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Canal MV, Mansilla N, Gras DE, Ibarra A, Figueroa CM, Gonzalez DH, Welchen E. Cytochrome c levels affect the TOR pathway to regulate growth and metabolism under energy-deficient conditions. THE NEW PHYTOLOGIST 2024; 241:2039-2058. [PMID: 38191763 DOI: 10.1111/nph.19506] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Accepted: 12/03/2023] [Indexed: 01/10/2024]
Abstract
Mitochondrial function is essential for plant growth, but the mechanisms involved in adjusting growth and metabolism to changes in mitochondrial energy production are not fully understood. We studied plants with reduced expression of CYTC-1, one of two genes encoding the respiratory chain component cytochrome c (CYTc) in Arabidopsis, to understand how mitochondria communicate their status to coordinate metabolism and growth. Plants with CYTc deficiency show decreased mitochondrial membrane potential and lower ATP content, even when carbon sources are present. They also exhibit higher free amino acid content, induced autophagy, and increased resistance to nutritional stress caused by prolonged darkness, similar to plants with triggered starvation signals. CYTc deficiency affects target of rapamycin (TOR)-pathway activation, reducing S6 kinase (S6K) and RPS6A phosphorylation, as well as total S6K protein levels due to increased protein degradation via proteasome and autophagy. TOR overexpression restores growth and other parameters affected in cytc-1 mutants, even if mitochondrial membrane potential and ATP levels remain low. We propose that CYTc-deficient plants coordinate their metabolism and energy availability by reducing TOR-pathway activation as a preventive signal to adjust growth in anticipation of energy exhaustion, thus providing a mechanism by which changes in mitochondrial activity are transduced to the rest of the cell.
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Affiliation(s)
- María Victoria Canal
- Instituto de Agrobiotecnología del Litoral (CONICET-UNL), Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, 3000, Santa Fe, Argentina
| | - Natanael Mansilla
- Instituto de Agrobiotecnología del Litoral (CONICET-UNL), Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, 3000, Santa Fe, Argentina
| | - Diana E Gras
- Instituto de Agrobiotecnología del Litoral (CONICET-UNL), Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, 3000, Santa Fe, Argentina
| | - Agustín Ibarra
- Instituto de Agrobiotecnología del Litoral (CONICET-UNL), Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, 3000, Santa Fe, Argentina
| | - Carlos M Figueroa
- Instituto de Agrobiotecnología del Litoral (CONICET-UNL), Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, 3000, Santa Fe, Argentina
| | - Daniel H Gonzalez
- Instituto de Agrobiotecnología del Litoral (CONICET-UNL), Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, 3000, Santa Fe, Argentina
| | - Elina Welchen
- Instituto de Agrobiotecnología del Litoral (CONICET-UNL), Facultad de Bioquímica y Ciencias Biológicas, Universidad Nacional del Litoral, 3000, Santa Fe, Argentina
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Song JG, Baral KC, Kim GL, Park JW, Seo SH, Kim DH, Jung DH, Ifekpolugo NL, Han HK. Quantitative analysis of therapeutic proteins in biological fluids: recent advancement in analytical techniques. Drug Deliv 2023; 30:2183816. [PMID: 36880122 PMCID: PMC10003146 DOI: 10.1080/10717544.2023.2183816] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/08/2023] Open
Abstract
Pharmaceutical application of therapeutic proteins has been continuously expanded for the treatment of various diseases. Efficient and reliable bioanalytical methods are essential to expedite the identification and successful clinical development of therapeutic proteins. In particular, selective quantitative assays in a high-throughput format are critical for the pharmacokinetic and pharmacodynamic evaluation of protein drugs and to meet the regulatory requirements for new drug approval. However, the inherent complexity of proteins and many interfering substances presented in biological matrices have a great impact on the specificity, sensitivity, accuracy, and robustness of analytical assays, thereby hindering the quantification of proteins. To overcome these issues, various protein assays and sample preparation methods are currently available in a medium- or high-throughput format. While there is no standard or universal approach suitable for all circumstances, a liquid chromatography-tandem mass spectrometry (LC-MS/MS) assay often becomes a method of choice for the identification and quantitative analysis of therapeutic proteins in complex biological samples, owing to its high sensitivity, specificity, and throughput. Accordingly, its application as an essential analytical tool is continuously expanded in pharmaceutical R&D processes. Proper sample preparation is also important since clean samples can minimize the interference from co-existing substances and improve the specificity and sensitivity of LC-MS/MS assays. A combination of different methods can be utilized to improve bioanalytical performance and ensure more accurate quantification. This review provides an overview of various protein assays and sample preparation methods, with particular emphasis on quantitative protein analysis by LC-MS/MS.
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Affiliation(s)
- Jae Geun Song
- BK21 FOUR Team and Integrated Research Institute for Drug Development, College of Pharmacy, Dongguk University-Seoul, Goyang, Korea
| | - Kshitis Chandra Baral
- BK21 FOUR Team and Integrated Research Institute for Drug Development, College of Pharmacy, Dongguk University-Seoul, Goyang, Korea
| | - Gyu-Lin Kim
- BK21 FOUR Team and Integrated Research Institute for Drug Development, College of Pharmacy, Dongguk University-Seoul, Goyang, Korea
| | - Ji-Won Park
- BK21 FOUR Team and Integrated Research Institute for Drug Development, College of Pharmacy, Dongguk University-Seoul, Goyang, Korea
| | - Soo-Hwa Seo
- BK21 FOUR Team and Integrated Research Institute for Drug Development, College of Pharmacy, Dongguk University-Seoul, Goyang, Korea
| | - Da-Hyun Kim
- BK21 FOUR Team and Integrated Research Institute for Drug Development, College of Pharmacy, Dongguk University-Seoul, Goyang, Korea
| | - Dong Hoon Jung
- BK21 FOUR Team and Integrated Research Institute for Drug Development, College of Pharmacy, Dongguk University-Seoul, Goyang, Korea
| | - Nonye Linda Ifekpolugo
- BK21 FOUR Team and Integrated Research Institute for Drug Development, College of Pharmacy, Dongguk University-Seoul, Goyang, Korea
| | - Hyo-Kyung Han
- BK21 FOUR Team and Integrated Research Institute for Drug Development, College of Pharmacy, Dongguk University-Seoul, Goyang, Korea
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Hecko S, Schiefer A, Badenhorst CPS, Fink MJ, Mihovilovic MD, Bornscheuer UT, Rudroff F. Enlightening the Path to Protein Engineering: Chemoselective Turn-On Probes for High-Throughput Screening of Enzymatic Activity. Chem Rev 2023; 123:2832-2901. [PMID: 36853077 PMCID: PMC10037340 DOI: 10.1021/acs.chemrev.2c00304] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/01/2023]
Abstract
Many successful stories in enzyme engineering are based on the creation of randomized diversity in large mutant libraries, containing millions to billions of enzyme variants. Methods that enabled their evaluation with high throughput are dominated by spectroscopic techniques due to their high speed and sensitivity. A large proportion of studies relies on fluorogenic substrates that mimic the chemical properties of the target or coupled enzymatic assays with an optical read-out that assesses the desired catalytic efficiency indirectly. The most reliable hits, however, are achieved by screening for conversions of the starting material to the desired product. For this purpose, functional group assays offer a general approach to achieve a fast, optical read-out. They use the chemoselectivity, differences in electronic and steric properties of various functional groups, to reduce the number of false-positive results and the analytical noise stemming from enzymatic background activities. This review summarizes the developments and use of functional group probes for chemoselective derivatizations, with a clear focus on screening for enzymatic activity in protein engineering.
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Affiliation(s)
- Sebastian Hecko
- Institute of Applied Synthetic Chemistry, OC-163, TU Wien, Getreidemarkt 9, 1060 Vienna, Austria
| | - Astrid Schiefer
- Institute of Applied Synthetic Chemistry, OC-163, TU Wien, Getreidemarkt 9, 1060 Vienna, Austria
| | - Christoffel P S Badenhorst
- Institute of Biochemistry, Dept. of Biotechnology & Enzyme Catalysis, University of Greifswald, Felix-Hausdorff-Str. 4, 17489 Greifswald, Germany
| | - Michael J Fink
- Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford St, Cambridge, Massachusetts 02138, United States
| | - Marko D Mihovilovic
- Institute of Applied Synthetic Chemistry, OC-163, TU Wien, Getreidemarkt 9, 1060 Vienna, Austria
| | - Uwe T Bornscheuer
- Institute of Biochemistry, Dept. of Biotechnology & Enzyme Catalysis, University of Greifswald, Felix-Hausdorff-Str. 4, 17489 Greifswald, Germany
| | - Florian Rudroff
- Institute of Applied Synthetic Chemistry, OC-163, TU Wien, Getreidemarkt 9, 1060 Vienna, Austria
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4
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Martínez-Peña R, Vergara-Díaz O, Schlereth A, Höhne M, Morcuende R, Nieto-Taladriz MT, Araus JL, Aparicio N, Vicente R. Analysis of durum wheat photosynthetic organs during grain filling reveals the ear as a water stress-tolerant organ and the peduncle as the largest pool of primary metabolites. PLANTA 2023; 257:81. [PMID: 36917306 PMCID: PMC10014764 DOI: 10.1007/s00425-023-04115-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/16/2022] [Accepted: 03/04/2023] [Indexed: 06/18/2023]
Abstract
The pool of carbon- and nitrogen-rich metabolites is quantitatively relevant in non-foliar photosynthetic organs during grain filling, which have a better response to water limitation than flag leaves. The response of durum wheat to contrasting water regimes has been extensively studied at leaf and agronomic level in previous studies, but the water stress effects on source-sink dynamics, particularly non-foliar photosynthetic organs, is more limited. Our study aims to investigate the response of different photosynthetic organs to water stress and to quantify the pool of carbon and nitrogen metabolites available for grain filling. Five durum wheat varieties were grown in field trials in the Spanish region of Castile and León under irrigated and rainfed conditions. Water stress led to a significant decrease in yield, biomass, and carbon and nitrogen assimilation, improved water use efficiency, and modified grain quality traits in the five varieties. The pool of carbon (glucose, glucose-6-phosphate, fructose, sucrose, starch, and malate) and nitrogen (glutamate, amino acids, proteins and chlorophylls) metabolites in leaf blades and sheaths, peduncles, awns, glumes and lemmas were also analysed. The results showed that the metabolism of the blades and peduncles was the most susceptible to water stress, while ear metabolism showed higher stability, particularly at mid-grain filling. Interestingly, the total metabolite content per organ highlighted that a large source of nutrients, which may be directly involved in grain filling, are found outside the blades, with the peduncles being quantitatively the most relevant. We conclude that yield improvements in our Mediterranean agro-ecosystem are highly linked to the success of shoots in producing ears and a higher number of grains, while grain filling is highly dependent on the capacity of non-foliar organs to fix CO2 and N. The ear organs show higher stress resilience than other organs, which deserves our attention in future breeding programmes.
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Affiliation(s)
- Raquel Martínez-Peña
- Cereals Group, Section of Herbaceous, Agro-Technological Institute of Castile and León, Junta de Castile and León, Valladolid, Spain
| | - Omar Vergara-Díaz
- Plant Ecophysiology and Metabolism Group, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB NOVA), Oeiras, Portugal
| | - Armin Schlereth
- Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
| | - Melanie Höhne
- Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
| | - Rosa Morcuende
- Institute of Natural Resources and Agrobiology of Salamanca (IRNASA), Consejo Superior de Investigaciones Científicas (CSIC), Salamanca, Spain
| | - María Teresa Nieto-Taladriz
- Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA), Consejo Superior de Investigaciones Científicas, Madrid, Spain
| | - José Luis Araus
- Integrative Crop Ecophysiology Group, Section of Plant Physiology, Faculty of Biology, University of Barcelona, Barcelona, and AGROTECNIO-CERCA Center, Lleida, Spain
| | - Nieves Aparicio
- Cereals Group, Section of Herbaceous, Agro-Technological Institute of Castile and León, Junta de Castile and León, Valladolid, Spain
| | - Rubén Vicente
- Plant Ecophysiology and Metabolism Group, Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa (ITQB NOVA), Oeiras, Portugal.
- Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany.
