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Li Z, Chande C, Cheng YH, Basuray S. Recent State and Challenges in Spectroelectrochemistry with Its Applications in Microfluidics. MICROMACHINES 2023; 14:667. [PMID: 36985074 PMCID: PMC10056660 DOI: 10.3390/mi14030667] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/24/2023] [Revised: 03/12/2023] [Accepted: 03/13/2023] [Indexed: 06/18/2023]
Abstract
This review paper presents the recent developments in spectroelectrochemical (SEC) technologies. The coupling of spectroscopy and electrochemistry enables SEC to do a detailed and comprehensive study of the electron transfer kinetics and vibrational spectroscopic fingerprint of analytes during electrochemical reactions. Though SEC is a promising technique, the usage of SEC techniques is still limited. Therefore, enough publicity for SEC is required, considering the promising potential in the analysis fields. Unlike previously published review papers primarily focused on the relatively frequently used SEC techniques (ultraviolet-visible SEC and surface-enhanced Raman spectroscopy SEC), the two not-frequently used but promising techniques (nuclear magnetic resonance SEC and dark-field microscopy SEC) have also been studied in detail. This review paper not only focuses on the applications of each SEC method but also details their primary working mechanism. In short, this paper summarizes each SEC technique's working principles, current applications, challenges encountered, and future development directions. In addition, each SEC technique's applicative research directions are detailed and compared in this review work. Furthermore, integrating SEC techniques into microfluidics is becoming a trend in minimized analysis devices. Therefore, the usage of SEC techniques in microfluidics is discussed.
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Affiliation(s)
- Zhenglong Li
- Department of Chemical and Materials Engineering, New Jersey Institute of Technology, Newark, NJ 07102, USA
| | - Charmi Chande
- Department of Chemical and Materials Engineering, New Jersey Institute of Technology, Newark, NJ 07102, USA
| | - Yu-Hsuan Cheng
- Department of Chemical and Materials Engineering, New Jersey Institute of Technology, Newark, NJ 07102, USA
| | - Sagnik Basuray
- Department of Chemical and Materials Engineering, New Jersey Institute of Technology, Newark, NJ 07102, USA
- Department of Biomedical Engineering, New Jersey Institute of Technology, Newark, NJ 07102, USA
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Xue Y, Zou C, Zhang C, Yu H, Chen B, Wang H. Dynamic DNA methylation changes reveal tissue-specific gene expression in sugarcane. FRONTIERS IN PLANT SCIENCE 2022; 13:1036764. [PMID: 36311126 PMCID: PMC9606695 DOI: 10.3389/fpls.2022.1036764] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Accepted: 09/28/2022] [Indexed: 06/16/2023]
Abstract
DNA methylation is an important mechanism for the dynamic regulation of gene expression and silencing of transposons during plant developmental processes. Here, we analyzed genome-wide methylation patterns in sugarcane (Saccharum officinarum) leaves, roots, rinds, and piths at single-base resolution. DNA methylation patterns were similar among the different sugarcane tissues, whereas DNA methylation levels differed. We also found that DNA methylation in different genic regions or sequence contexts plays different roles in gene expression. Differences in methylation among tissues resulted in many differentially methylated regions (DMRs) between tissues, particularly CHH DMRs. Genes overlapping with DMRs tended to be differentially expressed (DEGs) between tissues, and these DMR-associated DEGs were enriched in biological pathways related to tissue function, such as photosynthesis, sucrose synthesis, stress response, transport, and metabolism. Moreover, we observed many DNA methylation valleys (DMVs), which always overlapped with transcription factors (TFs) and sucrose-related genes, such as WRKY, bZIP, WOX, SPS, and FBPase. Collectively, these findings provide significant insights into the complicated interplay between DNA methylation and gene expression and shed light on the epigenetic regulation of sucrose-related genes in sugarcane.
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Affiliation(s)
- Yajie Xue
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, China
- Guangxi Colleges and Universities Key Laboratory of Crop Cultivation and Tillage, Guangxi University, Nanning, China
| | - Chengwu Zou
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, China
- Guangxi Colleges and Universities Key Laboratory of Crop Cultivation and Tillage, Guangxi University, Nanning, China
| | - Chao Zhang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, China
- Guangxi Colleges and Universities Key Laboratory of Crop Cultivation and Tillage, Guangxi University, Nanning, China
| | - Hang Yu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, China
- Guangxi Colleges and Universities Key Laboratory of Crop Cultivation and Tillage, Guangxi University, Nanning, China
| | - Baoshan Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, China
| | - Haifeng Wang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, China
- Guangxi Colleges and Universities Key Laboratory of Crop Cultivation and Tillage, Guangxi University, Nanning, China
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3
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Giri D, Raut SK, Behera CK, Patra SK. Diketopyrrollopyrrole anchored carbazole-alt-thiophene based Fe3+-coordinated metallopolymer for the selective recognition of ATP. POLYMER 2022. [DOI: 10.1016/j.polymer.2022.124951] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Gene Expression Analysis of Microtubers of Potato Solanum tuberosum L. Induced in Cytokinin Containing Medium and Osmotic Stress. PLANTS 2021; 10:plants10050876. [PMID: 33925316 PMCID: PMC8146008 DOI: 10.3390/plants10050876] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/06/2021] [Revised: 04/12/2021] [Accepted: 04/22/2021] [Indexed: 11/17/2022]
Abstract
Potato microtuber productions through in vitro techniques are ideal propagules for producing high quality seed potatoes. Microtuber development is influenced by several factors, i.e., high content sucrose and cytokinins are among them. To understand a molecular mechanism of microtuberization using osmotic stress and cytokinin signaling will help us to elucidate this process. We demonstrate in this work a rapid and efficient protocol for microtuber development and gene expression analysis. Medium with high content of sucrose and gelrite supplemented with 2iP as cytokinin under darkness condition produced the higher quantity and quality of microtubers. Gene expression analysis of genes involved in the two-component signaling system (StHK1), cytokinin signaling, (StHK3, StHP4, StRR1) homeodomains (WUSCHEL, POTH1, BEL5), auxin signaling, ARF5, carbon metabolism (TPI, TIM), protein synthesis, NAC5 and a morphogenetic regulator of tuberization (POTH15) was performed by qPCR real time. Differential gene expression was observed during microtuber development. Gene regulation of two component and cytokinin signaling is taking place during this developmental process, yielding more microtubers. Further analysis of each component is required to elucidate it.
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Recent developments in molecular sensor designs for inorganic pyrophosphate detection and biological imaging. Coord Chem Rev 2021. [DOI: 10.1016/j.ccr.2020.213744] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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Du J, Yang Y, Shao T, Qi S, Zhang P, Zhuo S, Zhu C. Yellow emission carbon dots for highly selective and sensitive OFF-ON sensing of ferric and pyrophosphate ions in living cells. J Colloid Interface Sci 2020; 587:376-384. [PMID: 33360907 DOI: 10.1016/j.jcis.2020.11.108] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2020] [Revised: 11/08/2020] [Accepted: 11/26/2020] [Indexed: 12/14/2022]
Abstract
A simple "OFF-ON" fluorescent system was proposed for selective and sensitive detection of ferric ion (Fe3+) and pyrophosphate (PPi) in living cells. The method was constructed based on the bright yellow emission of carbon dots (y-CDs), which were prepared using o-phenylenediamine (OPD) as the precursor via a facile hydrothermal treatment. The as-obtained y-CDs, with an average size of 2.6 nm, exhibited an excitation-independent emission peak at 574 nm. The fluorescence of y-CDs can be remarkably quenched by Fe3+ with high selectivity and sensitivity. Interestingly, the quenched fluorescence can be recovered regularly upon addition of PPi, showing a promising detection for PPi. The linear ranges for Fe3+ and PPi detections were 0.05-80 and 0.5-120 μM, respectively, and the corresponding limit of detections (LODs) were 22.1 and 73.9 nM. As we proved the y-CDs have negligible cytotoxicity and excellent biocompatibility, further application to the fluorescence imaging of intracellular Fe3+ and PPi were conducted, suggesting the prepared y-CDs can be used to monitor Fe3+ and PPi variation in living cells. Overall, our developed y-CDs-based OFF-ON switch fluorescent probe has the advantages of simplicity, agility, high sensitivity and selectivity, which provides a promising platform for environmental and biology applications, and paves a new avenue for monitoring the hydrolysis process of adenosine triphosphate disodium salt (ATP) by detection of PPi in organisms.
