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Xu X, Zhang C, Lai C, Zhang Z, Wu J, Su Q, Gan Y, Zhang Z, Chen Y, Guo R, Lin Y, Lai Z. Genome-Wide Identification and Expression Analysis of Bx Involved in Benzoxazinoids Biosynthesis Revealed the Roles of DIMBOA during Early Somatic Embryogenesis in Dimocarpus longan Lour. PLANTS (BASEL, SWITZERLAND) 2024; 13:1373. [PMID: 38794443 PMCID: PMC11125010 DOI: 10.3390/plants13101373] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2024] [Revised: 05/04/2024] [Accepted: 05/13/2024] [Indexed: 05/26/2024]
Abstract
Benzoxazinoids (BXs) are tryptophan-derived indole metabolites and play a role in various physiological processes, such as auxin metabolism. Auxin is essential in the process of somatic embryogenesis (SE) in plants. In this study, we used bioinformatics, transcriptome data, exogenous treatment experiments, and qPCR analysis to study the evolutionary pattern of Bx genes in green plants, the regulatory mechanism of DlBx genes during early SE, and the effect of 2,4-dihydroxy-7-methoxy-1,4-benzoxazine-3-one (DIMBOA) on the early SE in Dimocarpus longan Lour. The results showed that 27 putative DlBxs were identified in the longan genome; the Bx genes evolved independently in monocots and dicots, and the main way of gene duplication for the DlBx was tandem duplication (TD) and the DlBx were strongly constrained by purification selection during evolution. The transcriptome data indicated varying expression levels of DlBx during longan early SE, and most DlBxs responded to light, temperature, drought stress, and 2,4-dichlorophenoxyacetic acid (2,4-D) treatment; qRT-PCR results showed DlBx1, DlBx6g and DlBx6h were responsive to auxin, and treatment with 0.1mg/L DIMBOA for 9 days significantly upregulated the expression levels of DlBx1, DlBx3g, DlBx6c, DlBx6f, DlB6h, DlBx7d, DlBx8, and DlBx9b. The correlation analysis showed a significantly negative correlation between the expression level of DlBx1 and the endogenous IAA contents; DIMBOA significantly promoted the early SE and significantly changed the endogenous IAA content, and the IAA content increased significantly at the 9th day and decreased significantly at the 13th day. Therefore, the results suggested that DIMBOA indirectly promote the early SE by changing the endogenous IAA content via affecting the expression level of DlBx1 and hydrogen peroxide (H2O2) content in longan.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | | | | | - Zhongxiong Lai
- Institute of Horticultural Biotechnology, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (X.X.); (C.Z.); (C.L.); (Z.Z.); (J.W.); (Q.S.); (Y.G.); (Z.Z.); (Y.C.); (R.G.); (Y.L.)
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Lim SL, Subramaniam S, Baset Mia MA, Rahmah ARS, Ghazali AHA. Biotization of in vitro oil palm ( Elaeis guineensis Jacq.) and its plant-microbe interactions. FRONTIERS IN PLANT SCIENCE 2023; 14:1150309. [PMID: 37143882 PMCID: PMC10151813 DOI: 10.3389/fpls.2023.1150309] [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: 01/24/2023] [Accepted: 03/27/2023] [Indexed: 05/06/2023]
Abstract
Continuous discovery of novel in vitro plant culture practices is always essential to promote better plant growth in the shortest possible cultivation period. An alternative approach to conventional micropropagation practice could be achieved through biotization by inoculating selected Plant Growth Promoting Rhizobacteria (PGPR) into the plant tissue culture materials (e.g., callus, embryogenic callus, and plantlets). Such biotization process often allows the selected PGPR to form a sustaining population with various stages of in vitro plant tissues. During the biotization process, plant tissue culture material imposes developmental and metabolic changes and enhances its tolerance to abiotic and biotic stresses, thereby reducing mortality in the acclimatization and pre-nursery stages. Understanding the mechanisms is, therefore crucial for gaining insights into in vitro plant-microbe interactions. Studies of biochemical activities and compound identifications are always essential to evaluate in vitro plant-microbe interactions. Given the importance of biotization in promoting in vitro plant material growth, this review aims to provide a brief overview of the in vitro oil palm plant-microbe symbiosis system.