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Schmidt LC, Ozturk OK, Young J, Bugusu B, Li M, Claddis D, Mohamedshah Z, Ferruzzi M, Hamaker BR. Formation of cereal protein disulfide-linked stable matrices by apigeninidin, a 3-deoxyanthocyanidin. Food Chem 2023; 404:134611. [DOI: 10.1016/j.foodchem.2022.134611] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2022] [Revised: 09/09/2022] [Accepted: 10/11/2022] [Indexed: 11/22/2022]
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Vela AJ, Villanueva M, Ozturk OK, Hamaker B, Ronda F. Modification of the microstructure of tef [ Eragrostis tef (Zucc.) Trotter] flour ultrasonicated at different temperatures. Impact on its techno-functional and rheological properties. Curr Res Food Sci 2023; 6:100456. [PMID: 36846468 PMCID: PMC9947227 DOI: 10.1016/j.crfs.2023.100456] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2022] [Revised: 01/31/2023] [Accepted: 02/02/2023] [Indexed: 02/05/2023] Open
Abstract
Tef flour comes from a nutritionally-rich ancient grain gaining increasing interest in gluten-free market. Gluten-free sources are modified by different means to improve their functionality. Ultrasound treatment (US) alters flours' structure and leads to physically modified flours with a wider application range. The aim of the present work was to evaluate the impact of US treatments of moderate treatment time, 10 min, and high concentration of the aqueous flour dispersion, 25%, on the microstructural, starch damage, apparent amylose content, techno-functional, pasting and rheological properties of two tef flour varieties, white and brown. Temperature was varied (20, 40, 45, 50, and 55 °C) to modulate the impact of sonication. US treatments led to general particle fragmentation which markedly increased starch damage and lightness (L*) values. Apparent amylose content was higher after ultrasonication, as consequence of molecular fragmentation due to cavitation. Increased starch granules' exposed area led to enhanced interaction with water, promoting the water absorption index (WAI) and swelling power (SP) of treated flours. Pasting properties showed increased pasting temperatures as well as decreased viscometric profiles with lower breakdown viscosities, indicative of starch rearrangement improved by increasing temperature. Rheological properties indicated higher consistency in gels after US treatments, with improved ability to withstand stress and lower values of tan(δ)1 reflecting a higher solid-like behavior and higher strength of the gel. Temperature was found to be a crucial variable during US treatments, showing an improved degree of modification at higher temperatures in ultrasonicated tef flours, following the same trend in both varieties.
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Affiliation(s)
- Antonio J. Vela
- Department of Agriculture and Forestry Engineering, Food Technology, College of Agricultural and Forestry Engineering, University of Valladolid, Valladolid, Spain
| | - Marina Villanueva
- Department of Agriculture and Forestry Engineering, Food Technology, College of Agricultural and Forestry Engineering, University of Valladolid, Valladolid, Spain
| | - Oguz K. Ozturk
- Whistler Center for Carbohydrate Research, Department of Food Science, Purdue University, West Lafayette, IN, USA
| | - Bruce Hamaker
- Whistler Center for Carbohydrate Research, Department of Food Science, Purdue University, West Lafayette, IN, USA
| | - Felicidad Ronda
- Department of Agriculture and Forestry Engineering, Food Technology, College of Agricultural and Forestry Engineering, University of Valladolid, Valladolid, Spain
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Gonzalez Quevedo P, Rigby EL, Kearney S, Saylor RA. Optimized derivatization of primary amines with the fluorogenic reagent naphthalene-2,3-dicarboxaldehyde toward reproducible quantitative analysis in biological systems. Anal Bioanal Chem 2023:10.1007/s00216-022-04508-3. [PMID: 36609859 DOI: 10.1007/s00216-022-04508-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2022] [Revised: 12/19/2022] [Accepted: 12/22/2022] [Indexed: 01/09/2023]
Abstract
Primary amines are the target of many bioanalytical analyses, as they are ubiquitous in biological systems and responsible for numerous important processes including neurotransmission and cell signaling. Primary amines can be sensitively detected via fluorescence after their reaction with the fluorogenic reagent naphthalene-2,3-dicarboxaldehyde (NDA) in the presence of cyanide through the formation of fluorescent N-substituted 1-cyanobenz[f]isoindole (CBI) derivatives. While fluorogenic reagents such as NDA can be advantageous for sensitive detection, improvements in both long-term stability and speed of reaction are necessary to enable practical and reproducible quantitative analysis. In this work, various CBI-amines were interrogated for their fluorescence characteristics over time under previously reported conditions (75:25 aqueous buffer:acetonitrile). An amine-specific decline in fluorescence and delay to reach maximum fluorescence were observed. Based on structural characteristics, we hypothesized that these effects were due to the solvents employed enabling analyte intermolecular interactions that resulted in fluorescence quenching over time. To mitigate fluorescence-quenching intermolecular interactions, we developed two strategies to improve the fluorescence of the CBI-product over long time periods: (1) the addition of the complexation reagent β-cyclodextrin to the reaction matrix and (2) the substitution of acetonitrile with dimethyl sulfoxide. Both strategies improved fluorescence stability over time, and the incorporation of dimethyl sulfoxide also enabled more rapid attainment of maximum fluorescence and a higher absolute fluorescence when compared to initial conditions. When employed in combination, these two approaches further improve fluorescence stability over time for the most hydrophobic analytes. In the future, these strategies can be employed for the practical and reproducible quantitative analysis of primary amines in biological systems, including those related to neurological disorders and disease states.
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Affiliation(s)
- Paola Gonzalez Quevedo
- Department of Chemistry and Biochemistry, Oberlin College, 119 Woodland St, Oberlin, OH, USA
| | - Elizabeth L Rigby
- Department of Chemistry and Biochemistry, Oberlin College, 119 Woodland St, Oberlin, OH, USA
| | - Samuel Kearney
- Department of Chemistry and Biochemistry, Oberlin College, 119 Woodland St, Oberlin, OH, USA
| | - Rachel A Saylor
- Department of Chemistry and Biochemistry, Oberlin College, 119 Woodland St, Oberlin, OH, USA.
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Vaitkevičiūtė G, Aleliūnas A, Gibon Y, Armonienė R. The effect of cold acclimation, deacclimation and reacclimation on metabolite profiles and freezing tolerance in winter wheat. FRONTIERS IN PLANT SCIENCE 2022; 13:959118. [PMID: 36046584 PMCID: PMC9421140 DOI: 10.3389/fpls.2022.959118] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/01/2022] [Accepted: 07/20/2022] [Indexed: 06/03/2023]
Abstract
Global climate change will cause longer and warmer autumns, thus negatively affecting the quality of cold acclimation (CA) and reducing the freezing tolerance (FT) of winter wheat. Insufficient FT and fluctuating temperatures during winter can accelerate the deacclimation (DEA) process, whereas reacclimation (REA) is possible only while the vernalization requirement is unfulfilled. Six winter wheat genotypes with different winter hardiness profiles were used to evaluate the impact of constant low-temperature (2°C) and prolonged higher low-temperature (28 days at 10°C followed by 2°C until day 49) on shoot biomass and metabolite accumulation patterns in leaf and crown tissues throughout 49 days of CA, 7 days of DEA, and 14 days of REA. The FT of winter wheat was determined as LT30 values by conducting freezing tests after CA, DEA, and REA. Shoot biomass accumulation, projected as the green leaf area (GLA), was investigated by non-destructive RGB imaging-based phenotyping. Dynamics of carbohydrates, hexose phosphates, organic acids, proteins, and amino acids were assessed in leaf and crown tissues. Results revealed that exposure to higher low-temperature induced higher accumulation of shoot biomass and had a negative impact on FT of winter wheat. Prolonged higher low-temperature negatively affected the accumulation of soluble carbohydrates, protein content and amino acids, and had a positive effect on starch accumulation in leaf and crown tissues after CA, in comparison with the constant low-temperature treatment. DEA resulted in significantly reduced FT. Lower concentrations of glucose-6-phosphate, sucrose and proline, as well as higher concentrations of starch in leaves and crowns were found after DEA. The majority of the genotypes regained FT after REA; higher concentrations of glucose and malate in leaves, and sucrose in crown tissue were observed, whereas starch accumulation was decreased in both tissues. Negative correlations were determined between FT and starch concentration in leaves and crowns, while proline and proteins, accumulated in crowns, showed positive correlations with FT. This study broadens the knowledge regarding the effect of different low-temperature regimes on the dynamics of metabolite accumulation in winter wheat throughout CA, DEA, and REA, and its relationship to biomass accumulation and FT.
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Affiliation(s)
- Gabija Vaitkevičiūtė
- Lithuanian Research Centre for Agriculture and Forestry, Institute of Agriculture, Akademija, Lithuania
| | - Andrius Aleliūnas
- Lithuanian Research Centre for Agriculture and Forestry, Institute of Agriculture, Akademija, Lithuania
| | - Yves Gibon
- Univ. Bordeaux, INRAE, Bordeaux Metabolome, UMR 1332 BFP, Villenave d’Ornon, France
| | - Rita Armonienė
- Lithuanian Research Centre for Agriculture and Forestry, Institute of Agriculture, Akademija, Lithuania
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Campos NA, Colombié S, Moing A, Cassan C, Amah D, Swennen R, Gibon Y, Carpentier SC. From fruit growth to ripening in plantain: a careful balance between carbohydrate synthesis and breakdown. JOURNAL OF EXPERIMENTAL BOTANY 2022; 73:4832-4849. [PMID: 35512676 PMCID: PMC9366326 DOI: 10.1093/jxb/erac187] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Accepted: 05/04/2022] [Indexed: 06/14/2023]
Abstract
In this study, we aimed to investigate for the first time different fruit development stages in plantain banana in order gain insights into the order of appearance and dominance of specific enzymes and fluxes. We examined fruit development in two plantain banana cultivars during the period between 2-12 weeks after bunch emergence using high-throughput proteomics, quantification of major metabolites, and analyses of metabolic fluxes. Starch synthesis and breakdown are processes that take place simultaneously. During the first 10 weeks fruits accumulated up to 48% of their dry weight as starch, and glucose 6-phosphate and fructose were important precursors. We found a unique amyloplast transporter and hypothesize that it facilitates the import of fructose. We identified an invertase originating from the Musa balbisiana genome that would enable carbon flow back to growth and starch synthesis and maintain a high starch content even during ripening. Enzymes associated with the initiation of ripening were involved in ethylene and auxin metabolism, starch breakdown, pulp softening, and ascorbate biosynthesis. The initiation of ripening was cultivar specific, with faster initiation being particularly linked to the 1-aminocyclopropane-1-carboxylate oxidase and 4-alpha glucanotransferase disproportionating enzymes. Information of this kind is fundamental to determining the optimal time for picking the fruit in order to reduce post-harvest losses, and has potential applications for breeding to improve fruit quality.
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Affiliation(s)
| | - Sophie Colombié
- INRAE, Fruit Biology and Pathology, Université De Bordeaux, UMR 1332, 33140 Villenave d’Ornon, France
| | - Annick Moing
- INRAE, Fruit Biology and Pathology, Université De Bordeaux, UMR 1332, 33140 Villenave d’Ornon, France
| | - Cedric Cassan
- INRAE, Fruit Biology and Pathology, Université De Bordeaux, UMR 1332, 33140 Villenave d’Ornon, France
| | - Delphine Amah
- IITA, Crop Breeding, Ibadan 200001, Oyo State, Nigeria
| | - Rony Swennen
- Biosystems Department, KULeuven, 3001 Leuven, Belgium
- IITA, Crop Breeding, PO Box 7878, Kampala, Uganda
| | - Yves Gibon
- INRAE, Fruit Biology and Pathology, Université De Bordeaux, UMR 1332, 33140 Villenave d’Ornon, France
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Skoulas D, Fattah S, Wang D, Cryan S, Heise A. Systematic study of enzymatic degradation and plasmid DNA complexation of mucus penetrating star‐shaped lysine/sarcosine polypept(o)ides with different block arrangements. Macromol Biosci 2022; 22:e2200175. [DOI: 10.1002/mabi.202200175] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2022] [Revised: 05/18/2022] [Indexed: 11/07/2022]
Affiliation(s)
- Dimitrios Skoulas
- D. Skoulas, A. Heise Department of Chemistry RCSI University of Medicine and Health Science 123 St. Stephens Green Dublin D02YN77 Ireland
| | - Sarinj Fattah
- S. Fattah, S.‐A. Cryan School of Pharmacy and Biomolecular Sciences RCSI University of Medicine and Health Sciences Dublin D02YN77 Ireland
- Trinity Centre for Biomedical Engineering, TCD Dublin 2 Ireland
| | - Dandan Wang
- Dandan Wang School of Pharmacy and Biomolecular Sciences RCSI University of Medicine and Health Sciences Dublin D02YN77 Ireland
- Department of Pharmaceutics College of Pharmaceutical Sciences Soochow University Suzhou 215123 People's Republic of China
| | - Sally‐Ann Cryan
- S. Fattah, S.‐A. Cryan School of Pharmacy and Biomolecular Sciences RCSI University of Medicine and Health Sciences Dublin D02YN77 Ireland
- Trinity Centre for Biomedical Engineering, TCD Dublin 2 Ireland
- A. Heise, S.‐A. Cryan Science Foundation Ireland (SFI) Centre for Research in Medical Devices (CURAM), AMBER The SFI Advanced Materials and Bioengineering Research Centre Dublin 2 Ireland
| | - Andreas Heise
- D. Skoulas, A. Heise Department of Chemistry RCSI University of Medicine and Health Science 123 St. Stephens Green Dublin D02YN77 Ireland
- A. Heise, S.‐A. Cryan Science Foundation Ireland (SFI) Centre for Research in Medical Devices (CURAM), AMBER The SFI Advanced Materials and Bioengineering Research Centre Dublin 2 Ireland
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12
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Abdel-Aziz H, Tolba MM, El-Enany N, Aly FA, Fathy ME. Green and sensitive spectrofluorimetric method for the determination of two cephalosporins in dosage forms. ROYAL SOCIETY OPEN SCIENCE 2021; 8:210329. [PMID: 34386250 PMCID: PMC8334852 DOI: 10.1098/rsos.210329] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/16/2021] [Accepted: 06/30/2021] [Indexed: 06/13/2023]
Abstract
Using two green and sensitive spectrofluorimetric methods, we quantified two cephalosporins, cefepime (CFM) and cefazolin (CFZ), in raw and pharmaceutical formulations. The first method is based on the reaction between CFM and fluorescamine (borate buffer, pH 8), which yields a highly fluorescent product. After excitation at 384 nm, the fluorescent product emits light at 484 nm. At concentration ranges from 12.0 to 120.0 ng ml-1, the relative fluorescence intensity/concentration curve was linear with a limit of quantification (LOQ) of 2.46 ng ml-1. The second method relied on measuring the CFZ quenching action on acriflavine fluorescence through formation of an ion-associate complex using Britton-Robinson buffer at pH 8. We measured acriflavine fluorescence at 505 nm after excitation at 265 nm. The decrease in acriflavine fluorescence intensity was CFZ concentration-dependent. Using this method, we quantified CFZ in concentrations ranging from 1 to 10 µg ml-1 with a LOQ of 0.48 µg ml-1. We studied and optimized the factors influencing reaction product formation. Moreover, we adapted our methods to the investigation of the mentioned drugs in raw and pharmaceutical formulations with greatly satisfying results. We statistically validated our methods according to International Council on Harmonisation Guidelines. The obtained results were consistent with those obtained with the official high-performance liquid chromatography methods.
