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Morisse S, Michelet L, Bedhomme M, Marchand CH, Calvaresi M, Trost P, Fermani S, Zaffagnini M, Lemaire SD. Thioredoxin-dependent redox regulation of chloroplastic phosphoglycerate kinase from Chlamydomonas reinhardtii. J Biol Chem 2014; 289:30012-24. [PMID: 25202015 DOI: 10.1074/jbc.m114.597997] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
In photosynthetic organisms, thioredoxin-dependent redox regulation is a well established mechanism involved in the control of a large number of cellular processes, including the Calvin-Benson cycle. Indeed, 4 of 11 enzymes of this cycle are activated in the light through dithiol/disulfide interchanges controlled by chloroplastic thioredoxin. Recently, several proteomics-based approaches suggested that not only four but all enzymes of the Calvin-Benson cycle may withstand redox regulation. Here, we characterized the redox features of the Calvin-Benson enzyme phosphoglycerate kinase (PGK1) from the eukaryotic green alga Chlamydomonas reinhardtii, and we show that C. reinhardtii PGK1 (CrPGK1) activity is inhibited by the formation of a single regulatory disulfide bond with a low midpoint redox potential (-335 mV at pH 7.9). CrPGK1 oxidation was found to affect the turnover number without altering the affinity for substrates, whereas the enzyme activation appeared to be specifically controlled by f-type thioredoxin. Using a combination of site-directed mutagenesis, thiol titration, mass spectrometry analyses, and three-dimensional modeling, the regulatory disulfide bond was shown to involve the not strictly conserved Cys(227) and Cys(361). Based on molecular mechanics calculation, the formation of the disulfide is proposed to impose structural constraints in the C-terminal domain of the enzyme that may lower its catalytic efficiency. It is therefore concluded that CrPGK1 might constitute an additional light-modulated Calvin-Benson cycle enzyme with a low activity in the dark and a TRX-dependent activation in the light. These results are also discussed from an evolutionary point of view.
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Affiliation(s)
- Samuel Morisse
- From CNRS, UMR8226, Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, 75005 Paris, France, the Sorbonne Universités, Université Pierre et Marie Curie (UPMC) Universit́ Paris 06, UMR8226, Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, 75005 Paris, France
| | - Laure Michelet
- From CNRS, UMR8226, Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, 75005 Paris, France, the Sorbonne Universités, Université Pierre et Marie Curie (UPMC) Universit́ Paris 06, UMR8226, Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, 75005 Paris, France
| | - Mariette Bedhomme
- From CNRS, UMR8226, Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, 75005 Paris, France, the Sorbonne Universités, Université Pierre et Marie Curie (UPMC) Universit́ Paris 06, UMR8226, Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, 75005 Paris, France
| | - Christophe H Marchand
- From CNRS, UMR8226, Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, 75005 Paris, France, the Sorbonne Universités, Université Pierre et Marie Curie (UPMC) Universit́ Paris 06, UMR8226, Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, 75005 Paris, France
| | - Matteo Calvaresi
- the Department of Chemistry "G. Ciamician," University of Bologna, 40126 Bologna, Italy
| | - Paolo Trost
- the Laboratory of Plant Redox Biology, Department of Pharmacy and Biotechnology, University of Bologna, 40126 Bologna, Italy, and
| | - Simona Fermani
- the Department of Chemistry "G. Ciamician," University of Bologna, 40126 Bologna, Italy
| | - Mirko Zaffagnini
- the Laboratory of Plant Redox Biology, Department of Pharmacy and Biotechnology, University of Bologna, 40126 Bologna, Italy, and
| | - Stéphane D Lemaire
- From CNRS, UMR8226, Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, 75005 Paris, France, the Sorbonne Universités, Université Pierre et Marie Curie (UPMC) Universit́ Paris 06, UMR8226, Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, Institut de Biologie Physico-Chimique, 75005 Paris, France,
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Lukesh JC, Wallin KK, Raines RT. Pyrazine-derived disulfide-reducing agent for chemical biology. Chem Commun (Camb) 2014; 50:9591-4. [PMID: 25014913 PMCID: PMC4237594 DOI: 10.1039/c4cc04491f] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
For fifty years, dithiothreitol (DTT) has been the preferred reagent for the reduction of disulfide bonds in proteins and other biomolecules. Herein we report on the synthesis and characterization of 2,3-bis(mercaptomethyl)pyrazine (BMMP), a readily accessible disulfide-reducing agent with reactivity under biological conditions that is markedly superior to DTT and other known reagents.
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Affiliation(s)
- John C Lukesh
- Department of Chemistry, University of Wisconsin-Madison, 1101 University Avenue, Madison, WI 53706-1322, USA.
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Guo J, Nguyen AY, Dai Z, Su D, Gaffrey MJ, Moore RJ, Jacobs JM, Monroe ME, Smith RD, Koppenaal DW, Pakrasi HB, Qian WJ. Proteome-wide light/dark modulation of thiol oxidation in cyanobacteria revealed by quantitative site-specific redox proteomics. Mol Cell Proteomics 2014; 13:3270-85. [PMID: 25118246 DOI: 10.1074/mcp.m114.041160] [Citation(s) in RCA: 68] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Reversible protein thiol oxidation is an essential regulatory mechanism of photosynthesis, metabolism, and gene expression in photosynthetic organisms. Herein, we present proteome-wide quantitative and site-specific profiling of in vivo thiol oxidation modulated by light/dark in the cyanobacterium Synechocystis sp. PCC 6803, an oxygenic photosynthetic prokaryote, using a resin-assisted thiol enrichment approach. Our proteomic approach integrates resin-assisted enrichment with isobaric tandem mass tag labeling to enable site-specific and quantitative measurements of reversibly oxidized thiols. The redox dynamics of ∼2,100 Cys-sites from 1,060 proteins under light, dark, and 3-(3,4-dichlorophenyl)-1,1-dimethylurea (a photosystem II inhibitor) conditions were quantified. In addition to relative quantification, the stoichiometry or percentage of oxidation (reversibly oxidized/total thiols) for ∼1,350 Cys-sites was also quantified. The overall results revealed broad changes in thiol oxidation in many key biological processes, including photosynthetic electron transport, carbon fixation, and glycolysis. Moreover, the redox sensitivity along with the stoichiometric data enabled prediction of potential functional Cys-sites for proteins of interest. The functional significance of redox-sensitive Cys-sites in NADP-dependent glyceraldehyde-3-phosphate dehydrogenase, peroxiredoxin (AhpC/TSA family protein Sll1621), and glucose 6-phosphate dehydrogenase was further confirmed with site-specific mutagenesis and biochemical studies. Together, our findings provide significant insights into the broad redox regulation of photosynthetic organisms.
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Affiliation(s)
- Jia Guo
- From the ‡Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, 99352
| | - Amelia Y Nguyen
- ¶Department of Biology, Washington University, St. Louis, Missouri, 63130
| | - Ziyu Dai
- ‖Energy and Efficiency Division, Pacific Northwest National Laboratory, Richland, Washington, 99352
| | - Dian Su
- From the ‡Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, 99352
| | - Matthew J Gaffrey
- From the ‡Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, 99352
| | - Ronald J Moore
- From the ‡Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, 99352
| | - Jon M Jacobs
- From the ‡Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, 99352
| | - Matthew E Monroe
- From the ‡Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, 99352
| | - Richard D Smith
- From the ‡Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, 99352; ‡‡Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, Washington, 99352
| | - David W Koppenaal
- ‡‡Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, Washington, 99352
| | - Himadri B Pakrasi
- ¶Department of Biology, Washington University, St. Louis, Missouri, 63130
| | - Wei-Jun Qian
- From the ‡Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington, 99352;
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Gaballa A, Chi BK, Roberts AA, Becher D, Hamilton CJ, Antelmann H, Helmann JD. Redox regulation in Bacillus subtilis: The bacilliredoxins BrxA(YphP) and BrxB(YqiW) function in de-bacillithiolation of S-bacillithiolated OhrR and MetE. Antioxid Redox Signal 2014; 21:357-67. [PMID: 24313874 PMCID: PMC4076974 DOI: 10.1089/ars.2013.5327] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
AIMS In bacillithiol (BSH)-utilizing organisms, protein S-bacillithiolation functions as a redox switch in response to oxidative stress and protects critical Cys residues against overoxidation. In Bacillus subtilis, both the redox-sensing repressor OhrR and the methionine synthase MetE are redox controlled by S-bacillithiolation in vivo. Here, we identify pathways of protein de-bacillithiolation and test the hypothesis that YphP(BrxA) and YqiW(BrxB) act as bacilliredoxins (Brx) to remove BSH from OhrR and MetE mixed disulfides. RESULTS We present evidence that the BrxA and BrxB paralogs have de-bacillithiolation activity. This Brx activity results from attack of the amino-terminal Cys residue in a CGC motif on protein BSH-mixed disulfides. B. subtilis OhrR DNA-binding activity is eliminated by S-thiolation on its sole Cys residue. Both the BrxA and BrxB bacilliredoxins mediate de-bacillithiolation of OhrR accompanied by the transfer of BSH to the amino-terminal cysteine of their CGC active site motif. In vitro studies demonstrate that BrxB can restore DNA-binding activity to OhrR which is S-bacillithiolated, but not to OhrR that is S-cysteinylated. MetE is most strongly S-bacillithiolated at Cys719 in vitro and can be efficiently de-bacillithiolated by both BrxA and BrxB. INNOVATION AND CONCLUSION We demonstrate that BrxA and BrxB function in the reduction of BSH mixed protein disulfides with two natural substrates (MetE, OhrR). These results provide biochemical evidence for a new class of bacterial redox-regulatory proteins, the bacilliredoxins, which function analogously to glutaredoxins. Bacilliredoxins function in concert with other thiol-disulfide oxidoreductases to maintain redox homeostasis in response to disulfide stress conditions.
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Affiliation(s)
- Ahmed Gaballa
- 1 Department of Microbiology, Cornell University , Ithaca, New York
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55
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Ansong C, Sadler NC, Hill EA, Lewis MP, Zink EM, Smith RD, Beliaev AS, Konopka AE, Wright AT. Characterization of protein redox dynamics induced during light-to-dark transitions and nutrient limitation in cyanobacteria. Front Microbiol 2014; 5:325. [PMID: 25071738 PMCID: PMC4080843 DOI: 10.3389/fmicb.2014.00325] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2014] [Accepted: 06/13/2014] [Indexed: 12/17/2022] Open
Abstract
Protein redox chemistry constitutes a major void in knowledge pertaining to photoautotrophic system regulation and signaling processes. We have employed a chemical biology approach to analyze redox sensitive proteins in live Synechococcus sp. PCC 7002 cells in both light and dark periods, and to understand how cellular redox balance is disrupted during nutrient perturbation. The present work identified 300 putative redox-sensitive proteins that are involved in the generation of reductant, macromolecule synthesis, and carbon flux through central metabolic pathways, and may be involved in cell signaling and response mechanisms. Furthermore, our research suggests that dynamic redox changes in response to specific nutrient limitations, including carbon and nitrogen limitations, contribute to the regulatory changes driven by a shift from light to dark. Taken together, these results contribute to a high-level understanding of post-translational mechanisms regulating flux distributions and suggest potential metabolic engineering targets for redirecting carbon toward biofuel precursors.
