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Moroldo M, Blanchet N, Duruflé H, Bernillon S, Berton T, Fernandez O, Gibon Y, Moing A, Langlade NB. Genetic control of abiotic stress-related specialized metabolites in sunflower. BMC Genomics 2024; 25:199. [PMID: 38378469 PMCID: PMC10877922 DOI: 10.1186/s12864-024-10104-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2023] [Accepted: 02/09/2024] [Indexed: 02/22/2024] Open
Abstract
BACKGROUND Abiotic stresses in plants include all the environmental conditions that significantly reduce yields, like drought and heat. One of the most significant effects they exert at the cellular level is the accumulation of reactive oxygen species, which cause extensive damage. Plants possess two mechanisms to counter these molecules, i.e. detoxifying enzymes and non-enzymatic antioxidants, which include many classes of specialized metabolites. Sunflower, the fourth global oilseed, is considered moderately drought resistant. Abiotic stress tolerance in this crop has been studied using many approaches, but the control of specialized metabolites in this context remains poorly understood. Here, we performed the first genome-wide association study using abiotic stress-related specialized metabolites as molecular phenotypes in sunflower. After analyzing leaf specialized metabolites of 450 hybrids using liquid chromatography-mass spectrometry, we selected a subset of these compounds based on their association with previously known abiotic stress-related quantitative trait loci. Eventually, we characterized these molecules and their associated genes. RESULTS We putatively annotated 30 compounds which co-localized with abiotic stress-related quantitative trait loci and which were associated to seven most likely candidate genes. A large proportion of these compounds were potential antioxidants, which was in agreement with the role of specialized metabolites in abiotic stresses. The seven associated most likely candidate genes, instead, mainly belonged to cytochromes P450 and glycosyltransferases, two large superfamilies which catalyze greatly diverse reactions and create a wide variety of chemical modifications. This was consistent with the high plasticity of specialized metabolism in plants. CONCLUSIONS This is the first characterization of the genetic control of abiotic stress-related specialized metabolites in sunflower. By providing hints concerning the importance of antioxidant molecules in this biological context, and by highlighting some of the potential molecular mechanisms underlying their biosynthesis, it could pave the way for novel applications in breeding. Although further analyses will be required to better understand this topic, studying how antioxidants contribute to the tolerance to abiotic stresses in sunflower appears as a promising area of research.
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Affiliation(s)
- Marco Moroldo
- UMR LIPME, INRAE, CNRS, Université de Toulouse, 31326, Castanet Tolosan, France.
| | - Nicolas Blanchet
- UMR LIPME, INRAE, CNRS, Université de Toulouse, 31326, Castanet Tolosan, France
| | - Harold Duruflé
- UMR LIPME, INRAE, CNRS, Université de Toulouse, 31326, Castanet Tolosan, France
- UMR BioForA, INRAE, ONF, Orléans, 45075, France
| | - Stéphane Bernillon
- UMR BFP, INRAE, Université de Bordeaux, 33140, Villenave d'Ornon, France
- Bordeaux Metabolome, MetaboHUB, PHENOME-EMPHASIS, 33140, Villenave d'Ornon, France
- UMR MYCSA, INRAE, 33140, Villenave d'Ornon, France
| | - Thierry Berton
- UMR BFP, INRAE, Université de Bordeaux, 33140, Villenave d'Ornon, France
| | - Olivier Fernandez
- UMR BFP, INRAE, Université de Bordeaux, 33140, Villenave d'Ornon, France
- USC RIBP, INRAE, Université de Reims, 51100, Reims, France
| | - Yves Gibon
- UMR BFP, INRAE, Université de Bordeaux, 33140, Villenave d'Ornon, France
- Bordeaux Metabolome, MetaboHUB, PHENOME-EMPHASIS, 33140, Villenave d'Ornon, France
| | - Annick Moing
- UMR BFP, INRAE, Université de Bordeaux, 33140, Villenave d'Ornon, France
- Bordeaux Metabolome, MetaboHUB, PHENOME-EMPHASIS, 33140, Villenave d'Ornon, France
| | - Nicolas B Langlade
- UMR LIPME, INRAE, CNRS, Université de Toulouse, 31326, Castanet Tolosan, France
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Urrutia M, Meco V, Rambla JL, Martín-Pizarro C, Pillet J, Andrés J, Sánchez-Sevilla JF, Granell A, Hytönen T, Posé D. Diversity of the volatilome and the fruit size and shape in European woodland strawberry (Fragaria vesca). THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2023; 116:1201-1217. [PMID: 37597203 DOI: 10.1111/tpj.16404] [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: 03/21/2023] [Revised: 06/30/2023] [Accepted: 07/17/2023] [Indexed: 08/21/2023]
Abstract
Woodland strawberry (Fragaria vesca subsp. vesca) is a wild relative of cultivated strawberry (F. × ananassa) producing small and typically conical fruits with an intense flavor and aroma. The wild strawberry species, F. vesca, is a rich resource of genetic and metabolic variability, but its diversity remains largely unexplored and unexploited. In this study, we aim for an in-depth characterization of the fruit complex volatilome by GC-MS as well as the fruit size and shape using a European germplasm collection that represents the continental diversity of the species. We report characteristic volatilome footprints and fruit phenotypes of specific geographical areas. Thus, this study uncovers phenotypic variation linked to geographical distribution that will be valuable for further genetic studies to identify candidate genes or develop markers linked to volatile compounds or fruit shape and size traits.
