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Sin WC, Liu J, Zhong JY, Lam HM, Lim BL. Comparative proteomics analysis of root and nodule mitochondria of soybean. PLANT, CELL & ENVIRONMENT 2024. [PMID: 39007421 DOI: 10.1111/pce.15026] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2024] [Revised: 06/18/2024] [Accepted: 06/21/2024] [Indexed: 07/16/2024]
Abstract
Legumes perform symbiotic nitrogen fixation through rhizobial bacteroids housed in specialised root nodules. The biochemical process is energy-intensive and consumes a huge carbon source to generate sufficient reducing power. To maintain the symbiosis, malate is supplied by legume nodules to bacteroids as their major carbon and energy source in return for ammonium ions and nitrogenous compounds. To sustain the carbon supply to bacteroids, nodule cells undergo drastic reorganisation of carbon metabolism. Here, a comprehensive quantitative comparison of the mitochondrial proteomes between root nodules and uninoculated roots was performed using data-independent acquisition proteomics, revealing the modulations in nodule mitochondrial proteins and pathways in response to carbon reallocation. Corroborated our findings with that from the literature, we believe nodules preferably allocate cytosolic phosphoenolpyruvates towards malate synthesis in lieu of pyruvate synthesis, and nodule mitochondria prefer malate over pyruvate as the primary source of NADH for ATP production. Moreover, the differential regulation of respiratory chain-associated proteins suggests that nodule mitochondria could enhance the efficiencies of complexes I and IV for ATP synthesis. This study highlighted a quantitative proteomic view of the mitochondrial adaptation in soybean nodules.
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Affiliation(s)
- Wai-Ching Sin
- School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong, China
| | - Jinhong Liu
- School of Biological Sciences, University of Hong Kong, Pokfulam, Hong Kong, China
| | - Jia Yi Zhong
- School of Biological Sciences, University of Hong Kong, Pokfulam, Hong Kong, China
| | - Hon-Ming Lam
- School of Life Sciences, The Chinese University of Hong Kong, Shatin, Hong Kong, China
- State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China
| | - Boon Leong Lim
- School of Biological Sciences, University of Hong Kong, Pokfulam, Hong Kong, China
- State Key Laboratory of Agrobiotechnology, The Chinese University of Hong Kong, Shatin, Hong Kong, China
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2
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Tran TLC, Callahan DL, Islam MT, Wang Y, Arioli T, Cahill D. Comparative metabolomic profiling of Arabidopsis thaliana roots and leaves reveals complex response mechanisms induced by a seaweed extract. FRONTIERS IN PLANT SCIENCE 2023; 14:1114172. [PMID: 36968386 PMCID: PMC10035662 DOI: 10.3389/fpls.2023.1114172] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/02/2022] [Accepted: 02/15/2023] [Indexed: 06/18/2023]
Abstract
Seaweed extracts are a prominent class of biostimulants that enhance plant health and tolerance to biotic and abiotic stresses due to their unique bioactive components. However, the mechanisms of action of biostimulants are still unknown. Here, we have used a metabolomic approach, a UHPLC-MS method, to uncover the mechanisms induced following application to Arabidopsis thaliana of a seaweed extract derived from Durvillaea potatorum and Ascophyllum nodosum. We have identified, following the application of the extract, key metabolites and systemic responses in roots and leaves across 3 timepoints (0, 3, 5 days). Significant alterations in metabolite accumulation or reduction were found for those belonging to broad groups of compounds such as lipids, amino acids, and phytohormones; and secondary metabolites such as phenylpropanoids, glucosinolates, and organic acids. Strong accumulations of TCA cycle and N-containing and defensive metabolites such as glucosinolates were also found revealing the enhancement of carbon and nitrogen metabolism and defence systems. Our study has demonstrated that application of seaweed extract dramatically altered the metabolomic profiles of Arabidopsis and revealed differences in roots and leaves that varied across the timepoints tested. We also show clear evidence of systemic responses that were initiated in the roots and resulted in metabolic alterations in the leaves. Collectively, our results suggest that this seaweed extract promotes plant growth and activates defence systems by altering various physiological processes at the individual metabolite level.