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Affiliation(s)
- Charles Ansong
- Biological Sciences Division, Pacific Northwest National Laboratory Richland, WA, USA
| | - Natalie C Sadler
- Biological Sciences Division, Pacific Northwest National Laboratory Richland, WA, USA
| | - Eric A Hill
- Biological Sciences Division, Pacific Northwest National Laboratory Richland, WA, USA
| | - Michael P Lewis
- Biological Sciences Division, Pacific Northwest National Laboratory Richland, WA, USA
| | - Erika M Zink
- Biological Sciences Division, Pacific Northwest National Laboratory Richland, WA, USA
| | - Richard D Smith
- Biological Sciences Division, Pacific Northwest National Laboratory Richland, WA, USA
| | - Alexander S Beliaev
- Biological Sciences Division, Pacific Northwest National Laboratory Richland, WA, USA
| | - Allan E Konopka
- Biological Sciences Division, Pacific Northwest National Laboratory Richland, WA, USA
| | - Aaron T Wright
- Biological Sciences Division, Pacific Northwest National Laboratory Richland, WA, USA
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56
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Uprety R, Luo J, Liu J, Naro Y, Samanta S, Deiters A. Genetic Encoding of Caged Cysteine and Caged Homocysteine in Bacterial and Mammalian Cells. Chembiochem 2014; 15:1793-9. [DOI: 10.1002/cbic.201400073] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2014] [Indexed: 12/19/2022]
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57
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Raghupathy V, Oommen A, Ramachandran A. Dimethylformamide interferes with Coomassie dye staining of proteins on blue native gel electrophoresis. Anal Biochem 2014; 455:1-2. [DOI: 10.1016/j.ab.2014.03.010] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2014] [Revised: 03/10/2014] [Accepted: 03/12/2014] [Indexed: 11/25/2022]
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58
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Yoshida K, Matsuoka Y, Hara S, Konno H, Hisabori T. Distinct Redox Behaviors of Chloroplast Thiol Enzymes and their Relationships with Photosynthetic Electron Transport in Arabidopsis thaliana. ACTA ACUST UNITED AC 2014; 55:1415-25. [DOI: 10.1093/pcp/pcu066] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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59
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Zhu M, Zhu N, Song WY, Harmon AC, Assmann SM, Chen S. Thiol-based redox proteins in abscisic acid and methyl jasmonate signaling in Brassica napus guard cells. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2014; 78:491-515. [PMID: 24580573 PMCID: PMC4019734 DOI: 10.1111/tpj.12490] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2013] [Revised: 12/22/2013] [Accepted: 02/17/2014] [Indexed: 05/19/2023]
Abstract
Reversibly oxidized cysteine sulfhydryl groups serve as redox sensors or targets of redox sensing that are important in various physiological processes. However, little is known about redox-sensitive proteins in guard cells and how they function in stomatal signaling. In this study, Brassica napus guard-cell proteins altered by redox in response to abscisic acid (ABA) or methyl jasmonate (MeJA) were identified by complementary proteomics approaches, saturation differential in-gel electrophoresis and isotope-coded affinity tagging. In total, 65 and 118 potential redox-responsive proteins were identified in ABA- and MeJA-treated guard cells, respectively. All the proteins contain at least one cysteine, and over half of them are predicted to form intra-molecular disulfide bonds. Most of the proteins fall into the functional groups of 'energy', 'stress and defense' and 'metabolism'. Based on the peptide sequences identified by mass spectrometry, 30 proteins were common to ABA- and MeJA-treated samples. A total of 44 cysteines were mapped in the identified proteins, and their levels of redox sensitivity were quantified. Two of the proteins, a sucrose non-fermenting 1-related protein kinase and an isopropylmalate dehydrogenase, were confirmed to be redox-regulated and involved in stomatal movement. This study creates an inventory of potential redox switches, and highlights a protein redox regulatory mechanism in ABA and MeJA signal transduction in guard cells.
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Affiliation(s)
- Mengmeng Zhu
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL 32610, USA
| | - Ning Zhu
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL 32610, USA
| | - Wen-yuan Song
- Department of Plant Pathology, University of Florida, Gainesville, FL 32610, USA
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA
| | - Alice C. Harmon
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL 32610, USA
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA
| | - Sarah M. Assmann
- Department of Biology, Pennsylvania State University, University Park, PA 16802, USA
| | - Sixue Chen
- Department of Biology, Genetics Institute, University of Florida, Gainesville, FL 32610, USA
- Plant Molecular and Cellular Biology Program, University of Florida, Gainesville, FL 32610, USA
- Interdisciplinary Center for Biotechnology Research, University of Florida, Gainesville, FL 32610, USA
- Corresponding author: Sixue Chen, Ph.D., Tel: (352) 273-8330; Fax: (352) 273-8284,
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Nikkanen L, Rintamäki E. Thioredoxin-dependent regulatory networks in chloroplasts under fluctuating light conditions. Philos Trans R Soc Lond B Biol Sci 2014; 369:20130224. [PMID: 24591711 PMCID: PMC3949389 DOI: 10.1098/rstb.2013.0224] [Citation(s) in RCA: 68] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Plants have adopted a number of mechanisms to restore redox homeostasis in the chloroplast under fluctuating light conditions in nature. Chloroplast thioredoxin systems are crucial components of this redox network, mediating environmental signals to chloroplast proteins. In the reduced state, thioredoxins control the structure and function of proteins by reducing disulfide bridges in the redox active site of a protein. Subsequently, an oxidized thioredoxin is reduced by a thioredoxin reductase, the two enzymes together forming a thioredoxin system. Plant chloroplasts have versatile thioredoxin systems, including two reductases dependent on ferredoxin and NADPH as reducing power, respectively, several types of thioredoxins, and the system to deliver thiol redox signals to the thylakoid membrane and lumen. Light controls the activity of chloroplast thioredoxin systems in two ways. First, light reactions activate the thioredoxin systems via donation of electrons to oxidized ferredoxin and NADP+, and second, light induces production of reactive oxygen species in chloroplasts which deactivate the components of the thiol redox network. The diversity and partial redundancy of chloroplast thioredoxin systems enable chloroplast metabolism to rapidly respond to ever-changing environmental conditions and to raise plant fitness in natural growth conditions.
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Affiliation(s)
- Lauri Nikkanen
- Molecular Plant Biology, Department of Biochemistry, University of Turku, , Turku 20014, Finland
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61
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Forman HJ, Ursini F, Maiorino M. An overview of mechanisms of redox signaling. J Mol Cell Cardiol 2014; 73:2-9. [PMID: 24512843 DOI: 10.1016/j.yjmcc.2014.01.018] [Citation(s) in RCA: 179] [Impact Index Per Article: 17.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/25/2013] [Revised: 01/24/2014] [Accepted: 01/27/2014] [Indexed: 10/25/2022]
Abstract
A principal characteristic of redox signaling is that it involves an oxidation-reduction reaction or covalent adduct formation between the sensor signaling protein and second messenger. Non-redox signaling may involve alteration of the second messenger as in hydrolysis of GTP by G proteins, modification of the signaling protein as in farnesylation, or simple non-covalent binding of an agonist or second messenger. The chemistry of redox signaling is reviewed here. Specifically we have described how among the so-called reactive oxygen species, only hydroperoxides clearly fit the role of a second messenger. Consideration of reaction kinetics and cellular location strongly suggests that for hydroperoxides, particular protein cysteines are the targets and that the requirements for redox signaling is that these cysteines are in microenvironments in which the cysteine is ionized to the thiolate, and a proton can be donated to form a leaving group. The chemistry described here is the same as occurs in the cysteine and selenocysteine peroxidases that are generally considered the primary defense against oxidative stress. But, these same enzymes can also act as the sensors and transducer for signaling. Conditions that would allow specific signaling by peroxynitrite and superoxide are also defined. Signaling by other electrophiles, which includes lipid peroxidation products, quinones formed from polyphenols and other metabolites also involves reaction with specific protein thiolates. Again, kinetics and location are the primary determinants that provide specificity required for physiological signaling although enzymatic catalysis is not likely involved. This article is part of a Special Issue entitled "Redox Signalling in the Cardiovascular System".
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Affiliation(s)
- Henry Jay Forman
- Life and Environmental Sciences Unit, University of California, Merced, 5200 N. Lake Road, Merced, CA 95344, USA; Andrus Gerontology Center of the Davis School of Gerontology, University of Southern, California, 3715 McClintock Avenue, Los Angeles, CA 90089-0191, USA.
| | - Fulvio Ursini
- Dipartmento di Medicina Molecolare, Università di Padova, Viale G. Colombo 3, I-35121 Padova, Italy
| | - Matilde Maiorino
- Dipartmento di Medicina Molecolare, Università di Padova, Viale G. Colombo 3, I-35121 Padova, Italy
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Chi BK, Busche T, Van Laer K, Bäsell K, Becher D, Clermont L, Seibold GM, Persicke M, Kalinowski J, Messens J, Antelmann H. Protein S-mycothiolation functions as redox-switch and thiol protection mechanism in Corynebacterium glutamicum under hypochlorite stress. Antioxid Redox Signal 2014; 20:589-605. [PMID: 23886307 PMCID: PMC3901351 DOI: 10.1089/ars.2013.5423] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
AIMS Protein S-bacillithiolation was recently discovered as important thiol protection and redox-switch mechanism in response to hypochlorite stress in Firmicutes bacteria. Here we used transcriptomics to analyze the NaOCl stress response in the mycothiol (MSH)-producing Corynebacterium glutamicum. We further applied thiol-redox proteomics and mass spectrometry (MS) to identify protein S-mycothiolation. RESULTS Transcriptomics revealed the strong upregulation of the disulfide stress σ(H) regulon by NaOCl stress in C. glutamicum, including genes for the anti sigma factor (rshA), the thioredoxin and MSH pathways (trxB1, trxC, cg1375, trxB, mshC, mca, mtr) that maintain the redox balance. We identified 25 S-mycothiolated proteins in NaOCl-treated cells by liquid chromatography-tandem mass spectrometry (LC-MS/MS), including 16 proteins that are reversibly oxidized by NaOCl in the thiol-redox proteome. The S-mycothiolome includes the methionine synthase (MetE), the maltodextrin phosphorylase (MalP), the myoinositol-1-phosphate synthase (Ino1), enzymes for the biosynthesis of nucleotides (GuaB1, GuaB2, PurL, NadC), and thiamine (ThiD), translation proteins (TufA, PheT, RpsF, RplM, RpsM, RpsC), and antioxidant enzymes (Tpx, Gpx, MsrA). We further show that S-mycothiolation of the thiol peroxidase (Tpx) affects its peroxiredoxin activity in vitro that can be restored by mycoredoxin1. LC-MS/MS analysis further identified 8 proteins with S-cysteinylations in the mshC mutant suggesting that cysteine can be used for S-thiolations in the absence of MSH. INNOVATION AND CONCLUSION We identified widespread protein S-mycothiolations in the MSH-producing C. glutamicum and demonstrate that S-mycothiolation reversibly affects the peroxidase activity of Tpx. Interestingly, many targets are conserved S-thiolated across bacillithiol- and MSH-producing bacteria, which could become future drug targets in related pathogenic Gram-positives.