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Affiliation(s)
- Shey-Li Lim
- School of Biological Sciences, Universiti Sains Malaysia, Minden, Penang, Malaysia
| | | | - Md Abdul Baset Mia
- Department of Crop Botany, Faculty of Agriculture, Bangabandhu Sheikh Mujibur Rahman Agricultural University, Gazipur, Bangladesh
| | - Abdul Rahman Siti Rahmah
- Advanced Biotechnology and Breeding Centre, Malaysian Palm Oil Board, Persiaran Institusi, Bandar Baru Bangi, Kajang, Selangor, Malaysia
| | - Amir Hamzah Ahmad Ghazali
- School of Biological Sciences, Universiti Sains Malaysia, Minden, Penang, Malaysia
- *Correspondence: Amir Hamzah Ahmad Ghazali,
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Ma JF, Yang HY, Kun W, Liu XE. Structural modification of hemicelluloses and lignin based on the biorefinery process with white-rot fungal. Carbohydr Polym 2016; 153:7-13. [DOI: 10.1016/j.carbpol.2016.07.085] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2016] [Revised: 07/19/2016] [Accepted: 07/19/2016] [Indexed: 10/21/2022]
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Kumar Y, Zhang L, Panigrahi P, Dholakia BB, Dewangan V, Chavan SG, Kunjir SM, Wu X, Li N, Rajmohanan PR, Kadoo NY, Giri AP, Tang H, Gupta VS. Fusarium oxysporum mediates systems metabolic reprogramming of chickpea roots as revealed by a combination of proteomics and metabolomics. PLANT BIOTECHNOLOGY JOURNAL 2016; 14:1589-603. [PMID: 26801007 PMCID: PMC5066658 DOI: 10.1111/pbi.12522] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2015] [Revised: 11/25/2015] [Accepted: 11/25/2015] [Indexed: 05/05/2023]
Abstract
Molecular changes elicited by plants in response to fungal attack and how this affects plant-pathogen interaction, including susceptibility or resistance, remain elusive. We studied the dynamics in root metabolism during compatible and incompatible interactions between chickpea and Fusarium oxysporum f. sp. ciceri (Foc), using quantitative label-free proteomics and NMR-based metabolomics. Results demonstrated differential expression of proteins and metabolites upon Foc inoculations in the resistant plants compared with the susceptible ones. Additionally, expression analysis of candidate genes supported the proteomic and metabolic variations in the chickpea roots upon Foc inoculation. In particular, we found that the resistant plants revealed significant increase in the carbon and nitrogen metabolism; generation of reactive oxygen species (ROS), lignification and phytoalexins. The levels of some of the pathogenesis-related proteins were significantly higher upon Foc inoculation in the resistant plant. Interestingly, results also exhibited the crucial role of altered Yang cycle, which contributed in different methylation reactions and unfolded protein response in the chickpea roots against Foc. Overall, the observed modulations in the metabolic flux as outcome of several orchestrated molecular events are determinant of plant's role in chickpea-Foc interactions.
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Affiliation(s)
- Yashwant Kumar
- Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Pune, India
| | - Limin Zhang
- Key Laboratory of Magnetic Resonance in Biological Systems, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Chinese Academy of Sciences, Wuhan, China
| | - Priyabrata Panigrahi
- Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Pune, India
| | - Bhushan B Dholakia
- Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Pune, India
| | - Veena Dewangan
- Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Pune, India
| | - Sachin G Chavan
- Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Pune, India
| | - Shrikant M Kunjir
- Central NMR Facility, CSIR-National Chemical Laboratory, Pune, India
| | - Xiangyu Wu
- Key Laboratory of Magnetic Resonance in Biological Systems, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Chinese Academy of Sciences, Wuhan, China
| | - Ning Li
- Key Laboratory of Magnetic Resonance in Biological Systems, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Chinese Academy of Sciences, Wuhan, China
| | | | - Narendra Y Kadoo
- Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Pune, India
| | - Ashok P Giri
- Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Pune, India
| | - Huiru Tang
- Key Laboratory of Magnetic Resonance in Biological Systems, National Centre for Magnetic Resonance in Wuhan, Wuhan Institute of Physics and Mathematics, Chinese Academy of Sciences, Wuhan, China
- State Key Laboratory of Genetic Engineering, Metabolomics and Systems Biology Laboratory, School of Life Sciences, Fudan University, Shanghai, China
| | - Vidya S Gupta
- Division of Biochemical Sciences, CSIR-National Chemical Laboratory, Pune, India
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Kodja H, Noirot M, Khoyratty SS, Limbada H, Verpoorte R, Palama TL. Biochemical characterization of embryogenic calli of Vanilla planifolia in response to two years of thidiazuron treatment. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2015; 96:337-344. [PMID: 26351150 DOI: 10.1016/j.plaphy.2015.08.017] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2014] [Revised: 08/17/2015] [Accepted: 08/23/2015] [Indexed: 06/05/2023]
Abstract
