methanol. Untargeted metabolomic analysis was carried out by LC/ESI-MS and LC/APCI-MS. Processed data files were assembled into a data matrix for multivariate statistical analysis. The limits of detection (LODs), limits of quantification (LOQs), linear ranges, and matrix effects were investigated for strongly polar metabolites such as sucrose and tartaric acid and for moderately polar metabolites such as caftaric acid, epicatechin and quercetin 3-O-glucoside. RESULTS Multivariate statistical analysis of the 608 features revealed that APCI was particularly suitable for the ionization of strongly polar metabolites such as sugars and organic acids, whereas ESI was more suitable for moderately polar metabolites such as flavanols, flavones and both glycosylated and acylated anthocyanins. APCI generated more fragment ions whereas ESI generated more adducts. ESI achieved lower LODs and LOQs for sucrose and tartaric acid but featured narrower linear ranges and greater matrix effects. CONCLUSIONS ESI and APCI are not complementary ion sources. Indeed, ESI can be exploited to analyze moderately polar metabolites, whereas APCI can be used to investigate weakly polar/non-polar metabolites and, as demonstrated by our results, also strongly polar metabolites. ESI and APCI can be used in parallel, exploiting their strengths to cover the plant metabolome more broadly than either method alone. Copyright © 2016 John Wiley & Sons, Ltd.
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Affiliation(s)
- Mauro Commisso
- Biotechnology Department, University of Verona, Strada le Grazie 15, 37134, Verona, Italy
| | - Andrea Anesi
- Biotechnology Department, University of Verona, Strada le Grazie 15, 37134, Verona, Italy
| | - Silvia Dal Santo
- Biotechnology Department, University of Verona, Strada le Grazie 15, 37134, Verona, Italy
| | - Flavia Guzzo
- Biotechnology Department, University of Verona, Strada le Grazie 15, 37134, Verona, Italy
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Xie H, Konate M, Sai N, Tesfamicael KG, Cavagnaro T, Gilliham M, Breen J, Metcalfe A, Stephen JR, De Bei R, Collins C, Lopez CMR. Global DNA Methylation Patterns Can Play a Role in Defining Terroir in Grapevine ( Vitis vinifera cv. Shiraz). FRONTIERS IN PLANT SCIENCE 2017; 8:1860. [PMID: 29163587 PMCID: PMC5670326 DOI: 10.3389/fpls.2017.01860] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2017] [Accepted: 10/11/2017] [Indexed: 05/21/2023]
Abstract
Understanding how grapevines perceive and adapt to different environments will provide us with an insight into how to better manage crop quality. Mounting evidence suggests that epigenetic mechanisms are a key interface between the environment and the genotype that ultimately affect the plant's phenotype. Moreover, it is now widely accepted that epigenetic mechanisms are a source of useful variability during crop varietal selection that could affect crop performance. While the contribution of DNA methylation to plant performance has been extensively studied in other major crops, very little work has been done in grapevine. To study the genetic and epigenetic diversity across 22 vineyards planted with the cultivar Shiraz in six wine sub-regions of the Barossa, South Australia. Methylation sensitive amplified polymorphisms (MSAPs) were used to obtain global patterns of DNA methylation. The observed epigenetic profiles showed a high level of differentiation that grouped vineyards by their area of provenance despite the low genetic differentiation between vineyards and sub-regions. Pairwise epigenetic distances between vineyards indicate that the main contributor (23-24%) to the detected variability is associated to the distribution of the vineyards on the N-S axis. Analysis of the methylation profiles of vineyards pruned with the same system increased the positive correlation observed between geographic distance and epigenetic distance suggesting that pruning system affects inter-vineyard epigenetic differentiation. Finally, methylation sensitive genotyping by sequencing identified 3,598 differentially methylated genes in grapevine leaves that were assigned to 1,144 unique gene ontology terms of which 8.6% were associated with response to environmental stimulus. Our results suggest that DNA methylation differences between vineyards and sub-regions within The Barossa are influenced both by the geographic location and, to a lesser extent, by pruning system. Finally, we discuss how epigenetic variability can be used as a tool to understand and potentially modulate terroir in grapevine.