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Affiliation(s)
- Bui Khanh Chi
- 1 Institute for Microbiology, Ernst-Moritz-Arndt-University of Greifswald , Greifswald, Germany
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63
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Sadler NC, Melnicki MR, Serres MH, Merkley ED, Chrisler WB, Hill EA, Romine MF, Kim S, Zink EM, Datta S, Smith RD, Beliaev AS, Konopka A, Wright AT. Live cell chemical profiling of temporal redox dynamics in a photoautotrophic cyanobacterium. ACS Chem Biol 2014; 9:291-300. [PMID: 24168666 DOI: 10.1021/cb400769v] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
Protein reduction-oxidation (redox) modification is an important mechanism that allows microorganisms to sense environmental changes and initiate cellular responses. We have developed a quantitative chemical probe approach for live cell labeling and imaging of proteins that are sensitive to redox modifications. We utilize this in vivo strategy to identify 176 proteins undergoing ∼5-10-fold dynamic redox change in response to nutrient limitation and subsequent replenishment in the photoautotrophic cyanobacterium Synechococcus sp. PCC 7002. We detect redox changes in as little as 30 s after nutrient perturbation and oscillations in reduction and oxidation for 60 min following the perturbation. Many of the proteins undergoing dynamic redox transformations participate in the major components for the production (photosystems and electron transport chains) or consumption (Calvin-Benson cycle and protein synthesis) of reductant and/or energy in photosynthetic organisms. Thus, our in vivo approach reveals new redox-susceptible proteins and validates those previously identified in vitro.
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Affiliation(s)
- Natalie C. Sadler
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Matthew R. Melnicki
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Margrethe H. Serres
- Bay
Paul Center, Marine Biological Laboratory, Woods Hole, Massachussetts 02543, United States
| | - Eric D. Merkley
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - William B. Chrisler
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Eric A. Hill
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Margaret F. Romine
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Sangtae Kim
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Erika M. Zink
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Suchitra Datta
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Richard D. Smith
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Alexander S. Beliaev
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Allan Konopka
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
| | - Aaron T. Wright
- Biological
Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States
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Panis C. Unraveling Oxidation-Induced Modifications in Proteins by Proteomics. ADVANCES IN PROTEIN CHEMISTRY AND STRUCTURAL BIOLOGY 2014; 94:19-38. [DOI: 10.1016/b978-0-12-800168-4.00002-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
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65
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Bingham PM, Stuart SD, Zachar Z. Cancer Metabolism: A Nexus of Matter, Energy, and Reactive Oxygen Species. CANCER DRUG DISCOVERY AND DEVELOPMENT 2014. [DOI: 10.1007/978-1-4614-9545-1_2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
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66
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Zaffagnini M, Michelet L, Sciabolini C, Di Giacinto N, Morisse S, Marchand CH, Trost P, Fermani S, Lemaire SD. High-resolution crystal structure and redox properties of chloroplastic triosephosphate isomerase from Chlamydomonas reinhardtii. MOLECULAR PLANT 2014; 7:101-20. [PMID: 24157611 DOI: 10.1093/mp/sst139] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/04/2023]
Abstract
Triosephosphate isomerase (TPI) catalyzes the interconversion of glyceraldehyde-3-phosphate to dihydroxyacetone phosphate. Photosynthetic organisms generally contain two isoforms of TPI located in both cytoplasm and chloroplasts. While the cytoplasmic TPI is involved in the glycolysis, the chloroplastic isoform participates in the Calvin-Benson cycle, a key photosynthetic process responsible for carbon fixation. Compared with its cytoplasmic counterpart, the functional features of chloroplastic TPI have been poorly investigated and its three-dimensional structure has not been solved. Recently, several studies proposed TPI as a potential target of different redox modifications including dithiol/disulfide interchanges, glutathionylation, and nitrosylation. However, neither the effects on protein activity nor the molecular mechanisms underlying these redox modifications have been investigated. Here, we have produced recombinantly and purified TPI from the unicellular green alga Chlamydomonas reinhardtii (Cr). The biochemical properties of the enzyme were delineated and its crystallographic structure was determined at a resolution of 1.1 Å. CrTPI is a homodimer with subunits containing the typical (β/α)8-barrel fold. Although no evidence for TRX regulation was obtained, CrTPI was found to undergo glutathionylation by oxidized glutathione and trans-nitrosylation by nitrosoglutathione, confirming its sensitivity to multiple redox modifications.
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Affiliation(s)
- Mirko Zaffagnini
- Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, FRE3354 Centre National de la Recherche Scientifique, Université Pierre et Marie Curie, Institut de Biologie Physico-Chimique, 13 rue Pierre et Marie Curie, 75005 Paris, France
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67
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Mailloux RJ, Jin X, Willmore WG. Redox regulation of mitochondrial function with emphasis on cysteine oxidation reactions. Redox Biol 2013; 2:123-39. [PMID: 24455476 PMCID: PMC3895620 DOI: 10.1016/j.redox.2013.12.011] [Citation(s) in RCA: 210] [Impact Index Per Article: 19.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2013] [Accepted: 12/13/2013] [Indexed: 12/13/2022] Open
Abstract
Mitochondria have a myriad of essential functions including metabolism and apoptosis. These chief functions are reliant on electron transfer reactions and the production of ATP and reactive oxygen species (ROS). The production of ATP and ROS are intimately linked to the electron transport chain (ETC). Electrons from nutrients are passed through the ETC via a series of acceptor and donor molecules to the terminal electron acceptor molecular oxygen (O2) which ultimately drives the synthesis of ATP. Electron transfer through the respiratory chain and nutrient oxidation also produces ROS. At high enough concentrations ROS can activate mitochondrial apoptotic machinery which ultimately leads to cell death. However, if maintained at low enough concentrations ROS can serve as important signaling molecules. Various regulatory mechanisms converge upon mitochondria to modulate ATP synthesis and ROS production. Given that mitochondrial function depends on redox reactions, it is important to consider how redox signals modulate mitochondrial processes. Here, we provide the first comprehensive review on how redox signals mediated through cysteine oxidation, namely S-oxidation (sulfenylation, sulfinylation), S-glutathionylation, and S-nitrosylation, regulate key mitochondrial functions including nutrient oxidation, oxidative phosphorylation, ROS production, mitochondrial permeability transition (MPT), apoptosis, and mitochondrial fission and fusion. We also consider the chemistry behind these reactions and how they are modulated in mitochondria. In addition, we also discuss emerging knowledge on disorders and disease states that are associated with deregulated redox signaling in mitochondria and how mitochondria-targeted medicines can be utilized to restore mitochondrial redox signaling.
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Affiliation(s)
- Ryan J. Mailloux
- Institute of Biochemistry, Carleton University, 1125 Colonel By Drive, Ottawa, Ontario, Canada K1S 5B6
- Toxicology Research Division, Food Directorate, HPFB, Health Canada, Ottawa, Ontario, Canada K1A 0K9
| | - Xiaolei Jin
- Toxicology Research Division, Food Directorate, HPFB, Health Canada, Ottawa, Ontario, Canada K1A 0K9
| | - William G. Willmore
- Institute of Biochemistry, Carleton University, 1125 Colonel By Drive, Ottawa, Ontario, Canada K1S 5B6
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68
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Wright AT, Magnaldo T, Sontag RL, Anderson LN, Sadler NC, Piehowski PD, Gache Y, Weber TJ. Deficient expression of aldehyde dehydrogenase 1A1 is consistent with increased sensitivity of Gorlin syndrome patients to radiation carcinogenesis. Mol Carcinog 2013; 54:473-84. [PMID: 24285572 DOI: 10.1002/mc.22115] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2013] [Revised: 10/28/2013] [Accepted: 11/07/2013] [Indexed: 12/30/2022]
Abstract
Human phenotypes that are highly susceptible to radiation carcinogenesis have been identified. Sensitive phenotypes often display robust regulation of molecular features that modify biological response, which can facilitate identification of the pathways/networks that contribute to pathophysiological outcomes. Here we interrogate primary dermal fibroblasts isolated from Gorlin syndrome patients (GDFs), who display a pronounced inducible tumorigenic response to radiation, in comparison to normal human dermal fibroblasts (NHDFs). Our approach exploits newly developed thiol reactive probes to define changes in protein thiol profiles in live cell studies, which minimizes artifacts associated with cell lysis. Redox probes revealed deficient expression of an apparent 55 kDa protein thiol in GDFs from independent Gorlin syndrome patients, compared with NHDFs. Proteomics tentatively identified this protein as aldehyde dehydrogenase 1A1 (ALDH1A1), a key enzyme regulating retinoic acid synthesis, and ALDH1A1 protein deficiency in GDFs was confirmed by Western blot. A number of additional protein thiol differences in GDFs were identified, including radiation responsive annexin family members and lamin A/C. Collectively, candidates identified in our study have plausible implications for radiation health effects and cancer susceptibility.
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Affiliation(s)
- Aaron T Wright
- Omic Biological Applications, Pacific Northwest National Laboratory, Richland, Washington
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69
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Michelet L, Zaffagnini M, Morisse S, Sparla F, Pérez-Pérez ME, Francia F, Danon A, Marchand CH, Fermani S, Trost P, Lemaire SD. Redox regulation of the Calvin-Benson cycle: something old, something new. FRONTIERS IN PLANT SCIENCE 2013; 4:470. [PMID: 24324475 PMCID: PMC3838966 DOI: 10.3389/fpls.2013.00470] [Citation(s) in RCA: 266] [Impact Index Per Article: 24.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2013] [Accepted: 10/30/2013] [Indexed: 05/18/2023]
Abstract
Reversible redox post-translational modifications such as oxido-reduction of disulfide bonds, S-nitrosylation, and S-glutathionylation, play a prominent role in the regulation of cell metabolism and signaling in all organisms. These modifications are mainly controlled by members of the thioredoxin and glutaredoxin families. Early studies in photosynthetic organisms have identified the Calvin-Benson cycle, the photosynthetic pathway responsible for carbon assimilation, as a redox regulated process. Indeed, 4 out of 11 enzymes of the cycle were shown to have a low activity in the dark and to be activated in the light through thioredoxin-dependent reduction of regulatory disulfide bonds. The underlying molecular mechanisms were extensively studied at the biochemical and structural level. Unexpectedly, recent biochemical and proteomic studies have suggested that all enzymes of the cycle and several associated regulatory proteins may undergo redox regulation through multiple redox post-translational modifications including glutathionylation and nitrosylation. The aim of this review is to detail the well-established mechanisms of redox regulation of Calvin-Benson cycle enzymes as well as the most recent reports indicating that this pathway is tightly controlled by multiple interconnected redox post-translational modifications. This redox control is likely allowing fine tuning of the Calvin-Benson cycle required for adaptation to varying environmental conditions, especially during responses to biotic and abiotic stresses.