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Affiliation(s)
- María Urrutia
- Departamento de Mejora Genética y Biotecnología, Instituto de Hortofruticultura Subtropical y Mediterránea (IHSM), Universidad de Málaga - Consejo Superior de Investigaciones Científicas, Departamento de Biología Molecular y Bioquímica, Facultad de Ciencias, UMA, Málaga, Spain
| | - Victoriano Meco
- Departamento de Mejora Genética y Biotecnología, Instituto de Hortofruticultura Subtropical y Mediterránea (IHSM), Universidad de Málaga - Consejo Superior de Investigaciones Científicas, Departamento de Biología Molecular y Bioquímica, Facultad de Ciencias, UMA, Málaga, Spain
| | - José Luis Rambla
- IBMCP Institute for Plant Molecular and Cell Biology (CSIC-UPV), Valencia, Spain
- Department of Biology, Biochemistry and Natural Sciences, Universitat Jaume I, Castellón de la Plana, Spain
| | - Carmen Martín-Pizarro
- Departamento de Mejora Genética y Biotecnología, Instituto de Hortofruticultura Subtropical y Mediterránea (IHSM), Universidad de Málaga - Consejo Superior de Investigaciones Científicas, Departamento de Biología Molecular y Bioquímica, Facultad de Ciencias, UMA, Málaga, Spain
| | - Jeremy Pillet
- Departamento de Mejora Genética y Biotecnología, Instituto de Hortofruticultura Subtropical y Mediterránea (IHSM), Universidad de Málaga - Consejo Superior de Investigaciones Científicas, Departamento de Biología Molecular y Bioquímica, Facultad de Ciencias, UMA, Málaga, Spain
| | - Javier Andrés
- Department of Agricultural Sciences, Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
| | - José F Sánchez-Sevilla
- Junta de Andalucía, Unidad Asociada CSIC I+D+i Biotecnología & Mejora de Fresa, Instituto Andaluz de Investigación & Formación Agraria y Pesquera (IFAPA), Ctr. IFAPA Málaga, Málaga, Spain
| | - Antonio Granell
- IBMCP Institute for Plant Molecular and Cell Biology (CSIC-UPV), Valencia, Spain
| | - Timo Hytönen
- Department of Agricultural Sciences, Viikki Plant Science Centre, University of Helsinki, Helsinki, Finland
| | - David Posé
- Departamento de Mejora Genética y Biotecnología, Instituto de Hortofruticultura Subtropical y Mediterránea (IHSM), Universidad de Málaga - Consejo Superior de Investigaciones Científicas, Departamento de Biología Molecular y Bioquímica, Facultad de Ciencias, UMA, Málaga, Spain
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Duruflé H, Balliau T, Blanchet N, Chaubet A, Duhnen A, Pouilly N, Blein-Nicolas M, Mangin B, Maury P, Langlade NB, Zivy M. Sunflower Hybrids and Inbred Lines Adopt Different Physiological Strategies and Proteome Responses to Cope with Water Deficit. Biomolecules 2023; 13:1110. [PMID: 37509146 PMCID: PMC10377273 DOI: 10.3390/biom13071110] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2023] [Revised: 07/03/2023] [Accepted: 07/07/2023] [Indexed: 07/30/2023] Open
Abstract
Sunflower is a hybrid crop that is considered moderately drought-tolerant and adapted to new cropping systems required for the agro-ecological transition. Here, we studied the impact of hybridity status (hybrids vs. inbred lines) on the responses to drought at the molecular and eco-physiological level exploiting publicly available datasets. Eco-physiological traits and leaf proteomes were measured in eight inbred lines and their sixteen hybrids grown in the high-throughput phenotyping platform Phenotoul-Heliaphen. Hybrids and parental lines showed different growth strategies: hybrids grew faster in the absence of water constraint and arrested their growth more abruptly than inbred lines when subjected to water deficit. We identified 471 differentially accumulated proteins, of which 256 were regulated by drought. The amplitude of up- and downregulations was greater in hybrids than in inbred lines. Our results show that hybrids respond more strongly to water deficit at the molecular and eco-physiological levels. Because of presence/absence polymorphism, hybrids potentially contain more genes than their parental inbred lines. We propose that detrimental homozygous mutations and the lower number of genes in inbred lines lead to a constitutive defense mechanism that may explain the lower growth of inbred lines under well-watered conditions and their lower reactivity to water deficit.