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Affiliation(s)
- Heba Abdel-Aziz
- Department of Pharmaceutical Analytical Chemistry, Faculty of Pharmacy, Mansoura University, 35516 Mansoura, Egypt
| | - M. M. Tolba
- Department of Pharmaceutical Analytical Chemistry, Faculty of Pharmacy, Mansoura University, 35516 Mansoura, Egypt
| | - N. El-Enany
- Department of Pharmaceutical Analytical Chemistry, Faculty of Pharmacy, Mansoura University, 35516 Mansoura, Egypt
| | - F. A. Aly
- Department of Pharmaceutical Analytical Chemistry, Faculty of Pharmacy, Mansoura University, 35516 Mansoura, Egypt
| | - M. E. Fathy
- Department of Pharmaceutical Analytical Chemistry, Faculty of Pharmacy, Mansoura University, 35516 Mansoura, Egypt
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13
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Rubio B, Fernandez O, Cosson P, Berton T, Caballero M, Lion R, Roux F, Bergelson J, Gibon Y, Schurdi-Levraud V. Metabolic Profile Discriminates and Predicts Arabidopsis Susceptibility to Virus under Field Conditions. Metabolites 2021; 11:metabo11040230. [PMID: 33918649 PMCID: PMC8069729 DOI: 10.3390/metabo11040230] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2021] [Revised: 03/27/2021] [Accepted: 04/02/2021] [Indexed: 12/13/2022] Open
Abstract
As obligatory parasites, plant viruses alter host cellular metabolism. There is a lack of information on the variability of virus-induced metabolic responses among genetically diverse plants in a natural context with daily changing conditions. To decipher the metabolic landscape of plant-virus interactions in a natural setting, twenty-six and ten accessions of Arabidopsis thaliana were inoculated with Turnip mosaic virus (TuMV), in two field experiments over 2 years. The accessions were measured for viral accumulation, above-ground biomass, targeted and untargeted metabolic profiles. The phenotypes of the accessions ranged from susceptibility to resistance. Susceptible and resistant accessions were shown to have different metabolic routes after inoculation. Susceptible genotypes accumulate primary and secondary metabolites upon infection, at the cost of hindered growth. Twenty-one metabolic signatures significantly accumulated in resistant accessions whereas they maintained their growth as mock-inoculated plants without biomass penalty. Metabolic content was demonstrated to discriminate and be highly predictive of the susceptibility of inoculated Arabidopsis. This study is the first to describe the metabolic landscape of plant-virus interactions in a natural setting and its predictive link to susceptibility. It provides new insights on plant-virus interactions. In this undomesticated species and in ecologically realistic conditions, growth and resistance are in a permanent conversation.
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Affiliation(s)
- Bernadette Rubio
- Université de Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, F-33140 Villenave d’Ornon, France; (B.R.); (O.F.); (P.C.); (T.B.); (M.C.); (R.L.); (Y.G.)
| | - Olivier Fernandez
- Université de Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, F-33140 Villenave d’Ornon, France; (B.R.); (O.F.); (P.C.); (T.B.); (M.C.); (R.L.); (Y.G.)
| | - Patrick Cosson
- Université de Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, F-33140 Villenave d’Ornon, France; (B.R.); (O.F.); (P.C.); (T.B.); (M.C.); (R.L.); (Y.G.)
| | - Thierry Berton
- Université de Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, F-33140 Villenave d’Ornon, France; (B.R.); (O.F.); (P.C.); (T.B.); (M.C.); (R.L.); (Y.G.)
| | - Mélodie Caballero
- Université de Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, F-33140 Villenave d’Ornon, France; (B.R.); (O.F.); (P.C.); (T.B.); (M.C.); (R.L.); (Y.G.)
| | - Roxane Lion
- Université de Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, F-33140 Villenave d’Ornon, France; (B.R.); (O.F.); (P.C.); (T.B.); (M.C.); (R.L.); (Y.G.)
| | - Fabrice Roux
- CNRS, INRAE, Université de Toulouse, LIPM, F-31320 Castanet-Tolosan, France;
| | - Joy Bergelson
- Ecology & Evolution, University of Chicago, 1101 E 57th St, Chicago, IL 60637, USA;
| | - Yves Gibon
- Université de Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, F-33140 Villenave d’Ornon, France; (B.R.); (O.F.); (P.C.); (T.B.); (M.C.); (R.L.); (Y.G.)
| | - Valérie Schurdi-Levraud
- Université de Bordeaux, INRAE, Biologie du Fruit et Pathologie, UMR 1332, F-33140 Villenave d’Ornon, France; (B.R.); (O.F.); (P.C.); (T.B.); (M.C.); (R.L.); (Y.G.)
- Correspondence:
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14
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Biochemical characterisation of a collagenase from Bacillus cereus strain Q1. Sci Rep 2021; 11:4187. [PMID: 33603127 PMCID: PMC7893005 DOI: 10.1038/s41598-021-83744-6] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2020] [Accepted: 02/04/2021] [Indexed: 12/01/2022] Open
Abstract
Collagen is the most abundant protein in higher animals and as such it is a valuable source of amino acids and carbon for saprophytic bacteria. Due to its unique amino acid composition and triple-helical tertiary structure it can however only be cleaved by specialized proteases like the collagenases secreted by some bacteria. Among the best described bacterial collagenases are ColG and ColH from Clostridium histolyticum. Many Bacillus species contain homologues of clostridial collagenases, which play a role in some infections caused by B. cereus. Detailed biochemical and enzymatic characterizations of bacillial collagenases are however lacking at this time. In an effort to close this gap in knowledge we expressed ColQ1 from B. cereus strain Q1 recombinantly, investigated its metal dependency and performed peptide, gelatin and collagen degradation assays. Our results show that ColQ1 is a true collagenase, cleaving natively folded collagen six times more efficiently than ColG while at the same time being a similarly effective peptidase as ColH. In both ColQ1 and ColG the rate-limiting step in collagenolysis is the unwinding of the triple-helix. The data suggest an orchestrated multi-domain mechanism for efficient helicase activity.
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15
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Roch L, Prigent S, Klose H, Cakpo CB, Beauvoit B, Deborde C, Fouillen L, van Delft P, Jacob D, Usadel B, Dai Z, Génard M, Vercambre G, Colombié S, Moing A, Gibon Y. Biomass composition explains fruit relative growth rate and discriminates climacteric from non-climacteric species. JOURNAL OF EXPERIMENTAL BOTANY 2020; 71:5823-5836. [PMID: 32592486 PMCID: PMC7540837 DOI: 10.1093/jxb/eraa302] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Accepted: 06/23/2020] [Indexed: 05/13/2023]
Abstract
Fleshy fruits are very varied, whether in terms of their composition, physiology, or rate and duration of growth. To understand the mechanisms that link metabolism to phenotypes, which would help the targeting of breeding strategies, we compared eight fleshy fruit species during development and ripening. Three herbaceous (eggplant, pepper, and cucumber), three tree (apple, peach, and clementine) and two vine (kiwifruit and grape) species were selected for their diversity. Fruit fresh weight and biomass composition, including the major soluble and insoluble components, were determined throughout fruit development and ripening. Best-fitting models of fruit weight were used to estimate relative growth rate (RGR), which was significantly correlated with several biomass components, especially protein content (R=84), stearate (R=0.72), palmitate (R=0.72), and lignocerate (R=0.68). The strong link between biomass composition and RGR was further evidenced by generalized linear models that predicted RGR with R-values exceeding 0.9. Comparison of the fruit also showed that climacteric fruit (apple, peach, kiwifruit) contained more non-cellulosic cell-wall glucose and fucose, and more starch, than non-climacteric fruit. The rate of starch net accumulation was also higher in climacteric fruit. These results suggest that the way biomass is constructed has a major influence on performance, especially growth rate.
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Affiliation(s)
- Léa Roch
- UMR 1332 Biologie du Fruit et Pathologie, INRAE, Univ. Bordeaux, INRAE Nouvelle Aquitaine – Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
| | - Sylvain Prigent
- UMR 1332 Biologie du Fruit et Pathologie, INRAE, Univ. Bordeaux, INRAE Nouvelle Aquitaine – Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
| | - Holger Klose
- Institute for Biology, BioSC, RWTH Aachen University, Worringer Weg, Aachen, Germany
- Institute of Bio- and Geosciences, Plant Sciences (IBG-2), Forschungszentrum Jülich GmbH, Jülich, Germany
| | | | - Bertrand Beauvoit
- UMR 1332 Biologie du Fruit et Pathologie, INRAE, Univ. Bordeaux, INRAE Nouvelle Aquitaine – Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
| | - Catherine Deborde
- UMR 1332 Biologie du Fruit et Pathologie, INRAE, Univ. Bordeaux, INRAE Nouvelle Aquitaine – Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
- Bordeaux Metabolome, MetaboHUB, INRAE, Univ. Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
| | - Laetitia Fouillen
- Bordeaux Metabolome, MetaboHUB, INRAE, Univ. Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
- UMR 5200, CNRS, Univ. Bordeaux, Laboratoire de Biogenèse Membranaire, Avenue Edouard Bourlaux, Villenave d’Ornon, France
| | - Pierre van Delft
- Bordeaux Metabolome, MetaboHUB, INRAE, Univ. Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
- UMR 5200, CNRS, Univ. Bordeaux, Laboratoire de Biogenèse Membranaire, Avenue Edouard Bourlaux, Villenave d’Ornon, France
| | - Daniel Jacob
- UMR 1332 Biologie du Fruit et Pathologie, INRAE, Univ. Bordeaux, INRAE Nouvelle Aquitaine – Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
- Bordeaux Metabolome, MetaboHUB, INRAE, Univ. Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
| | - Björn Usadel
- Institute for Biology, BioSC, RWTH Aachen University, Worringer Weg, Aachen, Germany
- Institute of Bio- and Geosciences, Plant Sciences (IBG-2), Forschungszentrum Jülich GmbH, Jülich, Germany
| | - Zhanwu Dai
- UMR 1287 EGFV, INRAE, Univ. Bordeaux, Bordeaux Sci Agro, Villenave d’Ornon, France
| | | | | | - Sophie Colombié
- UMR 1332 Biologie du Fruit et Pathologie, INRAE, Univ. Bordeaux, INRAE Nouvelle Aquitaine – Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
| | - Annick Moing
- UMR 1332 Biologie du Fruit et Pathologie, INRAE, Univ. Bordeaux, INRAE Nouvelle Aquitaine – Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
- Bordeaux Metabolome, MetaboHUB, INRAE, Univ. Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
| | - Yves Gibon
- UMR 1332 Biologie du Fruit et Pathologie, INRAE, Univ. Bordeaux, INRAE Nouvelle Aquitaine – Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
- Bordeaux Metabolome, MetaboHUB, INRAE, Univ. Bordeaux, Avenue Edouard Bourlaux, Villenave d’Ornon, France
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16
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Player JK, Despain JT, Robison RA. Correlations between available primary amines, endospore coat thickness, and alkaline glutaraldehyde sensitivity for spores of select Bacillus species. Microbiologyopen 2020; 9:e1117. [PMID: 32996289 PMCID: PMC7658453 DOI: 10.1002/mbo3.1117] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2020] [Revised: 08/12/2020] [Accepted: 08/18/2020] [Indexed: 11/13/2022] Open
Abstract
Alkaline glutaraldehyde (GTA) is a high‐level chemical disinfectant/sterilant and has a broad microbial kill spectrum. The precise antimicrobial mechanism of GTA remains debated. GTA kill times are extremely variable across different organisms, illustrating the need for a better understanding of GTA kill mechanisms related to different organisms. A commonly proposed GTA kill mechanism suggests that it works by cross‐linking accessible primary amines on important surface proteins. If true, the antimicrobial activity of GTA may directly correlate to the number of these available functional groups. Bacillus species form highly resistant bacterial endospores that are commonly used as one of the most stringent test organisms for disinfection and sterilization. In this study, we compared the log reduction times of alkaline GTA on spores from 4 Bacillus species to fluorescent profiles generated using Alexa Fluor™ amine‐reactive dyes. GTA kill times were also compared to mean spore coat thicknesses as measured with scanning electron microscopy (SEM). Fluorescence values generated from bound amine‐reactive dye showed a strong, positive correlation to GTA susceptibility, as measured by GTA 6‐log10 reduction times. Spore coat thickness also showed a strong, positive correlation to reduction time values. Results support the hypothesis that GTA kill times are directly related to the number of available primary amines on bacterial endospores. Results also indicated that the killing efficacy of GTA may be influenced by its ability to penetrate the spore coat to reach additional targets, suggesting that damaging important biomolecules beyond surface proteins may be involved in GTA killing mechanisms.