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Affiliation(s)
- Laure Michelet
- Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, FRE3354 Centre National de la Recherche Scientifique, Institut de Biologie Physico-Chimique, Université Pierre et Marie CurieParis, France
| | - Mirko Zaffagnini
- Laboratory of Plant Redox Biology, Department of Pharmacy and Biotechnology (FaBiT), University of BolognaBologna, Italy
| | - Samuel Morisse
- Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, FRE3354 Centre National de la Recherche Scientifique, Institut de Biologie Physico-Chimique, Université Pierre et Marie CurieParis, France
| | - Francesca Sparla
- Laboratory of Plant Redox Biology, Department of Pharmacy and Biotechnology (FaBiT), University of BolognaBologna, Italy
| | - María Esther Pérez-Pérez
- Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, FRE3354 Centre National de la Recherche Scientifique, Institut de Biologie Physico-Chimique, Université Pierre et Marie CurieParis, France
| | - Francesco Francia
- Laboratory of Plant Redox Biology, Department of Pharmacy and Biotechnology (FaBiT), University of BolognaBologna, Italy
| | - Antoine Danon
- Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, FRE3354 Centre National de la Recherche Scientifique, Institut de Biologie Physico-Chimique, Université Pierre et Marie CurieParis, France
| | - Christophe H. Marchand
- Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, FRE3354 Centre National de la Recherche Scientifique, Institut de Biologie Physico-Chimique, Université Pierre et Marie CurieParis, France
| | - Simona Fermani
- Department of Chemistry “G. Ciamician”, University of BolognaBologna, Italy
| | - Paolo Trost
- Laboratory of Plant Redox Biology, Department of Pharmacy and Biotechnology (FaBiT), University of BolognaBologna, Italy
| | - Stéphane D. Lemaire
- Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, FRE3354 Centre National de la Recherche Scientifique, Institut de Biologie Physico-Chimique, Université Pierre et Marie CurieParis, France
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70
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Mailloux RJ, McBride SL, Harper ME. Unearthing the secrets of mitochondrial ROS and glutathione in bioenergetics. Trends Biochem Sci 2013; 38:592-602. [PMID: 24120033 DOI: 10.1016/j.tibs.2013.09.001] [Citation(s) in RCA: 203] [Impact Index Per Article: 18.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2013] [Revised: 09/04/2013] [Accepted: 09/05/2013] [Indexed: 01/06/2023]
Abstract
During the cellular oxidation of fuels, electrons are used to power the proton pumps of the mitochondrial electron transport chain (ETC) and ultimately drive ATP synthesis and the reduction of molecular oxygen to water. During these oxidative processes, some electrons can 'spin off' during fuel oxidation and electron transport to univalently reduce O2, forming reactive oxygen species (ROS). In excess, ROS can be detrimental; however, at low concentrations oxyradicals are essential signaling molecules. Mitochondria thus use a battery of systems to finely control types and levels of ROS, including antioxidants. Several antioxidant systems depend on glutathione. Here, we review mitochondrial ROS homeostatic systems, including emerging knowledge about roles of glutathione in redox balance and the control of protein function by post-translational modification.
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Affiliation(s)
- Ryan J Mailloux
- Department of Biochemistry, Microbiology, and Immunology, Faculty of Medicine, University of Ottawa, Ottawa, Ontario, Canada
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71
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Ratnayake S, Dias IH, Lattman E, Griffiths HR. Stabilising cysteinyl thiol oxidation and nitrosation for proteomic analysis. J Proteomics 2013; 92:160-70. [DOI: 10.1016/j.jprot.2013.06.019] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2013] [Revised: 06/05/2013] [Accepted: 06/09/2013] [Indexed: 10/26/2022]
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72
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Deng X, Weerapana E, Ulanovskaya O, Sun F, Liang H, Ji Q, Ye Y, Fu Y, Zhou L, Li J, Zhang H, Wang C, Alvarez S, Hicks LM, Lan L, Wu M, Cravatt BF, He C. Proteome-wide quantification and characterization of oxidation-sensitive cysteines in pathogenic bacteria. Cell Host Microbe 2013; 13:358-70. [PMID: 23498960 DOI: 10.1016/j.chom.2013.02.004] [Citation(s) in RCA: 89] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2012] [Revised: 12/03/2012] [Accepted: 02/11/2013] [Indexed: 12/29/2022]
Abstract
Thiol-group oxidation of active and allosteric cysteines is a widespread regulatory posttranslational protein modification. Pathogenic bacteria, including Pseudomonas aeruginosa and Staphylococcus aureus, use regulatory cysteine oxidation to respond to and overcome reactive oxygen species (ROS) encountered in the host environment. To obtain a proteome-wide view of oxidation-sensitive cysteines in these two pathogens, we employed a competitive activity-based protein profiling approach to globally quantify hydrogen peroxide (H2O2) reactivity with cysteines across bacterial proteomes. We identified ∼200 proteins containing H2O2-sensitive cysteines, including metabolic enzymes, transcription factors, and uncharacterized proteins. Additional biochemical and genetic studies identified an oxidation-responsive cysteine in the master quorum-sensing regulator LasR and redox-regulated activities for acetaldehyde dehydrogenase ExaC, arginine deiminase ArcA, and glyceraldehyde 3-phosphate dehydrogenase. Taken together, our data indicate that pathogenic bacteria exhibit a complex, multilayered response to ROS that includes the rapid adaption of metabolic pathways to oxidative-stress challenge.
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Affiliation(s)
- Xin Deng
- Department of Chemistry and Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL 60637, USA
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73
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Lee CF, Paull TT, Person MD. Proteome-wide detection and quantitative analysis of irreversible cysteine oxidation using long column UPLC-pSRM. J Proteome Res 2013; 12:4302-15. [PMID: 23964713 DOI: 10.1021/pr400201d] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Reactive oxygen species (ROS) play an important role in normal biological functions and pathological processes. ROS is one of the driving forces for oxidizing proteins, especially on cysteine thiols. The labile, transient, and dynamic nature of oxidative modifications poses enormous technical challenges for both accurate modification site determination and quantitation of cysteine thiols. The present study describes a mass spectrometry-based approach that allows effective discovery and quantification of irreversible cysteine modifications. The utilization of a long reverse phase column provides high-resolution chromatography to separate different forms of modified cysteine thiols from protein complexes or cell lysates. This Fourier transform mass spectrometry (FT-MS) approach enabled detection and quantitation of ataxia telangiectasia mutated (ATM) complex cysteine sulfoxidation states using Skyline MS1 filtering. When we applied the long column ultra high pressure liquid chromatography (UPLC)-MS/MS analysis, 61 and 44 peptides from cell lysates and cells were identified with cysteine modifications in response to in vitro and in vivo H2O2 oxidation, respectively. Long column ultra high pressure liquid chromatography pseudo selected reaction monitoring (UPLC-pSRM) was then developed to monitor the oxidative level of cysteine thiols in cell lysate under varying concentrations of H2O2 treatment. From UPLC-pSRM analysis, the dynamic conversion of sulfinic (S-O2H) and sulfonic acid (S-O3H) was observed within nucleoside diphosphate kinase (Nm23-H1) and heat shock 70 kDa protein 8 (Hsc70). These methods are suitable for proteome-wide studies, providing a highly sensitive, straightforward approach to identify proteins containing redox-sensitive cysteine thiols in biological systems.
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Affiliation(s)
- Chia-Fang Lee
- Proteomics Facility, College of Pharmacy, ‡the Howard Hughes Medical Institute, the Department of Molecular Genetics & Microbiology, and the Institute for Cellular and Molecular Biology, The University of Texas at Austin , Austin, Texas 78712, United States
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74
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Menon D, Board PG. A role for glutathione transferase Omega 1 (GSTO1-1) in the glutathionylation cycle. J Biol Chem 2013; 288:25769-25779. [PMID: 23888047 DOI: 10.1074/jbc.m113.487785] [Citation(s) in RCA: 98] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
Abstract
The glutathionylation of intracellular protein thiols can protect against irreversible oxidation and can act as a redox switch regulating metabolic pathways. In this study we discovered that the Omega class glutathione transferase GSTO1-1 plays a significant role in the glutathionylation cycle. The catalytic activity of GSTO1-1 was determined in vitro by assaying the deglutathionylation of a synthetic peptide by tryptophan fluorescence quenching and in T47-D epithelial breast cancer cells by both immunoblotting and the direct determination of total glutathionylation. Mutating the active site cysteine residue (Cys-32) ablated the deglutathionylating activity of GSTO1-1. Furthermore, we demonstrate that the expression of GSTO1-1 in T47-D cells that are devoid of endogenous GSTO1-1 resulted in a 50% reduction in total glutathionylation levels. Mass spectrometry and immunoprecipitation identified β-actin as a protein that is specifically deglutathionylated by GSTO1-1 in T47-D cells. In contrast to the deglutathionylation activity, we also found that GSTO1-1 is associated with the rapid glutathionylation of cellular proteins when the cells are exposed to S-nitrosoglutathione. The common A140D genetic polymorphism in GSTO1 was found to have significant effects on the kinetics of both the deglutathionylation and glutathionylation reactions. Genetic variation in GSTO1-1 has been associated with a range of diseases, and the discovery that a frequent GSTO1-1 polymorphism affects glutathionylation cycle reactions reveals a common mechanism where it can act on multiple proteins and pathways.
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Affiliation(s)
- Deepthi Menon
- From the Department of Molecular Bioscience, John Curtin School of Medical Research, Australian National University, Canberra ACT-2600, Australia
| | - Philip G Board
- From the Department of Molecular Bioscience, John Curtin School of Medical Research, Australian National University, Canberra ACT-2600, Australia.
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75
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Vatansever F, de Melo WCMA, Avci P, Vecchio D, Sadasivam M, Gupta A, Chandran R, Karimi M, Parizotto NA, Yin R, Tegos GP, Hamblin MR. Antimicrobial strategies centered around reactive oxygen species--bactericidal antibiotics, photodynamic therapy, and beyond. FEMS Microbiol Rev 2013; 37:955-89. [PMID: 23802986 DOI: 10.1111/1574-6976.12026] [Citation(s) in RCA: 578] [Impact Index Per Article: 52.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2012] [Revised: 05/15/2013] [Accepted: 05/16/2013] [Indexed: 12/13/2022] Open
Abstract
Reactive oxygen species (ROS) can attack a diverse range of targets to exert antimicrobial activity, which accounts for their versatility in mediating host defense against a broad range of pathogens. Most ROS are formed by the partial reduction in molecular oxygen. Four major ROS are recognized comprising superoxide (O2•-), hydrogen peroxide (H2O2), hydroxyl radical (•OH), and singlet oxygen ((1)O2), but they display very different kinetics and levels of activity. The effects of O2•- and H2O2 are less acute than those of •OH and (1)O2, because the former are much less reactive and can be detoxified by endogenous antioxidants (both enzymatic and nonenzymatic) that are induced by oxidative stress. In contrast, no enzyme can detoxify •OH or (1)O2, making them extremely toxic and acutely lethal. The present review will highlight the various methods of ROS formation and their mechanism of action. Antioxidant defenses against ROS in microbial cells and the use of ROS by antimicrobial host defense systems are covered. Antimicrobial approaches primarily utilizing ROS comprise both bactericidal antibiotics and nonpharmacological methods such as photodynamic therapy, titanium dioxide photocatalysis, cold plasma, and medicinal honey. A brief final section covers reactive nitrogen species and related therapeutics, such as acidified nitrite and nitric oxide-releasing nanoparticles.
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Affiliation(s)
- Fatma Vatansever
- The Wellman Center for Photomedicine, Massachusetts General Hospital, Boston, MA, USA; Department of Dermatology, Harvard Medical School, Boston, MA, USA
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76
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Ullevig S, Kim HS, Asmis R. S-glutathionylation in monocyte and macrophage (dys)function. Int J Mol Sci 2013; 14:15212-32. [PMID: 23887649 PMCID: PMC3759857 DOI: 10.3390/ijms140815212] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2013] [Revised: 06/15/2013] [Accepted: 06/18/2013] [Indexed: 12/31/2022] Open
Abstract
Atherosclerosis is a chronic inflammatory disease involving the accumulation of monocytes and macrophages in the vascular wall. Monocytes and macrophages play a central role in the initiation and progression of atherosclerotic lesion development. Oxidative stress, which occurs when reactive oxygen species (ROS) overwhelm cellular antioxidant systems, contributes to the pathophysiology of many chronic inflammatory diseases, including atherosclerosis. Major targets of ROS are reactive thiols on cysteine residues in proteins, which when oxidized can alter cellular processes, including signaling pathways, metabolic pathways, transcription, and translation. Protein-S-glutathionylation is the process of mixed disulfide formation between glutathione (GSH) and protein thiols. Until recently, protein-S-glutathionylation was associated with increased cellular oxidative stress, but S-glutathionylation of key protein targets has now emerged as a physiologically important redox signaling mechanism, which when dysregulated contributes to a variety of disease processes. In this review, we will explore the role of thiol oxidative stress and protein-S-glutathionylation in monocyte and macrophage dysfunction as a mechanistic link between oxidative stress associated with metabolic disorders and chronic inflammatory diseases, including atherosclerosis.