Vanilla planifolia embryogenic calli were cultured for two years on a medium containing thidiazuron (TDZ). Due to the presence of TDZ, these calli were under permanent chemical treatment and the differentiation of adventitious shoots from protocorm-like-bodies (PLBs) was blocked. When embryogenic calli were transferred onto a medium without TDZ, shoot organogenesis and plantlet regeneration occurred. To gain better knowledge about the biochemical and molecular processes involved in the morphoregulatory role of TDZ, hormonal and metabolomic analyses were performed. Our results indicate that in the presence of TDZ, embryogenic calli contained a high amount of abscisic acid (ABA) essentially metabolized into abscisic acid glucosyl ester (ABAGE) and phaseic acid (PA), which was the most abundant. When transferred onto a medium without TDZ, shoot regeneration and development take place in four stages that include: embryogenic calli growth, differentiation of PLBs from meristmatic cells zones (MCZ), shoot organogenesis from PLBs and the elongation of well-formed shoots. From a hormonal perspective, the significant reduction in ABA metabolism and its readjustment in the ABAGE pathway triggered PLBs formation. However, this first morphogenesis was stimulated by a strong reduction in IAA metabolism. The organogenesis of PLBs into shoots is associated with an increase in ABA catabolism and a gradual shift in cellular metabolism towards shoot differentiation. Thus, the initiation of the elongation process in shoots is correlated with an alteration in metabolite composition, including an increase in energy reserves (sucrose/starch) and a rapid decrease in alanine content. Our data highlighted the relationship between endogenous hormone signalling, carbohydrate metabolism and shoot organogenesis in Orchid plants.
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Affiliation(s)
- Hippolyte Kodja
- UMR "Peuplement végétaux et Bioagresseurs en Milieu Tropical", Faculté des Sciences et Technologies, Université de La Réunion, 15 Avenue René Cassin, Saint-Denis, La Réunion, France.
| | - Michel Noirot
- UMR "Peuplement végétaux et Bioagresseurs en Milieu Tropical", Faculté des Sciences et Technologies, Université de La Réunion, 15 Avenue René Cassin, Saint-Denis, La Réunion, France.
| | - Shahnoo S Khoyratty
- UMR "Peuplement végétaux et Bioagresseurs en Milieu Tropical", Faculté des Sciences et Technologies, Université de La Réunion, 15 Avenue René Cassin, Saint-Denis, La Réunion, France.
| | - Hafsah Limbada
- Département de Biologie, Faculté des Sciences et Technologies, Université de La Réunion, 15 Avenue René Cassin, Saint-Denis, La Réunion, France.
| | | | - Tony Lionel Palama
- UMR "Peuplement végétaux et Bioagresseurs en Milieu Tropical", Faculté des Sciences et Technologies, Université de La Réunion, 15 Avenue René Cassin, Saint-Denis, La Réunion, France; LISBP-INSA Toulouse 135 Avenue de Rangueil, 31077 Toulouse, France.
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Khakimov B, Bak S, Engelsen SB. High-throughput cereal metabolomics: Current analytical technologies, challenges and perspectives. J Cereal Sci 2014. [DOI: 10.1016/j.jcs.2013.10.002] [Citation(s) in RCA: 73] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Lygin AV, Zernova OV, Hill CB, Kholina NA, Widholm JM, Hartman GL, Lozovaya VV. Glyceollin is an important component of soybean plant defense against Phytophthora sojae and Macrophomina phaseolina. PHYTOPATHOLOGY 2013; 103:984-94. [PMID: 23617338 DOI: 10.1094/phyto-12-12-0328-r] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
The response of soybean transgenic plants, with suppressed synthesis of isoflavones, and nontransgenic plants to two common soybean pathogens, Macrophomina phaseolina and Phytophthora sojae, was studied. Transgenic soybean plants of one line used in this study were previously generated via bombardment of embryogenic cultures with the phenylalanine ammonia lyase, chalcone synthase, and isoflavone synthase (IFS2) genes in sense orientation driven by the cotyledon-preferable lectin promoter (to turn genes on in cotyledons), while plants of another line were newly produced using the IFS2 gene in sense orientation driven by the Cassava vein mosaic virus constitutive promoter (to turn genes on in all plant parts). Nearly complete inhibition of isoflavone synthesis was found in the cotyledons of young seedlings of transgenic plants transformed with the IFS2 transgene driven by the cotyledon-preferable lectin promoter compared with the untransformed control during the 10-day observation period, with the precursors of isoflavone synthesis being accumulated in the cotyledons of transgenic plants. These results indicated that the lectin promoter could be active not only during seed development but also during seed germination. Downregulation of isoflavone synthesis only in the seed or in the whole soybean plant caused a strong inhibition of the pathogen-inducible glyceollin in cotyledons after inoculation with P. sojae, which resulted in increased susceptibility of the cotyledons of both transgenic lines to this pathogen compared with inoculated cotyledons of untransformed plants. When stems were inoculated with M. phaseolina, suppression of glyceollin synthesis was found only in stems of transgenic plants expressing the transgene driven by a constitutive promoter, which developed more severe infection. These results provide further evidence that rapid glyceollin accumulation during infection contributes to the innate soybean defense response.