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Affiliation(s)
- Thi Linh Chi Tran
- School of Life and Environmental Sciences, Deakin University, Geelong, VIC, Australia
| | - Damien L. Callahan
- School of Life and Environmental Sciences, Centre for Cellular and Molecular Biology, Deakin University, Burwood, VIC, Australia
| | - Md Tohidul Islam
- School of Life and Environmental Sciences, Deakin University, Geelong, VIC, Australia
| | - Yichao Wang
- School of Life and Environmental Sciences, Deakin University, Geelong, VIC, Australia
| | - Tony Arioli
- School of Life and Environmental Sciences, Deakin University, Geelong, VIC, Australia
- Seasol International R&D Department, Bayswater, VIC, Australia
| | - David Cahill
- School of Life and Environmental Sciences, Deakin University, Geelong, VIC, Australia
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3
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Sunic K, D’Auria JC, Sarkanj B, Spanic V. Metabolic Profiling Identifies Changes in the Winter Wheat Grains Following Fusarium Treatment at Two Locations in Croatia. PLANTS (BASEL, SWITZERLAND) 2023; 12:911. [PMID: 36840259 PMCID: PMC9962043 DOI: 10.3390/plants12040911] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/30/2023] [Revised: 02/13/2023] [Accepted: 02/16/2023] [Indexed: 06/18/2023]
Abstract
Fusarium head blight (FHB) is one of the most dangerous diseases of winter wheat, resulting in reduced grain yield and quality, and production of mycotoxins by the Fusarium fungi. In the present study, changes in the grain metabolomics of winter wheat samples infected with Fusarium spp. and corresponding non-infected samples from two locations in Croatia were investigated by GC-MS. A Mann-Whitney test revealed that 24 metabolites detected were significantly separated between Fusarium-inoculated and non-infected samples during the variety by treatment interactions. The results confirmed that in grains of six FHB-resistant varieties, ten metabolites were identified as possible resistance-related metabolites. These metabolites included heptadecanoic acid, 9-(Z)-hexadecenoic acid, sophorose, and secolaganin in grains of FHB-resistant varieties at the Osijek location, as well as 2-methylaminomethyltartronic acid, maleamic acid, 4-hydroxyphenylacetonitrile, 1,4-lactonearabinonic acid, secolaganin, and alanine in grains of FHB-resistant varieties at the Tovarnik location. Moreover, on the PCA bi-plot, FHB-susceptible wheat varieties were closer to glycyl proline, decanoic acid, and lactic acid dimer that could have affected other metabolites, and thus, suppressed resistance to FHB. Although defense reactions were genetically conditioned and variety specific, resulting metabolomics changes may give insight into defense-related pathways that could be manipulated to engineer plants with improved resistance to the pathogen.
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Affiliation(s)
- Katarina Sunic
- Department for Breeding and Genetics of Small Cereal Crops, Agricultural Institute Osijek, Juzno Predgradje 17, 31000 Osijek, Croatia
| | - John Charles D’Auria
- Department of Molecular Genetics Leibniz, Institute of Plant Genetics and Crop Plant Research (IPK Gatersleben), OT Gatersleben Corrensstraße 3, 06466 Seeland, Germany
| | - Bojan Sarkanj
- Department of Food Technology, University North, Trg dr. Zarka Dolinara 1, 48000 Koprivnica, Croatia
| | - Valentina Spanic
- Department for Breeding and Genetics of Small Cereal Crops, Agricultural Institute Osijek, Juzno Predgradje 17, 31000 Osijek, Croatia
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Leong BJ, Folz JS, Bathe U, Clark DG, Fiehn O, Hanson AD. Fluoroacetate distribution, response to fluoridation, and synthesis in juvenile Gastrolobium bilobum plants. PHYTOCHEMISTRY 2022; 202:113356. [PMID: 35934105 DOI: 10.1016/j.phytochem.2022.113356] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2022] [Revised: 07/23/2022] [Accepted: 07/28/2022] [Indexed: 06/15/2023]
Abstract
Like angiosperms from several other families, the leguminous shrub Gastrolobium bilobum R.Br. produces and accumulates fluoroacetate, indicating that it performs the difficult chemistry needed to make a C-F bond. Bioinformatic analyses indicate that plants lack homologs of the only enzymes known to make a C-F bond, i.e., the Actinomycete flurorinases that form 5'-fluoro-5'-deoxyadenosine from S-adenosylmethionine and fluoride ion. To probe the origin of fluoroacetate in G. bilobum we first showed that fluoroacetate accumulates to millimolar levels in young leaves but not older leaves, stems or roots, that leaf fluoroacetate levels vary >20-fold between individual plants and are not markedly raised by sodium fluoride treatment. Young leaves were fed adenosine-13C-ribose, 13C-serine, or 13C-acetate to test plausible biosynthetic routes to fluoroacetate from S-adenosylmethionine, a C3-pyridoxal phosphate complex, or acetyl-CoA, respectively. Incorporation of 13C into expected metabolites confirmed that all three precursors were taken up and metabolized. Consistent with the bioinformatic evidence against an Actinomycete-type pathway, no adenosine-13C-ribose was converted to 13C-fluoroacetate; nor was the characteristic 4-fluorothreonine product of the Actinomycete pathway detected. Similarly, no 13C from acetate or serine was incorporated into fluoroacetate. While not fully excluding the hypothetical pathways that were tested, these negative labeling data imply that G. bilobum creates the C-F bond by an unprecedented biochemical reaction. Enzyme(s) that mediate such a reaction could be of great value in pharmaceutical and agrochemical manufacturing.
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Affiliation(s)
- Bryan J Leong
- Horticultural Sciences Department, University of Florida, Gainesville, FL, USA
| | - Jacob S Folz
- West Coast Metabolomics Center, University of California Davis, Davis, CA, USA
| | - Ulschan Bathe
- Horticultural Sciences Department, University of Florida, Gainesville, FL, USA
| | - David G Clark
- Department of Environmental Horticulture, University of Florida, Gainesville, FL, USA
| | - Oliver Fiehn
- West Coast Metabolomics Center, University of California Davis, Davis, CA, USA
| | - Andrew D Hanson
- Horticultural Sciences Department, University of Florida, Gainesville, FL, USA.