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Affiliation(s)
- Huahan Xie
- Environmental Epigenetics and Genetics Group, University of Adelaide, Adelaide, SA, Australia
- The Waite Research Institute and The School of Agriculture, Food and Wine, University of Adelaide, Adelaide, SA, Australia
| | - Moumouni Konate
- Environmental Epigenetics and Genetics Group, University of Adelaide, Adelaide, SA, Australia
- The Waite Research Institute and The School of Agriculture, Food and Wine, University of Adelaide, Adelaide, SA, Australia
| | - Na Sai
- Environmental Epigenetics and Genetics Group, University of Adelaide, Adelaide, SA, Australia
- The Waite Research Institute and The School of Agriculture, Food and Wine, University of Adelaide, Adelaide, SA, Australia
- The ARC Centre of Excellence in Plant Energy Biology, University of Adelaide, Adelaide, SA, Australia
| | - Kiflu G. Tesfamicael
- Environmental Epigenetics and Genetics Group, University of Adelaide, Adelaide, SA, Australia
- The Waite Research Institute and The School of Agriculture, Food and Wine, University of Adelaide, Adelaide, SA, Australia
| | - Timothy Cavagnaro
- The Waite Research Institute and The School of Agriculture, Food and Wine, University of Adelaide, Adelaide, SA, Australia
| | - Matthew Gilliham
- The Waite Research Institute and The School of Agriculture, Food and Wine, University of Adelaide, Adelaide, SA, Australia
- The ARC Centre of Excellence in Plant Energy Biology, University of Adelaide, Adelaide, SA, Australia
| | - James Breen
- Robinson Research Institute, University of Adelaide, Adelaide, SA, Australia
- Bioinformatics Hub, School of Biological Sciences, University of Adelaide, Adelaide, SA, Australia
| | - Andrew Metcalfe
- School of Mathematical Sciences, University of Adelaide, Adelaide, SA, Australia
| | - John R. Stephen
- Plant Genomics Centre, Australian Genome Research Facility Ltd., Adelaide, SA, Australia
| | - Roberta De Bei
- The Waite Research Institute and The School of Agriculture, Food and Wine, University of Adelaide, Adelaide, SA, Australia
| | - Cassandra Collins
- The Waite Research Institute and The School of Agriculture, Food and Wine, University of Adelaide, Adelaide, SA, Australia
| | - Carlos M. R. Lopez
- Environmental Epigenetics and Genetics Group, University of Adelaide, Adelaide, SA, Australia
- The Waite Research Institute and The School of Agriculture, Food and Wine, University of Adelaide, Adelaide, SA, Australia
- *Correspondence: Carlos M. R. Lopez,
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32
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Fabres PJ, Collins C, Cavagnaro TR, Rodríguez López CM. A Concise Review on Multi-Omics Data Integration for Terroir Analysis in Vitis vinifera. FRONTIERS IN PLANT SCIENCE 2017; 8:1065. [PMID: 28676813 PMCID: PMC5477006 DOI: 10.3389/fpls.2017.01065] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2017] [Accepted: 06/02/2017] [Indexed: 05/19/2023]
Abstract
Vitis vinifera (grapevine) is one of the most important fruit crops, both for fresh consumption and wine and spirit production. The term terroir is frequently used in viticulture and the wine industry to relate wine sensory attributes to its geographic origin. Although, it can be cultivated in a wide range of environments, differences in growing conditions have a significant impact on fruit traits that ultimately affect wine quality. Understanding how fruit quality and yield are controlled at a molecular level in grapevine in response to environmental cues has been a major driver of research. Advances in the area of genomics, epigenomics, transcriptomics, proteomics and metabolomics, have significantly increased our knowledge on the abiotic regulation of yield and quality in many crop species, including V. vinifera. The integrated analysis of multiple 'omics' can give us the opportunity to better understand how plants modulate their response to different environments. However, 'omics' technologies provide a large amount of biological data and its interpretation is not always straightforward, especially when different 'omic' results are combined. Here we examine the current strategies used to integrate multi-omics, and how these have been used in V. vinifera. In addition, we also discuss the importance of including epigenomics data when integrating omics data as epigenetic mechanisms could play a major role as an intermediary between the environment and the genome.