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Lygin AV, Abdel-Rahman MM, Ulanov AV, Widholm JM, Lozovaya VV. Polyethylene glycol treatment promotes metabolic events associated with maize callus morphogenic competence. PHYTOCHEMISTRY 2012; 82:46-55. [PMID: 22858115 DOI: 10.1016/j.phytochem.2012.07.002] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/20/2010] [Revised: 10/12/2011] [Accepted: 07/05/2012] [Indexed: 05/25/2023]
Abstract
Metabolic changes were studied, which accompanied the conversion of 6month old HiII maize non-regenerable (NR) calli into regenerable (R) calli when cultured for 63days with 10% polyethylene glycol (PEG) (3350MW) in culture medium. The conversion of 6month old NR to R callus morphotype caused by PEG application decreased cell wall contents in callus dry mass and changed cell wall phenolics making their profile similar to that of R callus by reduction of lignin and ester- and ether-bound phenolic concentrations, including p-coumaric acid and ester- and ether-bound diferulates and by increase of the ratios of ester- and ether-bound ferulic acid/coumaric acid and ferulic acid/diferulic acid in cell walls of NR callus. Some similar changes of cell wall phenolics caused by PEG application were also found in 48month old NR callus, that changed the morphology, but did not regenerate plants. However, there were no changes in the old callus in levels of total ester and ether-bound cell wall phenolics and substantially smaller decreases were found in ratios of ester- and ether-bound ferulic acid/coumaric acid and ferulic acid/diferulic acid, as well as in diferulate concentrations compared to young NR callus cultured with PEG. Remarkably, application of PEG also changed the primary metabolism of young NR callus tissues, so that they acquired metabolic features of highly regenerable callus. These data clearly suggest that PEG alters metabolism of NR calli, so they acquire biochemical characteristics of R calli, and that adaptive osmotic adjustments vary in different types of callus tissues.
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Affiliation(s)
- Anatoliy V Lygin
- University of Illinois, Department of Crop Sciences, 1201 W. Gregory Drive, Urbana, IL 61801, USA
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Wang K, Yang H, Yao X, Xu F, Sun RC. Structural transformation of hemicelluloses and lignin from triploid poplar during acid-pretreatment based biorefinery process. BIORESOURCE TECHNOLOGY 2012; 116:99-106. [PMID: 22609662 DOI: 10.1016/j.biortech.2012.04.028] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2012] [Revised: 04/07/2012] [Accepted: 04/09/2012] [Indexed: 06/01/2023]
Abstract
In order to understand the behaviors of hemicelluloses and lignin under the given acidic conditions with increasing severity, the structural characteristics were elucidated in detail by both wet chemistry methods and spectroscopic analyses in this study. Although acidic pretreatment significantly hydrolyzed the glycosidic linkages in xylan backbone and then reduced the molecular weight of xylan from 89,600 to 19,630 g/mol, a slightly increased amount of glucuronic acid was observed, probably attributing to the maintenance of ester bonds. The serious structural variation occurred in lignin macromolecule was evidenced by the extensive degradation of β-O-4 ether linkages and resinol substructure, together with the changes in the ratios of the three monolignols in ester-bond, ether-bond and non-condensed phenolic compounds. At the most severity, obvious condensation reactions introduced the clear shift of C(2) and C(5) correlations and the absence of C(6) correlation in guaiacyl units by 2D HSQC analysis.
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Affiliation(s)
- Kun Wang
- Institute of Biomass Chemistry and Technology, Beijing Forestry University, Beijing 100083, China
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Abstract
Plant regeneration capacity is maintained through the life of a plant by the stem cell niche present in the meristems. Stem cells are capable of differentiating into any plant organ, allowing propagation of new plants by different techniques. Among them, somatic embryogenesis is a widely used technique characterized by a complex process that involves coordinated expression of genes, mediated by the influence of specific hormones, nutrients, stress, and/or environmental signals. This tool is particularly relevant in the propagation of genetically improved crops. The intrinsic embryogenic potential of the explant used as starting material for plant in vitro cultures varies depending on the genotype of each plant species. Particularly in maize, the regeneration capacity is lost during the course of tissue maturation, since embryogenic callus (E) is almost exclusively obtained from immature zygotic embryos. In this chapter, the latest advances in the literature for maize somatic embryogenesis process are reviewed. Further, a detailed procedure for maize plant regeneration from E callus is described. The callus obtained from immature zygotic embryos is capable to generate somatic embryos that germinate and develop into fertile normal plants.