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Affiliation(s)
- Jinyan Du
- Anhui Key Laboratory of Chemo-Biosensing, Key Laboratory of Functional Molecular Solids, Ministry of Education, College of Chemistry and Materials Science, Anhui Normal University, Wuhu, 241000, PR China.
| | - Ying Yang
- Anhui Key Laboratory of Chemo-Biosensing, Key Laboratory of Functional Molecular Solids, Ministry of Education, College of Chemistry and Materials Science, Anhui Normal University, Wuhu, 241000, PR China
| | - Taili Shao
- Anhui Provincial Engineering Research Center for Polysaccharide Drugs, School of Pharmacy, Wannan Medical College, Wuhu 241000, PR China.
| | - Shuangqing Qi
- Anhui Key Laboratory of Chemo-Biosensing, Key Laboratory of Functional Molecular Solids, Ministry of Education, College of Chemistry and Materials Science, Anhui Normal University, Wuhu, 241000, PR China
| | - Ping Zhang
- Anhui Key Laboratory of Chemo-Biosensing, Key Laboratory of Functional Molecular Solids, Ministry of Education, College of Chemistry and Materials Science, Anhui Normal University, Wuhu, 241000, PR China
| | - Shujuan Zhuo
- Anhui Key Laboratory of Chemo-Biosensing, Key Laboratory of Functional Molecular Solids, Ministry of Education, College of Chemistry and Materials Science, Anhui Normal University, Wuhu, 241000, PR China
| | - Changqing Zhu
- Anhui Key Laboratory of Chemo-Biosensing, Key Laboratory of Functional Molecular Solids, Ministry of Education, College of Chemistry and Materials Science, Anhui Normal University, Wuhu, 241000, PR China
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Jiang S, Qiu J, Chen S, Guo H, Yang F. Double-detecting fluorescent sensor for ATP based on Cu 2+ and Zn 2+ response of hydrazono-bis-tetraphenylethylene. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 227:117568. [PMID: 31654844 DOI: 10.1016/j.saa.2019.117568] [Citation(s) in RCA: 24] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/04/2019] [Revised: 09/12/2019] [Accepted: 09/24/2019] [Indexed: 06/10/2023]
Abstract
Although all kinds of sensors with unique detecting ability for one guest were reported, the fluorescence sensor with multiple detecting abilities was seldom presented. This work designed and synthesized a novel AIE fluorescence probe bearing double detecting for ATP based on Cu2+ and Zn2+ response of hydrazono-bis-tetraphenylethylene (Bis-TPE). Bis-TPE was prepared in 82% yield with simple procedure. It exhibited strong red AIE fluorescence based on the large conjugated electron effect in aqueous media. It showed outstanding selective sensing abilities for Cu2+ by strong fluorescence quenching and for Zn2+ by red-orange fluorescence change. The sensing mechanism of 1:1 stoichiometric ratios was confirmed by 1H NMR and MS study. The strong red fluorescence of Bis-TPE + Cu2+ system could be recovered by adding ATP. The orange fluorescence of Bis-TPE + Zn2+ system could be quenched by adding Cu2+ and then was recovered by adding ATP. These double detecting abilities for ATP with the "off-on" red fluorescence in Bis-TPE + Cu2+ system and "allochroic-off-on" orange fluorescence in Bis-TPE + Zn2++Cu2+ system were successfully applied to test Cu2+, Zn2+ and ATP in test paper and living cell imaging, displaying the good application prospects for sensing Cu2+, Zn2+ and double detecting ATP in the complicated environment.
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Affiliation(s)
- Shengjie Jiang
- College of Chemistry and Materials, Fujian Normal University, Fuzhou, 350007, PR China
| | - Jiabin Qiu
- College of Chemistry and Materials, Fujian Normal University, Fuzhou, 350007, PR China
| | - Shibing Chen
- College of Chemistry and Materials, Fujian Normal University, Fuzhou, 350007, PR China
| | - Hongyu Guo
- College of Chemistry and Materials, Fujian Normal University, Fuzhou, 350007, PR China
| | - Fafu Yang
- College of Chemistry and Materials, Fujian Normal University, Fuzhou, 350007, PR China; Fujian Key Laboratory of Polymer Materials, Fuzhou, 350007, PR China; Fujian Provincial Key Laboratory of Advanced Materials Oriented Chemical Engineering, Fuzhou, PR China.
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Gu XY, Liu JJ, Gao PF, Li YF, Huang CZ. Gold Triangular Nanoplates Based Single-Particle Dark-Field Microscopy Assay of Pyrophosphate. Anal Chem 2019; 91:15798-15803. [DOI: 10.1021/acs.analchem.9b04093] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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Wang B, Xie G, Liu Z, He R, Han J, Huang S, Liu L, Cheng X. Mutagenesis Reveals That the OsPPa6 Gene Is Required for Enhancing the Alkaline Tolerance in Rice. FRONTIERS IN PLANT SCIENCE 2019; 10:759. [PMID: 31244876 PMCID: PMC6580931 DOI: 10.3389/fpls.2019.00759] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/22/2019] [Accepted: 05/24/2019] [Indexed: 05/30/2023]
Abstract
Alkaline stress (AS) is one of the abiotic stressful factors limiting plant's growth and development. Inorganic pyrophosphatase is usually involved in a variety of biological processes in plant in response to the abiotic stresses. Here, to clarify the responsive regulation of inorganic pyrophosphatase in rice under AS, the mutagenesis of the OsPPa6 gene encoding an inorganic pyrophosphatase in rice cv. Kitaake (Oryza sativa L. ssp. japonica) was performed by the CRISPR/Cas9 system. Two homozygous independent mutants with cas9-free were obtained by continuously screening. qPCR reveals that the OsPPa6 gene was significantly induced by AS, and the mutagenesis of the OsPPa6 gene apparently delayed rice's growth and development, especially under AS. Measurements demonstrate that the contents of pyrophosphate in the mutants were higher than those in the wild type under AS, however, the accumulation of inorganic phosphate, ATP, chlorophyll, sucrose, and starch in the mutants were decreased significantly, and the mutagenesis of the OsPPa6 gene remarkably lowered the net photosynthetic rate of rice mutants, thus reducing the contents of soluble sugar and proline, but remarkably increasing MDA, osmotic potentials and Na+/K+ ratio in the mutants under AS. Metabonomics measurement shows that the mutants obviously down-regulated the accumulation of phosphorylcholine, choline, anthranilic acid, apigenin, coniferol and dodecanoic acid, but up-regulated the accumulation of L-valine, alpha-ketoglutarate, phenylpyruvate and L-phenylalanine under AS. This study suggests that the OsPPa6 gene is an important osmotic regulatory factor in rice, and the gene-editing of CRISPR/Cas9-guided is an effective method evaluating the responsive regulation of the stress-induced gene, and simultaneously provides a scientific support for the application of the gene encoding a soluble inorganic pyrophosphatase in molecular breeding.