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Affiliation(s)
- Harold Duruflé
- INRAE UMR441, CNRS UMR2594, LIPME, Université de Toulouse, 31077 Toulouse, France
- INRAE, ONF, BioForA, 45075 Orleans, France
| | - Thierry Balliau
- AgroParisTech, GQE-Le Moulon, PAPPSO, Université Paris-Saclay, INRAE, CNRS, 91190 Gif-sur-Yvette, France
| | - Nicolas Blanchet
- INRAE UMR441, CNRS UMR2594, LIPME, Université de Toulouse, 31077 Toulouse, France
| | - Adeline Chaubet
- INRAE UMR441, CNRS UMR2594, LIPME, Université de Toulouse, 31077 Toulouse, France
| | - Alexandra Duhnen
- INRAE UMR441, CNRS UMR2594, LIPME, Université de Toulouse, 31077 Toulouse, France
| | - Nicolas Pouilly
- INRAE UMR441, CNRS UMR2594, LIPME, Université de Toulouse, 31077 Toulouse, France
| | - Mélisande Blein-Nicolas
- AgroParisTech, GQE-Le Moulon, PAPPSO, Université Paris-Saclay, INRAE, CNRS, 91190 Gif-sur-Yvette, France
| | - Brigitte Mangin
- INRAE UMR441, CNRS UMR2594, LIPME, Université de Toulouse, 31077 Toulouse, France
| | - Pierre Maury
- INRAE, INP-ENSAT Toulouse, UMR AGIR, Université de Toulouse, 31000 Toulouse, France
| | | | - Michel Zivy
- AgroParisTech, GQE-Le Moulon, PAPPSO, Université Paris-Saclay, INRAE, CNRS, 91190 Gif-sur-Yvette, France
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Zhang Y, Yang L, Yang J, Hu H, Wei G, Cui J, Xu J. Transcriptome and Metabolome Analyses Reveal Differences in Terpenoid and Flavonoid Biosynthesis in Cryptomeria fortunei Needles Across Different Seasons. FRONTIERS IN PLANT SCIENCE 2022; 13:862746. [PMID: 35937363 PMCID: PMC9355645 DOI: 10.3389/fpls.2022.862746] [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: 01/26/2022] [Accepted: 06/20/2022] [Indexed: 06/15/2023]
Abstract
Cryptomeria fortunei (Chinese cedar) has outstanding medicinal value due to its abundant flavonoid and terpenoid contents. The metabolite contents of C. fortunei needles differ across different seasons. However, the biosynthetic mechanism of these differentially synthesized metabolites (DSMs) is poorly understood. To improve our understanding of this process, we performed integrated non-targeted metabolomic liquid chromatography and gas chromatography mass spectrometry (LC-MS and GC-MS), and transcriptomic analyses of summer and winter needles. In winter, the C. fortunei needle ultrastructure was damaged, and the chlorophyll content and F v/F m were significantly (p < 0.05) reduced. Based on GC-MS and LC-MS, we obtained 106 and 413 DSMs, respectively; based on transcriptome analysis, we obtained a total of 41.17 Gb of clean data and assembled 33,063 unigenes, including 14,057 differentially expressed unigenes (DEGs). Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses showed that these DSMs/DEGs were significantly (p < 0.05) enriched in many biosynthesis pathways, such as terpenoids, photosynthates, and flavonoids. Integrated transcriptomic and metabonomic analyses showed that seasonal changes have the greatest impact on photosynthesis pathways, followed by terpenoid and flavonoid biosynthesis pathways. In summer Chinese cedar (SCC) needles, DXS, DXR, and ispH in the 2-methyl-pentaerythritol 4-phosphate (MEP) pathway and GGPS were highly expressed and promoted the accumulation of terpenoids, especially diterpenoids. In winter Chinese cedar (WCC) needles, 9 genes (HCT, CHS, CHI, F3H, F3'H, F3'5'H, FLS, DFR, and LAR) involved in flavonoid biosynthesis were highly expressed and promoted flavonoid accumulation. This study broadens our understanding of the metabolic and transcriptomic changes in C. fortunei needles caused by seasonal changes and provides a reference regarding the adaptive mechanisms of C. fortunei and the extraction of its metabolites.
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Andrade A, Boero A, Escalante M, Llanes A, Arbona V, Gómez-Cádenas A, Alemano S. Comparative hormonal and metabolic profile analysis based on mass spectrometry provides information on the regulation of water-deficit stress response of sunflower (Helianthus annuus L.) inbred lines with different water-deficit stress sensitivity. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2021; 168:432-446. [PMID: 34715568 DOI: 10.1016/j.plaphy.2021.10.015] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/26/2021] [Revised: 09/13/2021] [Accepted: 10/09/2021] [Indexed: 06/13/2023]
Abstract
Water-deficit stress is the most important abiotic stress restricting plant growth, development and yield. The effects of this stress, however, depend on genotypes, among other factors. This study assembles morpho-physiological and metabolic approaches to assess hormonal and metabolic profile changes, upon water-deficit stress, in the shoot and roots of two contrasting sunflower inbred lines, B59 (water-deficit stress sensitive) and B71 (water-deficit stress tolerant). The analyses were carried out using mass spectrometry and performing a multivariate statistical analysis to identify relationships between the analyzed variables. Water-deficit stress reduced all morpho-physiological parameters, except for root length in the tolerant inbred line. The hormonal pathways were active in mediating the seedling performance to imposed water-deficit stress in both lines, although with some differences between lines at the organ level. B59 displayed a diverse metabolite battery, including organic acids, organic compounds as well as sugars, mainly in the shoot, whereas B71 showed primary amino acids, organic acids and organic compounds predominantly in its roots. The discrimination between control and water-deficit stress conditions was possible thanks to potential biomarkers of stress treatment, e.g., proline, maleic acid and malonic acid. This study indicated that the studied organs of sunflower seedlings have different mechanisms of regulation under water-deficit stress. These findings could help to better understand the physio-biochemical pathways underlying stress tolerance in sunflower at early-growth stage.