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Affiliation(s)
- Pastor Jullian Fabres
- Environmental Epigenetics and Genetics Group, Plant Research Centre, School of Agriculture, Food and Wine, University of Adelaide, Glen OsmondSA, Australia
| | - Cassandra Collins
- The Waite Research Institute, The School of Agriculture, Food and Wine, The University of Adelaide, Glen OsmondSA, Australia
| | - Timothy R. Cavagnaro
- The Waite Research Institute, The School of Agriculture, Food and Wine, The University of Adelaide, Glen OsmondSA, Australia
| | - Carlos M. Rodríguez López
- Environmental Epigenetics and Genetics Group, Plant Research Centre, School of Agriculture, Food and Wine, University of Adelaide, Glen OsmondSA, Australia
- *Correspondence: Carlos M. Rodríguez López,
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Zenoni S, Dal Santo S, Tornielli GB, D’Incà E, Filippetti I, Pastore C, Allegro G, Silvestroni O, Lanari V, Pisciotta A, Di Lorenzo R, Palliotti A, Tombesi S, Gatti M, Poni S. Transcriptional Responses to Pre-flowering Leaf Defoliation in Grapevine Berry from Different Growing Sites, Years, and Genotypes. FRONTIERS IN PLANT SCIENCE 2017; 8:630. [PMID: 28512461 PMCID: PMC5411443 DOI: 10.3389/fpls.2017.00630] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2017] [Accepted: 04/07/2017] [Indexed: 05/21/2023]
Abstract
Leaf removal is a grapevine canopy management technique widely used to modify the source-sink balance and/or microclimate around berry clusters to optimize fruit composition. In general, the removal of basal leaves before flowering reduces fruit set, hence achieving looser clusters, and improves grape composition since yield is generally curtailed more than proportionally to leaf area itself. Albeit responses to this practice seem quite consistent, overall vine performance is affected by genotype, environmental conditions, and severity of treatment. The physiological responses of grape varieties to defoliation practices have been widely investigated, and just recently a whole genome transcriptomic approach was exploited showing an extensive transcriptome rearrangement in berries defoliated before flowering. Nevertheless, the extent to which these transcriptomic reactions could be manifested by different genotypes and growing environments is entirely unexplored. To highlight general responses to defoliation vs. different locations, we analyzed the transcriptome of cv. Sangiovese berries sampled at four development stages from pre-flowering defoliated vines in two different geographical areas of Italy. We obtained and validated five markers of the early defoliation treatment in Sangiovese, an ATP-binding cassette transporter, an auxin response factor, a cinnamyl alcohol dehydrogenase, a flavonoid 3-O-glucosyltransferase and an indole-3-acetate beta-glucosyltransferase. Candidate molecular markers were also obtained in another three grapevine genotypes (Nero d'Avola, Ortrugo, and Ciliegiolo), subjected to the same level of selective pre-flowering defoliation (PFD) over two consecutive years in their different areas of cultivation. The flavonol synthase was identified as a marker in the pre-veraison phase, the jasmonate methyltransferase during the transition phase and the abscisic acid receptor PYL4 in the ripening phase. The characterization of transcriptome changes in Sangiovese berry after PFD highlights, on one hand, the stronger effect of environment than treatment on the whole berry transcriptome rearrangement during development and, on the other, expands existing knowledge of the main molecular and biochemical modifications occurring in defoliated vines. Moreover, the identification of candidate genes associated with PFD in different genotypes and environments provides new insights into the applicability and repeatability of this crop practice, as well as its possible agricultural and qualitative outcomes across genetic and environmental variability.