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Affiliation(s)
- Bing Wang
- Laboratory of Plant Nutrition and Biology, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
- Department of Plant Nutrition, College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
| | - Guoqiang Xie
- Jiujiang Academy of Agricultural Sciences, Jiujiang, China
| | - Zhonglai Liu
- Jiujiang Academy of Agricultural Sciences, Jiujiang, China
| | - Rui He
- Laboratory of Plant Nutrition and Biology, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Jiao Han
- Laboratory of Plant Nutrition and Biology, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Shengcai Huang
- Laboratory of Plant Nutrition and Biology, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Laihua Liu
- Department of Plant Nutrition, College of Resources and Environmental Sciences, China Agricultural University, Beijing, China
| | - Xianguo Cheng
- Laboratory of Plant Nutrition and Biology, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, China
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Troncoso-Ponce MA, Rivoal J, Dorion S, Sánchez R, Venegas-Calerón M, Moreno-Pérez AJ, Baud S, Garcés R, Martínez-Force E. Molecular and biochemical characterization of the sunflower (Helianthus annuus L.) cytosolic and plastidial enolases in relation to seed development. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2018; 272:117-130. [PMID: 29807582 DOI: 10.1016/j.plantsci.2018.04.007] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/09/2018] [Revised: 04/08/2018] [Accepted: 04/10/2018] [Indexed: 05/19/2023]
Abstract
In the present study, we describe the molecular and biochemical characterization of sunflower (Helianthus annuus L.) enolase (ENO, EC 4.2.1.11) proteins, which catalyze the formation of phosphoenolpyruvate, the penultimate intermediate in the glycolytic pathway. We cloned and characterized three cDNAs encoding different ENO isoforms from developing sunflower seeds. Studies using fluorescently tagged ENOs confirmed the predicted subcellular localization of ENO isoforms: HaENO1 in the plastid while HaENO2 and HaENO3 were found in the cytosol. The cDNAs were used to express the corresponding 6(His)-tagged proteins in Escherichia coli. The proteins were purified to electrophoretic homogeneity, using immobilized metal ion affinity chromatography, and biochemically characterized. Recombinant HaENO1 and HaENO2, but not HaENO3 were shown to have enolase activity, in agreement with data obtained with the Arabidopsis homolog proteins. Site directed mutagenesis of several critical amino acids was used to attempt to recover enolase activity in recombinant HaENO3, resulting in very small increases that were not additive. A kinetic characterization of the two active isoforms showed that pH had similar effect on their velocity, that they had similar affinity for 2-phosphoglycerate, but that the kcat/Km of the plastidial enzyme was higher than that of the cytosolic isoform. Even though HaENO2 was always the most highly expressed transcript, the levels of expression of the three ENO genes were remarkably distinct in all the vegetative and reproductive tissues studied. This indicates that in seeds the conversion of 2-phosphoglycerate to phosphoenolpyruvate takes place through the cytosolic and the plastidial pathways therefore both routes could contribute to the supply of carbon for lipid synthesis. The identity of the main source of carbon during the period of stored products synthesis is discussed.
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Affiliation(s)
- M A Troncoso-Ponce
- Instituto de la Grasa (CSIC), Edificio 46, Campus Universitario Pablo de Olavide, Carretera de Utrera Km 1, 41013, Sevilla, Spain; Sorbonne University, Université de technologie de Compiègne, CNRS, Institute for Enzyme and Cell Engineering, Centre de recherche Royallieu, CS 60 319, 60 203 Compiègne cedex, France.
| | - J Rivoal
- Institut de Recherche en Biologie Végétale, Université de Montréal, 4101 Rue Sherbrooke est, Montréal, QC, Canada
| | - S Dorion
- Institut de Recherche en Biologie Végétale, Université de Montréal, 4101 Rue Sherbrooke est, Montréal, QC, Canada
| | - R Sánchez
- Instituto de la Grasa (CSIC), Edificio 46, Campus Universitario Pablo de Olavide, Carretera de Utrera Km 1, 41013, Sevilla, Spain
| | - M Venegas-Calerón
- Instituto de la Grasa (CSIC), Edificio 46, Campus Universitario Pablo de Olavide, Carretera de Utrera Km 1, 41013, Sevilla, Spain
| | - A J Moreno-Pérez
- Instituto de la Grasa (CSIC), Edificio 46, Campus Universitario Pablo de Olavide, Carretera de Utrera Km 1, 41013, Sevilla, Spain
| | - S Baud
- Institut Jean-Pierre Bourgin, INRA, AgroParisTech, CNRS, Université Paris-Saclay, 78000 Versailles, France
| | - R Garcés
- Instituto de la Grasa (CSIC), Edificio 46, Campus Universitario Pablo de Olavide, Carretera de Utrera Km 1, 41013, Sevilla, Spain
| | - E Martínez-Force
- Instituto de la Grasa (CSIC), Edificio 46, Campus Universitario Pablo de Olavide, Carretera de Utrera Km 1, 41013, Sevilla, Spain
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Li W, Meng D, Gu Z, Yang Q, Yuan H, Li Y, Chen Q, Yu J, Liu C, Li T. Apple S-RNase triggers inhibition of tRNA aminoacylation by interacting with a soluble inorganic pyrophosphatase in growing self-pollen tubes in vitro. THE NEW PHYTOLOGIST 2018; 218:579-593. [PMID: 29424440 DOI: 10.1111/nph.15028] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2017] [Accepted: 01/04/2018] [Indexed: 05/21/2023]
Abstract
Apple exhibits S-RNase-based self-incompatibility (SI), in which S-RNase plays a central role in rejecting self-pollen. It has been proposed that the arrest of pollen growth in SI of Solanaceae plants is a consequence of the degradation of pollen rRNA by S-RNase; however, the underlying mechanism in Rosaceae is still unclear. Here, we used S2 -RNase as a bait to screen an apple pollen cDNA library and characterized an apple soluble inorganic pyrophosphatase (MdPPa) that physically interacted with S-RNases. When treated with self S-RNases, apple pollen tubes showed a marked growth inhibition, as well as a decrease in endogenous soluble pyrophosphatase activity and elevated levels of inorganic pyrophosphate (PPi). In addition, S-RNase was found to bind to two variable regions of MdPPa, resulting in a noncompetitive inhibition of its activity. Silencing of MdPPa expression led to a reduction in pollen tube growth. Interestingly, tRNA aminoacylation was inhibited in self S-RNase-treated or MdPPa-silenced pollen tubes, resulting in the accumulation of uncharged tRNA. Furthermore, we provide evidence showing that this disturbance of tRNA aminoacylation is independent of RNase activity. We propose an alternative mechanism differing from RNA degradation to explain the cytotoxicity of the S-RNase apple SI process.
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Affiliation(s)
- Wei Li
- Laboratory of Fruit Cell and Molecular Breeding, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Dong Meng
- Laboratory of Fruit Cell and Molecular Breeding, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Zhaoyu Gu
- Laboratory of Fruit Cell and Molecular Breeding, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Qing Yang
- Laboratory of Fruit Cell and Molecular Breeding, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Hui Yuan
- College of Horticulture, Shenyang Agricultural University, Shenyang, 110866, China
| | - Yang Li
- Laboratory of Fruit Cell and Molecular Breeding, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Qiuju Chen
- Laboratory of Fruit Cell and Molecular Breeding, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Jie Yu
- Laboratory of Fruit Cell and Molecular Breeding, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Chunsheng Liu
- Laboratory of Fruit Cell and Molecular Breeding, College of Horticulture, China Agricultural University, Beijing, 100193, China
| | - Tianzhong Li
- Laboratory of Fruit Cell and Molecular Breeding, College of Horticulture, China Agricultural University, Beijing, 100193, China
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Yuan L, Niu Y, Li R, Zheng L, Wang Y, Liu M, Xu G, Huang L, Xu Y. Molybdenum oxide quantum dots prepared via a one-step stirring strategy and their application as fluorescent probes for pyrophosphate sensing and efficient antibacterial materials. J Mater Chem B 2018; 6:3240-3245. [DOI: 10.1039/c8tb00475g] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
MoOx QDs were prepared using a one-step stirring treatment of MoO3 powder in DMSO. They can be used as efficient fluorescent probes and antibacterial materials.