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Affiliation(s)
- Sarah Ullevig
- Department of Biochemistry, University of Texas Health Science Center San Antonio, 7703 Floyd Curl Drive, San Antonio, TX 78229, USA; E-Mail:
| | - Hong Seok Kim
- Department of Clinical Laboratory Sciences, University of Texas Health Science Center San Antonio, 7703 Floyd Curl Drive, San Antonio, TX 78229, USA; E-Mail:
| | - Reto Asmis
- Department of Biochemistry, University of Texas Health Science Center San Antonio, 7703 Floyd Curl Drive, San Antonio, TX 78229, USA; E-Mail:
- Department of Clinical Laboratory Sciences, University of Texas Health Science Center San Antonio, 7703 Floyd Curl Drive, San Antonio, TX 78229, USA; E-Mail:
- Author to whom correspondence should be addressed; E-Mail: ; Tel.: +1-210-567-3411; Fax: +1-210-567-3719
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77
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Thiol redox sensitivity of two key enzymes of heme biosynthesis and pentose phosphate pathways: uroporphyrinogen decarboxylase and transketolase. OXIDATIVE MEDICINE AND CELLULAR LONGEVITY 2013; 2013:932472. [PMID: 23970950 PMCID: PMC3730168 DOI: 10.1155/2013/932472] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/24/2013] [Revised: 06/10/2013] [Accepted: 06/19/2013] [Indexed: 12/22/2022]
Abstract
Uroporphyrinogen decarboxylase (Hem12p) and transketolase (Tkl1p) are key mediators of two critical processes within the cell, heme biosynthesis, and the nonoxidative part of the pentose phosphate pathway (PPP). The redox properties of both Hem12p and Tkl1p from Saccharomyces cerevisiae were investigated using proteomic techniques (SRM and label-free quantification) and biochemical assays in cell extracts and in vitro with recombinant proteins. The in vivo analysis revealed an increase in oxidized Cys-peptides in the absence of Grx2p, and also after treatment with H2O2 in the case of Tkl1p, without corresponding changes in total protein, demonstrating a true redox response. Out of three detectable Cys residues in Hem12p, only the conserved residue Cys52 could be modified by glutathione and efficiently deglutathionylated by Grx2p, suggesting a possible redox control mechanism for heme biosynthesis. On the other hand, Tkl1p activity was sensitive to thiol redox modification and although Cys622 could be glutathionylated to a limited extent, it was not a natural substrate of Grx2p. The human orthologues of both enzymes have been involved in certain cancers and possess Cys residues equivalent to those identified as redox sensitive in yeast. The possible implication for redox regulation in the context of tumour progression is put forward.
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78
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Černý M, Skalák J, Cerna H, Brzobohatý B. Advances in purification and separation of posttranslationally modified proteins. J Proteomics 2013; 92:2-27. [PMID: 23777897 DOI: 10.1016/j.jprot.2013.05.040] [Citation(s) in RCA: 42] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2012] [Revised: 05/27/2013] [Accepted: 05/29/2013] [Indexed: 11/25/2022]
Abstract
Posttranslational modifications (PTMs) of proteins represent fascinating extensions of the dynamic complexity of living cells' proteomes. The results of enzymatically catalyzed or spontaneous chemical reactions, PTMs form a fourth tier in the gene - transcript - protein cascade, and contribute not only to proteins' biological functions, but also to challenges in their analysis. There have been tremendous advances in proteomics during the last decade. Identification and mapping of PTMs in proteins have improved dramatically, mainly due to constant increases in the sensitivity, speed, accuracy and resolution of mass spectrometry (MS). However, it is also becoming increasingly evident that simple gel-free shotgun MS profiling is unlikely to suffice for comprehensive detection and characterization of proteins and/or protein modifications present in low amounts. Here, we review current approaches for enriching and separating posttranslationally modified proteins, and their MS-independent detection. First, we discuss general approaches for proteome separation, fractionation and enrichment. We then consider the commonest forms of PTMs (phosphorylation, glycosylation and glycation, lipidation, methylation, acetylation, deamidation, ubiquitination and various redox modifications), and the best available methods for detecting and purifying proteins carrying these PTMs. This article is part of a Special Issue entitled: Posttranslational Protein modifications in biology and Medicine.
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Affiliation(s)
- Martin Černý
- Department of Molecular Biology and Radiobiology, Mendel University in Brno & CEITEC - Central European Institute of Technology, Mendel University in Brno, Zemědělská 1, CZ-613 00 Brno, Czech Republic.
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79
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Pillay CS, Hofmeyr JH, Mashamaite LN, Rohwer JM. From top-down to bottom-up: computational modeling approaches for cellular redoxin networks. Antioxid Redox Signal 2013; 18:2075-86. [PMID: 23249367 DOI: 10.1089/ars.2012.4771] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
SIGNIFICANCE Thioredoxin, glutaredoxin, and peroxiredoxin systems play critical roles in a large number of redox-sensitive cellular processes. These systems are linked to each other by coupled redox cycles and common reaction intermediates into a larger network. Given the scale and connectivity of this network, computational approaches are required to analyze its dynamics and organization. RECENT ADVANCES Theoretical advances, as well as new redox proteomic methods, have led to the development of both top-down and bottom-up systems biology approaches to analyze the these systems and the network as a whole. Top-down approaches have been based on modifications to the Nernst equation or on graph theoretical approaches, while bottom-up approaches have been based on kinetic or stoichiometric modeling techniques. CRITICAL ISSUES This review will consider the rationale behind these approaches and focus on their advantages and limitations. Further, the review will discuss modeling standards to ensure model accuracy and availability. FUTURE DIRECTIONS Top-down and bottom-up approaches have distinct strengths and limitations in describing cellular redoxin networks. The availability of methods to overcome these limitations, together with the adoption of common modeling standards, is expected to increase the pace of model-led discovery within the redox biology field.
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Affiliation(s)
- Ché S Pillay
- School of Life Sciences, University of Kwa-Zulu Natal, Scottsville, South Africa.
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Wang J, Jin L, Li X, Deng H, Chen Y, Lian Q, Ge R, Deng H. Gossypol induces apoptosis in ovarian cancer cells through oxidative stress. MOLECULAR BIOSYSTEMS 2013; 9:1489-97. [PMID: 23532321 DOI: 10.1039/c3mb25461e] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
In the present work, metabolomic and redox proteomic analyses were carried out on an untreated- and gossypol-treated ovarian cancer cell line, SKOV3. Gossypol treatment resulted in cell death through oxidative stress. Metabolite analysis showed that gossypol induces a decrease of the cellular levels of GSH, aspartic acid, and FAD. Using a combination of double labeling and LC-MS-MS, we identified changes in thiol-redox states of 545 cysteine-containing peptides from 356 proteins. The frequently occurring amino acid residue immediately before or after the cysteine in these peptides is the non-polar and neutral leucine, valine, or alanine. These redox sensitive proteins participate in a variety of cellular processes. We have characterized the redox-sensitive cysteine residues in PKM2, HSP60, malate dehydrogenase and other proteins that play important roles in metabolism homeostasis and stress responses. The three cysteine residues of HSP60 exhibit different responses to gossypol treatment: an increase of thiol/disulfide ratio for the Cys447 residue due to a decrease of the cellular GSH level, and a decrease of thiol/disulfide ratios for Cys442 and Cys237 residues due to oxidation and sulfation. This study suggests that thiol/disulfide ratios are dependent on the level of cellular GSH. Our data provide a valuable resource for deciphering the redox regulation of proteins and for understanding gossypol-induced apoptosis in ovarian cancer cells.
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Affiliation(s)
- Jia Wang
- The Second Affiliated Hospital of Wenzhou Medical College, Wenzhou, China
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81
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Yoshida K, Noguchi K, Motohashi K, Hisabori T. Systematic Exploration of Thioredoxin Target Proteins in Plant Mitochondria. ACTA ACUST UNITED AC 2013; 54:875-92. [DOI: 10.1093/pcp/pct037] [Citation(s) in RCA: 101] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
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82
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Chi BK, Roberts AA, Huyen TTT, Bäsell K, Becher D, Albrecht D, Hamilton CJ, Antelmann H. S-bacillithiolation protects conserved and essential proteins against hypochlorite stress in firmicutes bacteria. Antioxid Redox Signal 2013; 18:1273-95. [PMID: 22938038 PMCID: PMC3584511 DOI: 10.1089/ars.2012.4686] [Citation(s) in RCA: 73] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
AIMS Protein S-bacillithiolations are mixed disulfides between protein thiols and the bacillithiol (BSH) redox buffer that occur in response to NaOCl in Bacillus subtilis. We used BSH-specific immunoblots, shotgun liquid chromatography (LC)-tandem mass spectrometry (MS/MS) analysis and redox proteomics to characterize the S-bacillithiolomes of B. subtilis, B. megaterium, B. pumilus, B. amyloliquefaciens, and Staphylococcus carnosus and also measured the BSH/oxidized bacillithiol disulfide (BSSB) redox ratio after NaOCl stress. RESULTS In total, 54 proteins with characteristic S-bacillithiolation (SSB) sites were identified, including 29 unique proteins and eight proteins conserved in two or more of these bacteria. The methionine synthase MetE is the most abundant S-bacillithiolated protein in Bacillus species after NaOCl exposure. Further, S-bacillithiolated proteins include the translation elongation factor EF-Tu and aminoacyl-tRNA synthetases (ThrS), the DnaK and GrpE chaperones, the two-Cys peroxiredoxin YkuU, the ferredoxin-NADP(+) oxidoreductase YumC, the inorganic pyrophosphatase PpaC, the inosine-5'-monophosphate dehydrogenase GuaB, proteins involved in thiamine biosynthesis (ThiG and ThiM), queuosine biosynthesis (QueF), biosynthesis of aromatic amino acids (AroA and AroE), serine (SerA), branched-chain amino acids (YwaA), and homocysteine (LuxS and MetI). The thioredoxin-like proteins, YphP and YtxJ, are S-bacillithiolated at their active sites, suggesting a function in the de-bacillithiolation process. S-bacillithiolation is accompanied by a two-fold increase in the BSSB level and a decrease in the BSH/BSSB redox ratio in B. subtilis. INNOVATION Many essential and conserved proteins, including the dominant MetE, were identified in the S-bacillithiolome of different Bacillus species and S. carnosus using shotgun-LC-MS/MS analyses. CONCLUSION S-bacillithiolation is a widespread redox control mechanism among Firmicutes bacteria that protects conserved metabolic enzymes and essential proteins against overoxidation.