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Franklin G, Dias ACP. Chlorogenic acid participates in the regulation of shoot, root and root hair development in Hypericum perforatum. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2011; 49:835-42. [PMID: 21700469 DOI: 10.1016/j.plaphy.2011.05.009] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2010] [Accepted: 05/18/2011] [Indexed: 05/02/2023]
Abstract
Chlorogenic acid (CGA), a product of the phenylpropanoid pathway, is one of the most widespread soluble phenolic compounds in the plant kingdom. Although CGA is known to have important roles in plant function, its relevance in plant de novo organogenesis is not yet understood. With a series of experiments, here we show that CGA has a potential role in shoot, root and root hair development. In the first phase of our investigation, we developed an efficient and novel thin cell layer (TCL) regeneration protocol for Hypericum perforatum which could bridge all the in vitro morphogenetic stages between single cell and complete plant. Tissues at different morphogenetic states were analysed for their phenolic profile which revealed that shoot differentiation from callus tissues of H. perforatum is accompanied by the onset of CGA production. Further, the relevance of CGA in de novo organogenesis was deciphered by culturing highly organogenic root explants on media augmented with various concentrations of CGA. Results of this experiment showed that CGA concentrations lower than 10.0 mg l⁻¹ did not affect shoot organogenesis, whereas, higher concentrations significantly reduced this process in a concentration-dependent manner. In spite of the differential concentration-dependent effects of CGA on shoot regeneration, supplementation of CGA did not have any effect on the production of lateral roots and root hairs. Interestingly, CGA showed a concentration-dependent positive correlation with lateral roots and root hairs production in the presence of α-naphthaleneacetic acid (NAA). When the culture medium was augmented with 2-aminoindane-2-phosphonic acid (AIP), an inhibitor of phenylalanine ammonia lyase (PAL), induction of shoots, lateral roots and root hairs from the explants was significantly affected. Addition of an optimum concentration of CGA in these cultures partially restored all these organogenic processes.
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Affiliation(s)
- G Franklin
- CITAB-UM, Departamento de Biologia, Universidade do Minho, Campus de Gualtar, 4710-057 Braga, Portugal
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Sánchez-Hernández L, Marina ML, Crego AL. A capillary electrophoresis–tandem mass spectrometry methodology for the determination of non-protein amino acids in vegetable oils as novel markers for the detection of adulterations in olive oils. J Chromatogr A 2011; 1218:4944-51. [DOI: 10.1016/j.chroma.2011.01.045] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2010] [Revised: 01/13/2011] [Accepted: 01/15/2011] [Indexed: 11/28/2022]
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Ulanov A, Widholm JM. Metabolic profiling to determine the cause of the increased triphenyltetrazolium chloride reduction in mannitol-treated maize callus. JOURNAL OF PLANT PHYSIOLOGY 2010; 167:1423-1431. [PMID: 20579767 DOI: 10.1016/j.jplph.2010.05.007] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/03/2010] [Revised: 05/26/2010] [Accepted: 05/26/2010] [Indexed: 05/29/2023]
Abstract
When Zea mays callus cultures of two different genotypes were treated with the osmoticum mannitol (0.53M) for 24h their ability to reduce the tetrazolium derivative 2,3,5-triphenyltetrazolium chloride (TTC) to form the insoluble red compound formazan is stimulated. The formazan can be extracted with 95% ethanol for quantitation and this reaction has been used as a measure of viability since only live cells can carry out this reduction. In order to determine the cause of the increased TTC reduction caused by mannitol we carried out metabolic profiling analysis using GC-MS to identify 80 compounds. There were increases in sugar alcohols, hexoses except fructose and in total sugars. The total organic acid pools did not change and nitrogen containing compounds decreased slightly. Principle component analysis showed a large treatment effect due to changes in carbohydrate and nitrogen metabolism. These results indicate that the increased carbohydrate available for the citric acid cycle may be the cause of the increased TTC reduction observed after the mannitol treatment.