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Affiliation(s)
- Lili Yuan
- College of Life Sciences
- Qingdao University
- Qingdao 266071
- China
| | - Yusheng Niu
- College of Life Sciences
- Qingdao University
- Qingdao 266071
- China
| | - Ronggui Li
- College of Life Sciences
- Qingdao University
- Qingdao 266071
- China
| | - Lanhong Zheng
- Yellow Sea Fisheries Research Institute
- Chinese Academy of Fishery Sciences
- Qingdao 266071
- China
| | - Yao Wang
- College of Life Sciences
- Qingdao University
- Qingdao 266071
- China
| | - Mengli Liu
- College of Life Sciences
- Qingdao University
- Qingdao 266071
- China
| | - Gengfang Xu
- College of Life Sciences
- Qingdao University
- Qingdao 266071
- China
| | - Lei Huang
- College of Life Sciences
- Qingdao University
- Qingdao 266071
- China
| | - Yuanhong Xu
- College of Life Sciences
- Qingdao University
- Qingdao 266071
- China
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Abstract
The starch-rich endosperms of the Poaceae, which includes wild grasses and their domesticated descendents the cereals, have provided humankind and their livestock with the bulk of their daily calories since the dawn of civilization up to the present day. There are currently unprecedented pressures on global food supplies, largely resulting from population growth, loss of agricultural land that is linked to increased urbanization, and climate change. Since cereal yields essentially underpin world food and feed supply, it is critical that we understand the biological factors contributing to crop yields. In particular, it is important to understand the biochemical pathway that is involved in starch biosynthesis, since this pathway is the major yield determinant in the seeds of six out of the top seven crops grown worldwide. This review outlines the critical stages of growth and development of the endosperm tissue in the Poaceae, including discussion of carbon provision to the growing sink tissue. The main body of the review presents a current view of our understanding of storage starch biosynthesis, which occurs inside the amyloplasts of developing endosperms.
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Domżalska L, Kędracka-Krok S, Jankowska U, Grzyb M, Sobczak M, Rybczyński JJ, Mikuła A. Proteomic analysis of stipe explants reveals differentially expressed proteins involved in early direct somatic embryogenesis of the tree fern Cyathea delgadii Sternb. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2017; 258:61-76. [PMID: 28330564 DOI: 10.1016/j.plantsci.2017.01.017] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2016] [Revised: 01/17/2017] [Accepted: 01/28/2017] [Indexed: 05/22/2023]
Abstract
Using cyto-morphological analysis of somatic embryogenesis (SE) in the tree fern Cyathea delgadii as a guide, we performed a comparative proteomic analysis in stipe explants undergoing direct SE. Plant material was cultured on hormone-free medium supplemented with 2% sucrose. Phenol extracted proteins were separated using two-dimensional gel electrophoresis (2-DE) and mass spectrometry was performed for protein identification. A total number of 114 differentially regulated proteins was identified during early SE, i.e. when the first cell divisions started and several-cell pro-embryos were formed. Proteins were assigned to seven functional categories: carbohydrate metabolism, protein metabolism, cell organization, defense and stress responses, amino acid metabolism, purine metabolism, and fatty acid metabolism. Carbohydrate and protein metabolism were found to be the most sensitive SE functions with the greatest number of alterations in the intensity of spots in gel. Differences, especially in non-enzymatic and structural protein abundance, are indicative for cell organization, including cytoskeleton rearrangement and changes in cell wall components. The highest induced changes concern those enzymes related to fatty acid metabolism. Global analysis of the proteome reveals several proteins that can represent markers for the first 16days of SE induction and expression in fern. The findings of this research improve the understanding of molecular processes involved in direct SE in C. delgadii.
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Affiliation(s)
- Lucyna Domżalska
- Polish Academy of Sciences Botanical Garden, Center for Biological Diversity Conservation in Powsin, Prawdziwka 2, 02-973 Warsaw, Poland
| | - Sylwia Kędracka-Krok
- Department of Physical Biochemistry, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Krakow, Poland
| | - Urszula Jankowska
- Department of Structural Biology, Malopolska Centre of Biotechnology, Jagiellonian University, Krakow, Poland
| | - Małgorzata Grzyb
- Polish Academy of Sciences Botanical Garden, Center for Biological Diversity Conservation in Powsin, Prawdziwka 2, 02-973 Warsaw, Poland
| | - Mirosław Sobczak
- Department of Botany, Warsaw University of Life Sciences (SGGW), Warsaw, Poland
| | - Jan J Rybczyński
- Polish Academy of Sciences Botanical Garden, Center for Biological Diversity Conservation in Powsin, Prawdziwka 2, 02-973 Warsaw, Poland
| | - Anna Mikuła
- Polish Academy of Sciences Botanical Garden, Center for Biological Diversity Conservation in Powsin, Prawdziwka 2, 02-973 Warsaw, Poland.
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15
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Li M, Li J, Di H, Liu H, Liu D. Live-Cell Pyrophosphate Imaging by in Situ Hot-Spot Generation. Anal Chem 2017; 89:3532-3537. [DOI: 10.1021/acs.analchem.6b04786] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Mingmin Li
- College
of Chemistry, Research Center for Analytical Sciences, State Key Laboratory
of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular
Recognition and Biosensing, Nankai University, Tianjin 300071, China
| | - Jin Li
- College
of Chemistry, Research Center for Analytical Sciences, State Key Laboratory
of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular
Recognition and Biosensing, Nankai University, Tianjin 300071, China
| | - Huixia Di
- College
of Chemistry, Research Center for Analytical Sciences, State Key Laboratory
of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular
Recognition and Biosensing, Nankai University, Tianjin 300071, China
| | - Huiqiao Liu
- College
of Chemistry, Research Center for Analytical Sciences, State Key Laboratory
of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular
Recognition and Biosensing, Nankai University, Tianjin 300071, China
| | - Dingbin Liu
- College
of Chemistry, Research Center for Analytical Sciences, State Key Laboratory
of Medicinal Chemical Biology, and Tianjin Key Laboratory of Molecular
Recognition and Biosensing, Nankai University, Tianjin 300071, China
- Collaborative
Innovation Center of Chemical Science and Engineering (Tianjin), Tianjin 300071, China
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16
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An efficient strategy to assemble water soluble histidine-perylene diimide and graphene oxide for the detection of PPi in physiological conditions and in vitro. Biosens Bioelectron 2017; 89:636-644. [DOI: 10.1016/j.bios.2015.12.036] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2015] [Revised: 12/05/2015] [Accepted: 12/14/2015] [Indexed: 12/20/2022]
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17
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Hluska T, Šebela M, Lenobel R, Frébort I, Galuszka P. Purification of Maize Nucleotide Pyrophosphatase/Phosphodiesterase Casts Doubt on the Existence of Zeatin Cis- Trans Isomerase in Plants. FRONTIERS IN PLANT SCIENCE 2017; 8:1473. [PMID: 28878803 PMCID: PMC5572937 DOI: 10.3389/fpls.2017.01473] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2017] [Accepted: 08/08/2017] [Indexed: 05/14/2023]
Abstract
Almost 25 years ago, an enzyme named zeatin cis-trans isomerase from common bean has been described by Bassil et al. (1993). The partially purified enzyme required an external addition of FAD and dithiothreitol for the conversion of cis-zeatin to its trans- isomer that occurred only under light. Although an existence of this important enzyme involved in the metabolism of plant hormones cytokinins was generally accepted by plant biologists, the corresponding protein and encoding gene have not been identified to date. Based on the original paper, we purified and identified an enzyme from maize, which shows the described zeatin cis-trans isomerase activity. The enzyme belongs to nucleotide pyrophosphatase/phosphodiesterase family, which is well characterized in mammals, but less known in plants. Further experiments with the recombinant maize enzyme obtained from yeast expression system showed that rather than the catalytic activity of the enzyme itself, a non-enzymatic flavin induced photoisomerization is responsible for the observed zeatin cis-trans interconversion in vitro. An overexpression of the maize nucleotide pyrophosphatase/phosphodiesterase gene led to decreased FAD and increased FMN and riboflavin contents in transgenic Arabidopsis plants. However, neither contents nor the ratio of zeatin isomers was altered suggesting that the enzyme is unlikely to catalyze the interconversion of zeatin isomers in vivo. Using enhanced expression of a homologous gene, functional nucleotide pyrophosphatase/phosphodiesterase was also identified in rice.