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Affiliation(s)
- Andrea Andrade
- Laboratorio de Fisiología Vegetal, Departamento de Ciencias Naturales, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, UNRC, Instituto de Investigaciones Agrobiotecnológicas-Consejo Nacional de Investigaciones Científicas y Técnicas (INIAB-CONICET), 5800, Río Cuarto, Córdoba, Argentina
| | - Aldana Boero
- Laboratorio de Fisiología Vegetal, Departamento de Ciencias Naturales, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, UNRC, Instituto de Investigaciones Agrobiotecnológicas-Consejo Nacional de Investigaciones Científicas y Técnicas (INIAB-CONICET), 5800, Río Cuarto, Córdoba, Argentina
| | - Maximiliano Escalante
- Laboratorio de Fisiología Vegetal, Departamento de Ciencias Naturales, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, Universidad Nacional de Río Cuarto (UNRC), 5800, Río Cuarto, Córdoba, Argentina
| | - Analía Llanes
- Laboratorio de Fisiología Vegetal, Departamento de Ciencias Naturales, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, UNRC, Instituto de Investigaciones Agrobiotecnológicas-Consejo Nacional de Investigaciones Científicas y Técnicas (INIAB-CONICET), 5800, Río Cuarto, Córdoba, Argentina
| | - Vicent Arbona
- Departament de Ciències Agràries i del Medi Natural, Universitat Jaume I, Castelló de la Plana, 12071, Spain
| | - Aurelio Gómez-Cádenas
- Departament de Ciències Agràries i del Medi Natural, Universitat Jaume I, Castelló de la Plana, 12071, Spain
| | - Sergio Alemano
- Laboratorio de Fisiología Vegetal, Departamento de Ciencias Naturales, Facultad de Ciencias Exactas, Físico-Químicas y Naturales, UNRC, Instituto de Investigaciones Agrobiotecnológicas-Consejo Nacional de Investigaciones Científicas y Técnicas (INIAB-CONICET), 5800, Río Cuarto, Córdoba, Argentina.
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Jäger T, Holandino C, Melo MNDO, Peñaloza EMC, Oliveira AP, Garrett R, Glauser G, Grazi M, Ramm H, Urech K, Baumgartner S. Metabolomics by UHPLC-Q-TOF Reveals Host Tree-Dependent Phytochemical Variation in Viscum album L. PLANTS (BASEL, SWITZERLAND) 2021; 10:1726. [PMID: 34451771 PMCID: PMC8399568 DOI: 10.3390/plants10081726] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/11/2021] [Revised: 08/10/2021] [Accepted: 08/17/2021] [Indexed: 11/18/2022]
Abstract
Viscum album L., commonly known as European mistletoe, is a hemi-parasitic plant of the Santalaceae family. The in vitro and in vivo effects of V. album differ, according to its host tree. However, little is known about the host-dependent phytochemical diversity in V. album. In this study, the metabolic profiles of V. album ssp. album from Malus domestica Bork., Quercus robur L., and Ulmus carpinifolia Gled were compared. Leaves, stems, and berries were collected in Switzerland, by the same procedure, in September 2016 and 2017. The methanolic extracts were analyzed by ultra-performance liquid chromatography, coupled to electrospray quadrupole time-of-flight mass spectrometry in positive ionization mode. The data were submitted to partial-least square discriminant analysis (PLS-DA) and the results showed that the V. album ssp. album samples were clustered into three groups, according to the three distinct host trees. Seven compounds, with high VIP scores (variable importance in projection), were responsible for this differentiation. The following four compounds were detected in both the harvest years: arginine, pipecolic acid or lysine, dimethoxycoumarin, and sinapyl alcohol, suggesting their use as host specific V. album biomarkers. The present work highlights the importance of standardized harvest and analytical procedures for the reproducibility of the chemical results of herbal materials.
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Affiliation(s)
- Tim Jäger
- Society for Cancer Research, Hiscia Institute, Kirschweg 9, 4144 Arlesheim, Switzerland; (T.J.); (M.G.); (H.R.); (K.U.)
- Center for Complementary Medicine, Institute for Infection Prevention and Hospital Epidemiology, Faculty of Medicine, University of Freiburg, Breisacher Str. 115b, 79106 Freiburg, Germany
- Institute of Integrative Medicine, University of Witten/Herdecke, Gerhard-Kienle-Weg 4, 58313 Herdecke, Germany
| | - Carla Holandino
- Society for Cancer Research, Hiscia Institute, Kirschweg 9, 4144 Arlesheim, Switzerland; (T.J.); (M.G.); (H.R.); (K.U.)
- Laboratório Multidisciplinar de Ciências Farmacêuticas, Pharmacy College, Federal University of Rio de Janeiro, Rio de Janeiro 21941-902, Brazil; (M.N.d.O.M.); (E.M.C.P.); (A.P.O.)
| | - Michelle Nonato de Oliveira Melo
- Laboratório Multidisciplinar de Ciências Farmacêuticas, Pharmacy College, Federal University of Rio de Janeiro, Rio de Janeiro 21941-902, Brazil; (M.N.d.O.M.); (E.M.C.P.); (A.P.O.)