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Affiliation(s)
- Alexander Ulanov
- University of Illinois, Department of Crop Sciences, Edward R. Madigan Laboratory, 1201 W. Gregory Drive, Urbana, IL 61801, USA
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Metabolome variability in crop plant species--when, where, how much and so what? Regul Toxicol Pharmacol 2010; 58:S54-61. [PMID: 20627114 DOI: 10.1016/j.yrtph.2010.07.004] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2010] [Revised: 07/07/2010] [Accepted: 07/07/2010] [Indexed: 01/01/2023]
Abstract
"Omics" technologies provide coverage of gene, protein and metabolite analysis that is unsurpassed compared with traditional targeted approaches. There are a growing number of examples indicating that profiling approaches can be used to expose significant sources of variation in the composition of crop and model plants caused by genetic background, breeding method, growing environment (site, season), genotype × environment interactions and crop cultural practices to name but a few. Whilst breeders have long been aware of such variation from tried and tested targeted analytical approaches, the broad-scale, so called "unbiased" analysis of the metabolome now possible, offers a major upside to our understanding of the true extent of variation in a plethora of metabolites relevant to human and animal health and nutrition. Metabolomics is helping to provide targets for plant breeding by linking gene expression, and allelic variation to variation in metabolite complement (functional genomics), and is also being deployed to better assess the potential impacts of climate change and reduced input agricultural systems on crop composition. This review will provide examples of the factors driving variation in the metabolomes of crop species.
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Zernova OV, Lygin AV, Widholm JM, Lozovaya VV. Modification of isoflavones in soybean seeds via expression of multiple phenolic biosynthetic genes. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2009; 47:769-77. [PMID: 19539487 DOI: 10.1016/j.plaphy.2009.05.006] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2008] [Revised: 05/20/2009] [Accepted: 05/22/2009] [Indexed: 05/10/2023]
Abstract
To modify the level and composition of isoflavones, the important bioactive constituents of soybean seeds, soybean was transformed via co-bombardment of embryogenic cultures with three DNA cassettes containing the CHS6-chalcone synthase and IFS2-isoflavone synthase genes, and a fragment of PAL5-phenylalanine ammonia-lyase gene, all in sense orientation under the lectin promoter mixed with the selectable marker gene, HPT (hygromycin phosphotransferase) under the 35S promoter. Four of six fertile lines produced integrated all four genes. Isoflavone levels were lower in T1 mature seeds of 5 of the 6 lines compared to the control. Transgene segregation was found in one selected line, with formation of additional sublines with different transgene composition found also in the homozygous plants. Decreased isoflavone concentrations (by about 70%) were found in T4 homozygous seeds of the two lines studied in detail here. The embryo axes accumulated most of the glycitein and contained a higher isoflavone concentration than the cotyledons. Expression of transgenes driven by the lectin promoter reduced the isoflavone concentration only in the cotyledons and not in embryo axes, indicating that this promoter is preferably active in cotyledons.
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Affiliation(s)
- Olga V Zernova
- Department of Crop Sciences, University of Illinois, 284 ERML, 1201 W. Gregory Dr., Urbana, IL 61801, USA.
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Ulanov A, Lygin A, Duncan D, Widholm J, Lozovaya V. Metabolic effects of glyphosate change the capacity of maize culture to regenerate plants. JOURNAL OF PLANT PHYSIOLOGY 2009; 166:978-87. [PMID: 19110340 DOI: 10.1016/j.jplph.2008.11.004] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/09/2008] [Revised: 11/10/2008] [Accepted: 11/11/2008] [Indexed: 05/27/2023]
Abstract
Since the presence of glyphosate in maize tissue cultures of proprietary line L2 was very detrimental to plant regeneration, we determined metabolic changes associated with the glyphosate effects on plant regeneration in maize cultures. The polar fraction composition and soluble and cell-wall-bound phenolics were analyzed in the regenerable (R) and non-regenerable (NR) calluses of maize line L2. The tissues with high regeneration capacity had low sugar and 4-aminobutyric acid (GABA) concentrations and increased concentrations of most amino acids, polyamines and indole-3-butenol in the soluble polar fraction and higher ferulic acid/coumaric acid and ferulic acid/diferulic acid ratios and higher levels of the predominant G (guaiacyl) units in the cell wall fraction compared with NR calluses as was found before with H99 and HiII maize R and NR tissues, indicating an association of these metabolites with the capacity of maize cultured tissue to regenerate plants. We also found that di-coumaroyl spermidine and coumaroyl-feruoyl spermidine are present in the soluble fraction of L2 R tissues and are practically absent in NR tissues. However, we did not see such differences in HiII and H99 samples, which indicate that these are genotypic features not related to the capacity to regenerate plants in maize tissue cultures. Glyphosate treatment caused the accumulation of shikimic and quinic acids (not detected in untreated samples) in R and NR calluses (with higher levels found in R tissues) and also decreased the FA/diFA ratio in cell wall phenolics, polyamine and amino acid levels, and increased sugar concentrations in the R L2 tissues, indicating a metabolic shift of R callus to NR tissues.