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Affiliation(s)
- Tomáš Hluska
- Department of Molecular Biology, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University OlomoucOlomouc, Czechia
| | - Marek Šebela
- Department of Protein Biochemistry and Proteomics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University OlomoucOlomouc, Czechia
| | - René Lenobel
- Department of Protein Biochemistry and Proteomics, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University OlomoucOlomouc, Czechia
| | - Ivo Frébort
- Department of Molecular Biology, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University OlomoucOlomouc, Czechia
| | - Petr Galuszka
- Department of Molecular Biology, Centre of the Region Haná for Biotechnological and Agricultural Research, Faculty of Science, Palacký University OlomoucOlomouc, Czechia
- *Correspondence: Petr Galuszka,
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18
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Malik AH, Hussain S, Tanwar AS, Layek S, Trivedi V, Iyer PK. An anionic conjugated polymer as a multi-action sensor for the sensitive detection of Cu(2+) and PPi, real-time ALP assaying and cell imaging. Analyst 2016; 140:4388-92. [PMID: 26040847 DOI: 10.1039/c5an00905g] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
A Cu(2+) ensemble polyfluorene derivative, poly[5,5'-(((9H-fluorene-9,9-diyl)bis(hexane-6,1-diyl))bis(oxy))diisophthalate] sodium salt (PFT), displays unprecedented selectivity for PPi (LOD = 2.26 ppb) in aqueous solution as well as in random urine samples at physiological pH vis-a-vis monitoring ALP activity. Furthermore, intracellular imaging of Cu(2+) and PPi in mouse macrophage (J774A.1) and human breast cancer cells (MDA-MB231) was achieved to confirm the viability of PFT in biological systems.
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Affiliation(s)
- Akhtar H Malik
- Department of Chemistry, Indian Institute of Technology Guwahati, Guwahati-781039, India.
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19
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Qian ZS, Chai LJ, Huang YY, Tang C, Jia Shen J, Chen JR, Feng H. A real-time fluorescent assay for the detection of alkaline phosphatase activity based on carbon quantum dots. Biosens Bioelectron 2015; 68:675-680. [DOI: 10.1016/j.bios.2015.01.068] [Citation(s) in RCA: 169] [Impact Index Per Article: 18.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2014] [Revised: 01/26/2015] [Accepted: 01/28/2015] [Indexed: 11/30/2022]
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20
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Hernández-Domíguez EE, Valencia-Turcotte LG, Rodríguez-Sotres R. Changes in expression of soluble inorganic pyrophosphatases of Phaseolus vulgaris under phosphate starvation. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2012; 187:39-48. [PMID: 22404831 DOI: 10.1016/j.plantsci.2012.01.009] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2011] [Revised: 01/18/2012] [Accepted: 01/21/2012] [Indexed: 05/10/2023]
Abstract
Phosphorus is an essential element for all living cells, but its availability is often limiting in the soil. Plants have adapted to such limitation and respond to phosphorus deficiency. The soluble inorganic pyrophosphatases (PPase; EC 3.6.1.1) recycle the pyrophosphate produced by many biosynthetic reactions, and may play a role in the plant adaptation to phosphorus deficiency. In this work, three PPase mRNAs were identified from the Phaseolus vulgaris EST international database and their sequences were corroborated and completed using 3'RACE. After design and validation of the appropriate oligonucleotide primers, the PPase mRNA expression was measured by qRT-PCR in leaves, stems, and roots of bean plants grown with 1mM phosphate or under phosphate starvation. The plant tissues were classified according to their position on the plant, and some physiological signs of stress were recorded. qRT-PCR revealed changes in mRNA expression, but not for all isozymes under analysis, and not for all tissues. In addition, changes in the activity of some PPases were observed in zymograms. Our data are consistent with an important role for pyrophosphate in the adaptation of the plant to phosphate starvation.
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Affiliation(s)
- Eric E Hernández-Domíguez
- Departamento de Bioquímica, Facultad de Química, Universidad Nacional Autónoma de México, Avenida Universidad 3000, Mexico
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21
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Xu H, Zhang W, Gao Y, Zhao Y, Guo L, Wang J. Proteomic analysis of embryo development in rice (Oryza sativa). PLANTA 2012; 235:687-701. [PMID: 22015996 DOI: 10.1007/s00425-011-1535-4] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2011] [Accepted: 10/04/2011] [Indexed: 05/26/2023]
Abstract
Although embryo development is a major subject in plant growth and development research, a number of aspects of the mechanism of this development process remain unknown. Rice (Oryza sativa) is an excellent monocot plant model for studying embryogenesis with a known genome sequence. Here, we conducted proteomic analysis of embryo development in rice (O. sativa L. ssp. indica cv. 9311). The aim was to investigate and characterize the changes in the protein expression profile during embryo development. For this purpose, the proteome of developing embryos was characterized by two-dimensional gel electrophoresis and nano liquid chromatography/mass spectrometry/mass spectrometry. Proteomic analyses identified 275 differentially expressed proteins throughout the 5 sequential developmental stages from 5 to 30 days after pollination. Most of these proteins were classified into eight functional categories: metabolism, protein synthesis/destination, disease and defense, transporter, transcription, signal transduction, cell growth/division, and storage proteins, which were involved in different cellular and metabolic processes. Hierarchical clustering analyses of protein expression profiles showed that highly expressed proteins in early stages were involved in metabolism, protein synthesis/destination, and most of the other cellular functions, whereas the proteins highly expressed in later stages functioned in the desiccation and dormancy of the embryo.
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Affiliation(s)
- Hong Xu
- Key Laboratory of MOE for Plant Development Biology, State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan 430072, China
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22
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Feng X, An Y, Yao Z, Li C, Shi G. A turn-on fluorescent sensor for pyrophosphate based on the disassembly of Cu2+-mediated perylene diimide aggregates. ACS APPLIED MATERIALS & INTERFACES 2012; 4:614-8. [PMID: 22220681 DOI: 10.1021/am201616r] [Citation(s) in RCA: 88] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/21/2023]
Abstract
A complex between an anionic perylene diimide derivative (PDI-GlyAsp) and cupric ion has been prepared and applied to be turn-on fluorescent probe for the detection of pyrophosphate (PPi) in 100% aqueous solution. The complex formation process and PPi detection have been studied by absorption and emission spectroscopy. It was confirmed that the introduction of cupric ion into PDI-GlyAsp solution resulted in the assembly of PDI-GlyAsp into PDI-GlyAsp/Cu(2+) aggregates, leading to the fluorescence quenching of PDI-GlyAsp. Upon addition of PPi into the above solution led to the disassembly of the aggregates due to the competitive binding of PPi with Cu(2+) in the PDI-GlyAsp/Cu(2+) complex, and a recovery of PDI-GlyAsp emission was observed. Therefore, the PDI-GlyAsp/Cu(2+) complex can be applied as a turn-on fluorescent probe for detecting PPi with high selectivity and sensitivity.