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Bénit P, Goncalves J, El Khoury R, Rak M, Favier J, Gimenez-Roqueplo AP, Rustin P. Succinate Dehydrogenase, Succinate, and Superoxides: A Genetic, Epigenetic, Metabolic, Environmental Explosive Crossroad. Biomedicines 2022; 10:1788. [PMID: 35892689 PMCID: PMC9394281 DOI: 10.3390/biomedicines10081788] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2022] [Revised: 07/18/2022] [Accepted: 07/22/2022] [Indexed: 11/16/2022] Open
Abstract
Research focused on succinate dehydrogenase (SDH) and its substrate, succinate, culminated in the 1950s accompanying the rapid development of research dedicated to bioenergetics and intermediary metabolism. This allowed researchers to uncover the implication of SDH in both the mitochondrial respiratory chain and the Krebs cycle. Nowadays, this theme is experiencing a real revival following the discovery of the role of SDH and succinate in a subset of tumors and cancers in humans. The aim of this review is to enlighten the many questions yet unanswered, ranging from fundamental to clinically oriented aspects, up to the danger of the current use of SDH as a target for a subclass of pesticides.
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Affiliation(s)
- Paule Bénit
- NeuroDiderot, Inserm, Université Paris Cité, F-75019 Paris, France; (P.B.); (M.R.)
| | - Judith Goncalves
- Paris Centre de Recherche Cardiovasculaire (PARCC), Inserm, Université Paris Cité, F-75015 Paris, France; (J.G.); (J.F.)
| | - Riyad El Khoury
- Department of Pathology and Laboratory Medicine, Neuromuscular Diagnostic Laboratory, American University of Beirut Medical Center, Beirut 1107 2020, Lebanon;
| | - Malgorzata Rak
- NeuroDiderot, Inserm, Université Paris Cité, F-75019 Paris, France; (P.B.); (M.R.)
| | - Judith Favier
- Paris Centre de Recherche Cardiovasculaire (PARCC), Inserm, Université Paris Cité, F-75015 Paris, France; (J.G.); (J.F.)
| | - Anne-Paule Gimenez-Roqueplo
- Département de Médecine Génomique des Tumeurs et des Cancers, Assistance Publique-Hôpitaux de Paris (AP-HP), Hôpital Européen Georges Pompidou, F-75015 Paris, France;
| | - Pierre Rustin
- NeuroDiderot, Inserm, Université Paris Cité, F-75019 Paris, France; (P.B.); (M.R.)
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6
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Booth NJ, Smith PMC, Ramesh SA, Day DA. Malate Transport and Metabolism in Nitrogen-Fixing Legume Nodules. Molecules 2021; 26:6876. [PMID: 34833968 PMCID: PMC8618214 DOI: 10.3390/molecules26226876] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2021] [Revised: 11/08/2021] [Accepted: 11/09/2021] [Indexed: 11/22/2022] Open
Abstract
Legumes form a symbiosis with rhizobia, a soil bacterium that allows them to access atmospheric nitrogen and deliver it to the plant for growth. Biological nitrogen fixation occurs in specialized organs, termed nodules, that develop on the legume root system and house nitrogen-fixing rhizobial bacteroids in organelle-like structures termed symbiosomes. The process is highly energetic and there is a large demand for carbon by the bacteroids. This carbon is supplied to the nodule as sucrose, which is broken down in nodule cells to organic acids, principally malate, that can then be assimilated by bacteroids. Sucrose may move through apoplastic and/or symplastic routes to the uninfected cells of the nodule or be directly metabolised at the site of import within the vascular parenchyma cells. Malate must be transported to the infected cells and then across the symbiosome membrane, where it is taken up by bacteroids through a well-characterized dct system. The dicarboxylate transporters on the infected cell and symbiosome membranes have been functionally characterized but remain unidentified. Proteomic and transcriptomic studies have revealed numerous candidates, but more work is required to characterize their function and localise the proteins in planta. GABA, which is present at high concentrations in nodules, may play a regulatory role, but this remains to be explored.
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Affiliation(s)
- Nicholas J. Booth
- College of Science & Engineering, Flinders University, GPO Box 5100, Adelaide, SA 5001, Australia; (N.J.B.); (S.A.R.)
| | | | - Sunita A. Ramesh
- College of Science & Engineering, Flinders University, GPO Box 5100, Adelaide, SA 5001, Australia; (N.J.B.); (S.A.R.)
| | - David A. Day
- College of Science & Engineering, Flinders University, GPO Box 5100, Adelaide, SA 5001, Australia; (N.J.B.); (S.A.R.)