- Metabolomics Laboratory, Chemistry Institute, Federal University of Rio de Janeiro, Rio de Janeiro 21941-598, Brazil;
| | - Evelyn Maribel Condori Peñaloza
- Laboratório Multidisciplinar de Ciências Farmacêuticas, Pharmacy College, Federal University of Rio de Janeiro, Rio de Janeiro 21941-902, Brazil; (M.N.d.O.M.); (E.M.C.P.); (A.P.O.)
- Metabolomics Laboratory, Chemistry Institute, Federal University of Rio de Janeiro, Rio de Janeiro 21941-598, Brazil;
| | - Adriana Passos Oliveira
- Laboratório Multidisciplinar de Ciências Farmacêuticas, Pharmacy College, Federal University of Rio de Janeiro, Rio de Janeiro 21941-902, Brazil; (M.N.d.O.M.); (E.M.C.P.); (A.P.O.)
| | - Rafael Garrett
- Metabolomics Laboratory, Chemistry Institute, Federal University of Rio de Janeiro, Rio de Janeiro 21941-598, Brazil;
| | - Gaétan Glauser
- Neuchatel Platform of Analytical Chemistry, University of Neuchâtel, Avenue de Bellevaux 51, 2000 Neuchâtel, Switzerland;
| | - Mirio Grazi
- Society for Cancer Research, Hiscia Institute, Kirschweg 9, 4144 Arlesheim, Switzerland; (T.J.); (M.G.); (H.R.); (K.U.)
| | - Hartmut Ramm
- Society for Cancer Research, Hiscia Institute, Kirschweg 9, 4144 Arlesheim, Switzerland; (T.J.); (M.G.); (H.R.); (K.U.)
| | - Konrad Urech
- Society for Cancer Research, Hiscia Institute, Kirschweg 9, 4144 Arlesheim, Switzerland; (T.J.); (M.G.); (H.R.); (K.U.)
| | - Stephan Baumgartner
- Society for Cancer Research, Hiscia Institute, Kirschweg 9, 4144 Arlesheim, Switzerland; (T.J.); (M.G.); (H.R.); (K.U.)
- Institute of Integrative Medicine, University of Witten/Herdecke, Gerhard-Kienle-Weg 4, 58313 Herdecke, Germany
- Institute of Complementary and Integrative Medicine, University of Bern, Freiburgstrasse 46, 3010 Bern, Switzerland
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Jocković M, Jocić S, Cvejić S, Marjanović-Jeromela A, Jocković J, Radanović A, Miladinović D. Genetic Improvement in Sunflower Breeding—Integrated Omics Approach. PLANTS 2021; 10:plants10061150. [PMID: 34200113 PMCID: PMC8228292 DOI: 10.3390/plants10061150] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/30/2021] [Revised: 05/31/2021] [Accepted: 06/01/2021] [Indexed: 01/23/2023]
Abstract
Foresight in climate change and the challenges ahead requires a systematic approach to sunflower breeding that will encompass all available technologies. There is a great scarcity of desirable genetic variation, which is in fact undiscovered because it has not been sufficiently researched as detection and designing favorable genetic variation largely depends on thorough genome sequencing through broad and deep resequencing. Basic exploration of genomes is insufficient to find insight about important physiological and molecular mechanisms unique to crops. That is why integrating information from genomics, epigenomics, transcriptomics, proteomics, metabolomics and phenomics enables a comprehensive understanding of the molecular mechanisms in the background of architecture of many important quantitative traits. Omics technologies offer novel possibilities for deciphering the complex pathways and molecular profiling through the level of systems biology and can provide important answers that can be utilized for more efficient breeding of sunflower. In this review, we present omics profiling approaches in order to address their possibilities and usefulness as a potential breeding tools in sunflower genetic improvement.
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Affiliation(s)
- Milan Jocković
- Institute of Field and Vegetable Crops, Maksima Gorkog 30, 21000 Novi Sad, Serbia; (S.J.); (S.C.); (A.M.-J.); (A.R.); (D.M.)
- Correspondence:
| | - Siniša Jocić
- Institute of Field and Vegetable Crops, Maksima Gorkog 30, 21000 Novi Sad, Serbia; (S.J.); (S.C.); (A.M.-J.); (A.R.); (D.M.)
| | - Sandra Cvejić
- Institute of Field and Vegetable Crops, Maksima Gorkog 30, 21000 Novi Sad, Serbia; (S.J.); (S.C.); (A.M.-J.); (A.R.); (D.M.)
| | - Ana Marjanović-Jeromela
- Institute of Field and Vegetable Crops, Maksima Gorkog 30, 21000 Novi Sad, Serbia; (S.J.); (S.C.); (A.M.-J.); (A.R.); (D.M.)
| | - Jelena Jocković
- Department of Biology and Ecology, Faculty of Sciences, University of Novi Sad, Dositeja Obradovića 3, 21000 Novi Sad, Serbia;
| | - Aleksandra Radanović
- Institute of Field and Vegetable Crops, Maksima Gorkog 30, 21000 Novi Sad, Serbia; (S.J.); (S.C.); (A.M.-J.); (A.R.); (D.M.)
| | - Dragana Miladinović
- Institute of Field and Vegetable Crops, Maksima Gorkog 30, 21000 Novi Sad, Serbia; (S.J.); (S.C.); (A.M.-J.); (A.R.); (D.M.)