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Affiliation(s)
- Jacob Kent Player
- Department of Microbiology and Molecular Biology, Brigham Young University, Provo, UT, USA
| | - Justen Thalmus Despain
- Department of Microbiology and Molecular Biology, Brigham Young University, Provo, UT, USA
| | - Richard A Robison
- Department of Microbiology and Molecular Biology, Brigham Young University, Provo, UT, USA
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17
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Derayea SM, Samir E. A review on the use of fluorescamine as versatile and convenient analytical probe. Microchem J 2020. [DOI: 10.1016/j.microc.2020.104835] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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18
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Ji Y. Effect of annealing on the functional properties of corn starch/corn oil/lysine blends. Int J Biol Macromol 2020; 144:553-559. [PMID: 31862368 DOI: 10.1016/j.ijbiomac.2019.12.122] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2019] [Revised: 12/04/2019] [Accepted: 12/14/2019] [Indexed: 11/15/2022]
Abstract
Annealing effects on the structure characteristics and the digestibility of corn starch (CS)/corn oil (oil)/lysine mixture were investigated. The objective of this study was to provide guidance for designing higher slowly digestible starch. Confocal laser confirmed that lysine adhered to granules surface. The interactions among starch, corn oil and lysine were further investigated by using X-ray diffraction (XRD), differential scanning calorimetry (DSC) and rapid visco analyzer (RVA). After annealing treatment, in vitro digestion studies showed that the content of slowly digestible starch increased in the mixture blended with corn oil and lysine. The physical barrier of lysine, amylose-lipid complex and starch-oil-lysine three-dimensional network can provide resistance to digestive enzymes. Annealing with corn oil and lysine can be a good prospect for the efficient modification of in vitro digestibility of starch.
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Affiliation(s)
- Ying Ji
- College of Life Sciences, Dalian Minzu University, 18 Liaohe Road West, Dalian Economic and Technological Development Zone, Dalian 116600, China.
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19
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Karatzas A, Haataja JS, Skoulas D, Bilalis P, Varlas S, Apostolidi P, Sofianopoulou S, Stratikos E, Houbenov N, Ikkala O, Iatrou H. Marcromolecular Architecture and Encapsulation of the Anticancer Drug Everolimus Control the Self-Assembly of Amphiphilic Polypeptide-Containing Hybrids. Biomacromolecules 2019; 20:4546-4562. [DOI: 10.1021/acs.biomac.9b01331] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Anastasis Karatzas
- University of Athens, Department of Chemistry, Panepistimiopolis, Zografou, 15771, Athens, Greece
| | - Johannes S. Haataja
- Aalto University, Department of Applied Physics, FI-00076, Aalto, Espoo, Finland
| | - Dimitrios Skoulas
- University of Athens, Department of Chemistry, Panepistimiopolis, Zografou, 15771, Athens, Greece
| | - Panayiotis Bilalis
- University of Athens, Department of Chemistry, Panepistimiopolis, Zografou, 15771, Athens, Greece
| | - Spyridon Varlas
- University of Athens, Department of Chemistry, Panepistimiopolis, Zografou, 15771, Athens, Greece
| | - Panagiota Apostolidi
- University of Athens, Department of Chemistry, Panepistimiopolis, Zografou, 15771, Athens, Greece
| | | | - Efstratios Stratikos
- National Centre for Scientific Research Demokritos, Patriarhou Gregoriou and Neapoleos 27, Agia Paraskevi 15341, Athens, Greece
| | - Nikolay Houbenov
- Aalto University, Department of Applied Physics, FI-00076, Aalto, Espoo, Finland
| | - Olli Ikkala
- Aalto University, Department of Applied Physics, FI-00076, Aalto, Espoo, Finland
| | - Hermis Iatrou
- University of Athens, Department of Chemistry, Panepistimiopolis, Zografou, 15771, Athens, Greece
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20
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Gmelch TJ, Sperl JM, Sieber V. Optimization of a reduced enzymatic reaction cascade for the production of L-alanine. Sci Rep 2019; 9:11754. [PMID: 31409820 PMCID: PMC6692406 DOI: 10.1038/s41598-019-48151-y] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2019] [Accepted: 07/25/2019] [Indexed: 11/09/2022] Open
Abstract
Cell-free enzymatic reaction cascades combine the advantages of well-established in vitro biocatalysis with the power of multi-step in vivo pathways. The absence of a regulatory cell environment enables direct process control including methods for facile bottleneck identification and process optimization. Within this work, we developed a reduced, enzymatic reaction cascade for the direct production of L-alanine from D-glucose and ammonium sulfate. An efficient, activity based enzyme selection is demonstrated for the two branches of the cascade. The resulting redox neutral cascade is composed of a glucose dehydrogenase, two dihydroxyacid dehydratases, a keto-deoxy-aldolase, an aldehyde dehydrogenase and an L-alanine dehydrogenase. This artificial combination of purified biocatalysts eliminates the need for phosphorylation and only requires NAD as cofactor. We provide insight into in detail optimization of the process parameters applying a fluorescamine based L-alanine quantification assay. An optimized enzyme ratio and the necessary enzyme load were identified and together with the optimal concentrations of cofactor (NAD), ammonium and buffer yields of >95% for the main branch and of 8% for the side branch were achieved.
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Affiliation(s)
- Tobias J Gmelch
- Chair of Chemistry of Biogenic Resources, Technical University of Munich, Campus Straubing for Biotechnology and Sustainability, Schulgasse 16, 94315, Straubing, Germany
| | - Josef M Sperl
- Chair of Chemistry of Biogenic Resources, Technical University of Munich, Campus Straubing for Biotechnology and Sustainability, Schulgasse 16, 94315, Straubing, Germany
| | - Volker Sieber
- Chair of Chemistry of Biogenic Resources, Technical University of Munich, Campus Straubing for Biotechnology and Sustainability, Schulgasse 16, 94315, Straubing, Germany. .,Catalysis Research Center, Technical University of Munich, Garching, Germany. .,Fraunhofer Institute of Interfacial Biotechnology (IGB), Bio-, Electro- and Chemo Catalysis (BioCat) Branch, Straubing, Germany. .,School of Chemistry and Molecular Biosciences, The University of Queensland, St. Lucia, QLD, Australia.
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21
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Murugayah SA, Warring SL, Gerth ML. Optimisation of a high-throughput fluorescamine assay for detection of N-acyl-l-homoserine lactone acylase activity. Anal Biochem 2018; 566:10-12. [PMID: 30391461 DOI: 10.1016/j.ab.2018.10.029] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2018] [Revised: 10/17/2018] [Accepted: 10/29/2018] [Indexed: 10/27/2022]
Abstract
N-acyl-l-homoserine lactone (AHL) acylases are a well-known group of enzymes that disrupt quorum sensing in Gram-negative bacteria by degrading AHL signalling molecules. This degradation of signalling molecules (termed 'quorum quenching') has potential uses in the prevention or reduction of biofilm formation and/or bacterial infections. Therefore, there is a great deal of interest in the identification and characterisation of quorum quenching enzymes. Here, we present an optimised fluorescamine-based assay for the detection of AHL acylase activity and demonstrate it can be used in a high-throughput screening format.
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Affiliation(s)
- Shereen A Murugayah
- Department of Biochemistry, University of Otago, Dunedin, 9054, New Zealand; Maurice Wilkins Centre for Molecular Biodiscovery, New Zealand
| | - Suzanne L Warring
- Department of Biochemistry, University of Otago, Dunedin, 9054, New Zealand
| | - Monica L Gerth
- Department of Biochemistry, University of Otago, Dunedin, 9054, New Zealand; Maurice Wilkins Centre for Molecular Biodiscovery, New Zealand.
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22
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Issa A, Esmaeel Q, Sanchez L, Courteaux B, Guise JF, Gibon Y, Ballias P, Clément C, Jacquard C, Vaillant-Gaveau N, Aït Barka E. Impacts of Paraburkholderia phytofirmans Strain PsJN on Tomato ( Lycopersicon esculentum L.) Under High Temperature. FRONTIERS IN PLANT SCIENCE 2018; 9:1397. [PMID: 30405648 PMCID: PMC6201190 DOI: 10.3389/fpls.2018.01397] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/06/2018] [Accepted: 09/03/2018] [Indexed: 05/24/2023]
Abstract
Abnormal temperatures induce physiological and biochemical changes resulting in the loss of yield. The present study investigates the impact of the PsJN strain of Paraburkholderia phytofirmans on tomato (Lycopersicon esculentum Mill.) in response to heat stress (32°C). The results of this work showed that bacterial inoculation with P. phytofirmans strain PsJN increased tomato growth parameters such as chlorophyll content and gas exchange at both normal and high temperatures (25 and 32°C). At normal temperature (25°C), the rate of photosynthesis and the photosystem II activity increased with significant accumulations of sugars, total amino acids, proline, and malate in the bacterized tomato plants, demonstrating that the PsJN strain had a positive effect on plant growth. However, the amount of sucrose, total amino acids, proline, and malate were significantly affected in tomato leaves at 32°C compared to that at 25°C. Changes in photosynthesis and chlorophyll fluorescence showed that the bacterized tomato plants were well acclimated at 32°C. These results reinforce the current knowledge about the PsJN strain of P. phytofirmans and highlight in particular its ability to alleviate the harmful effects of high temperatures by stimulating the growth and tolerance of tomato plants.