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Affiliation(s)
- Xueling Feng
- Department of Chemistry, Tsinghua University, Beijing 100084, China
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23
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Wingenter K, Schulz A, Wormit A, Wic S, Trentmann O, Hoermiller II, Heyer AG, Marten I, Hedrich R, Neuhaus HE. Increased activity of the vacuolar monosaccharide transporter TMT1 alters cellular sugar partitioning, sugar signaling, and seed yield in Arabidopsis. PLANT PHYSIOLOGY 2010; 154:665-77. [PMID: 20709831 PMCID: PMC2949046 DOI: 10.1104/pp.110.162040] [Citation(s) in RCA: 64] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2010] [Accepted: 08/10/2010] [Indexed: 05/18/2023]
Abstract
The extent to which vacuolar sugar transport activity affects molecular, cellular, and developmental processes in Arabidopsis (Arabidopsis thaliana) is unknown. Electrophysiological analysis revealed that overexpression of the tonoplast monosaccharide transporter TMT1 in a tmt1-2::tDNA mutant led to increased proton-coupled monosaccharide import into isolated mesophyll vacuoles in comparison with wild-type vacuoles. TMT1 overexpressor mutants grew faster than wild-type plants on soil and in high-glucose (Glc)-containing liquid medium. These effects were correlated with increased vacuolar monosaccharide compartmentation, as revealed by nonaqueous fractionation and by chlorophyll(ab)-binding protein1 and nitrate reductase1 gene expression studies. Soil-grown TMT1 overexpressor plants respired less Glc than wild-type plants and only about half the amount of Glc respired by tmt1-2::tDNA mutants. In sum, these data show that TMT activity in wild-type plants limits vacuolar monosaccharide loading. Remarkably, TMT1 overexpressor mutants produced larger seeds and greater total seed yield, which was associated with increased lipid and protein content. These changes in seed properties were correlated with slightly decreased nocturnal CO(2) release and increased sugar export rates from detached source leaves. The SUC2 gene, which codes for a sucrose transporter that may be critical for phloem loading in leaves, has been identified as Glc repressed. Thus, the observation that SUC2 mRNA increased slightly in TMT1 overexpressor leaves, characterized by lowered cytosolic Glc levels than wild-type leaves, provided further evidence of a stimulated source capacity. In summary, increased TMT activity in Arabidopsis induced modified subcellular sugar compartmentation, altered cellular sugar sensing, affected assimilate allocation, increased the biomass of Arabidopsis seeds, and accelerated early plant development.
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Affiliation(s)
| | | | | | | | | | | | | | | | | | - H. Ekkehard Neuhaus
- Pflanzenphysiologie, Technische Universität Kaiserslautern, D–67653 Kaiserslautern, Germany (K.W., A.W., S.W., O.T., H.E.N.); Botanik, Molekulare Pflanzenphysiologie und Biophysik, Julius-von-Sachs-Institut, Julius-Maximilians-Universität Würzburg, D–97082 Wuerzburg, Germany (A.S., I.M., R.H.); Botanik, Institut für Biologie, Universität Stuttgart, D–70569 Stuttgart, Germany (I.I.H., A.G.H.)
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24
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George GM, van der Merwe MJ, Nunes-Nesi A, Bauer R, Fernie AR, Kossmann J, Lloyd JR. Virus-induced gene silencing of plastidial soluble inorganic pyrophosphatase impairs essential leaf anabolic pathways and reduces drought stress tolerance in Nicotiana benthamiana. PLANT PHYSIOLOGY 2010; 154:55-66. [PMID: 20605913 PMCID: PMC2938153 DOI: 10.1104/pp.110.157776] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/14/2010] [Accepted: 07/02/2010] [Indexed: 05/18/2023]
Abstract
The role of pyrophosphate in primary metabolism is poorly understood. Here, we report on the transient down-regulation of plastid-targeted soluble inorganic pyrophosphatase in Nicotiana benthamiana source leaves. Physiological and metabolic perturbations were particularly evident in chloroplastic central metabolism, which is reliant on fast and efficient pyrophosphate dissipation. Plants lacking plastidial soluble inorganic pyrophosphatase (psPPase) were characterized by increased pyrophosphate levels, decreased starch content, and alterations in chlorophyll and carotenoid biosynthesis, while constituents like amino acids (except for histidine, serine, and tryptophan) and soluble sugars and organic acids (except for malate and citrate) remained invariable from the control. Furthermore, translation of Rubisco was significantly affected, as observed for the amounts of the respective subunits as well as total soluble protein content. These changes were concurrent with the fact that plants with reduced psPPase were unable to assimilate carbon to the same extent as the controls. Furthermore, plants with lowered psPPase exposed to mild drought stress showed a moderate wilting phenotype and reduced vitality, which could be correlated to reduced abscisic acid levels limiting stomatal closure. Taken together, the results suggest that plastidial pyrophosphate dissipation through psPPase is indispensable for vital plant processes.
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Affiliation(s)
| | | | | | | | | | | | - James R. Lloyd
- Institute of Plant Biotechnology, University of Stellenbosch, Matieland 7602, Stellenbosch, South Africa (G.M.G., M.J.v.d.M., R.B., J.K., J.R.L.); Max Planck Institute of Molecular Plant Physiology, D–14476 Potsdam-Golm, Germany (A.N.-N., A.R.F.)
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25
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Palmieri F, Rieder B, Ventrella A, Blanco E, Do PT, Nunes-Nesi A, Trauth AU, Fiermonte G, Tjaden J, Agrimi G, Kirchberger S, Paradies E, Fernie AR, Neuhaus HE. Molecular identification and functional characterization of Arabidopsis thaliana mitochondrial and chloroplastic NAD+ carrier proteins. J Biol Chem 2009; 284:31249-59. [PMID: 19745225 DOI: 10.1074/jbc.m109.041830] [Citation(s) in RCA: 135] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
The Arabidopsis thaliana L. genome contains 58 membrane proteins belonging to the mitochondrial carrier family. Two mitochondrial carrier family members, here named AtNDT1 and AtNDT2, exhibit high structural similarities to the mitochondrial nicotinamide adenine dinucleotide (NAD(+)) carrier ScNDT1 from bakers' yeast. Expression of AtNDT1 or AtNDT2 restores mitochondrial NAD(+) transport activity in a yeast mutant lacking ScNDT. Localization studies with green fluorescent protein fusion proteins provided evidence that AtNDT1 resides in chloroplasts, whereas only AtNDT2 locates to mitochondria. Heterologous expression in Escherichia coli followed by purification, reconstitution in proteoliposomes, and uptake experiments revealed that both carriers exhibit a submillimolar affinity for NAD(+) and transport this compound in a counter-exchange mode. Among various substrates ADP and AMP are the most efficient counter-exchange substrates for NAD(+). Atndt1- and Atndt2-promoter-GUS plants demonstrate that both genes are strongly expressed in developing tissues and in particular in highly metabolically active cells. The presence of both carriers is discussed with respect to the subcellular localization of de novo NAD(+) biosynthesis in plants and with respect to both the NAD(+)-dependent metabolic pathways and the redox balance of chloroplasts and mitochondria.
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Affiliation(s)
- Ferdinando Palmieri
- Department of Pharmaco-Biology, Laboratory of Biochemistry and Molecular Biology, University of Bari, Bari, Italy
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26
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Farré EM, Tech S, Trethewey RN, Fernie AR, Willmitzer L. Subcellular pyrophosphate metabolism in developing tubers of potato (Solanum tuberosum). PLANT MOLECULAR BIOLOGY 2006; 62:165-79. [PMID: 16915524 DOI: 10.1007/s11103-006-9011-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2006] [Accepted: 04/24/2006] [Indexed: 05/11/2023]
Abstract
PPi has previously been implicated specifically in the co-ordination of the sucrose-starch transition and in the broader context of its role as co-factor in heterotrophic plant metabolism. In order to assess the compartmentation of pyrophosphate (PPi) metabolism in the potato tuber we analysed the effect of expressing a bacterial pyrophosphatase in the amyloplast of wild type tubers or in the cytosol or amyloplast of invertase-expressing tubers. The second and third approaches were adopted since we have previously characterized the invertase expressing lines to both exhibit highly altered sucrose metabolism and to contain elevated levels of PPi (Farré et al. (2000a) Plant Physiol 123:681) and therefore this background rendered questions concerning the level of communication between the plastidic and cytosolic pyrophosphate pools relatively facile. In this study we observed that the increase in PPi in the invertase expressing lines was mainly confined to the cytosol. Accordingly, the expression of a bacterial pyrophosphatase in the plastid of either wild type or invertase-expressing tubers did not lead to a decrease in total PPi content. However, the expression of the heterologous pyrophosphatase in the cytosol of cytosolic invertase-expressing tubers led to strong metabolic changes. These results are discussed both with respect to our previous hypotheses and to current models of the compartmentation of potato tuber metabolism.