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Villate A, San Nicolas M, Gallastegi M, Aulas PA, Olivares M, Usobiaga A, Etxebarria N, Aizpurua-Olaizola O. Review: Metabolomics as a prediction tool for plants performance under environmental stress. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2021; 303:110789. [PMID: 33487364 DOI: 10.1016/j.plantsci.2020.110789] [Citation(s) in RCA: 29] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2020] [Revised: 10/30/2020] [Accepted: 12/05/2020] [Indexed: 05/05/2023]
Abstract
Metabolomics as a diagnosis tool for plant performance has shown good features for breeding and crop improvement. Additionally, due to limitations in land area and the increasing climate changes, breeding projects focusing on abiotic stress tolerance are becoming essential. Nowadays no universal method is available to identify predictive metabolic markers. As a result, research aims must dictate the best method or combination of methods. To this end, we will introduce the key aspects to consider regarding growth scenarios and sampling strategies and discuss major analytical and data treatment approaches that are available to find metabolic markers of plant performance.
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Affiliation(s)
- Aitor Villate
- Department of Analytical Chemistry, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Leioa, Basque Country, Spain
| | - Markel San Nicolas
- Dinafem Seeds (Pot Sistemak S.L.), 20018, San Sebastian, Basque Country, Spain; Department of Analytical Chemistry, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Leioa, Basque Country, Spain; Sovereign Fields S.L., 20006, San Sebastian, Basque Country, Spain
| | - Mara Gallastegi
- Dinafem Seeds (Pot Sistemak S.L.), 20018, San Sebastian, Basque Country, Spain; Sovereign Fields S.L., 20006, San Sebastian, Basque Country, Spain
| | - Pierre-Antoine Aulas
- Dinafem Seeds (Pot Sistemak S.L.), 20018, San Sebastian, Basque Country, Spain; Sovereign Fields S.L., 20006, San Sebastian, Basque Country, Spain
| | - Maitane Olivares
- Department of Analytical Chemistry, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Leioa, Basque Country, Spain; Research Centre for Experimental Marine Biology and Biotechnology (PIE), University of the Basque Country (UPV/EHU), Plentzia, Basque Country, Spain
| | - Aresatz Usobiaga
- Department of Analytical Chemistry, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Leioa, Basque Country, Spain; Research Centre for Experimental Marine Biology and Biotechnology (PIE), University of the Basque Country (UPV/EHU), Plentzia, Basque Country, Spain
| | - Nestor Etxebarria
- Department of Analytical Chemistry, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Leioa, Basque Country, Spain; Research Centre for Experimental Marine Biology and Biotechnology (PIE), University of the Basque Country (UPV/EHU), Plentzia, Basque Country, Spain
| | - Oier Aizpurua-Olaizola
- Dinafem Seeds (Pot Sistemak S.L.), 20018, San Sebastian, Basque Country, Spain; Sovereign Fields S.L., 20006, San Sebastian, Basque Country, Spain.
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9
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Effects of Irrigation and Nitrogen Application Rates on Protein and Amino Acid Content of Sunflower Seed Kernels. WATER 2020. [DOI: 10.3390/w13010078] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Sunflower seeds are rich in oil and protein. In a two-year field experiment in Hetao district, Inner Mongolia, we evaluated the effects of irrigation and N fertilizer on protein and amino acid content of sunflower seeds (Kang Di T562 variety). Irrigation water and N fertilizer were applied at the bud to blossom stage and at three levels: water at 90, 45, and 0 mm; N fertilizer at 104, 52, and 0 kg hm−2. There were nine treatments with three replicates for a total of 27 plots arranged randomly in blocks. In combination with environmental conditions, water, nitrogen, and the interaction between the two had significant effects on total protein, total amino acids, total ammonia, and key amino acids: glutamic acid, arginine, aspartic acid, glycine, and valine. Application of N fertilizer at the bud stage promoted protein synthesis in seed kernels at the ripening stage. We found a significant positive correlation between N fertilizer and the five main amino acids. With increasing irrigation, total amino acid content and the content of each of the key amino acids individually first increased but then decreased. Overall, a water deficit improved protein content in seed kernels.