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7
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Elmassry MM, Bisht K, Colmer-Hamood JA, Wakeman CA, San Francisco MJ, Hamood AN. Malonate utilization by Pseudomonas aeruginosa affects quorum-sensing and virulence and leads to formation of mineralized biofilm-like structures. Mol Microbiol 2021; 116:516-537. [PMID: 33892520 DOI: 10.1111/mmi.14729] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2021] [Revised: 04/06/2021] [Accepted: 04/16/2021] [Indexed: 01/02/2023]
Abstract
Pseudomonas aeruginosa is an opportunistic pathogen that uses malonate among its many carbon sources. We recently reported that, when grown in blood from trauma patients, P. aeruginosa expression of malonate utilization genes was upregulated. In this study, we explored the role of malonate utilization and its contribution to P. aeruginosa virulence. We grew P. aeruginosa strain PA14 in M9 minimal medium containing malonate (MM9) or glycerol (GM9) as a sole carbon source and assessed the effect of the growth on quorum sensing, virulence factors, and antibiotic resistance. Growth of PA14 in MM9, compared to GM9, reduced the production of elastases, rhamnolipids, and pyoverdine; enhanced the production of pyocyanin and catalase; and increased its sensitivity to norfloxacin. Growth in MM9 decreased extracellular levels of N-acylhomoserine lactone autoinducers, an effect likely associated with increased pH of the culture medium; but had little effect on extracellular levels of PQS. At 18 hr of growth in MM9, PA14 formed biofilm-like structures or aggregates that were associated with biomineralization, which was related to increased pH of the culture medium. These results suggest that malonate significantly impacts P. aeruginosa pathogenesis by influencing the quorum sensing systems, the production of virulence factors, biofilm formation, and antibiotic resistance.
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Affiliation(s)
- Moamen M Elmassry
- Department of Biological Sciences, Texas Tech University, Lubbock, TX, USA
| | - Karishma Bisht
- Department of Biological Sciences, Texas Tech University, Lubbock, TX, USA
| | - Jane A Colmer-Hamood
- Department of Immunology and Molecular Microbiology, Texas Tech University Health Sciences Center, Lubbock, TX, USA.,Department of Medical Education, Texas Tech University Health Sciences Center, Lubbock, TX, USA
| | | | - Michael J San Francisco
- Department of Biological Sciences, Texas Tech University, Lubbock, TX, USA.,Honors College, Texas Tech University, Lubbock, TX, USA
| | - Abdul N Hamood
- Department of Immunology and Molecular Microbiology, Texas Tech University Health Sciences Center, Lubbock, TX, USA.,Department of Surgery, Texas Tech University Health Sciences Center, Lubbock, TX, USA
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8
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Wen Z, Pang J, Tueux G, Liu Y, Shen J, Ryan MH, Lambers H, Siddique KHM. Contrasting patterns in biomass allocation, root morphology and mycorrhizal symbiosis for phosphorus acquisition among 20 chickpea genotypes with different amounts of rhizosheath carboxylates. Funct Ecol 2020. [DOI: 10.1111/1365-2435.13562] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Zhihui Wen
- The UWA Institute of Agriculture The University of Western Australia Perth WA Australia
- School of Biological Sciences The University of Western Australia Perth WA Australia
- Department of Plant Nutrition College of Resources and Environmental Sciences China Agricultural University Beijing China
- National Academy of Agriculture Green Development China Agricultural University Beijing China
- Key Laboratory of Plant‐Soil Interactions Ministry of Education China Agricultural University Beijing China
| | - Jiayin Pang
- The UWA Institute of Agriculture The University of Western Australia Perth WA Australia
- UWA School of Agriculture and Environment The University of Western Australia Perth WA Australia
| | | | - Yifei Liu
- The UWA Institute of Agriculture The University of Western Australia Perth WA Australia
- School of Biological Sciences The University of Western Australia Perth WA Australia
- College of Land and Environment National Key Engineering Laboratory for Efficient Utilization of Soil and Fertilizer Resources Shenyang Agricultural University Shenyang China
| | - Jianbo Shen
- Department of Plant Nutrition College of Resources and Environmental Sciences China Agricultural University Beijing China
- National Academy of Agriculture Green Development China Agricultural University Beijing China
- Key Laboratory of Plant‐Soil Interactions Ministry of Education China Agricultural University Beijing China
| | - Megan H. Ryan
- The UWA Institute of Agriculture The University of Western Australia Perth WA Australia
- UWA School of Agriculture and Environment The University of Western Australia Perth WA Australia
| | - Hans Lambers
- The UWA Institute of Agriculture The University of Western Australia Perth WA Australia
- School of Biological Sciences The University of Western Australia Perth WA Australia
- Department of Plant Nutrition College of Resources and Environmental Sciences China Agricultural University Beijing China
- National Academy of Agriculture Green Development China Agricultural University Beijing China
- Key Laboratory of Plant‐Soil Interactions Ministry of Education China Agricultural University Beijing China
| | - Kadambot H. M. Siddique
- The UWA Institute of Agriculture The University of Western Australia Perth WA Australia
- UWA School of Agriculture and Environment The University of Western Australia Perth WA Australia
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9