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Affiliation(s)
- Eva M Farré
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476 Golm, Germany.
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27
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Farré EM, Tech S, Trethewey RN, Fernie AR, Willmitzer L. Subcellular pyrophosphate metabolism in developing tubers of potato (Solanum tuberosum). PLANT MOLECULAR BIOLOGY 2006. [PMID: 16915524 DOI: 10.1007/s11103-006-9011-9014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
PPi has previously been implicated specifically in the co-ordination of the sucrose-starch transition and in the broader context of its role as co-factor in heterotrophic plant metabolism. In order to assess the compartmentation of pyrophosphate (PPi) metabolism in the potato tuber we analysed the effect of expressing a bacterial pyrophosphatase in the amyloplast of wild type tubers or in the cytosol or amyloplast of invertase-expressing tubers. The second and third approaches were adopted since we have previously characterized the invertase expressing lines to both exhibit highly altered sucrose metabolism and to contain elevated levels of PPi (Farré et al. (2000a) Plant Physiol 123:681) and therefore this background rendered questions concerning the level of communication between the plastidic and cytosolic pyrophosphate pools relatively facile. In this study we observed that the increase in PPi in the invertase expressing lines was mainly confined to the cytosol. Accordingly, the expression of a bacterial pyrophosphatase in the plastid of either wild type or invertase-expressing tubers did not lead to a decrease in total PPi content. However, the expression of the heterologous pyrophosphatase in the cytosol of cytosolic invertase-expressing tubers led to strong metabolic changes. These results are discussed both with respect to our previous hypotheses and to current models of the compartmentation of potato tuber metabolism.
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Affiliation(s)
- Eva M Farré
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476 Golm, Germany.
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28
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Tanemura Y, Yoshino M. Regulatory role of polyamine in the acid phosphatase from potato tubers. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2006; 44:43-8. [PMID: 16531056 DOI: 10.1016/j.plaphy.2006.02.001] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2005] [Indexed: 05/07/2023]
Abstract
Effects of polyamine and metal ions on the new type of acid phosphatase purified from potato (Solanum tuberosum L. Irish Cobbler) tubers were analyzed. The enzyme belongs to nonspecific acid phosphatase family (EC 3.1.3.2), which hydrolyzes various phosphorylated substrates. The enzyme hydrolyzed inorganic pyrophosphate as a preferred substrate, and exhibited the hyperbolic kinetics with respect to the substrate, inorganic pyrophosphate in the absence of metal cations. Polyamine activated the enzyme effectively by lowering the K(m) value without appreciable changes in the maximal velocity. The most effective polyamines as activators were spermine and spermidine. Mg(2+) ion increased the K(m) value without affecting the maximal velocity of the enzyme, but Ca(2+) ion decreased both the K(m) and V(max) values. Increasing concentrations of spermine also decreased the K(m) value irrespective of Mg(2+) ion included, but gave a constant K(m) and V(max) values in the absence and presence of Ca(2+) ion. Action of spermine and metal ions can be explained by the complex formation with the substrate pyrophosphate. The acid phosphatase from potato can utilize the pyrophosphate-spermine or pyrophosphate-Ca(2+) complex as the preferred substrates. However, the enzyme can use the pyrophosphate-Mg complex with a weak affinity for the active site. Polyamine activates acid phosphatase in the absence and presence of metal cations, and activation by polyamine of the enzyme may contribute to the stimulation of starch biosynthesis and the control of glycolysis/gluconeogenesis by regulating PPi levels in growing potato tubers.
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Affiliation(s)
- Yasuko Tanemura
- Department of Biochemistry, Aichi Medical University School of Medicine, Nagakute, Aichi 480-1195, Japan
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29
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Kang HG, Park S, Matsuoka M, An G. White-core endosperm floury endosperm-4 in rice is generated by knockout mutations in the C-type pyruvate orthophosphate dikinase gene (OsPPDKB). THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2005; 42:901-11. [PMID: 15941402 DOI: 10.1111/j.1365-313x.2005.02423.x] [Citation(s) in RCA: 182] [Impact Index Per Article: 9.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
We have isolated a floury endosperm-4 (flo4) rice mutant with a floury-white endosperm but a normal outer portion. Scanning electron microscopic analysis revealed that this abnormal endosperm consisted of loosely packed starch granules. The mutant phenotype was generated by T-DNA insertion into the fifth intron of the OsPPDKB gene encoding pyruvate orthophosphate dikinase (PPDK). Plants containing flo4-1 produced no OsPPDKB transcript or the OsPPDKB protein in their developing kernels and leaves. We obtained two additional alleles, flo4-2 and flo4-3, that also showed the same white-core endosperm phenotype. The flo4 kernels weighed about 6% less than wild-type ones. Starch contents in both kernel types were similar, but the total protein content was slightly higher in the mutant kernels. Moreover, lipid contents were significantly increased in the flo4 kernels. Expression analyses demonstrated that the cytosolic mRNA of OsPPDKB was induced in the reproductive organs after pollination, and greatly increased until about 10 days after fertilization. This mRNA was localized mainly in the endosperm, aleurone, and scutellum of the developing kernel. Our results suggest that cytosolic PPDK functions in rice to modulate carbon metabolism during grain filling.
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Affiliation(s)
- Hong-Gyu Kang
- Laboratory of Plant Functional Genomics, Division of Molecular and Life Sciences, Pohang University of Science and Technology, Pohang 790-784, Korea
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Gibon Y, Vigeolas H, Tiessen A, Geigenberger P, Stitt M. Sensitive and high throughput metabolite assays for inorganic pyrophosphate, ADPGlc, nucleotide phosphates, and glycolytic intermediates based on a novel enzymic cycling system. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2002; 30:221-35. [PMID: 12000458 DOI: 10.1046/j.1365-313x.2001.01278.x] [Citation(s) in RCA: 92] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
Abstract
Metabolite assays are required to characterise how metabolism changes between genotypes during development and in response to environmental perturbations. They provide a springboard to identify important regulatory sites and investigate the underlying mechanisms. Due to their small size, Arabidopsis seeds pose a technical challenge for such measurements. A set of assays based on a novel enzymic cycling system between glycerol-3-phosphate dehydrogenase and glycerol-3-phosphate oxidase have been developed and optimised for use with growing Arabidopsis seeds. In combination with existing assays they provide a suite of high throughput, sensitive assays for the immediate precursors for starch (adenine diphosphate glucose) and lipid (acetyl coenzyme A, glycerol-3-phosphate) synthesis, as well as pyrophosphate, ATP, ADP and most of the glycolytic intermediates. A method is also presented to rapidly quench intact siliques, lyophilise them and then manually separate seeds for metabolite analysis. These techniques are used to investigate changes in overall seed metabolite levels during development and maturation, and in response to a stepwise decrease of the external oxygen concentration.