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10
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Letertre MPM, Dervilly G, Giraudeau P. Combined Nuclear Magnetic Resonance Spectroscopy and Mass Spectrometry Approaches for Metabolomics. Anal Chem 2020; 93:500-518. [PMID: 33155816 DOI: 10.1021/acs.analchem.0c04371] [Citation(s) in RCA: 50] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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11
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Jammer A, Albacete A, Schulz B, Koch W, Weltmeier F, van der Graaff E, Pfeifhofer HW, Roitsch TG. Early-stage sugar beet taproot development is characterized by three distinct physiological phases. PLANT DIRECT 2020; 4:e00221. [PMID: 32766510 PMCID: PMC7395582 DOI: 10.1002/pld3.221] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2019] [Revised: 02/04/2020] [Accepted: 04/13/2020] [Indexed: 05/21/2023]
Abstract
Despite the agronomic importance of sugar beet (Beta vulgaris L.), the early-stage development of its taproot has only been poorly investigated. Thus, the mechanisms that determine growth and sugar accumulation in sugar beet are largely unknown. In the presented study, a physiological characterization of early-stage sugar beet taproot development was conducted. Activities were analyzed for fourteen key enzymes of carbohydrate metabolism in developing taproots over the first 80 days after sowing. In addition, we performed in situ localizations of selected carbohydrate-metabolic enzyme activities, anatomical investigations, and quantifications of soluble carbohydrates, hexose phosphates, and phytohormones. Based on the accumulation dynamics of biomass and sucrose, as well as on anatomical parameters, the early phase of taproot development could be subdivided into three stages-prestorage, transition, secondary growth and sucrose accumulation stage-each of which was characterized by distinct metabolic and phytohormonal signatures. The enzyme activity signatures corresponding to these stages were also shown to be robustly reproducible in experiments conducted in two additional locations. The results from this physiological phenotyping approach contribute to the identification of the key regulators of sugar beet taproot development and open up new perspectives for sugar beet crop improvement concerning both physiological marker-based breeding and biotechnological approaches.
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Affiliation(s)
- Alexandra Jammer
- Institute of BiologyUniversity of GrazGrazAustria
- Department of Crop SciencesUFT TullnUniversity of Natural Resources and Life Sciences (BOKU)TullnAustria
| | - Alfonso Albacete
- Institute of BiologyUniversity of GrazGrazAustria
- Present address:
Department of Plant Production and AgrotechnologyInstitute for Agri‐Food Research and Development of Murcia (IMIDA)MurciaSpain
| | | | | | | | - Eric van der Graaff
- Institute of BiologyUniversity of GrazGrazAustria
- Department of Plant and Environmental SciencesCopenhagen Plant Science CentreUniversity of CopenhagenTaastrupDenmark
- Present address:
Koppert Cress B.V.MonsterThe Netherlands
| | | | - Thomas G. Roitsch
- Department of Crop SciencesUFT TullnUniversity of Natural Resources and Life Sciences (BOKU)TullnAustria
- Department of Plant and Environmental SciencesCopenhagen Plant Science CentreUniversity of CopenhagenTaastrupDenmark
- Department of Adaptive BiotechnologiesGlobal Change Research Institute CASBrnoCzech Republic
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12
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Gai F, Karamać M, Janiak MA, Amarowicz R, Peiretti PG. Sunflower ( Helianthus annuus L.) Plants at Various Growth Stages Subjected to Extraction-Comparison of the Antioxidant Activity and Phenolic Profile. Antioxidants (Basel) 2020; 9:E535. [PMID: 32575358 PMCID: PMC7346105 DOI: 10.3390/antiox9060535] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2020] [Revised: 06/10/2020] [Accepted: 06/17/2020] [Indexed: 12/23/2022] Open
Abstract
The aim of this study was to evaluate the differences in the antioxidant activity and phenolic profile of sunflower (Helianthus annuus L.) extracts obtained from the aerial parts of plants harvested at five growth stages. In vitro assays were used to determine the antioxidant activity, i.e., ABTS•+ and DPPH• scavenging activity, the ferric-reducing antioxidant power (FRAP) and the ability to inhibit β-carotene-linoleic acid emulsion oxidation. Phenolic compounds, such as mono- and dicaffeoylquinic acid isomers and caffeic acid hexose, were identified using the LC-TOF-MS/MS technique. The predominant compound during the growth cycle of the plant was 3,5-di-O-caffeoylquinic acid, whose content was the highest at the mid-flowering stage. The total phenolic content was also the highest in sunflowers at the mid-flowering stage. The main phenolic compound contents were closely correlated with ABTS•+ and DPPH• scavenging activity and FRAP. No significant correlation was found between the total phenolic content and the antioxidant activity in the emulsion system. The highest antiradical activity and FRAP were generally determined in older plants (mid-flowering and late flowering stages). In conclusion, the aerial parts of sunflowers, in particular those harvested at the mid-flowering stage, are a good plant material from which to obtain phenolic compound extracts, albeit mainly of one class (esters of caffeic acid and quinic acid), with high antioxidant activity.
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Affiliation(s)
- Francesco Gai
- Institute of Sciences of Food Production, National Research Council, 10095 Grugliasco, Italy; (F.G.); (P.G.P.)
| | - Magdalena Karamać
- Institute of Animal Reproduction and Food Research, Polish Academy of Sciences, Tuwima 10, 10-748 Olsztyn, Poland; (M.A.J.); (R.A.)
| | - Michał A. Janiak
- Institute of Animal Reproduction and Food Research, Polish Academy of Sciences, Tuwima 10, 10-748 Olsztyn, Poland; (M.A.J.); (R.A.)
| | - Ryszard Amarowicz
- Institute of Animal Reproduction and Food Research, Polish Academy of Sciences, Tuwima 10, 10-748 Olsztyn, Poland; (M.A.J.); (R.A.)
| | - Pier Giorgio Peiretti
- Institute of Sciences of Food Production, National Research Council, 10095 Grugliasco, Italy; (F.G.); (P.G.P.)