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Affiliation(s)
- Bui Khanh Chi
- Institute for Microbiology, Ernst-Moritz-Arndt-University of Greifswald, Greifswald, Germany
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83
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Zhang Y, Fonslow BR, Shan B, Baek MC, Yates JR. Protein analysis by shotgun/bottom-up proteomics. Chem Rev 2013; 113:2343-94. [PMID: 23438204 PMCID: PMC3751594 DOI: 10.1021/cr3003533] [Citation(s) in RCA: 970] [Impact Index Per Article: 88.2] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Yaoyang Zhang
- Department of Chemical Physiology, The Scripps Research Institute, La Jolla, CA 92037, USA
| | - Bryan R. Fonslow
- Department of Chemical Physiology, The Scripps Research Institute, La Jolla, CA 92037, USA
| | - Bing Shan
- Department of Chemical Physiology, The Scripps Research Institute, La Jolla, CA 92037, USA
| | - Moon-Chang Baek
- Department of Chemical Physiology, The Scripps Research Institute, La Jolla, CA 92037, USA
- Department of Molecular Medicine, Cell and Matrix Biology Research Institute, School of Medicine, Kyungpook National University, Daegu 700-422, Republic of Korea
| | - John R. Yates
- Department of Chemical Physiology, The Scripps Research Institute, La Jolla, CA 92037, USA
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84
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Paulech J, Solis N, Edwards AV, Puckeridge M, White MY, Cordwell SJ. Large-Scale Capture of Peptides Containing Reversibly Oxidized Cysteines by Thiol-Disulfide Exchange Applied to the Myocardial Redox Proteome. Anal Chem 2013; 85:3774-80. [DOI: 10.1021/ac400166e] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Affiliation(s)
- Jana Paulech
- School
of Molecular Bioscience and ‡Discipline of Pathology, School of Medical
Sciences, The University of Sydney, Australia
2006
| | - Nestor Solis
- School
of Molecular Bioscience and ‡Discipline of Pathology, School of Medical
Sciences, The University of Sydney, Australia
2006
| | - Alistair V.G. Edwards
- School
of Molecular Bioscience and ‡Discipline of Pathology, School of Medical
Sciences, The University of Sydney, Australia
2006
| | - Max Puckeridge
- School
of Molecular Bioscience and ‡Discipline of Pathology, School of Medical
Sciences, The University of Sydney, Australia
2006
| | - Melanie Y. White
- School
of Molecular Bioscience and ‡Discipline of Pathology, School of Medical
Sciences, The University of Sydney, Australia
2006
| | - Stuart J. Cordwell
- School
of Molecular Bioscience and ‡Discipline of Pathology, School of Medical
Sciences, The University of Sydney, Australia
2006
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85
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Abstract
Cysteine residues on proteins play key roles in catalysis and regulation. These functional cysteines serve as active sites for nucleophilic and redox catalysis, sites of allosteric regulation, and metal-binding ligands on proteins from diverse classes including proteases, kinases, metabolic enzymes, and transcription factors. In this review, we focus on a few select examples that serve to highlight the multiple functions performed by cysteines, with an emphasis on cysteine-mediated protein activities implicated in cancer. The enhanced reactivity of functional cysteines renders them susceptible to modification by electrophilic species. Toward this end, we discuss recent advancements and future prospects for utilizing cysteine-reactive small molecules as drugs and imaging agents for the treatment and diagnosis of cancer.
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Affiliation(s)
- Nicholas J. Pace
- Department of Chemistry, Boston College, Chestnut Hill, Massachusetts 02467, United States
| | - Eranthie Weerapana
- Department of Chemistry, Boston College, Chestnut Hill, Massachusetts 02467, United States
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86
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Brandes N, Tienson H, Lindemann A, Vitvitsky V, Reichmann D, Banerjee R, Jakob U. Time line of redox events in aging postmitotic cells. eLife 2013; 2:e00306. [PMID: 23390587 PMCID: PMC3564446 DOI: 10.7554/elife.00306] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2012] [Accepted: 12/08/2012] [Indexed: 01/22/2023] Open
Abstract
The precise roles that oxidants play in lifespan and aging are still unknown. Here, we report the discovery that chronologically aging yeast cells undergo a sudden redox collapse, which affects over 80% of identified thiol-containing proteins. We present evidence that this redox collapse is not triggered by an increase in endogenous oxidants as would have been postulated by the free radical theory of aging. Instead it appears to be instigated by a substantial drop in cellular NADPH, which normally provides the electron source for maintaining cellular redox homeostasis. This decrease in NADPH levels occurs very early during lifespan and sets into motion a cascade that is predicted to down-regulate most cellular processes. Caloric restriction, a near-universal lifespan extending measure, increases NADPH levels and delays each facet of the cascade. Our studies reveal a time line of events leading up to the system-wide oxidation of the proteome days before cell death. DOI:http://dx.doi.org/10.7554/eLife.00306.001 While most animals experience a physiological decline as they age, the underlying cause of this decline is not fully understood. According to the free radical theory of aging, chemicals known as reactive oxygen species build up in the body and then cause damage to various components within cells, including DNA and proteins. These species, which include hydrogen peroxide and peroxynitrite, can cause substantial oxidative damage. However, while there is definitely a relationship between aging and reactive oxygen species, it remains possible that oxidative damage is a byproduct of aging rather than the cause of it. In the past researchers have measured the carbonylation of proteins (that is, the oxidation of certain amino acids in proteins) as a proxy for damage caused by reactive oxygen species, but this method has a number of shortcomings. More recently, it has become possible to quantify the oxidation state of cysteine, an amino acid that contains sulfur, in proteins using a technique based on mass spectrometry. Building on previous work in which they used this technique to measure the oxidation state of 300 proteins in vivo in the yeast Saccharomyces cerevisiae, Brandes et al. have now determined how the oxidation state of these proteins changes over the lifespan of S. cerevisiae, which is a popular model system for analyzing aging in cells that are in a high metabolic state but are no longer dividing. This made it possible to identify protein targets that might—as a result of changes in their oxidation state caused by reactive oxygen species—contribute to the physiological alterations observed in aging organisms. It was also possible to establish a clear connection between the onset and extent of oxidative stress and lifespan. Brandes et al. discovered that several days before the yeast cells died, they underwent a sudden and global ‘redox collapse’ in which ∼80% of the 300 proteins being studied experienced an increase in their oxidation state (i.e., they lost electrons). This event was preceded by a large drop in the level of NADPH, a coenzyme that, by being a source of electrons, helps to counterbalance the removal of electrons by reactive oxygen species within cells. The drop in the concentration of NADPH occurred very early in the life cycle of the yeast, and set in motion a series of events that down-regulated most cellular processes. Intriguingly, these findings are consistent with the effect of caloric restriction, a condition that is known to extend the lifespan of animals. Caloric restriction increases cellular NADPH and delays the down-regulation of cellular processes. Brandes et al. propose that the underlying cause of aging is not the accumulation of reactive oxygen species: rather, these results suggest that aging is caused by a sudden and substantial decrease in available NADPH, which means that cells cannot maintain a stable oxidation state. If borne out by further work, these findings could have a significant impact on how we think about the aging process, and could require researchers to rethink how they study aging. DOI:http://dx.doi.org/10.7554/eLife.00306.002
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Affiliation(s)
- Nicolas Brandes
- Department of Molecular, Cellular, and Developmental Biology , University of Michigan , Ann Arbor , United States
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87
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Jacques S, Ghesquière B, Van Breusegem F, Gevaert K. Plant proteins under oxidative attack. Proteomics 2013; 13:932-40. [DOI: 10.1002/pmic.201200237] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2012] [Revised: 09/27/2012] [Accepted: 10/22/2012] [Indexed: 11/09/2022]
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88
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Bykova NV, Rampitsch C. Modulating protein function through reversible oxidation: Redox-mediated processes in plants revealed through proteomics. Proteomics 2013. [PMID: 23197359 DOI: 10.1002/pmic.201200270] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Abstract
It has been clearly demonstrated that plants redox control can be exerted over virtually every cellular metabolic pathway affecting metabolic homeostasis and energy balance. Therefore, a tight link exists between cellular/compartmental steady-state redox level and cellular metabolism. Proteomics offers a powerful new way to characterize the response and regulation of protein oxidation in different cell types and in relation to cellular metabolism. Compelling evidence revealed in proteomics studies suggests the integration of the redox network with other cellular signaling pathways such as Ca(2+) and/or protein phosphorylation, jasmonic, salicylic, abscisic acids, ethylene, and other phytohormones. Here we review progress in using the various proteomics techniques and approaches to answer biological questions arising from redox signaling and from changes in redox status of the cell. The focus is on reversible redox protein modifications and on three main processes, namely oxidative and nitrosative stress, defense against pathogens, cellular redox response and regulation, drawing on examples from plant redox proteomics studies.
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Affiliation(s)
- Natalia V Bykova
- Cereal Research Centre, Agriculture and AgriFood Canada, 195 Dafoe Road, Winnipeg, Manitoba, Canada.
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89
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Zaffagnini M, Fermani S, Costa A, Lemaire SD, Trost P. Plant cytoplasmic GAPDH: redox post-translational modifications and moonlighting properties. FRONTIERS IN PLANT SCIENCE 2013; 4:450. [PMID: 24282406 PMCID: PMC3824636 DOI: 10.3389/fpls.2013.00450] [Citation(s) in RCA: 116] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2013] [Accepted: 10/21/2013] [Indexed: 05/17/2023]
Abstract
Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) is a ubiquitous enzyme involved in glycolysis and shown, particularly in animal cells, to play additional roles in several unrelated non-metabolic processes such as control of gene expression and apoptosis. This functional versatility is regulated, in part at least, by redox post-translational modifications that alter GAPDH catalytic activity and influence the subcellular localization of the enzyme. In spite of the well established moonlighting (multifunctional) properties of animal GAPDH, little is known about non-metabolic roles of GAPDH in plants. Plant cells contain several GAPDH isoforms with different catalytic and regulatory properties, located both in the cytoplasm and in plastids, and participating in glycolysis and the Calvin-Benson cycle. A general feature of all GAPDH proteins is the presence of an acidic catalytic cysteine in the active site that is overly sensitive to oxidative modifications, including glutathionylation and S-nitrosylation. In Arabidopsis, oxidatively modified cytoplasmic GAPDH has been successfully used as a tool to investigate the role of reduced glutathione, thioredoxins and glutaredoxins in the control of different types of redox post-translational modifications. Oxidative modifications inhibit GAPDH activity, but might enable additional functions in plant cells. Mounting evidence support the concept that plant cytoplasmic GAPDH may fulfill alternative, non-metabolic functions that are triggered by redox post-translational modifications of the protein under stress conditions. The aim of this review is to detail the molecular mechanisms underlying the redox regulation of plant cytoplasmic GAPDH in the light of its crystal structure, and to provide a brief inventory of the well known redox-dependent multi-facetted properties of animal GAPDH, together with the emerging roles of oxidatively modified GAPDH in stress signaling pathways in plants.