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Affiliation(s)
- Alaa Issa
- SFR Condorcet FR CNRS 3417, Unité de Recherche Résistance Induite et BioProtection des Plantes, UFR Sciences Exactes et Naturelles, Université de Reims Champagne-Ardenne, Reims, France
| | - Qassim Esmaeel
- SFR Condorcet FR CNRS 3417, Unité de Recherche Résistance Induite et BioProtection des Plantes, UFR Sciences Exactes et Naturelles, Université de Reims Champagne-Ardenne, Reims, France
| | - Lisa Sanchez
- SFR Condorcet FR CNRS 3417, Unité de Recherche Résistance Induite et BioProtection des Plantes, UFR Sciences Exactes et Naturelles, Université de Reims Champagne-Ardenne, Reims, France
| | - Barbara Courteaux
- SFR Condorcet FR CNRS 3417, Unité de Recherche Résistance Induite et BioProtection des Plantes, UFR Sciences Exactes et Naturelles, Université de Reims Champagne-Ardenne, Reims, France
| | - Jean-Francois Guise
- SFR Condorcet FR CNRS 3417, Unité de Recherche Résistance Induite et BioProtection des Plantes, UFR Sciences Exactes et Naturelles, Université de Reims Champagne-Ardenne, Reims, France
| | - Yves Gibon
- UMR 1332 Biologie du Fruit et Pathologie, INRA, Villenave-d’Ornon, France
| | - Patricia Ballias
- UMR 1332 Biologie du Fruit et Pathologie, INRA, Villenave-d’Ornon, France
| | - Christophe Clément
- SFR Condorcet FR CNRS 3417, Unité de Recherche Résistance Induite et BioProtection des Plantes, UFR Sciences Exactes et Naturelles, Université de Reims Champagne-Ardenne, Reims, France
| | - Cédric Jacquard
- SFR Condorcet FR CNRS 3417, Unité de Recherche Résistance Induite et BioProtection des Plantes, UFR Sciences Exactes et Naturelles, Université de Reims Champagne-Ardenne, Reims, France
| | - Nathalie Vaillant-Gaveau
- SFR Condorcet FR CNRS 3417, Unité de Recherche Résistance Induite et BioProtection des Plantes, UFR Sciences Exactes et Naturelles, Université de Reims Champagne-Ardenne, Reims, France
| | - Essaïd Aït Barka
- SFR Condorcet FR CNRS 3417, Unité de Recherche Résistance Induite et BioProtection des Plantes, UFR Sciences Exactes et Naturelles, Université de Reims Champagne-Ardenne, Reims, France
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23
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Naumann M, Hubberten HM, Watanabe M, Hänsch R, Schöttler MA, Hoefgen R. Sulfite Reductase Co-suppression in Tobacco Reveals Detoxification Mechanisms and Downstream Responses Comparable to Sulfate Starvation. FRONTIERS IN PLANT SCIENCE 2018; 9:1423. [PMID: 30374361 PMCID: PMC6196246 DOI: 10.3389/fpls.2018.01423] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2018] [Accepted: 09/07/2018] [Indexed: 05/30/2023]
Abstract
Sulfite reductase (SIR) is a key enzyme in higher plants in the assimilatory sulfate reduction pathway. SIR, being exclusively localized in plastids, catalyzes the reduction of sulfite (SO3 2-) to sulfide (S2-) and is essential for plant life. We characterized transgenic plants leading to co-suppression of the SIR gene in tobacco (Nicotiana tabacum cv. Samsun NN). Co-suppression resulted in reduced but not completely extinguished expression of SIR and in a reduction of SIR activity to about 20-50% of the activity in control plants. The reduction of SIR activity caused chlorotic and necrotic phenotypes in tobacco leaves, but with varying phenotype strength even among clones and increasing from young to old leaves. In transgenic plants compared to control plants, metabolite levels upstream of SIR accumulated, such as sulfite, sulfate and thiosulfate. The levels of downstream metabolites were reduced, such as cysteine, glutathione (GSH) and methionine. This metabolic signature resembles a sulfate deprivation phenotype as corroborated by the fact that O-acetylserine (OAS) accumulated. Further, chlorophyll contents, photosynthetic electron transport, and the contents of carbohydrates such as starch, sucrose, fructose, and glucose were reduced. Amino acid compositions were altered in a complex manner due to the reduction of contents of cysteine, and to some extent methionine. Interestingly, sulfide levels remained constant indicating that sulfide homeostasis is crucial for plant performance and survival. Additionally, this allows concluding that sulfide does not act as a signal in this context to control sulfate uptake and assimilation. The accumulation of upstream compounds hints at detoxification mechanisms and, additionally, a control exerted by the downstream metabolites on the sulfate uptake and assimilation system. Co-suppression lines showed increased sensitivity to additionally imposed stresses probably due to the accumulation of reactive compounds because of insufficient detoxification in combination with reduced GSH levels.
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Affiliation(s)
- Marcel Naumann
- Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
- Division of Quality of Plant Products, Department of Crop Sciences, University of Göttingen, Göttingen, Germany
| | | | - Mutsumi Watanabe
- Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
- Nara Institute of Science and Technology, Ikoma, Japan
| | - Robert Hänsch
- Department of Plant Biology, Technische Universität Braunschweig, Braunschweig, Germany
| | | | - Rainer Hoefgen
- Max Planck Institute of Molecular Plant Physiology, Potsdam, Germany
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24
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Bilalis P, Skoulas D, Karatzas A, Marakis J, Stamogiannos A, Tsimblouli C, Sereti E, Stratikos E, Dimas K, Vlassopoulos D, Iatrou H. Self-Healing pH- and Enzyme Stimuli-Responsive Hydrogels for Targeted Delivery of Gemcitabine To Treat Pancreatic Cancer. Biomacromolecules 2018; 19:3840-3852. [PMID: 30095907 DOI: 10.1021/acs.biomac.8b00959] [Citation(s) in RCA: 34] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023]
Abstract
A novel, multifunctional hydrogel that exhibits a unique set of properties for the effective treatment of pancreatic cancer (PC) is presented. The material is composed of a pentablock terpolypeptide of the type PLys- b-(PHIS- co-PBLG)-PLys- b-(PHIS- co-PBLG)- b-PLys, which is a noncytotoxic polypeptide. It can be implanted via the least invasive route and selectively delivers gemcitabine to efficiently treat PC. Simply mixing the novel terpolypeptide with an aqueous solution of gemcitabine within a syringe results in the facile formation of a hydrogel that has the ability to become liquid under the shear rate of the plunger. Upon injection in the vicinity of cancer tissue, it immediately reforms into a hydrogel due to the unique combination of its macromolecular architecture and secondary structure. Because of its pH responsiveness, the hydrogel only melts close to PC; thus, the drug can be delivered directionally toward the cancerous rather than healthy tissues in a targeted, controlled, and sustained manner. The efficacy of the hydrogel was tested in vivo on human to mouse xenografts using the drug gemcitabine. It was found that the efficacy of the hydrogel loaded with only 40% of the drug delivered in one dose was equal to or slightly better than the peritumoral injection of 100% of the free drug delivered in two doses, the typical chemotherapy used in clinics so far. This result suggests that the hydrogel can direct the delivery of the encapsulated drug effectively in the tumor tissue. Enzymes lead to its biodegradation, avoiding removal by resection of the polypeptidic carrier after cargo delivery. The unique properties of the hydrogel formed can be predetermined through its molecular characteristics, rendering it a promising modular material for many biological applications.
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Affiliation(s)
- Panayiotis Bilalis
- Department of Chemistry , University of Athens , Panepistimiopolis , Zografou , Athens 15771 , Greece
| | - Dimitrios Skoulas
- Department of Chemistry , University of Athens , Panepistimiopolis , Zografou , Athens 15771 , Greece
| | - Anastasios Karatzas
- Department of Chemistry , University of Athens , Panepistimiopolis , Zografou , Athens 15771 , Greece
| | - John Marakis
- FORTH, Institute for Electronic Structure and Laser , Heraklion 70013 , Greece.,Department of Materials Science & Technology , University of Crete , Heraklion 70013 , Greece
| | - Athanasios Stamogiannos
- National Centre for Scientific Research Demokritos, Patriarhou Gregoriou and Neapoleos 27 , Athens , Agia Paraskevi 15341 , Greece
| | - Chrisida Tsimblouli
- Department of Pharmacology, Faculty of Medicine , University of Thessaly , Larissa , Greece
| | - Evangelia Sereti
- Department of Pharmacology, Faculty of Medicine , University of Thessaly , Larissa , Greece
| | - Efstratios Stratikos
- National Centre for Scientific Research Demokritos, Patriarhou Gregoriou and Neapoleos 27 , Athens , Agia Paraskevi 15341 , Greece
| | - Konstantinos Dimas
- Department of Pharmacology, Faculty of Medicine , University of Thessaly , Larissa , Greece
| | - Dimitris Vlassopoulos
- FORTH, Institute for Electronic Structure and Laser , Heraklion 70013 , Greece.,Department of Materials Science & Technology , University of Crete , Heraklion 70013 , Greece
| | - Hermis Iatrou
- Department of Chemistry , University of Athens , Panepistimiopolis , Zografou , Athens 15771 , Greece
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25
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Wilson EM, Luft JC, DeSimone JM. Formulation of High-Performance Dry Powder Aerosols for Pulmonary Protein Delivery. Pharm Res 2018; 35:195. [PMID: 30141117 DOI: 10.1007/s11095-018-2452-z] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2018] [Accepted: 06/20/2018] [Indexed: 10/28/2022]
Abstract
PURPOSE Pulmonary delivery of biologics is of great interest, as it can be used for the local treatment of respiratory diseases or as a route to systemic drug delivery. To reach the full potential of inhaled biologics, a formulation platform capable of producing high performance aerosols without altering protein native structure is required. METHODS A formulation strategy using Particle Replication in Non-wetting Templates (PRINT) was developed to produce protein dry powders with precisely engineered particle morphology. Stability of the incorporated proteins was characterized and the aerosol properties of the protein dry powders was evaluated in vitro with an Andersen Cascade Impactor (ACI). RESULTS Model proteins bovine serum albumin (BSA) and lysozyme were micromolded into 1 μm cylinders composed of more than 80% protein, by mass. Extensive characterization of the incorporated proteins found no evidence of alteration of native structures. The BSA formulation produced a mass median aerodynamic diameter (MMAD) of 1.77 μm ± 0.06 and a geometric standard deviation (GSD) of 1.51 ± 0.06 while the lysozyme formulation had an MMAD of 1.83 μm ± 0.12 and a GSD of 1.44 ± 0.03. CONCLUSION Protein dry powders manufactured with PRINT could enable high-performance delivery of protein therapeutics to the lungs.
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Affiliation(s)
- Erin M Wilson
- Division of Pharmacoengineering and Molecular Pharmaceutics Eshelman School of Pharmacy, University of North Carolina at Chapel Hill,, Chapel Hill, North Carolina, USA
| | - J Christopher Luft
- Division of Pharmacoengineering and Molecular Pharmaceutics Eshelman School of Pharmacy, University of North Carolina at Chapel Hill,, Chapel Hill, North Carolina, USA
| | - Joseph M DeSimone
- Division of Pharmacoengineering and Molecular Pharmaceutics Eshelman School of Pharmacy, University of North Carolina at Chapel Hill,, Chapel Hill, North Carolina, USA. .,Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA. .,Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill,, Chapel Hill, North Carolina, USA. .,Department of Chemical and Biomolecular Engineering, North Carolina State University,, Raleigh, North Carolina, USA.
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26
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Fichtner F, Barbier FF, Feil R, Watanabe M, Annunziata MG, Chabikwa TG, Höfgen R, Stitt M, Beveridge CA, Lunn JE. Trehalose 6-phosphate is involved in triggering axillary bud outgrowth in garden pea (Pisum sativum L.). THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2017; 92:611-623. [PMID: 28869799 DOI: 10.1111/tpj.13705] [Citation(s) in RCA: 98] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2017] [Revised: 08/18/2017] [Accepted: 08/29/2017] [Indexed: 05/20/2023]
Abstract
Trehalose 6-phosphate (Tre6P) is a signal of sucrose availability in plants, and has been implicated in the regulation of shoot branching by the abnormal branching phenotypes of Arabidopsis (Arabidopsis thaliana) and maize (Zea mays) mutants with altered Tre6P metabolism. Decapitation of garden pea (Pisum sativum) plants has been proposed to release the dormancy of axillary buds lower down the stem due to changes in sucrose supply, and we hypothesized that this response is mediated by Tre6P. Decapitation led to a rapid and sustained rise in Tre6P levels in axillary buds, coinciding with the onset of bud outgrowth. This response was suppressed by simultaneous defoliation that restricts the supply of sucrose to axillary buds in decapitated plants. Decapitation also led to a rise in amino acid levels in buds, but a fall in phosphoenolpyruvate and 2-oxoglutarate. Supplying sucrose to stem node explants in vitro triggered a concentration-dependent increase in the Tre6P content of the buds that was highly correlated with their rate of outgrowth. These data show that changes in bud Tre6P levels are correlated with initiation of bud outgrowth following decapitation, suggesting that Tre6P is involved in the release of bud dormancy by sucrose. Tre6P might also be linked to a reconfiguration of carbon and nitrogen metabolism to support the subsequent growth of the bud into a new shoot.
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Affiliation(s)
- Franziska Fichtner
- Max Planck Institute of Molecular Plant Physiology, 14476, Potsdam-Golm, Germany
| | - Francois F Barbier
- School of Biological Sciences and the Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, QLD, 4072, Australia
| | - Regina Feil
- Max Planck Institute of Molecular Plant Physiology, 14476, Potsdam-Golm, Germany
| | - Mutsumi Watanabe
- Max Planck Institute of Molecular Plant Physiology, 14476, Potsdam-Golm, Germany
| | | | - Tinashe G Chabikwa
- School of Biological Sciences and the Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, QLD, 4072, Australia
| | - Rainer Höfgen
- Max Planck Institute of Molecular Plant Physiology, 14476, Potsdam-Golm, Germany
| | - Mark Stitt
- Max Planck Institute of Molecular Plant Physiology, 14476, Potsdam-Golm, Germany
| | - Christine A Beveridge
- School of Biological Sciences and the Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, QLD, 4072, Australia
| | - John E Lunn
- Max Planck Institute of Molecular Plant Physiology, 14476, Potsdam-Golm, Germany
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27
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Xue C, Lee YK, Tran J, Chang D, Guo Z. A mix-and-click method to measure amyloid-β concentration with sub-micromolar sensitivity. ROYAL SOCIETY OPEN SCIENCE 2017; 4:170325. [PMID: 28878984 PMCID: PMC5579099 DOI: 10.1098/rsos.170325] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/11/2017] [Accepted: 07/13/2017] [Indexed: 05/27/2023]
Abstract
Aggregation of amyloid-β (Aβ) protein plays a central role in Alzheimer's disease. Because protein aggregation is a concentration-dependent process, rigorous investigations require accurate concentration measurements. Owing to the high aggregation propensity of Aβ protein, working solutions of Aβ are typically in the low micromolar range. Therefore, an ideal Aβ quantification method requires high sensitivity without sacrificing speed and accuracy. Absorbance at 280 nm is frequently used to measure Aβ concentration, but the sensitivity is low with only one tyrosine and no tryptophan residues in the Aβ sequence. Here we present a fluorescence method for Aβ quantification using fluorescamine, which gives high fluorescence upon reaction with primary amines. We show that, using hen egg white lysozyme as a standard, fluorescence correlates linearly with primary amine concentration across a wide range of fluorescamine concentrations, from 62.5 to 1000 µM. The maximal sensitivity of detection is achieved at a fluorescamine concentration of 250 µM or higher. The fluorescamine method is compatible with the presence of dimethyl sulfoxide, which is commonly used in the preparation of Aβ oligomers, and limits the use of absorbance at 280 nm due to its high background reading. Using aggregation kinetics, we show that the fluorescamine method gives accurate concentration measurements at low micromolar range and leads to highly consistent aggregation data. We recommend the fluorescamine assay to be used for routine and on-the-fly concentration determination in Aβ oligomerization and fibrillization experiments.