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Affiliation(s)
- Alexander Ulanov
- Department of Crop Sciences, University of Illinois, 1201 W. Gregory Drive, Urbana, IL 61801, USA
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Li P, Ainsworth EA, Leakey ADB, Ulanov A, Lozovaya V, Ort DR, Bohnert HJ. Arabidopsis transcript and metabolite profiles: ecotype-specific responses to open-air elevated [CO2]. PLANT, CELL & ENVIRONMENT 2008; 31:1673-87. [PMID: 18721265 DOI: 10.1111/j.1365-3040.2008.01874.x] [Citation(s) in RCA: 46] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
A Free-Air CO(2) Enrichment (FACE) experiment compared the physiological parameters, transcript and metabolite profiles of Arabidopsis thaliana Columbia-0 (Col-0) and Cape Verde Island (Cvi-0) at ambient (approximately 0.375 mg g(-1)) and elevated (approximately 0.550 mg g(-1)) CO(2) ([CO(2)]). Photoassimilate pool sizes were enhanced in high [CO(2)] in an ecotype-specific manner. Short-term growth at elevated [CO(2)] stimulated carbon gain irrespective of down-regulation of plastid functions and altered expression of genes involved in nitrogen metabolism resembling patterns observed under N-deficiency. The study confirmed well-known characteristics, but the use of a time course, ecotypic genetic differences, metabolite analysis and the focus on clusters of functional categories provided new aspects about responses to elevated [CO(2)]. Longer-term Cvi-0 responded by down-regulating functions favouring carbon accumulation, and both ecotypes showed altered expression of genes for defence, redox control, transport, signalling, transcription and chromatin remodelling. Overall, carbon fixation with a smaller commitment of resources in elevated [CO(2)] appeared beneficial, with the extra C only partially utilized possibly due to disturbance of the C : N ratio. To different degrees, both ecotypes perceived elevated [CO(2)] as a metabolic perturbation that necessitated increased functions consuming or storing photoassimilate, with Cvi-0 emerging as more capable of acclimating. Elevated [CO(2)] in Arabidopsis favoured adjustments in reactive oxygen species (ROS) homeostasis and signalling that defined genotypic markers.
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Affiliation(s)
- Pinghua Li
- Department of Plant Biology, University of Illinois at Urbana - Champaign, Urbana, IL 61801, USA
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18
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Mane SP, Robinet CV, Ulanov A, Schafleitner R, Tincopa L, Gaudin A, Nomberto G, Alvarado C, Solis C, Bolivar LA, Blas R, Ortega O, Solis J, Panta A, Rivera C, Samolski I, Carbajulca DH, Bonierbale M, Pati A, Heath LS, Bohnert HJ, Grene R. Molecular and physiological adaptation to prolonged drought stress in the leaves of two Andean potato genotypes. FUNCTIONAL PLANT BIOLOGY : FPB 2008; 35:669-688. [PMID: 32688822 DOI: 10.1071/fp07293] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2007] [Accepted: 07/25/2008] [Indexed: 06/11/2023]
Abstract
Responses to prolonged drought and recovery from drought of two South American potato (Solanum tuberosum L. ssp. andigena (Juz & Buk) Hawkes) landraces, Sullu and Ccompis were compared under field conditions. Physiological and biomass measurements, yield analysis, the results of hybridisation to a potato microarray platform (44 000 probes) and metabolite profiling were used to characterise responses to water deficit. Drought affected shoot and root biomass negatively in Ccompis but not in Sullu, whereas both genotypes maintained tuber yield under water stress. Ccompis showed stronger reduction in maximum quantum yield under stress than Sullu, and less decrease in stomatal resistance. Genes associated with PSII functions were activated during recovery in Sullu only. Evidence for sucrose accumulation in Sullu only during maximum stress and recovery was observed, in addition to increases in cell wall biosynthesis. A depression in the abundance of plastid superoxide dismutase transcripts was observed under maximum stress in Ccompis. Both sucrose and the regulatory molecule trehalose accumulated in the leaves of Sullu only. In contrast, in Ccompis, the raffinose oligosaccharide family pathway was activated, whereas low levels of sucrose and minor stress-mediated changes in trehalose were observed. Proline, and expression of the associated genes, rose in both genotypes under drought, with a 3-fold higher increase in Sullu than in Ccompis. The results demonstrate the presence of distinct molecular and biochemical drought responses in the two potato landraces leading to yield maintenance but differential biomass accumulation in vegetative tissues.