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Affiliation(s)
- Mirko Zaffagnini
- Laboratory of Plant Redox Biology, Department of Pharmacy and Biotechnology, University of BolognaBologna, Italy
- *Correspondence: Mirko Zaffagnini and Paolo Trost, Laboratory of Plant Redox Biology, Department of Pharmacy and Biotechnology, University of Bologna, Via Irnerio 42, 40126 Bologna, Italy e-mail: ;
| | - Simona Fermani
- Department of Chemistry “G. Ciamician”, University of BolognaBologna, Italy
| | - Alex Costa
- Department of Biosciences, University of MilanoMilano, Italy
| | - Stéphane D. Lemaire
- Laboratoire de Biologie Moléculaire et Cellulaire des Eucaryotes, FRE3354, Institut de Biologie Physico-Chimique, Centre National de la Recherche Scientifique, Université Pierre et Marie CurieParis, France
| | - Paolo Trost
- Laboratory of Plant Redox Biology, Department of Pharmacy and Biotechnology, University of BolognaBologna, Italy
- *Correspondence: Mirko Zaffagnini and Paolo Trost, Laboratory of Plant Redox Biology, Department of Pharmacy and Biotechnology, University of Bologna, Via Irnerio 42, 40126 Bologna, Italy e-mail: ;
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90
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Courteille A, Vesa S, Sanz-Barrio R, Cazalé AC, Becuwe-Linka N, Farran I, Havaux M, Rey P, Rumeau D. Thioredoxin m4 controls photosynthetic alternative electron pathways in Arabidopsis. PLANT PHYSIOLOGY 2013; 161:508-20. [PMID: 23151348 PMCID: PMC3532281 DOI: 10.1104/pp.112.207019] [Citation(s) in RCA: 82] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2012] [Accepted: 11/12/2012] [Indexed: 05/18/2023]
Abstract
In addition to the linear electron flow, a cyclic electron flow (CEF) around photosystem I occurs in chloroplasts. In CEF, electrons flow back from the donor site of photosystem I to the plastoquinone pool via two main routes: one that involves the Proton Gradient Regulation5 (PGR5)/PGRL1 complex (PGR) and one that is dependent of the NADH dehydrogenase-like complex. While the importance of CEF in photosynthesis and photoprotection has been clearly established, little is known about its regulation. We worked on the assumption of a redox regulation and surveyed the putative role of chloroplastic thioredoxins (TRX). Using Arabidopsis (Arabidopsis thaliana) mutants lacking different TRX isoforms, we demonstrated in vivo that TRXm4 specifically plays a role in the down-regulation of the NADH dehydrogenase-like complex-dependent plastoquinone reduction pathway. This result was confirmed in tobacco (Nicotiana tabacum) plants overexpressing the TRXm4 orthologous gene. In vitro assays performed with isolated chloroplasts and purified TRXm4 indicated that TRXm4 negatively controls the PGR pathway as well. The physiological significance of this regulation was investigated under steady-state photosynthesis and in the pgr5 mutant background. Lack of TRXm4 reversed the growth phenotype of the pgr5 mutant, but it did not compensate for the impaired photosynthesis and photoinhibition sensitivity. This suggests that the physiological role of TRXm4 occurs in vivo via a mechanism distinct from direct up-regulation of CEF.
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Affiliation(s)
| | | | - Ruth Sanz-Barrio
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7265, Biologie Végétale et Microbiologie Environnementales, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Commissariat à l'Energie Atomique, Institut de Biologie Environnementale et Biotechnologie, Service de Biologie Végétale et Microbiologie Environnementales, Laboratoire d’Ecophysiologie Moléculaire des Plantes, 13108 Saint-Paul-lez-Durance, France (S.V., N.B.-L., M.H., P.R., D.R.); Université Aix-Marseille, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Instituto de Agrobiotecnologia, Universidad Pública de Navarra-Consejo Superior de Investigaciones Científicas-Gobierno de Navarra, 31006 Pamplona, Spain (R.S.-B., I.F.); Institut National de la Recherche Agronomique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 441, F-31326 Castanet-Tolosan, France (A.-C.C.); and Centre National de la Recherche Scientifique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 2594, F-31326 Castanet-Tolosan, France (A.-C.C.)
| | - Anne-Claire Cazalé
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7265, Biologie Végétale et Microbiologie Environnementales, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Commissariat à l'Energie Atomique, Institut de Biologie Environnementale et Biotechnologie, Service de Biologie Végétale et Microbiologie Environnementales, Laboratoire d’Ecophysiologie Moléculaire des Plantes, 13108 Saint-Paul-lez-Durance, France (S.V., N.B.-L., M.H., P.R., D.R.); Université Aix-Marseille, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Instituto de Agrobiotecnologia, Universidad Pública de Navarra-Consejo Superior de Investigaciones Científicas-Gobierno de Navarra, 31006 Pamplona, Spain (R.S.-B., I.F.); Institut National de la Recherche Agronomique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 441, F-31326 Castanet-Tolosan, France (A.-C.C.); and Centre National de la Recherche Scientifique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 2594, F-31326 Castanet-Tolosan, France (A.-C.C.)
| | - Noëlle Becuwe-Linka
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7265, Biologie Végétale et Microbiologie Environnementales, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Commissariat à l'Energie Atomique, Institut de Biologie Environnementale et Biotechnologie, Service de Biologie Végétale et Microbiologie Environnementales, Laboratoire d’Ecophysiologie Moléculaire des Plantes, 13108 Saint-Paul-lez-Durance, France (S.V., N.B.-L., M.H., P.R., D.R.); Université Aix-Marseille, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Instituto de Agrobiotecnologia, Universidad Pública de Navarra-Consejo Superior de Investigaciones Científicas-Gobierno de Navarra, 31006 Pamplona, Spain (R.S.-B., I.F.); Institut National de la Recherche Agronomique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 441, F-31326 Castanet-Tolosan, France (A.-C.C.); and Centre National de la Recherche Scientifique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 2594, F-31326 Castanet-Tolosan, France (A.-C.C.)
| | - Immaculada Farran
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7265, Biologie Végétale et Microbiologie Environnementales, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Commissariat à l'Energie Atomique, Institut de Biologie Environnementale et Biotechnologie, Service de Biologie Végétale et Microbiologie Environnementales, Laboratoire d’Ecophysiologie Moléculaire des Plantes, 13108 Saint-Paul-lez-Durance, France (S.V., N.B.-L., M.H., P.R., D.R.); Université Aix-Marseille, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Instituto de Agrobiotecnologia, Universidad Pública de Navarra-Consejo Superior de Investigaciones Científicas-Gobierno de Navarra, 31006 Pamplona, Spain (R.S.-B., I.F.); Institut National de la Recherche Agronomique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 441, F-31326 Castanet-Tolosan, France (A.-C.C.); and Centre National de la Recherche Scientifique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 2594, F-31326 Castanet-Tolosan, France (A.-C.C.)
| | - Michel Havaux
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7265, Biologie Végétale et Microbiologie Environnementales, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Commissariat à l'Energie Atomique, Institut de Biologie Environnementale et Biotechnologie, Service de Biologie Végétale et Microbiologie Environnementales, Laboratoire d’Ecophysiologie Moléculaire des Plantes, 13108 Saint-Paul-lez-Durance, France (S.V., N.B.-L., M.H., P.R., D.R.); Université Aix-Marseille, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Instituto de Agrobiotecnologia, Universidad Pública de Navarra-Consejo Superior de Investigaciones Científicas-Gobierno de Navarra, 31006 Pamplona, Spain (R.S.-B., I.F.); Institut National de la Recherche Agronomique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 441, F-31326 Castanet-Tolosan, France (A.-C.C.); and Centre National de la Recherche Scientifique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 2594, F-31326 Castanet-Tolosan, France (A.-C.C.)
| | - Pascal Rey
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7265, Biologie Végétale et Microbiologie Environnementales, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Commissariat à l'Energie Atomique, Institut de Biologie Environnementale et Biotechnologie, Service de Biologie Végétale et Microbiologie Environnementales, Laboratoire d’Ecophysiologie Moléculaire des Plantes, 13108 Saint-Paul-lez-Durance, France (S.V., N.B.-L., M.H., P.R., D.R.); Université Aix-Marseille, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Instituto de Agrobiotecnologia, Universidad Pública de Navarra-Consejo Superior de Investigaciones Científicas-Gobierno de Navarra, 31006 Pamplona, Spain (R.S.-B., I.F.); Institut National de la Recherche Agronomique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 441, F-31326 Castanet-Tolosan, France (A.-C.C.); and Centre National de la Recherche Scientifique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 2594, F-31326 Castanet-Tolosan, France (A.-C.C.)
| | - Dominique Rumeau
- Centre National de la Recherche Scientifique, Unité Mixte de Recherche 7265, Biologie Végétale et Microbiologie Environnementales, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Commissariat à l'Energie Atomique, Institut de Biologie Environnementale et Biotechnologie, Service de Biologie Végétale et Microbiologie Environnementales, Laboratoire d’Ecophysiologie Moléculaire des Plantes, 13108 Saint-Paul-lez-Durance, France (S.V., N.B.-L., M.H., P.R., D.R.); Université Aix-Marseille, 13108 Saint-Paul-lez-Durance, France (A.C., S.V., N.B.-L., M.H., P.R., D.R.); Instituto de Agrobiotecnologia, Universidad Pública de Navarra-Consejo Superior de Investigaciones Científicas-Gobierno de Navarra, 31006 Pamplona, Spain (R.S.-B., I.F.); Institut National de la Recherche Agronomique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 441, F-31326 Castanet-Tolosan, France (A.-C.C.); and Centre National de la Recherche Scientifique, Laboratoire des Interactions Plantes-Microorganismes, Unité Mixte de Recherche 2594, F-31326 Castanet-Tolosan, France (A.-C.C.)
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91
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Board PG, Menon D. Glutathione transferases, regulators of cellular metabolism and physiology. Biochim Biophys Acta Gen Subj 2012. [PMID: 23201197 DOI: 10.1016/j.bbagen.2012.11.019] [Citation(s) in RCA: 259] [Impact Index Per Article: 21.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
BACKGROUND The cytosolic glutathione transferases (GSTs) comprise a super family of proteins that can be categorized into multiple classes with a mixture of highly specific and overlapping functions. SCOPE OF REVIEW The review covers the genetics, structure and function of the human cytosolic GSTs with particular attention to their emerging roles in cellular metabolism. MAJOR CONCLUSIONS All the catalytically active GSTs contribute to the glutathione conjugation or glutathione dependant-biotransformation of xenobiotics and many catalyze glutathione peroxidase or thiol transferase reactions. GSTs also catalyze glutathione dependent isomerization reactions required for the synthesis of several prostaglandins and steroid hormones and the catabolism of tyrosine. An increasing body of work has implicated several GSTs in the regulation of cell signaling pathways mediated by stress-activated kinases like Jun N-terminal kinase. In addition, some members of the cytosolic GST family have been shown to form ion channels in intracellular membranes and to modulate ryanodine receptor Ca(2+) channels in skeletal and cardiac muscle. GENERAL SIGNIFICANCE In addition to their well established roles in the conjugation and biotransformation of xenobiotics, GSTs have emerged as significant regulators of pathways determining cell proliferation and survival and as regulators of ryanodine receptors that are essential for muscle function. This article is part of a Special Issue entitled Cellular functions of glutathione.
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Affiliation(s)
- Philip G Board
- John Curtin School of Medical Research, Australian National University, Canberra, Australia
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92
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Bachi A, Dalle-Donne I, Scaloni A. Redox Proteomics: Chemical Principles, Methodological Approaches and Biological/Biomedical Promises. Chem Rev 2012. [DOI: 10.1021/cr300073p] [Citation(s) in RCA: 189] [Impact Index Per Article: 15.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Angela Bachi
- Biological Mass Spectrometry Unit, San Raffaele Scientific Institute, 20132 Milan, Italy
| | | | - Andrea Scaloni
- Proteomics & Mass Spectrometry Laboratory, ISPAAM, National Research Council, 80147 Naples, Italy
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93
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Meyer Y, Belin C, Delorme-Hinoux V, Reichheld JP, Riondet C. Thioredoxin and glutaredoxin systems in plants: molecular mechanisms, crosstalks, and functional significance. Antioxid Redox Signal 2012; 17:1124-60. [PMID: 22531002 DOI: 10.1089/ars.2011.4327] [Citation(s) in RCA: 216] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Thioredoxins (Trx) and glutaredoxins (Grx) constitute families of thiol oxidoreductases. Our knowledge of Trx and Grx in plants has dramatically increased during the last decade. The release of the Arabidopsis genome sequence revealed an unexpectedly high number of Trx and Grx genes. The availability of several genomes of vascular and nonvascular plants allowed the establishment of a clear classification of the genes and the chronology of their appearance during plant evolution. Proteomic approaches have been developed that identified the putative Trx and Grx target proteins which are implicated in all aspects of plant growth, including basal metabolism, iron/sulfur cluster formation, development, adaptation to the environment, and stress responses. Analyses of the biochemical characteristics of specific Trx and Grx point to a strong specificity toward some target enzymes, particularly within plastidial Trx and Grx. In apparent contradiction with this specificity, genetic approaches show an absence of phenotype for most available Trx and Grx mutants, suggesting that redundancies also exist between Trx and Grx members. Despite this, the isolation of mutants inactivated in multiple genes and several genetic screens allowed the demonstration of the involvement of Trx and Grx in pathogen response, phytohormone pathways, and at several control points of plant development. Cytosolic Trxs are reduced by NADPH-thioredoxin reductase (NTR), while the reduction of Grx depends on reduced glutathione (GSH). Interestingly, recent development integrating biochemical analysis, proteomic data, and genetics have revealed an extensive crosstalk between the cytosolic NTR/Trx and GSH/Grx systems. This crosstalk, which occurs at multiple levels, reveals the high plasticity of the redox systems in plants.