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Guan X, Nikolau BJ. AAE13 encodes a dual-localized malonyl-CoA synthetase that is crucial for mitochondrial fatty acid biosynthesis. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2016; 85:581-93. [PMID: 26836315 DOI: 10.1111/tpj.13130] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/25/2015] [Revised: 01/12/2016] [Accepted: 01/18/2016] [Indexed: 05/19/2023]
Abstract
Malonyl-CoA is a key intermediate in a number of metabolic processes associated with its role as a substrate in acylation and condensation reactions. These types of reactions occur in plastids, the cytosol and mitochondria, and although carboxylation of acetyl-CoA is the known mechanism for generating the distinct plastidial and cytosolic pools, the metabolic origin of the mitochondrial malonyl-CoA pool is still unclear. In this study we demonstrate that malonyl-CoA synthetase encoded by the Arabidopsis AAE13 (AT3G16170) gene is localized in both the cytosol and the mitochondria. These isoforms are translated from two types of transcripts, one that contains and one that does not contain a mitochondrial-targeting pre-sequence. Whereas the cytosolic AAE13 protein is not essential, due to the presence of a redundant malonyl-CoA generating system provided by a cytosolic acetyl-CoA carboxylase, the mitochondrial AAE13 protein is essential for plant growth. Phenotypes of the aae13-1 mutant are transgenically reversed only if the mitochondrial pre-sequence is present in the ectopically expressed AAE13 proteins. The aae13-1 mutant exhibits typical metabolic phenotypes associated with a deficiency in the mitochondrial fatty acid synthase system, namely depleted lipoylation of the H subunit of the photorespiratory enzyme glycine decarboxylase, increased accumulation of glycine and glycolate and reduced levels of sucrose. Most of these metabolic alterations, and associated morphological changes, are reversed when the aae13-1 mutant is grown in a non-photorespiratory condition (i.e. a 1% CO2 atmosphere), demonstrating that they are a consequence of the deficiency in photorespiration due to the inability to generate lipoic acid from mitochondrially synthesized fatty acids.
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Affiliation(s)
- Xin Guan
- Department of Biochemistry, Biophysics, and Molecular Biology, Iowa State University, Ames, IA, 50011, USA
- The NSF Engineering Research Center for Biorenewable Chemicals (CBiRC), Iowa State University, Ames, IA, 50011, USA
| | - Basil J Nikolau
- Department of Biochemistry, Biophysics, and Molecular Biology, Iowa State University, Ames, IA, 50011, USA
- The NSF Engineering Research Center for Biorenewable Chemicals (CBiRC), Iowa State University, Ames, IA, 50011, USA
- Center for Metabolic Biology, Iowa State University, Ames, IA, 50011, USA
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10
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Amiour N, Imbaud S, Clément G, Agier N, Zivy M, Valot B, Balliau T, Quilleré I, Tercé-Laforgue T, Dargel-Graffin C, Hirel B. An integrated "omics" approach to the characterization of maize (Zea mays L.) mutants deficient in the expression of two genes encoding cytosolic glutamine synthetase. BMC Genomics 2014; 15:1005. [PMID: 25410248 PMCID: PMC4247748 DOI: 10.1186/1471-2164-15-1005] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2014] [Accepted: 11/04/2014] [Indexed: 11/21/2022] Open
Abstract
Background To identify the key elements controlling grain production in maize, it is essential to have an integrated view of the responses to alterations in the main steps of nitrogen assimilation by modification of gene expression. Two maize mutant lines (gln1.3 and gln1.4), deficient in two genes encoding cytosolic glutamine synthetase, a key enzyme involved in nitrogen assimilation, were previously characterized by a reduction of kernel size in the gln1.4 mutant and by a reduction of kernel number in the gln1.3 mutant. In this work, the differences in leaf gene transcripts, proteins and metabolite accumulation in gln1.3 and gln1.4 mutants were studied at two key stages of plant development, in order to identify putative candidate genes, proteins and metabolic pathways contributing on one hand to the control of plant development and on the other to grain production. Results The most interesting finding in this study is that a number of key plant processes were altered in the gln1.3 and gln1.4 mutants, including a number of major biological processes such as carbon metabolism and transport, cell wall metabolism, and several metabolic pathways and stress responsive and regulatory elements. We also found that the two mutants share common or specific characteristics across at least two or even three of the “omics” considered at the vegetative stage of plant development, or during the grain filling period. Conclusions This is the first comprehensive molecular and physiological characterization of two cytosolic glutamine synthetase maize mutants using a combined transcriptomic, proteomic and metabolomic approach. We find that the integration of the three “omics” procedures is not straight forward, since developmental and mutant-specific levels of regulation seem to occur from gene expression to metabolite accumulation. However, their potential use is discussed with a view to improving our understanding of nitrogen assimilation and partitioning and its impact on grain production. Electronic supplementary material The online version of this article (doi:10.1186/1471-2164-15-1005) contains supplementary material, which is available to authorized users.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | | | - Bertrand Hirel
- Institut Jean-Pierre Bourgin, Institut National de la Recherche Agronomique (INRA), Centre de Versailles-Grignon, Unité Mixte de Recherche 1318 INRA-Agro-ParisTech, Equipe de Recherche Labellisée, Centre National de la Recherche Scientifique 3559, RD10, F-78026 Versailles, Cedex, France.