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Affiliation(s)
| | - Cecilia Vasquez Robinet
- Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Blacksburg, VA 24061, USA
| | - Alexander Ulanov
- Biotechnology Center, University of Illinois, Urbana, IL 61801, USA
| | | | | | | | | | | | | | | | - Raul Blas
- Centro Internacional de la Papa, Lima, Peru
| | | | | | - Ana Panta
- Centro Internacional de la Papa, Lima, Peru
| | | | | | | | | | - Amrita Pati
- Department of Computer Science, Virginia Tech, Blacksburg, VA 24061, USA
| | - Lenwood S Heath
- Department of Computer Science, Virginia Tech, Blacksburg, VA 24061, USA
| | - Hans J Bohnert
- Departments of Plant Biology and of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Ruth Grene
- Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Blacksburg, VA 24061, USA
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Vasquez-Robinet C, Mane SP, Ulanov AV, Watkinson JI, Stromberg VK, De Koeyer D, Schafleitner R, Willmot DB, Bonierbale M, Bohnert HJ, Grene R. Physiological and molecular adaptations to drought in Andean potato genotypes. JOURNAL OF EXPERIMENTAL BOTANY 2008; 59:2109-23. [PMID: 18535297 PMCID: PMC2413284 DOI: 10.1093/jxb/ern073] [Citation(s) in RCA: 101] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2007] [Revised: 01/17/2008] [Accepted: 02/14/2008] [Indexed: 05/18/2023]
Abstract
The drought stress tolerance of two Solanum tuberosum subsp. andigena landraces, one hybrid (adgxtbr) and Atlantic (S. tuberosum subsp. tuberosum) has been evaluated. Photosynthesis in the Andigena landraces during prolonged drought was maintained significantly longer than in the Tuberosum (Atlantic) line. Among the Andigena landraces, 'Sullu' (SUL) was more drought resistant than 'Negra Ojosa' (NOJ). Microarray analysis and metabolite data from leaf samples taken at the point of maximum stress suggested higher mitochondrial metabolic activity in SUL than in NOJ. A greater induction of chloroplast-localized antioxidant and chaperone genes in SUL compared with NOJ was evident. ABA-responsive TFs were more induced in NOJ compared with SUL, including WRKY1, mediating a response in SA signalling that may give rise to increased ROS. NOJ may be experiencing higher ROS levels than SUL. Metabolite profiles of NOJ were characterized by compounds indicative of stress, for example, proline, trehalose, and GABA, which accumulated to a higher degree than in SUL. The differences between the Andigena lines were not explained by protective roles of compatible solutes; hexoses and complex sugars were similar in both landraces. Instead, lower levels of ROS accumulation, greater mitochondrial activity and active chloroplast defences contributed to a lower stress load in SUL than in NOJ during drought.
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Affiliation(s)
- Cecilia Vasquez-Robinet
- Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Blacksburg, VA 24061, USA
| | - Shrinivasrao P. Mane
- Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Blacksburg, VA 24061, USA
| | - Alexander V. Ulanov
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | | | - Verlyn K. Stromberg
- Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Blacksburg, VA 24061, USA
| | - David De Koeyer
- Agriculture and Agri-Food Canada, New Brunswick, Canada E3B 4Z7
| | | | | | | | - Hans J. Bohnert
- Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Ruth Grene
- Department of Plant Pathology, Physiology, and Weed Science, Virginia Tech, Blacksburg, VA 24061, USA
- To whom correspondence should be addressed. E-mail:
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Inaba Y, Brotherton JE, Ulanov A, Widholm JM. Expression of a feedback insensitive anthranilate synthase gene from tobacco increases free tryptophan in soybean plants. PLANT CELL REPORTS 2007; 26:1763-71. [PMID: 17569051 DOI: 10.1007/s00299-007-0381-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2007] [Revised: 04/19/2007] [Accepted: 05/07/2007] [Indexed: 05/15/2023]
Abstract
Soybean [Glycine max (L.) Merr.] embryogenic cultures were transformed by particle bombardment with the feedback-insensitive tobacco anthranilate synthase (AS) gene ASA2 driven by the CaMV 35S promoter and selected using hph as the selectable marker gene. Only one of eight regenerated lines that set seed and contained ASA2 expressed the gene highly and contained increased free tryptophan (Trp) levels in leaves, seeds and embryogenic cultures. Leaf extracts of the ASA2 expressing line contained about twice as much AS enzyme activity as the untransformed control and this activity was only slightly more feedback-insensitive. Amino acid analysis showed that both leaves and embryogenic tissue cultures of the ASA2 expressing line had four to five-times the normal levels of free Trp and slightly higher free tyrosine and phenylalanine. The seed total Trp content was only slightly increased. Metabolic profiling-analysis by GC-MS detected no other consistent differences. These studies show that the ASA2 gene can be expressed in soybean and that modest changes in Trp synthesis occurs.
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Affiliation(s)
- Yoshimi Inaba
- Faculty of Medicine, Dentistry and Health Sciences, Department of Pediatrics, University of Melbourne, Melbourne, Australia
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