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Affiliation(s)
| | | | | | | | - Zhefeng Guo
- Author for correspondence: Zhefeng Guo e-mail:
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28
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Qiu TA, Torelli MD, Vartanian AM, Rackstraw NB, Buchman JT, Jacob LM, Murphy CJ, Hamers RJ, Haynes CL. Quantification of Free Polyelectrolytes Present in Colloidal Suspension, Revealing a Source of Toxic Responses for Polyelectrolyte-Wrapped Gold Nanoparticles. Anal Chem 2017; 89:1823-1830. [DOI: 10.1021/acs.analchem.6b04161] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Affiliation(s)
- Tian A. Qiu
- Department
of Chemistry, University of Minnesota, 207 Pleasant Street SE, Minneapolis, Minnesota 55455, United States
| | - Marco D. Torelli
- Department
of Chemistry, University of Wisconsin—Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Ariane M. Vartanian
- Department
of Chemistry, University of Illinois at Urbana−Champaign, 600 S. Mathews Avenue, Urbana, Illinois 61801, United States
| | - Nathan B. Rackstraw
- Department
of Chemistry, University of Minnesota, 207 Pleasant Street SE, Minneapolis, Minnesota 55455, United States
| | - Joseph T. Buchman
- Department
of Chemistry, University of Minnesota, 207 Pleasant Street SE, Minneapolis, Minnesota 55455, United States
| | - Lisa M. Jacob
- Department
of Chemistry, University of Illinois at Urbana−Champaign, 600 S. Mathews Avenue, Urbana, Illinois 61801, United States
| | - Catherine J. Murphy
- Department
of Chemistry, University of Illinois at Urbana−Champaign, 600 S. Mathews Avenue, Urbana, Illinois 61801, United States
| | - Robert J. Hamers
- Department
of Chemistry, University of Wisconsin—Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Christy L. Haynes
- Department
of Chemistry, University of Minnesota, 207 Pleasant Street SE, Minneapolis, Minnesota 55455, United States
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29
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Antoine S, Pailly O, Gibon Y, Luro F, Santini J, Giannettini J, Berti L. Short- and long-term effects of carbohydrate limitation on sugar and organic acid accumulation during mandarin fruit growth. JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE 2016; 96:3906-3914. [PMID: 26694637 DOI: 10.1002/jsfa.7594] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2015] [Revised: 12/14/2015] [Accepted: 12/17/2015] [Indexed: 06/05/2023]
Abstract
BACKGROUND The physiological roles of organic acids in fruit cells are not fully understood, especially in citrus, whereas the decline in titratable acidity during ripening shown by many citrus fruits is due to the utilization of citric acid. We induced carbohydrate depletion by removing source leaves at two key periods in mandarin development (early and full citric acid accumulation). Then, we assessed the resulting changes in the short term (within 48 h) and long term (several weeks until ripening). RESULTS Control mature fruits were characterized by elevated fresh weight, large diameters and high quantities of malic acid, citric acid and sucrose. At the same stage, fruits subjected to early or late defoliation had higher glucose, fructose, citric acid concentrations and lower sucrose concentrations. They differed only in their malic acid concentrations, which were higher in early defoliation fruits and similar in late defoliation fruits when compared to control fruits. Finally, fruits subjected to late defoliation were characterized by high proline and γ-aminobutyric acid concentrations, and low fructose and glucose concentrations. CONCLUSION We have shown that short- and long-term carbohydrate limitation modifies sugar and organic acid metabolism during mandarin fruit growth. © 2015 Society of Chemical Industry.
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Affiliation(s)
- Sandrine Antoine
- UMR AGAP Corse, station INRA, F-20230, San Giuliano, France
- CNRS, UMR 6134 SPE, Laboratoire Biochimie et Biologie Moléculaire du Végétal, F-20250, Corte, France
| | - Olivier Pailly
- Unité Expérimentale Citrus - INRA, F-20230, San Giuliano, France
| | - Yves Gibon
- Institut National de la Recherche Agronomique and, Université de Bordeaux, Unité Mixte de Recherche 1332, Biologie du Fruit et Pathologie, F-33883, Villenave d'Ornon, France
- Plateforme Métabolome-Fluxome Bordeaux, BP 81, F-33140, Villenave d'Ornon, France
| | - François Luro
- UMR AGAP Corse, station INRA, F-20230, San Giuliano, France
| | - Jérémie Santini
- CNRS, UMR 6134 SPE, Laboratoire Biochimie et Biologie Moléculaire du Végétal, F-20250, Corte, France
| | - Jean Giannettini
- CNRS, UMR 6134 SPE, Laboratoire Biochimie et Biologie Moléculaire du Végétal, F-20250, Corte, France
| | - Liliane Berti
- CNRS, UMR 6134 SPE, Laboratoire Biochimie et Biologie Moléculaire du Végétal, F-20250, Corte, France
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30
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Lauxmann MA, Annunziata MG, Brunoud G, Wahl V, Koczut A, Burgos A, Olas JJ, Maximova E, Abel C, Schlereth A, Soja AM, Bläsing OE, Lunn JE, Vernoux T, Stitt M. Reproductive failure in Arabidopsis thaliana under transient carbohydrate limitation: flowers and very young siliques are jettisoned and the meristem is maintained to allow successful resumption of reproductive growth. PLANT, CELL & ENVIRONMENT 2016; 39:745-67. [PMID: 26351840 DOI: 10.1111/pce.12634] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/05/2015] [Revised: 08/21/2015] [Accepted: 08/24/2015] [Indexed: 05/21/2023]
Abstract
The impact of transient carbon depletion on reproductive growth in Arabidopsis was investigated by transferring long-photoperiod-grown plants to continuous darkness and returning them to a light-dark cycle. After 2 days of darkness, carbon reserves were depleted in reproductive sinks, and RNA in situ hybridization of marker transcripts showed that carbon starvation responses had been initiated in the meristem, anthers and ovules. Dark treatments of 2 or more days resulted in a bare-segment phenotype on the floral stem, with 23-27 aborted siliques. These resulted from impaired growth of immature siliques and abortion of mature and immature flowers. Depolarization of PIN1 protein and increased DII-VENUS expression pointed to rapid collapse of auxin gradients in the meristem and inhibition of primordia initiation. After transfer back to a light-dark cycle, flowers appeared and formed viable siliques and seeds. A similar phenotype was seen after transfer to sub-compensation point irradiance or CO2 . It also appeared in a milder form after a moderate decrease in irradiance and developed spontaneously in short photoperiods. We conclude that Arabidopsis inhibits primordia initiation and aborts flowers and very young siliques in C-limited conditions. This curtails demand, safeguarding meristem function and allowing renewal of reproductive growth when carbon becomes available again.
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Affiliation(s)
- Martin A Lauxmann
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Maria G Annunziata
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Géraldine Brunoud
- Laboratoire de Reproduction et Développement des Plantes, CNRS, INRA, ENS Lyon, UCBL, Université de Lyon, Lyon, 69364, France
| | - Vanessa Wahl
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Andrzej Koczut
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Asdrubal Burgos
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Justyna J Olas
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Eugenia Maximova
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Christin Abel
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Armin Schlereth
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Aleksandra M Soja
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Oliver E Bläsing
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
- Metanomics GmbH, Tegeler Weg 33, Berlin, 10589, Germany
| | - John E Lunn
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
| | - Teva Vernoux
- Laboratoire de Reproduction et Développement des Plantes, CNRS, INRA, ENS Lyon, UCBL, Université de Lyon, Lyon, 69364, France
| | - Mark Stitt
- Max Planck Institute of Molecular Plant Physiology, Potsdam-Golm, 14476, Germany
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31
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Kong B, Niu H, Sun F, Han J, Liu Q. Regulatory effect of porcine plasma protein hydrolysates on pasting and gelatinization action of corn starch. Int J Biol Macromol 2016; 82:637-44. [DOI: 10.1016/j.ijbiomac.2015.10.026] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2015] [Revised: 10/03/2015] [Accepted: 10/08/2015] [Indexed: 01/09/2023]
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32
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Infusion of catechin into native corn starch granules for drug and nutrient delivery systems. Food Sci Biotechnol 2015. [DOI: 10.1007/s10068-015-0270-1] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
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33
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Weston DJ, Rogers A, Tschaplinski TJ, Gunter LE, Jawdy SA, Engle NL, Heady LE, Tuskan GA, Wullschleger SD. Scaling nitrogen and carbon interactions: what are the consequences of biological buffering? Ecol Evol 2015; 5:2839-50. [PMID: 26306170 PMCID: PMC4541989 DOI: 10.1002/ece3.1565] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2015] [Accepted: 05/26/2015] [Indexed: 11/27/2022] Open
Abstract
Understanding the consequences of elevated CO2 (eCO2; 800 ppm) on terrestrial ecosystems is a central theme in global change biology, but relatively little is known about how altered plant C and N metabolism influences higher levels of biological organization. Here, we investigate the consequences of C and N interactions by genetically modifying the N-assimilation pathway in Arabidopsis and initiating growth chamber and mesocosm competition studies at current CO2 (cCO2; 400 ppm) and eCO2 over multiple generations. Using a suite of ecological, physiological, and molecular genomic tools, we show that a single-gene mutant of a key enzyme (nia2) elicited a highly orchestrated buffering response starting with a fivefold increase in the expression of a gene paralog (nia1) and a 63% increase in the expression of gene network module enriched for N-assimilation genes. The genetic perturbation reduced amino acids, protein, and TCA-cycle intermediate concentrations in the nia2 mutant compared to the wild-type, while eCO2 mainly increased carbohydrate concentrations. The mutant had reduced net photosynthetic rates due to a 27% decrease in carboxylation capacity and an 18% decrease in electron transport rates. The expression of these buffering mechanisms resulted in a penalty that negatively correlated with fitness and population dynamics yet showed only minor alterations in our estimates of population function, including total per unit area biomass, ground cover, and leaf area index. This study provides insight into the consequences of buffering mechanisms that occur post-genetic perturbations in the N pathway and the associated outcomes these buffering systems have on plant populations relative to eCO2.
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Affiliation(s)
- David J Weston
- Biosciences Division, Oak Ridge National Laboratory Oak Ridge, Tennessee, 37831-6407
| | - Alistair Rogers
- Biological, Environmental & Climate Sciences Department, Brookhaven National Laboratory Upton, New York, 11973-5000
| | | | - Lee E Gunter
- Biosciences Division, Oak Ridge National Laboratory Oak Ridge, Tennessee, 37831-6407
| | - Sara A Jawdy
- Biosciences Division, Oak Ridge National Laboratory Oak Ridge, Tennessee, 37831-6407
| | - Nancy L Engle
- Biosciences Division, Oak Ridge National Laboratory Oak Ridge, Tennessee, 37831-6407
| | - Lindsey E Heady
- Biological, Environmental & Climate Sciences Department, Brookhaven National Laboratory Upton, New York, 11973-5000
| | - Gerald A Tuskan
- Biosciences Division, Oak Ridge National Laboratory Oak Ridge, Tennessee, 37831-6407
| | - Stan D Wullschleger
- Environmental Sciences Division, Oak Ridge National Laboratory Oak Ridge, Tennessee, 37831-6301
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Wallace JG, Bradbury PJ, Zhang N, Gibon Y, Stitt M, Buckler ES. Association mapping across numerous traits reveals patterns of functional variation in maize. PLoS Genet 2014; 10:e1004845. [PMID: 25474422 PMCID: PMC4256217 DOI: 10.1371/journal.pgen.1004845] [Citation(s) in RCA: 147] [Impact Index Per Article: 14.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2014] [Accepted: 10/23/2014] [Indexed: 01/16/2023] Open
Abstract
Phenotypic variation in natural populations results from a combination of genetic effects, environmental effects, and gene-by-environment interactions. Despite the vast amount of genomic data becoming available, many pressing questions remain about the nature of genetic mutations that underlie functional variation. We present the results of combining genome-wide association analysis of 41 different phenotypes in ∼ 5,000 inbred maize lines to analyze patterns of high-resolution genetic association among of 28.9 million single-nucleotide polymorphisms (SNPs) and ∼ 800,000 copy-number variants (CNVs). We show that genic and intergenic regions have opposite patterns of enrichment, minor allele frequencies, and effect sizes, implying tradeoffs among the probability that a given polymorphism will have an effect, the detectable size of that effect, and its frequency in the population. We also find that genes tagged by GWAS are enriched for regulatory functions and are ∼ 50% more likely to have a paralog than expected by chance, indicating that gene regulation and gene duplication are strong drivers of phenotypic variation. These results will likely apply to many other organisms, especially ones with large and complex genomes like maize.