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11
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Chen H, Kim HU, Weng H, Browse J. Malonyl-CoA synthetase, encoded by ACYL ACTIVATING ENZYME13, is essential for growth and development of Arabidopsis. THE PLANT CELL 2011; 23:2247-62. [PMID: 21642549 PMCID: PMC3160029 DOI: 10.1105/tpc.111.086140] [Citation(s) in RCA: 59] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/06/2011] [Revised: 04/06/2011] [Accepted: 05/16/2011] [Indexed: 05/19/2023]
Abstract
Malonyl-CoA is the precursor for fatty acid synthesis and elongation. It is also one of the building blocks for the biosynthesis of some phytoalexins, flavonoids, and many malonylated compounds. In plants as well as in animals, malonyl-CoA is almost exclusively derived from acetyl-CoA by acetyl-CoA carboxylase (EC 6.4.1.2). However, previous studies have suggested that malonyl-CoA may also be made directly from malonic acid by malonyl-CoA synthetase (EC 6.2.1.14). Here, we report the cloning of a eukaryotic malonyl-CoA synthetase gene, Acyl Activating Enzyme13 (AAE13; At3g16170), from Arabidopsis thaliana. Recombinant AAE13 protein showed high activity against malonic acid (K(m) = 529.4 ± 98.5 μM; V(m) = 24.0 ± 2.7 μmol/mg/min) but little or no activity against other dicarboxylic or fatty acids tested. Exogenous malonic acid was toxic to Arabidopsis seedlings and caused accumulation of malonic and succinic acids in the seedlings. aae13 null mutants also grew poorly and accumulated malonic and succinic acids. These defects were complemented by an AAE13 transgene or by a bacterial malonyl-CoA synthetase gene under control of the AAE13 promoter. Our results demonstrate that the malonyl-CoA synthetase encoded by AAE13 is essential for healthy growth and development, probably because it is required for the detoxification of malonate.
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Wouterlood M, Lambers H, Veneklaas EJ. Rhizosphere carboxylate concentrations of chickpea are affected by soil bulk density. PLANT BIOLOGY (STUTTGART, GERMANY) 2006; 8:198-203. [PMID: 16547864 DOI: 10.1055/s-2006-923858] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
We investigated whether carboxylate exudation by chickpea (Cicer arietinum L.) was affected by soil bulk density and if this effect was local or systemic. We hypothesised that concentrations of carboxylates would increase with distance from the root apex due to continuous and constitutive accumulation of carboxylates, and that exudate accumulation would be greater in a compacted soil than in a loose soil. Plants were grown in split-root or single cylinders containing loose (1400 kg m (-3)) or compacted (1800 kg m (-3)) soil. Rhizosphere carboxylate concentrations were measured of whole root systems as well as of sections along the root. The root diameter was greatest of plants grown in the compacted soil; however, root diameters were the same for both root halves in the split-root design, whether they grew in loose soil or in compacted soil. Similarly, carboxylate concentrations tended to be lower for the whole root system in the compacted soil, but were the same for both root halves in the split-root design, irrespective of whether the roots were in loose soil or in compacted soil. These results indicate that both root diameter and carboxylate exudation by roots in chickpea is regulated systemically via a signal from the shoot rather than by local signals in the roots. There was no accumulation of carboxylates with increasing distance from the apex, probably because microbial degradation occurred at similar rates as carboxylate exudation. Malonate, previously suggested as deterrent to microorganisms, is likely only a selective deterrent.
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Affiliation(s)
- M Wouterlood
- School of Plant Biology, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009, Australia
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13
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Playsted CWS, Johnston ME, Ramage CM, Edwards DG, Cawthray GR, Lambers H. Functional significance of dauciform roots: exudation of carboxylates and acid phosphatase under phosphorus deficiency in Caustis blakei (Cyperaceae). THE NEW PHYTOLOGIST 2006; 170:491-500. [PMID: 16626471 DOI: 10.1111/j.1469-8137.2006.01697.x] [Citation(s) in RCA: 15] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
Caustis blakei produces an intriguing morphological adaptation by inducing dauciform roots in response to phosphorus (P) deficiency. We tested the hypothesis that these hairy, swollen lateral roots play a similar role to cluster roots in the exudation of organic chelators and ectoenzymes known to aid the chemical mobilization of sparingly available soil nutrients, such as P. Dauciform-root development and exudate composition (carboxylates and acid phosphatase activity) were analysed in C. blakei plants grown in nutrient solution under P-starved conditions. The distribution of dauciform roots in the field was determined in relation to soil profile depth and matrix. The percentage of dauciform roots of the entire root mass was greatest at the lowest P concentration ([P]) in solution, and was suppressed with increasing solution [P], while in the field dauciform roots were predominantely located in the upper soil horizons, and decreased with increasing soil depth. Citrate was the major carboxylate released in an exudative burst from mature dauciform roots, which also produced elevated levels of acid phosphatase activity. Malonate was the dominant internal carboxylate present, with the highest concentration in young dauciform roots. The high concentration of carboxylates and phosphatases released from dauciform roots, combined with their prolific distribution in the organic surface layer of nutrient-impoverished soils, provides an ecophysiological advantage for enhancing nutrient acquisition.