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Affiliation(s)
- Yves Meyer
- Laboratoire Génome et Développement des Plantes, Université de Perpignan, Perpignan, France
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94
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A fluorometric method to quantify protein glutathionylation using glutathione derivatization with 2,3-naphthalenedicarboxaldehyde. Anal Biochem 2012; 433:132-6. [PMID: 23072983 DOI: 10.1016/j.ab.2012.10.009] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2012] [Revised: 10/03/2012] [Accepted: 10/05/2012] [Indexed: 01/13/2023]
Abstract
This study reports the development of a new assay for the rapid determination of protein glutathionylation in tissues and cell lines using commercially available reagents and standard instrumentation. In this method cells are homogenized in the presence of N-ethylmaleimide to eliminate free thiols and the proteins are precipitated with acetone. Subsequently, the disulfide-bound glutathione is eluted from the protein by the addition of tris(2-carboxyethyl)phosphine and reacted with 2,3-napthalenedicarboxaldehyde to generate a highly fluorescent product. Lymphoblastoid cell lines were found to have glutathionylation levels in the range of 0.3-3 nmol/mg protein, which were significantly elevated after treatment of the cells with S-nitrosoglutathione. Mouse tissues including liver, kidney, lung, heart, brain, spleen, and testes were found to have glutathionylation levels between 1 and 2.5 nmol/mg protein and the levels tended to increase after treatment of mice with doxorubicin. In contrast, mouse skeletal muscle glutathionylation was significantly higher (4.2 ± 0.33 nmol/mg, p < 0.001) than in other tissues in untreated mice and decreased to 1.9 ± 0.15 nmol/mg after doxorubicin treatment. This new method allows rapid measurement of cellular glutathionylation in a high-throughput 96-well plate format.
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95
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Murray CI, Van Eyk JE. Chasing cysteine oxidative modifications: proteomic tools for characterizing cysteine redox status. CIRCULATION. CARDIOVASCULAR GENETICS 2012; 5:591. [PMID: 23074338 PMCID: PMC3500588 DOI: 10.1161/circgenetics.111.961425] [Citation(s) in RCA: 69] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Redox-proteomics involves the large scale analysis of oxidative protein post-translational modifications. In particular, cysteine residues have become the subject of intensifying research interest because of their redox-reactive thiol side chain. Certain reactive cysteine residues can function as redox-switches, which sense changes in the local redox-environment by flipping between the reduced and oxidized state. Depending on the reactive oxygen or nitrogen species, cysteine residues can receive one of several oxidative modifications, each with the potential to confer a functional effect. Modification of these redox-switches has been found to play an important role in oxidative-signaling in the cardiovascular system and elsewhere. Due to the labile and dynamic nature of these modifications, several targeted approaches have been developed to enrich, identify and characterize the status of these critical residues. Here, we review the various proteomic strategies and limitations for the large scale analysis of the different oxidative cysteine modifications.
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Affiliation(s)
- Christopher I. Murray
- Johns Hopkins University, Department of Biological Chemistry, Johns Hopkins University, Baltimore, MD, USA
| | - Jennifer E. Van Eyk
- Johns Hopkins University, Department of Biological Chemistry, Johns Hopkins University, Baltimore, MD, USA
- Department of Medicine, Division of Cardiology, Johns Hopkins University, Baltimore, MD, USA
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96
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Janvilisri T, Scaria J, Teng CH, McDonough SP, Gleed RD, Fubini SL, Zhang S, Akey B, Chang YF. Temporal differential proteomes of Clostridium difficile in the pig ileal-ligated loop model. PLoS One 2012; 7:e45608. [PMID: 23029131 PMCID: PMC3445491 DOI: 10.1371/journal.pone.0045608] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2012] [Accepted: 08/23/2012] [Indexed: 12/29/2022] Open
Abstract
The impact of Clostridium difficile infection (CDI) on healthcare is becoming increasingly recognized as it represents a major cause of nosocomial diarrhea. A rising number of CDI cases and outbreaks have been reported worldwide. Here, we developed the pig ileal-ligated loop model for semi-quantitative analysis comparing temporal differential proteomes in C. difficile following in vivo incubation with in vitro growth using isobaric tags for relative and absolute quantification (iTRAQ). Proteins retrieved from the in vitro cultures and the loop contents after 4, 8, and 12 h in vivo incubation were subjected to in-solution digestion, iTRAQ labeling, two-dimensional liquid chromatography/tandem mass spectrometry and statistical analyses. From a total of 1152 distinct proteins identified in this study, 705 proteins were available for quantitative measures at all time points in both biological and technical replicates; 109 proteins were found to be differentially expressed. With analysis of clusters of orthologous group and protein-protein network interactions, we identified the proteins that might play roles in adaptive responses to the host environment, hence enhancing pathogenicity during CDI. This report represents the quantitative proteomic analysis of C. difficile that demonstrates time-dependent protein expression changes under conditions that mimic in vivo infection and identifies potential candidates for diagnostic or therapeutic measures.
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Affiliation(s)
- Tavan Janvilisri
- Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, New York, United States of America
- Department of Biochemistry, Faculty of Science, Mahidol University, Bangkok, Thailand
| | - Joy Scaria
- Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, New York, United States of America
| | - Ching-Hao Teng
- Institute of Molecular Medicine, National Cheng Kung University Medical College, Tainan, Taiwan
| | - Sean P. McDonough
- Department of Biomedical Sciences, College of Veterinary Medicine, Cornell University, Ithaca, New York, United States of America
| | - Robin D. Gleed
- Department of Clinical Sciences, College of Veterinary Medicine, Cornell University, Ithaca, New York, United States of America
| | - Susan L. Fubini
- Department of Clinical Sciences, College of Veterinary Medicine, Cornell University, Ithaca, New York, United States of America
| | - Sheng Zhang
- Proteomics and Mass Spectrometry Core Facility, Cornell University, Ithaca, New York, United States of America
| | - Bruce Akey
- Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, New York, United States of America
| | - Yung-Fu Chang
- Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, New York, United States of America
- * E-mail:
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97
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Mata-Cabana A, García-Domínguez M, Florencio FJ, Lindahl M. Thiol-based redox modulation of a cyanobacterial eukaryotic-type serine/threonine kinase required for oxidative stress tolerance. Antioxid Redox Signal 2012; 17:521-33. [PMID: 22530622 PMCID: PMC3373224 DOI: 10.1089/ars.2011.4483] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
AIMS Protein phosphorylation is a principal signaling mechanism that mediates regulation of enzymatic activities, modulation of gene expression, and adaptation to environmental changes. Recent studies have shown a ubiquitous distribution of eukaryotic-type Serine/Threonine protein kinases in prokaryotic genomes, though the functions, substrates, and possible regulation of these enzymes remain largely unknown. In this study, we investigated whether cyanobacterial protein phosphorylation may be subject to redox regulation through modulation of the cysteine redox state, as has previously been reported for animals and plants. We also explored the role of a cyanobacterial Serine/Threonine kinase in oxidative stress tolerance. RESULTS The Synechocystis sp. PCC 6803 Serine/Threonine kinase SpkB was found to be inhibited by oxidation and reactivated by thioredoxin-catalyzed reduction. A Synechocystis mutant devoid of the SpkB kinase was unable to phosphorylate the glycyl-tRNA synthetase β-subunit (GlyS), one of the most prominent phosphoproteins in the wild type, and recombinant purified SpkB could phosphorylate purified GlyS. In vivo characterization of the SpkB mutant showed a pronounced hypersensitivity to oxidative stress and displayed severe growth retardation or death in response to menadione, methyl viologen, and elevated light intensities. INNOVATION This study points out a previously unrecognised complexity of prokaryotic regulatory pathways in adaptation to the environment and extends the roles of bacterial eukaryotic-like Serine/Threonine kinases to oxidative stress response. CONCLUSION The SpkB kinase is required for survival of the cyanobacterium Synechocystis sp. PCC 6803 under conditions implying increased concentrations of reactive oxygen species, and the activity of SpkB depends on the redox state of its cysteines.
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Affiliation(s)
- Alejandro Mata-Cabana
- The Institute for Plant Biochemistry and Photosynthesis, The Spanish Research Council-University of Seville, IBVF(CSIC/US), Isla de la Cartuja Scientific Research Center (CicCartuja), Seville, Spain
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98
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RedoxDB--a curated database for experimentally verified protein oxidative modification. Bioinformatics 2012; 28:2551-2. [DOI: 10.1093/bioinformatics/bts468] [Citation(s) in RCA: 58] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023] Open
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99
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Abstract
Many studies of chemopreventive drugs have suggested that their beneficial effects on suppression of carcinogenesis and many other chronic diseases are mediated through activation of the transcription factor NFE2-related factor 2 (NRF2). More recently, genetic analyses of human tumours have indicated that NRF2 may conversely be oncogenic and cause resistance to chemotherapy. It is therefore controversial whether the activation, or alternatively the inhibition, of NRF2 is a useful strategy for the prevention or treatment of cancer. This Opinion article aims to rationalize these conflicting perspectives by critiquing the context dependence of NRF2 functions and the experimental methods behind these conflicting data.
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Affiliation(s)
- Michael B Sporn
- Department of Pharmacology, Dartmouth Medical School, Hanover, New Hampshire 03755, USA.
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100
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Differential redox proteomics allows identification of proteins reversibly oxidized at cysteine residues in endothelial cells in response to acute hypoxia. J Proteomics 2012; 75:5449-62. [PMID: 22800641 DOI: 10.1016/j.jprot.2012.06.035] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2012] [Revised: 06/13/2012] [Accepted: 06/26/2012] [Indexed: 11/21/2022]
Abstract
Adaptation to decreased oxygen availability (hypoxia) is crucial for proper cell function and survival. In metazoans, this is partly achieved through gene transcriptional responses mediated by hypoxia-inducible factors (HIFs). There is abundant evidence that production of reactive oxygen species (ROS) increases during hypoxia, which contributes to the activation of the HIF pathway. In addition to altering the cellular redox balance, leading to oxidative stress, ROS can transduce signals by reversibly modifying the redox state of cysteine residues in certain proteins. Using the "redox fluorescence switch" (RFS), a thiol redox proteomic technique that fluorescently labels reversibly oxidized cysteines, we analyzed endothelial cells subjected to acute hypoxia and subsequent reoxygenation. We observed a general increase in cysteine oxidation during hypoxia, which was reversed by reoxygenation, and two-dimensional electrophoresis revealed the differential oxidation of specific proteins. Using complementary derivatization techniques, we confirmed the modification of individual target proteins and identified specific cysteine residues that were oxidized in hypoxic conditions, thereby overcoming several limitations associated with fluorescence derivatization. These findings provide an important basis for future studies of the role of these modifications in HIF activation and in other acute adaptive responses to hypoxia.
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