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Affiliation(s)
- Jason G Wallace
- Institute for Genomic Diversity, Cornell University, Ithaca, New York, United States of America
| | - Peter J Bradbury
- Institute for Genomic Diversity, Cornell University, Ithaca, New York, United States of America; United States Department of Agriculture-Agricultural Research Service, Ithaca, New York, United States of America
| | - Nengyi Zhang
- Institute for Genomic Diversity, Cornell University, Ithaca, New York, United States of America
| | - Yves Gibon
- Max Planck Institute of Molecular Plant Physiology, Golm-Potsdam, Germany; INRA, UMR 1332, Univ. Bordeaux, Villenave d'Ornon, France
| | - Mark Stitt
- Max Planck Institute of Molecular Plant Physiology, Golm-Potsdam, Germany
| | - Edward S Buckler
- Institute for Genomic Diversity, Cornell University, Ithaca, New York, United States of America; United States Department of Agriculture-Agricultural Research Service, Ithaca, New York, United States of America; Department of Plant Breeding and Genetics, Cornell University, Ithaca, New York, United States of America
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35
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Li W, Pierce BS. Steady-state substrate specificity and O₂-coupling efficiency of mouse cysteine dioxygenase. Arch Biochem Biophys 2014; 565:49-56. [PMID: 25444857 DOI: 10.1016/j.abb.2014.11.004] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2014] [Revised: 11/07/2014] [Accepted: 11/11/2014] [Indexed: 11/15/2022]
Abstract
Cysteine dioxygenase (CDO) is a non-heme mononuclear iron enzyme that catalyzes the oxygen-dependent oxidation of L-cysteine (Cys) to produce L-cysteine sulfinic acid (CSA). Sequence alignment of mammalian CDO with recently discovered thiol dioxygenase enzymes suggests that the mononuclear iron site within all enzymes in this class share a common 3-His first coordination sphere. This implies a similar mechanistic paradigm among thiol dioxygenase enzymes. Although steady-state studies were first reported for mammalian CDO over 45 years ago, detailed analysis of the specificity for alternative thiol-bearing substrates and their oxidative coupling efficiencies have not been reported for this enzyme. Assuming a similar mechanistic theme among this class of enzymes, characterization of the CDO substrate specificity may provide valuable insight into substrate-active site intermolecular during thiol oxidation. In this work, the substrate-specificity for wild-type Mus musculus CDO was investigated using NMR spectroscopy and LC-MS for a variety of thiol-bearing substrates. Tandem mass spectrometry was used to confirm dioxygenase activity for each non-native substrate investigated. Steady-state Michaelis-Menten parameters for sulfinic acid product formation and O₂-consumption were compared to establish the coupling efficiency for each reaction. In light of these results, the minimal substrate requirements for CDO catalysis and O₂-activation are discussed.
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Affiliation(s)
- Wei Li
- Department of Chemistry and Biochemistry, College of Sciences, The University of Texas at Arlington, Arlington, TX 76019, United States
| | - Brad S Pierce
- Department of Chemistry and Biochemistry, College of Sciences, The University of Texas at Arlington, Arlington, TX 76019, United States.
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Gilson A, Barthes L, Delpierre N, Dufrêne É, Fresneau C, Bazot S. Seasonal changes in carbon and nitrogen compound concentrations in a Quercus petraea chronosequence. TREE PHYSIOLOGY 2014; 34:716-729. [PMID: 25122620 DOI: 10.1093/treephys/tpu060] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Forest productivity declines with tree age. This decline may be due to changes in metabolic functions, resource availability and/or changes in resource allocation (between growth, reproduction and storage) with tree age. Carbon and nitrogen remobilization/storage processes are key to tree growth and survival. However, studies of the effects of tree age on these processes are scarce and have not yet considered seasonal carbon and nitrogen variations in situ. This study was carried out in a chronosequence of sessile oak (Quercus petraea Liebl.) for 1 year to survey the effects of tree age on the seasonal changes of carbon and nitrogen compounds in several tree compartments, focusing on key phenological stages. Our results highlight a general pattern of carbon and nitrogen function at all tree ages, with carbon reserve remobilization at budburst for growth, followed by carbon reserve formation during the leafy season and carbon reserve use during winter for maintenance. The variation in concentrations of nitrogen compounds shows less amplitude than that of carbon compounds. Storage as proteins occurs later, and mainly depends on leaf nitrogen remobilization and root uptake in autumn. We highlight several differences between tree age groups, in particular the loss of carbon storage function of fine and medium-sized roots with tree ageing. Moreover, the pattern of carbon compound accumulation in branches supports the hypothesis of a preferential allocation of carbon towards growth until the end of wood formation in juvenile trees, at the expense of the replenishment of carbon stores, while mature trees start allocating carbon to storage right after budburst. Our results demonstrate that at key phenological stages, physiological and developmental functions differ with tree age, and together with environmental conditions, influence the carbon and nitrogen concentration variations in sessile oaks.
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Affiliation(s)
- Angélique Gilson
- Université Paris-Sud, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France CNRS, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France AgroParisTech, UMR 8079, Laboratoire Ecologie Systématique et Evolution, F-75231 Paris, France
| | - Laure Barthes
- Université Paris-Sud, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France CNRS, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France AgroParisTech, UMR 8079, Laboratoire Ecologie Systématique et Evolution, F-75231 Paris, France
| | - Nicolas Delpierre
- Université Paris-Sud, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France CNRS, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France AgroParisTech, UMR 8079, Laboratoire Ecologie Systématique et Evolution, F-75231 Paris, France
| | - Éric Dufrêne
- Université Paris-Sud, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France CNRS, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France AgroParisTech, UMR 8079, Laboratoire Ecologie Systématique et Evolution, F-75231 Paris, France
| | - Chantal Fresneau
- Université Paris-Sud, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France CNRS, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France AgroParisTech, UMR 8079, Laboratoire Ecologie Systématique et Evolution, F-75231 Paris, France
| | - Stéphane Bazot
- Université Paris-Sud, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France CNRS, UMR 8079, Laboratoire Ecologie Systématique et Evolution, Orsay, F-91405 Orsay, France AgroParisTech, UMR 8079, Laboratoire Ecologie Systématique et Evolution, F-75231 Paris, France
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Plancke C, Vigeolas H, Höhner R, Roberty S, Emonds-Alt B, Larosa V, Willamme R, Duby F, Onga Dhali D, Thonart P, Hiligsmann S, Franck F, Eppe G, Cardol P, Hippler M, Remacle C. Lack of isocitrate lyase in Chlamydomonas leads to changes in carbon metabolism and in the response to oxidative stress under mixotrophic growth. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2014; 77:404-17. [PMID: 24286363 DOI: 10.1111/tpj.12392] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2013] [Revised: 10/30/2013] [Accepted: 11/21/2013] [Indexed: 05/10/2023]
Abstract
Isocitrate lyase is a key enzyme of the glyoxylate cycle. This cycle plays an essential role in cell growth on acetate, and is important for gluconeogenesis as it bypasses the two oxidative steps of the tricarboxylic acid (TCA) cycle in which CO₂ is evolved. In this paper, a null icl mutant of the green microalga Chlamydomonas reinhardtii is described. Our data show that isocitrate lyase is required for growth in darkness on acetate (heterotrophic conditions), as well as for efficient growth in the light when acetate is supplied (mixotrophic conditions). Under these latter conditions, reduced acetate assimilation and concomitant reduced respiration occur, and biomass composition analysis reveals an increase in total fatty acid content, including neutral lipids and free fatty acids. Quantitative proteomic analysis by ¹⁴N/¹⁵N labelling was performed, and more than 1600 proteins were identified. These analyses reveal a strong decrease in the amounts of enzymes of the glyoxylate cycle and gluconeogenesis in parallel with a shift of the TCA cycle towards amino acid synthesis, accompanied by an increase in free amino acids. The decrease of the glyoxylate cycle and gluconeogenesis, as well as the decrease in enzymes involved in β-oxidation of fatty acids in the icl mutant are probably major factors that contribute to remodelling of lipids in the icl mutant. These modifications are probably responsible for the elevation of the response to oxidative stress, with significantly augmented levels and activities of superoxide dismutase and ascorbate peroxidase, and increased resistance to paraquat.
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Affiliation(s)
- Charlotte Plancke
- Genetics of Microorganisms, Institute of Botany, B22, University of Liege, 4000, Liege, Belgium
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Zhang Q, Gong M. Prototyping of poly(dimethylsiloxane) interfaces for flow gating, reagent mixing, and tubing connection in capillary electrophoresis. J Chromatogr A 2014; 1324:231-7. [PMID: 24331370 PMCID: PMC4123544 DOI: 10.1016/j.chroma.2013.11.043] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2013] [Revised: 11/11/2013] [Accepted: 11/21/2013] [Indexed: 12/30/2022]
Abstract
Integrated microfluidic systems coupled with electrophoretic separations have broad application in biologic and chemical analysis. Interfaces for the connection of various functional parts play a major role in the performance of a system. Here, we developed a rapid prototyping method to fabricate monolithic poly(dimethylsiloxane) (PDMS) interfaces for flow-gated injection, online reagent mixing, and tube-to-tube connection in an integrated capillary electrophoresis (CE) system. The basic idea was based on the properties of PDMS: elasticity, transparency, and suitability for prototyping. The molds for these interfaces were prepared by using commercially available stainless steel wires and nylon lines or silica capillaries. A steel wire was inserted through the diameter of a nylon line and a cross format was obtained as the mold for PDMS casting of flow gates and 4-way mixers. These interfaces accommodated tubing connection through PDMS elasticity and provided easy visual trouble shooting. The flow gate used smaller channel diameters, thus reducing flow rate by 25-fold for effective gating compared with mechanically machined counterparts. Both PDMS mixers and the tube-to-tube connectors could minimize the sample dead volume by using an appropriate capillary configuration. As a whole, the prototyped PDMS interfaces are reusable, inexpensive, convenient for connection, and robust when integrated with the CE detection system. Therefore, these interfaces could see potential applications in CE and CE-coupled systems.
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Affiliation(s)
- Qiyang Zhang
- Department of Chemistry, Wichita State University, Wichita, Kansas, 67260, USA
| | - Maojun Gong
- Department of Chemistry, Wichita State University, Wichita, Kansas, 67260, USA.
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Remacle C, Eppe G, Coosemans N, Fernandez E, Vigeolas H. Combined intracellular nitrate and NIT2 effects on storage carbohydrate metabolism in Chlamydomonas. JOURNAL OF EXPERIMENTAL BOTANY 2014; 65:23-33. [PMID: 24187418 PMCID: PMC3883280 DOI: 10.1093/jxb/ert339] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Microalgae are receiving increasing attention as alternative production systems for renewable energy such as biofuel. The photosynthetic alga Chlamydomonas reinhardtii is widely recognized as the model system to study all aspects of algal physiology, including the molecular mechanisms underlying the accumulation of starch and triacylglycerol (TAG), which are the precursors of biofuel. All of these pathways not only require a carbon (C) supply but also are strongly dependent on a source of nitrogen (N) to sustain optimal growth rate and biomass production. In order to gain a better understanding of the regulation of C and N metabolisms and the accumulation of storage carbohydrates, the effect of different N sources (NH4NO3 and ) on primary metabolism using various mutants impaired in either NIA1, NIT2 or both loci was performed by metabolic analyses. The data demonstrated that, using NH4NO3, nia1 strain displayed the most striking phenotype, including an inhibition of growth, accumulation of intracellular nitrate, and strong starch and TAG accumulation. The measurements of the different C and N intermediate levels (amino, organic, and fatty acids), together with the determination of acetate and remaining in the medium, clearly excluded the hypothesis of a slower and acetate assimilation in this mutant in the presence of NH4NO3. The results provide evidence of the implication of intracellular nitrate and NIT2 in the control of C partitioning into different storage carbohydrates under mixotrophic conditions in Chlamydomonas. The underlying mechanisms and implications for strategies to increase biomass yield and storage product composition in oleaginous algae are discussed.