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Affiliation(s)
- Sara Zenoni
- Department of Biotechnology, University of VeronaVerona, Italy
- *Correspondence: Sara Zenoni,
| | | | | | - Erica D’Incà
- Department of Biotechnology, University of VeronaVerona, Italy
| | - Ilaria Filippetti
- Department of Agricultural Science, University of BolognaBologna, Italy
| | - Chiara Pastore
- Department of Agricultural Science, University of BolognaBologna, Italy
| | - Gianluca Allegro
- Department of Agricultural Science, University of BolognaBologna, Italy
| | - Oriana Silvestroni
- Dipartimento di Scienze Agrarie, Alimentari e Ambientali, Università Politecnica delle MarcheAncona, Italy
| | - Vania Lanari
- Dipartimento di Scienze Agrarie, Alimentari e Ambientali, Università Politecnica delle MarcheAncona, Italy
| | - Antonino Pisciotta
- Department of Agricultural and Forest sciences, University of PalermoPalermo, Italy
| | - Rosario Di Lorenzo
- Department of Agricultural and Forest sciences, University of PalermoPalermo, Italy
| | - Alberto Palliotti
- Dipartimento di Scienze Agrarie, Alimentari e Ambientali, Università di PerugiaPerugia, Italy
| | - Sergio Tombesi
- Dipartimento di Scienze Agrarie, Alimentari e Ambientali, Università di PerugiaPerugia, Italy
- Dipartimento di Scienze delle Produzioni Vegetali Sostenibili, Università Cattolica del Sacro CuorePiacenza, Italy
| | - Matteo Gatti
- Dipartimento di Scienze delle Produzioni Vegetali Sostenibili, Università Cattolica del Sacro CuorePiacenza, Italy
| | - Stefano Poni
- Dipartimento di Scienze delle Produzioni Vegetali Sostenibili, Università Cattolica del Sacro CuorePiacenza, Italy
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du Plessis K, Young PR, Eyéghé-Bickong HA, Vivier MA. The Transcriptional Responses and Metabolic Consequences of Acclimation to Elevated Light Exposure in Grapevine Berries. FRONTIERS IN PLANT SCIENCE 2017; 8:1261. [PMID: 28775728 PMCID: PMC5518647 DOI: 10.3389/fpls.2017.01261] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/10/2017] [Accepted: 07/04/2017] [Indexed: 05/19/2023]
Abstract
An increasing number of field studies that focus on grapevine berry development and ripening implement systems biology approaches; the results are highlighting not only the intricacies of the developmental programming/reprogramming that occurs, but also the complexity of how profoundly the microclimate influences the metabolism of the berry throughout the different stages of development. In a previous study we confirmed that a leaf removal treatment to Sauvignon Blanc grapes, grown in a highly characterized vineyard, primarily affected the level of light exposure to the berries throughout their development. A full transcriptomic analysis of berries from this model vineyard details the underlying molecular responses of the berries in reaction to the exposure and show how the berries acclimated to the imposing light stress. Gene expression involved in the protection of the photosynthetic machinery through rapid protein-turnover and the expression of photoprotective flavonoid compounds were most significantly affected in green berries. Overall, the transcriptome analysis showed that the berries implemented multiple stress-mitigation strategies in parallel and metabolite analysis was used to support the main findings. Combining the transcriptome data and amino acid profiling provided evidence that amino acid catabolism probably contributed to the mitigation of a likely energetic deficit created by the upregulation of (energetically) costly stress defense mechanisms. Furthermore, the rapid turnover of essential proteins involved in the maintenance of primary metabolism and growth in the photosynthetically active grapes appeared to provide precursors for the production of protective secondary metabolites such as apocarotenoids and flavonols in the ripening stages of the berries. Taken together, these results confirmed that the green grape berries responded to light stress much like other vegetative organs and were able to acclimate to the increased exposure, managing their metabolism and energy requirements to sustain the developmental cycle toward ripening. The typical metabolic consequences of leaf removal on grape berries can therefore now be linked to increased light exposure through mechanisms of photoprotection in green berries that leads toward acclimation responses that remain intact until ripening.
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Affiliation(s)
- Kari du Plessis
- Institute for Wine Biotechnology, Department of Viticulture and Oenology, Stellenbosch UniversityStellenbosch, South Africa
| | - Philip R. Young
- Institute for Wine Biotechnology, Department of Viticulture and Oenology, Stellenbosch UniversityStellenbosch, South Africa
| | - Hans A. Eyéghé-Bickong
- Institute for Wine Biotechnology, Department of Viticulture and Oenology, Stellenbosch UniversityStellenbosch, South Africa
- Institute for Grape and Wine Sciences, Department of Viticulture and Oenology, Stellenbosch UniversityStellenbosch, South Africa
| | - Melané A. Vivier
- Institute for Wine Biotechnology, Department of Viticulture and Oenology, Stellenbosch UniversityStellenbosch, South Africa
- *Correspondence: Melané A. Vivier
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