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13
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Moschen S, Marino J, Nicosia S, Higgins J, Alseekh S, Astigueta F, Bengoa Luoni S, Rivarola M, Fernie AR, Blanchet N, Langlade NB, Paniego N, Fernández P, Heinz RA. Exploring gene networks in two sunflower lines with contrasting leaf senescence phenotype using a system biology approach. BMC PLANT BIOLOGY 2019; 19:446. [PMID: 31651254 PMCID: PMC6813990 DOI: 10.1186/s12870-019-2021-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2019] [Accepted: 09/06/2019] [Indexed: 05/05/2023]
Abstract
BACKGROUND Leaf senescence is a complex process, controlled by multiple genetic and environmental variables. In sunflower, leaf senescence is triggered abruptly following anthesis thereby limiting the capacity of plants to keep their green leaf area during grain filling, which subsequently has a strong impact on crop yield. Recently, we performed a selection of contrasting sunflower inbred lines for the progress of leaf senescence through a physiological, cytological and molecular approach. Here we present a large scale transcriptomic analysis using RNA-seq and its integration with metabolic profiles for two contrasting sunflower inbred lines, R453 and B481-6 (early and delayed senescence respectively), with the aim of identifying metabolic pathways associated to leaf senescence. RESULTS Gene expression profiles revealed a higher number of differentially expressed genes, as well as, higher expression levels in R453, providing evidence for early activation of the senescence program in this line. Metabolic pathways associated with sugars and nutrient recycling were differentially regulated between the lines. Additionally, we identified transcription factors acting as hubs in the co-expression networks; some previously reported as senescence-associated genes in model species but many are novel candidate genes. CONCLUSIONS Understanding the onset and the progress of the senescence process in crops and the identification of these new candidate genes will likely prove highly useful for different management strategies to mitigate the impact of senescence on crop yield. Functional characterization of candidate genes will help to develop molecular tools for biotechnological applications in breeding crop yield.
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Affiliation(s)
- Sebastián Moschen
- Estación Experimental Agropecuaria Famaillá, Instituto Nacional de Tecnología Agropecuaria, Famaillá, Tucumán Argentina
- Instituto de Agrobiotecnología y Biología Molecular – IABiMo – INTA-CONICET, Instituto de Biotecnología, Centro de Investigaciones en Ciencias Veterinarias y Agronómicas, Instituto Nacional de Tecnología Agropecuaria, Hurlingham, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Ciudad Autónoma de Buenos Aires, Argentina
| | - Johanna Marino
- Escuela de Ciencia y Tecnología, Universidad Nacional de San Martín, San Martín, Argentina
| | - Salvador Nicosia
- Instituto de Agrobiotecnología y Biología Molecular – IABiMo – INTA-CONICET, Instituto de Biotecnología, Centro de Investigaciones en Ciencias Veterinarias y Agronómicas, Instituto Nacional de Tecnología Agropecuaria, Hurlingham, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Ciudad Autónoma de Buenos Aires, Argentina
| | - Janet Higgins
- Earlham Institute, Norwich Research Park, Norwich, NR4 7UZ UK
| | - Saleh Alseekh
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany
| | - Francisco Astigueta
- Instituto de Agrobiotecnología y Biología Molecular – IABiMo – INTA-CONICET, Instituto de Biotecnología, Centro de Investigaciones en Ciencias Veterinarias y Agronómicas, Instituto Nacional de Tecnología Agropecuaria, Hurlingham, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Ciudad Autónoma de Buenos Aires, Argentina
| | - Sofia Bengoa Luoni
- Instituto Tecnológico Chascomús (INTECh), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET)-Universidad Nacional de General San Martín (UNSAM), Chascomús, Argentina
| | - Máximo Rivarola
- Instituto de Agrobiotecnología y Biología Molecular – IABiMo – INTA-CONICET, Instituto de Biotecnología, Centro de Investigaciones en Ciencias Veterinarias y Agronómicas, Instituto Nacional de Tecnología Agropecuaria, Hurlingham, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Ciudad Autónoma de Buenos Aires, Argentina
| | - Alisdair R. Fernie
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Potsdam-Golm, Germany
| | - Nicolas Blanchet
- LIPM, INRA, CNRS, Université de Toulouse, Castanet-Tolosan, France
| | | | - Norma Paniego
- Instituto de Agrobiotecnología y Biología Molecular – IABiMo – INTA-CONICET, Instituto de Biotecnología, Centro de Investigaciones en Ciencias Veterinarias y Agronómicas, Instituto Nacional de Tecnología Agropecuaria, Hurlingham, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Ciudad Autónoma de Buenos Aires, Argentina
| | - Paula Fernández
- Instituto de Agrobiotecnología y Biología Molecular – IABiMo – INTA-CONICET, Instituto de Biotecnología, Centro de Investigaciones en Ciencias Veterinarias y Agronómicas, Instituto Nacional de Tecnología Agropecuaria, Hurlingham, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Ciudad Autónoma de Buenos Aires, Argentina
- Escuela de Ciencia y Tecnología, Universidad Nacional de San Martín, San Martín, Argentina
| | - Ruth A. Heinz
- Instituto de Agrobiotecnología y Biología Molecular – IABiMo – INTA-CONICET, Instituto de Biotecnología, Centro de Investigaciones en Ciencias Veterinarias y Agronómicas, Instituto Nacional de Tecnología Agropecuaria, Hurlingham, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Ciudad Autónoma de Buenos Aires, Argentina
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