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Affiliation(s)
- Cameron W S Playsted
- School of Agronomy and Horticulture, The University of Queensland, Gatton, Qld 4343, Australia.
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14
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van Schöll L, Hoffland E, van Breemen N. Organic anion exudation by ectomycorrhizal fungi and Pinus sylvestris in response to nutrient deficiencies. THE NEW PHYTOLOGIST 2006; 170:153-63. [PMID: 16539612 DOI: 10.1111/j.1469-8137.2006.01649.x] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
Low molecular weight organic anions (LMWOA) can enhance weathering of mineral grains. We tested the hypothesis that ectomycorrhizal (EcM) fungi and tree seedlings increase their exudation of LMWOA when supply of magnesium, potassium and phosphorus is low to enhance the mobilization of Mg, K and P from mineral grains. Ectomycorrhizal fungi and Pinus sylvestris seedlings were cultured in symbiosis and in isolation on glass beads with nutrient solution or with sand as a rooting medium, with a complete nutrient supply or with Mg, K, P or N in low supply. Concentrations of all dicarboxylic LMWOA in the rooting medium were measured. Nonmycorrhizal seedlings released predominantly malonate. Colonization with Hebeloma longicaudum decreased the amount of organic anions exuded, whereas Paxillus involutus and Piloderma croceum increased the concentration of oxalate but not the total amount of LMWOA. Phosphorus deficiency increased the concentration of LMWOA by nonmycorrhizal and EcM seedlings. Magnesium deficiency increased the concentration of oxalate by nonmycorrhizal and EcM seedlings, but not the concentration of total LMWOA. Paxillus involutus grown in pure culture responded differently to low nutrient supply compared with symbiotic growth. Ectomycorrhizal fungi did not increase the total concentration of LMWOA compared with nonmycorrhizal seedlings but, depending on the fungal species, they affected the type of LMWOA found.
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Affiliation(s)
- Laura van Schöll
- Department of Soil Quality, Wageningen University, PO Box 8005, 6700 EC Wageningen, the Netherlands
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15
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Stevenson PC, Aslam SN. The Chemistry of The Genus Cicer L. STUDIES IN NATURAL PRODUCTS CHEMISTRY 2006. [DOI: 10.1016/s1572-5995(06)80043-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/13/2023]
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16
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Wouterlood M, Lambers H, Veneklaas EJ. Plant phosphorus status has a limited influence on the concentration of phosphorus-mobilising carboxylates in the rhizosphere of chickpea. FUNCTIONAL PLANT BIOLOGY : FPB 2005; 32:153-159. [PMID: 32689119 DOI: 10.1071/fp04084] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/05/2004] [Accepted: 12/06/2004] [Indexed: 06/11/2023]
Abstract
Two experiments were conducted to investigate whether carboxylate exudation by chickpea (Cicer arietinum L.) is a response to phosphorus (P) deficiency or a constitutive trait. The effect of P supply on carboxylate concentrations in the plant and in the rhizosphere of chickpea cultivar Heera was studied in a sand culture. Plants were grown in pots supplied with 200 mL of solution containing 0-500 μm P every 3 d. Malonate was the main carboxylate exuded, and the main carboxylate in roots; shoots contained mainly citrate and malate. Contrary to what has been reported for other species, carboxylate concentrations in the rhizosphere decreased only slightly at high P supply, but they were still substantial. The effect of P supply on the rate of exudation was studied in a split-root sand culture. Root systems were split into two pots, one root half received no P and the other half received 200 mL of solution containing 0-500 μm P. The rhizosphere of both root halves contained similar concentrations of carboxylates, even when the plants received a different supply of P. Our results indicate that carboxylate exudation is determined by internal P rather than external factors. The fact that chickpea roots always exude carboxylates indicates that exudation in this species is largely constitutive.
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Affiliation(s)
- Madeleine Wouterlood
- School of Plant Biology, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009, Australia
| | - Hans Lambers
- School of Plant Biology, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009, Australia
| | - Erik J Veneklaas
- School of Plant Biology, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009, Australia
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17
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Wouterlood M, Cawthray GR, Scanlon TT, Lambers H, Veneklaas EJ. Carboxylate concentrations in the rhizosphere of lateral roots of chickpea (Cicer arietinum) increase during plant development, but are not correlated with phosphorus status of soil or plants. THE NEW PHYTOLOGIST 2004; 162:745-753. [PMID: 33873771 DOI: 10.1111/j.1469-8137.2004.01070.x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
• The influence of soil P level and plant development on carboxylate concentrations in the rhizosphere of lateral roots of chickpea (Cicer arietinum) cultivars Heera and Tyson were studied to investigate the relationship between carboxylate exudation and P acquisition by chickpea. • Two chickpea cultivars were grown in soil supplied with 0-100 µg P g-1 . Plants were harvested four times during plant development. In two other experiments, carboxylate concentrations were measured along root sections, using plants grown in soil or in hydroponics. • Carboxylate concentrations in the rhizosphere of lateral roots steadily increased with plant development for cv. Heera, but not for Tyson. Carboxylate concentrations increased with increasing distance from the root apex in soil. This increase might be due to accumulation, because an experiment with plants in hydroponics showed that older segments released at least as much carboxylates as younger segments. • Carboxylate concentrations in the rhizosphere of chickpea appear to be developmentally controlled. Unlike some other plant species, there is no simple correlation with plant or soil P status.