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Affiliation(s)
- Yves Gibon
- Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, D-14476 Golm, Germany
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Farré EM, Tiessen A, Roessner U, Geigenberger P, Trethewey RN, Willmitzer L. Analysis of the compartmentation of glycolytic intermediates, nucleotides, sugars, organic acids, amino acids, and sugar alcohols in potato tubers using a nonaqueous fractionation method. PLANT PHYSIOLOGY 2001; 127:685-700. [PMID: 11598242 PMCID: PMC125103 DOI: 10.1104/pp.010280] [Citation(s) in RCA: 124] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2001] [Revised: 05/29/2001] [Accepted: 06/22/2001] [Indexed: 05/17/2023]
Abstract
The compartmentation of metabolism in heterotrophic plant tissues is poorly understood due to the lack of data on metabolite distributions and fluxes between subcellular organelles. The main reason for this is the lack of suitable experimental methods with which intracellular metabolism can be measured. Here, we describe a nonaqueous fractionation method that allows the subcellular distributions of metabolites in developing potato (Solanum tuberosum L. cv Desiree) tubers to be calculated. In addition, we have coupled this fractionation method to a recently described gas chromatography-mass spectrometry procedure that allows the measurement of a wide range of small metabolites. To calculate the subcellular metabolite concentrations, we have analyzed organelle volumes in growing potato tubers using electron microscopy. The relative volume distributions in tubers are very similar to the ones for source leaves. More than 60% of most sugars, sugar alcohols, organic acids, and amino acids were found in the vacuole, although the concentrations of these metabolites is often higher in the cytosol. Significant amounts of the substrates for starch biosynthesis, hexose phosphates, and ATP were found in the plastid. However, pyrophosphate was located almost exclusively in the cytosol. Calculation of the mass action ratios of sucrose synthase, UDP-glucose pyrophosphorylase, phosphoglucosisomerase, and phosphoglucomutase indicate that these enzymes are close to equilibrium in developing potato tubers. However, due to the low plastidic pyrophosphate concentration, the reaction catalyzed by ADP-glucose pyrophosphorylase was estimated to be far removed from equilibrium.
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Affiliation(s)
- E M Farré
- Max-Planck-Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476 Golm, Germany.
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Geigenberger P, Stamme C, Tjaden J, Schulz A, Quick PW, Betsche T, Kersting HJ, Neuhaus HE. Tuber physiology and properties of starch from tubers of transgenic potato plants with altered plastidic adenylate transporter activity. PLANT PHYSIOLOGY 2001; 125:1667-78. [PMID: 11299348 PMCID: PMC88824 DOI: 10.1104/pp.125.4.1667] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2000] [Revised: 10/23/2000] [Accepted: 12/11/2000] [Indexed: 05/20/2023]
Abstract
We showed recently that antisense plants with decreased activity of the plastidic ATP/ADP-transporter protein exhibit drastically reduced levels of starch and a decreased amylose/amylopectin ratio, whereas sense plants with increased activity of the transporter possessed more starch than wild-type plants and an increased amylose/amylopectin ratio. In this paper we investigate the effect of altered plastidic ATP/ADP-transporter protein expression on primary metabolism and granule morphology in more detail. Tuber tissues from antisense and sense plants exhibited substantially increased respiratory activity compared with the wild type. Tubers from antisense plants contained markedly increased levels of free sugars, UDP-Glc, and hexose phosphates, whereas phosphoenolpyruvate, isocitrate, ATP, ADP, AMP, UTP, UDP, and inorganic pyrophosphate levels were slightly decreased. In contrast, tubers from sense plants revealed a slight increase in adenine and uridine nucleotides and in the levels of inorganic pyrophosphate, whereas no significant changes in the levels of soluble sugars and metabolites were observed. Antisense tubers contained 50% reduced levels of ADP-Glc, whereas sense tubers contained up to 2-fold increased levels of this sole precursor for starch biosynthesis. Microscopic examination of starch grain morphology revealed that the size of starch grains from antisense tubers was substantially smaller (50%) compared with the wild type. The large starch grains from sense tubers appeared of a more angular morphology, which differed to the more ellipsoid shape of wild type grains. The results suggest a close interaction between plastidial adenylate transport and starch biosynthesis, indicating that ADP-Glc pyrophosphorylase is ATP-limited in vivo and that changes in ADP-Glc concentration determine starch yield, as well as granule morphology. Possible factors linking starch synthesis and respiration are discussed.
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Affiliation(s)
- P Geigenberger
- Botanisches Institut der Universität Heidelberg, Im Neuenheimer Feld 360, D-69120 Heidelberg, Germany.
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Fernie AR, Roessner U, Geigenberger P. The sucrose analog palatinose leads to a stimulation of sucrose degradation and starch synthesis when supplied to discs of growing potato tubers. PLANT PHYSIOLOGY 2001; 125:1967-77. [PMID: 11299376 PMCID: PMC88852 DOI: 10.1104/pp.125.4.1967] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2000] [Accepted: 11/30/2000] [Indexed: 05/17/2023]
Abstract
In the present paper we investigated the effect of the sucrose (Suc) analog palatinose on potato (Solanum tuberosum) tuber metabolism. In freshly cut discs of growing potato tubers, addition of 5 mM palatinose altered the metabolism of exogenously supplied [U-14C]Suc. There was slight inhibition of the rate of 14C-Suc uptake, a 1.5-fold increase in the rate at which 14C-Suc was subsequently metabolized, and a shift in the allocation of the metabolized label in favor of starch synthesis. The sum result of these changes was a 2-fold increase in the absolute rate of starch synthesis. The increased rate of starch synthesis was accompanied by a 3-fold increase in inorganic pyrophosphate, a 2-fold increase in UDP, decreased UTP/UDP, ATP/ADP, and ATP/AMP ratios, and decreased adenylate energy charge, whereas glycolytic and Krebs cycle intermediates were unchanged. In addition, feeding palatinose to potato discs also stimulated the metabolism of exogenous 14C-glucose in favor of starch synthesis. In vitro studies revealed that palatinose is not metabolized by Suc synthases or invertases within potato tuber extracts. Enzyme kinetics revealed different effects of palatinose on Suc synthase and invertase activities, implicating palatinose as an allosteric effector leading to an inhibition of Suc synthase and (surprisingly) to an activation of invertase in vitro. However, measurement of tissue palatinose levels revealed that these were too low to have significant effects on Suc degrading activities in vivo. These results suggest that supplying palatinose to potato tubers represents a novel way to increase starch synthesis.
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Affiliation(s)
- A R Fernie
- Max Planck Institut für Molekulare Pflanzenphysiologie, Am Mühlenberg 1, 14476 Golm, Germany
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Geigenberger P, Stitt M. Diurnal changes in sucrose, nucleotides, starch synthesis and AGPS transcript in growing potato tubers that are suppressed by decreased expression of sucrose phosphate synthase. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2000; 23:795-806. [PMID: 10998190 DOI: 10.1046/j.1365-313x.2000.00848.x] [Citation(s) in RCA: 47] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/23/2023]
Abstract
Sucrose export from leaves is high during the day and lower at night, when it depends on starch remobilisation. We have investigated the consequences of diurnal changes of photoassimilate supply for starch synthesis and other metabolic processes in growing potato tubers. Sucrose, the levels of the transcripts for SUS and AGPS, the levels of key metabolites, and the rate of synthesis of starch and other major end products, including protein and cell wall polysaccharides, increased twofold or more between the start and end of the light period. The stimulation of starch synthesis was accompanied by an increase of UDPglucose and ADPglucose, whereas glycolytic intermediates remained unaltered, revealing that sucrose synthase and ADP-glucose pyrophosphorylase are being co-ordinately regulated. Sucrose synthase is stimulated via an increase of its substrates, UDP and sucrose. UDP increases due to an increase of the overall uridine nucleotide pool, and a decrease of the UTP/UDP ratio that occurs in parallel with a decrease of the ATP/ADP ratio and adenylate energy charge when biosynthetic fluxes are high at the end of the day. Within the time frame of the diurnal changes, the changes in the SUS and AGPS transcript levels do not lead to significant changes in the encoded enzymes. Transformants with a progressive decrease of sucrose phosphate synthase expression, where diurnal changes in leaf sugar levels were damped, exhibited a progressive attenuation of the diurnal changes of sucrose, nucleotide sugars and nucleotides, and fluxes in their tubers. It is concluded that metabolic processes in tubers are tightly linked to the momentary supply of sucrose.
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Affiliation(s)
- P Geigenberger
- Botanisches Institut der Universität Heidelberg, Im Neuenheimer Feld 360, D-69120 Heidelberg, Germany
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