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Affiliation(s)
- C. Remacle
- University of Liege, Institute of Botany, B22, Genetics of Microorganisms, 4000 Liege, Belgium
| | - G. Eppe
- University of Liege, Inorganic Analytical Chemistry, LSM-CART, Allée de la Chimie B6c, 4000 Liege, Belgium
| | - N. Coosemans
- University of Liege, Institute of Botany, B22, Genetics of Microorganisms, 4000 Liege, Belgium
| | - E. Fernandez
- Departamento de Bioquımica y Biologıa Molecular, Facultad de Ciencias, Universidad de Cordoba, Campus de Rabanales, 14071 Cordoba, Spain
| | - H. Vigeolas
- University of Liege, Institute of Botany, B22, Genetics of Microorganisms, 4000 Liege, Belgium
- * To whom correspondence should be addressed.
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40
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Low M, Win KY, Ye E, Liu S, Ng SH, Zhou X, Han MY. Fluorogenic Quantification of Albumin. Aust J Chem 2014. [DOI: 10.1071/ch14083] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
By optimising various fluorogenic dyes, non-fluorescent fluorescamine can react with primary amines to form highly fluorescent products, which is a simple, fast, and sensitive method for the quantification of albumin. The effects of pH, temperature, and chemicals were studied systematically to quantify albumin. The quantification method is more sensitive at alkaline pHs, affording measurement of proteins concentrations as low as 15 µg mL–1. Denaturation of albumin at elevated temperatures and/or use of chemicals, such as ethanol and acetone, can greatly improve the sensitivity of the albumin detection method. The simple, accurate, and reliable analysis of albumin contents under favourable conditions can be developed as an important method for early diagnosis of kidney disease.
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Protoapigenone derivatives: Albumin binding properties and effects on HepG2 cells. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY 2013; 124:20-6. [DOI: 10.1016/j.jphotobiol.2013.04.002] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/17/2012] [Revised: 03/28/2013] [Accepted: 04/07/2013] [Indexed: 11/17/2022]
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42
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Harkouss R, Mirade PS, Gatellier P. Development of a rapid, specific and efficient procedure for the determination of proteolytic activity in dry-cured ham: Definition of a new proteolysis index. Meat Sci 2012; 92:84-8. [DOI: 10.1016/j.meatsci.2012.04.017] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2012] [Revised: 04/11/2012] [Accepted: 04/13/2012] [Indexed: 11/29/2022]
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43
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Functional polymers in protein detection platforms: optical, electrochemical, electrical, mass-sensitive, and magnetic biosensors. SENSORS 2012; 11:3327-55. [PMID: 21691441 PMCID: PMC3117287 DOI: 10.3390/s110303327] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
The rapidly growing field of proteomics and related applied sectors in the life sciences demands convenient methodologies for detecting and measuring the levels of specific proteins as well as for screening and analyzing for interacting protein systems. Materials utilized for such protein detection and measurement platforms should meet particular specifications which include ease-of-mass manufacture, biological stability, chemical functionality, cost effectiveness, and portability. Polymers can satisfy many of these requirements and are often considered as choice materials in various biological detection platforms. Therefore, tremendous research efforts have been made for developing new polymers both in macroscopic and nanoscopic length scales as well as applying existing polymeric materials for protein measurements. In this review article, both conventional and alternative techniques for protein detection are overviewed while focusing on the use of various polymeric materials in different protein sensing technologies. Among many available detection mechanisms, most common approaches such as optical, electrochemical, electrical, mass-sensitive, and magnetic methods are comprehensively discussed in this article. Desired properties of polymers exploited for each type of protein detection approach are summarized. Current challenges associated with the application of polymeric materials are examined in each protein detection category. Difficulties facing both quantitative and qualitative protein measurements are also identified. The latest efforts on the development and evaluation of nanoscale polymeric systems for improved protein detection are also discussed from the standpoint of quantitative and qualitative measurements. Finally, future research directions towards further advancements in the field are considered.
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44
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Imsand EM, Njeri CW, Ellis HR. Addition of an external electron donor to in vitro assays of cysteine dioxygenase precludes the need for exogenous iron. Arch Biochem Biophys 2012; 521:10-7. [PMID: 22433531 DOI: 10.1016/j.abb.2012.03.006] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2012] [Revised: 03/03/2012] [Accepted: 03/05/2012] [Indexed: 11/19/2022]
Abstract
Cysteine dioxygenase (CDO) utilizes a 3-His facial triad for coordination of its metal center. Recombinant CDO present in cellular lysate exists primarily in the ferrous form and exhibits significant catalytic activity. Removal of CDO from the reducing cellular environment during purification results in the loss of bound iron and oxidation of greater than 99% of the remaining metal centers. The as-isolated recombinant enzyme has comparable activity as the background level of L-cysteine oxidation confirming that CDO is inactive under the aerobic conditions required for catalysis. Including exogenous ferrous iron in assays resulted in non-enzymatic product formation; however, addition of an external reductant in assays of the purified protein resulted in the recovery of CDO activity. EPR spectroscopy of CDO in the presence of a reductant confirms that the recovered activity is consistent with reduction of iron to the ferrous form. The as-isolated enzyme in the presence of L-cysteine was nearly unreactive with the dioxygen analog, but had increased affinity when pre-incubated with an external reductant. These studies shed light on the discrepancies among reported kinetic parameters for CDO and also juxtapose the stability of the 3-His and 2-His/1-carboxylate ferrous enzymes in the presence of dioxygen.
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Affiliation(s)
- Erin M Imsand
- Department of Chemistry and Biochemistry, Auburn University, Auburn, AL 36849, USA
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45
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Steinhauser MC, Steinhauser D, Gibon Y, Bolger M, Arrivault S, Usadel B, Zamir D, Fernie AR, Stitt M. Identification of enzyme activity quantitative trait loci in a Solanum lycopersicum x Solanum pennellii introgression line population. PLANT PHYSIOLOGY 2011; 157:998-1014. [PMID: 21890649 PMCID: PMC3252166 DOI: 10.1104/pp.111.181594] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/08/2011] [Accepted: 08/27/2011] [Indexed: 05/03/2023]
Abstract
Activities of 28 enzymes from central carbon metabolism were measured in pericarp tissue of ripe tomato fruits from field trials with an introgression line (IL) population generated by introgressing segments of the genome of the wild relative Solanum pennellii (LA0716) into the modern tomato cultivar Solanum lycopersicum M82. Enzyme activities were determined using a robotized platform in optimized conditions, where the activities largely reflect the level of the corresponding proteins. Two experiments were analyzed from years with markedly different climate conditions. A total of 27 quantitative trait loci were shared in both experiments. Most resulted in increased enzyme activity when a portion of the S. lycopersicum genome was substituted with the corresponding portion of the genome of S. pennellii. This reflects the change in activity between the two parental genotypes. The mode of inheritance was studied in a heterozygote IL population. A similar proportion of quantitative trait loci (approximately 30%) showed additive, recessive, and dominant modes of inheritance, with only 5% showing overdominance. Comparison with the location of putative genes for the corresponding proteins indicates a large role of trans-regulatory mechanisms. These results point to the genetic control of individual enzyme activities being under the control of a complex program that is dominated by a network of trans-acting genes.
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46
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Heterogeneous immunoassay for soy protein determination using nile blue-doped silica nanoparticles as labels and front-surface long-wavelength fluorimetry. Anal Chim Acta 2011; 701:194-9. [DOI: 10.1016/j.aca.2011.06.005] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2011] [Revised: 05/30/2011] [Accepted: 06/02/2011] [Indexed: 11/20/2022]
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47
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Toker SE, Sağırlı O, Çetin SM, Önal A. A new HPLC method with fluorescence detection for the determination of memantine in human plasma. J Sep Sci 2011; 34:2645-9. [PMID: 21898816 DOI: 10.1002/jssc.201100489] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2011] [Revised: 07/07/2011] [Accepted: 07/09/2011] [Indexed: 11/10/2022]
Abstract
A sensitive, selective, simple and fast HPLC method based on the formation of derivative with fluorescamine was developed for the determination of memantine (ME) in human plasma. Separation was achieved on a CN column (200 mm×4.6 mm) using acetonitrile-10 mM orthophosphoric acid containing 1 mL/L triethylamine (45:55, v/v) at a flow rate of 1 mL/min. Emission and excitation wavelengths were 480 and 380 nm, respectively. Amantadine was used as an internal standard. Calibration graphs were rectilinear over the range of 1.0-100.0 ng/mL. Limit of detection and limit of quantification were found to be 0.3 and 1.0 ng/mL, respectively. Intra-day and inter-day relative standard deviation values were found to be <2.03%. Average recovery was also found to be around 94%. Proposed method was applied for the pharmacokinetic study in a healthy volunteer after a single oral administration of 20 mg of ME.
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Affiliation(s)
- Sıdıka E Toker
- Faculty of Pharmacy, Department of Analytical Chemistry, Istanbul University, Beyazit, Istanbul, Turkey.
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48
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Oh EK, Jin SE, Kim JK, Park JS, Park Y, Kim CK. Retained topical delivery of 5-aminolevulinic acid using cationic ultradeformable liposomes for photodynamic therapy. Eur J Pharm Sci 2011; 44:149-57. [PMID: 21782942 DOI: 10.1016/j.ejps.2011.07.003] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2010] [Revised: 06/10/2011] [Accepted: 07/05/2011] [Indexed: 11/30/2022]
Abstract
5-Aminolevulinic acid (5-ALA), inducing photodynamic protoporphyrin (PpIX), is a hydrophilic molecule, resulting in leashing the capacity to cross tissue barriers like stratum corneum (SC) of skin. Here, we aimed to develop 5-ALA loaded ultradeformable liposomes (UDL) with different surface charges, and to investigate their physicochemical characteristics and capability for the skin penetration and retention of 5-ALA for topical photodynamic therapy (PDT). The effects of surface charges of UDL on in vitro permeation of 5-ALA and in vivo accumulation of 5-ALA-induced PpIX in viable skin were determined and then compared with conventional neutral liposomes (nLiposome). All UDL showed smaller particle size and better deformability than nLiposome. However, entrapment efficiency of 5-ALA was similar to each vesicle. Among vesicles, the cationic UDL (cUDL) demonstrated higher stability and permeability, and could deliver 5-ALA into deep skin tissue by topical application. Moreover, the 5-ALA loaded in cUDL was long retained, and induced more amount of PpIX in viable skin than those in other UDL and nLiposome. Considering that the conversion of 5-ALA into PpIX occurs preferentially in epidermis, these results suggested that topical delivery of 5-ALA loaded in cUDL could be an interesting proposal to optimize PDT related to 5-ALA.
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Affiliation(s)
- Eun Kyung Oh
- College of Pharmacy, Seoul National University, Seoul, Republic of Korea
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Naguleswaran S, Li J, Vasanthan T, Bressler D. Distribution of Granule Channels, Protein, and Phospholipid in Triticale and Corn Starches as Revealed by Confocal Laser Scanning Microscopy. Cereal Chem 2011. [DOI: 10.1094/cchem-04-10-0062] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Sabaratnam Naguleswaran
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, Alberta T6G 2P5, Canada
| | - Jihong Li
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, Alberta T6G 2P5, Canada
| | - Thava Vasanthan
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, Alberta T6G 2P5, Canada
- Corresponding author. Phone: 1-780-492-2898. Fax: 1-780-492-8914. E-mail:
| | - David Bressler
- Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, Alberta T6G 2P5, Canada
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50
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Walash MI, Belal F, El-Enany N, El-Maghrabey MH. Simple and sensitive spectrofluorimetric method for the determination of pregabalin in capsules through derivatization with fluorescamine. LUMINESCENCE 2010; 26:342-8. [PMID: 20737649 DOI: 10.1002/bio.1235] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2010] [Revised: 06/09/2010] [Accepted: 06/15/2010] [Indexed: 11/07/2022]
Abstract
A new, simple and sensitive spectrofluorimetric method has been developed for the determination of pregabalin (PG) in capsules. The method is based on the reaction between pregabalin and fluorescamine in borate buffer solution of pH 10 to give a highly fluorescent derivative that is measured at 487 nm after excitation at 390 nm. The different experimental parameters affecting the development and stability of the reaction product were carefully studied and optimized. The fluorescence intensity concentration plot was rectilinear over the range of 0.01-0.3 µg mL⁻¹ with a lower detection limit of 0.0017 µg mL⁻¹ and limit of quantitation of 0.005 µg mL⁻¹. The developed method was successfully applied to the analysis of the drug in its commercial capsules. The mean percentage recovery of PG in its capsule was 99.93±1.24 (n = 3). Statistical comparison of the results with those of the comparison method revealed good agreement and proved that there was no significant difference in the accuracy and precision of the two methods. A proposed reaction pathway was postulated.
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Affiliation(s)
- M I Walash
- Department of Analytical Chemistry, Faculty of Pharmacy, University of Mansoura, 35516 Mansoura, Egypt
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