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Affiliation(s)
- Madeleine Wouterlood
- School of Plant Biology, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009, Australia
| | - Gregory R Cawthray
- School of Plant Biology, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009, Australia
| | - Timothy T Scanlon
- School of Plant Biology, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009, Australia
| | - Hans Lambers
- School of Plant Biology, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009, Australia
| | - Erik J Veneklaas
- School of Plant Biology, The University of Western Australia, 35 Stirling Highway, Crawley WA 6009, Australia
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18
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Fatland BL, Ke J, Anderson MD, Mentzen WI, Cui LW, Allred CC, Johnston JL, Nikolau BJ, Wurtele ES. Molecular characterization of a heteromeric ATP-citrate lyase that generates cytosolic acetyl-coenzyme A in Arabidopsis. PLANT PHYSIOLOGY 2002; 130:740-56. [PMID: 12376641 PMCID: PMC166603 DOI: 10.1104/pp.008110] [Citation(s) in RCA: 139] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2002] [Revised: 06/12/2002] [Accepted: 06/18/2002] [Indexed: 05/18/2023]
Abstract
Acetyl-coenzyme A (CoA) is used in the cytosol of plant cells for the synthesis of a diverse set of phytochemicals including waxes, isoprenoids, stilbenes, and flavonoids. The source of cytosolic acetyl-CoA is unclear. We identified two Arabidopsis cDNAs that encode proteins similar to the amino and carboxy portions of human ATP-citrate lyase (ACL). Coexpression of these cDNAs in yeast (Saccharomyces cerevisiae) confers ACL activity, indicating that both the Arabidopsis genes are required for ACL activity. Arabidopsis ACL is a heteromeric enzyme composed of two distinct subunits, ACLA (45 kD) and ACLB (65 kD). The holoprotein has a molecular mass of 500 kD, which corresponds to a heterooctomer with an A(4)B(4) configuration. ACL activity and the ACLA and ACLB polypeptides are located in the cytosol, consistent with the lack of targeting peptides in the ACLA and ACLB sequences. In the Arabidopsis genome, three genes encode for the ACLA subunit (ACLA-1, At1g10670; ACLA-2, At1g60810; and ACLA-3, At1g09430), and two genes encode the ACLB subunit (ACLB-1, At3g06650 and ACLB-2, At5g49460). The ACLA and ACLB mRNAs accumulate in coordinated spatial and temporal patterns during plant development. This complex accumulation pattern is consistent with the predicted physiological needs for cytosolic acetyl-CoA, and is closely coordinated with the accumulation pattern of cytosolic acetyl-CoA carboxylase, an enzyme using cytosolic acetyl-CoA as a substrate. Taken together, these results indicate that ACL, encoded by the ACLA and ACLB genes of Arabidopsis, generates cytosolic acetyl-CoA. The heteromeric organization of this enzyme is common to green plants (including Chlorophyceae, Marchantimorpha, Bryopsida, Pinaceae, monocotyledons, and eudicots), species of fungi, Glaucophytes, Chlamydomonas, and prokaryotes. In contrast, all known animal ACL enzymes have a homomeric structure, indicating that a evolutionary fusion of the ACLA and ACLB genes probably occurred early in the evolutionary history of this kingdom.
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Affiliation(s)
- Beth L Fatland
- Department of Botany, Iowa State University, Ames, IA 50011, USA
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Kim YS. Malonate metabolism: biochemistry, molecular biology, physiology, and industrial application. JOURNAL OF BIOCHEMISTRY AND MOLECULAR BIOLOGY 2002; 35:443-51. [PMID: 12359084 DOI: 10.5483/bmbrep.2002.35.5.443] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Malonate is a three-carbon dicarboxylic acid. It is well known as a competitive inhibitor of succinate dehydrogenase. It occurs naturally in biological systems, such as legumes and developing rat brains, which indicates that it may play an important role in symbiotic nitrogen metabolism and brain development. Recently, enzymes that are related to malonate metabolism were discovered and characterized. The genes that encode the enzymes were isolated, and the regulation of their expression was also studied. The mutant bacteria, in which the malonate-metabolizing gene was deleted, lost its primary function, symbiosis, between Rhizobium leguminosarium bv trifolii and clover. This suggests that malonate metabolism is essential in symbiotic nitrogen metabolism, at least in clover nodules. In addition to these, the genes matB and matC have been successfully used for generation of the industrial strain of Streptomyces for the production of antibiotics.
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Affiliation(s)
- Yu Sam Kim
- Department of Biochemistry, College of Science, Protein Network Research Center, Yonsei University, Seoul 120-749, Korea.
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