1
|
Antonio LM, Martins GH, Aragão AZB, Quel NG, Zazeri G, Houry WA, Ramos CHI. Unveiling the Role of Sorghum RPAP3 in the Function of R2TP Complex: Insights into Protein Assembly in Plants. PLANTS (BASEL, SWITZERLAND) 2023; 12:2925. [PMID: 37631136 PMCID: PMC10458388 DOI: 10.3390/plants12162925] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Revised: 08/04/2023] [Accepted: 08/10/2023] [Indexed: 08/27/2023]
Abstract
The chaperone R2TP has multiple subunits that assist in the proper folding, assembly, and stabilization of various protein complexes in cells and its study can offer valuable insights into the regulation and maintenance of protein assemblies in plant systems. The 'T' component of R2TP is Tah1 in yeast, consisting of 111 residues, while its counterpart in humans is RPAP3, with 665 residues. RPAP3 acts as a co-chaperone of Hsp90 and facilitates interactions between RUVBL proteins and other complex components, enhancing the recruitment of client proteins by the R2TP complex. These facts further underscore the relevance of studying this complex in different organisms. The putative gene corresponding to the RPAP3 in Sorghum bicolor, a monocotyledon plant, was cloned, and the protein (396 residues) purified for biochemical characterization. SbRPAP3 exists as a folded monomer and has a RPAP3 domain, which is present in human RPAP3 but absent in yeast Tah1. SbRPAP3 retains its functional capabilities, including binding with RUVBLs, Hsp90, and Hsp70. By elucidating the role of RPAP3 in plant R2TP complex, we can further comprehend the molecular mechanisms underlying plant-specific protein assembly and contribute to advancements in plant biology and biotechnological applications.
Collapse
Affiliation(s)
- Larissa Machado Antonio
- Institute of Chemistry, University of Campinas—UNICAMP, Campinas 13100-104, SP, Brazil; (L.M.A.); (G.H.M.); (A.Z.B.A.); (N.G.Q.); (G.Z.)
| | - Gustavo Henrique Martins
- Institute of Chemistry, University of Campinas—UNICAMP, Campinas 13100-104, SP, Brazil; (L.M.A.); (G.H.M.); (A.Z.B.A.); (N.G.Q.); (G.Z.)
| | - Annelize Zambon Barbosa Aragão
- Institute of Chemistry, University of Campinas—UNICAMP, Campinas 13100-104, SP, Brazil; (L.M.A.); (G.H.M.); (A.Z.B.A.); (N.G.Q.); (G.Z.)
| | - Natália Galdi Quel
- Institute of Chemistry, University of Campinas—UNICAMP, Campinas 13100-104, SP, Brazil; (L.M.A.); (G.H.M.); (A.Z.B.A.); (N.G.Q.); (G.Z.)
| | - Gabriel Zazeri
- Institute of Chemistry, University of Campinas—UNICAMP, Campinas 13100-104, SP, Brazil; (L.M.A.); (G.H.M.); (A.Z.B.A.); (N.G.Q.); (G.Z.)
| | - Walid A. Houry
- Department of Biochemistry, University of Toronto, Toronto, ON M5G 1M1, Canada;
- Department of Chemistry, University of Toronto, Toronto, ON M5S 3H6, Canada
| | - Carlos Henrique Inacio Ramos
- Institute of Chemistry, University of Campinas—UNICAMP, Campinas 13100-104, SP, Brazil; (L.M.A.); (G.H.M.); (A.Z.B.A.); (N.G.Q.); (G.Z.)
| |
Collapse
|
2
|
Kadiene EU, Ouddane B, Gong HY, Kim MS, Lee JS, Pan YJ, Hwang JS, Souissi S. Differential gene expression profile of male and female copepods in response to cadmium exposure. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 204:111048. [PMID: 32758697 DOI: 10.1016/j.ecoenv.2020.111048] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2020] [Revised: 07/14/2020] [Accepted: 07/15/2020] [Indexed: 06/11/2023]
Abstract
In this study, the whole transcriptome and sex-specific differential gene expression of the copepod Pseudodiaptomus annandalei exposed to cadmium (Cd) were investigated. P. annandalei were exposed to 40 μg/L Cd from the naupliar stage to male and female adults. High-throughput transcriptome sequencing (RNA-seq) was performed with copepod samples using an Illumina Hiseq™ 2000 platform. TransDecoder analysis found 32,625 putative open reading frame contigs. At p-values of <0.001, a total of 4756 differentially expressed genes (DEGs) (2216 up-regulated and 2540 down-regulated genes) were found in male copepods. Whereas a total of 2879 DEGs (2007 up-regulated and 872 down-regulated genes) were found in female copepods. A few selected cellular stress response genes, involved in xenobiotic metabolism, energy metabolism, growth, and development as a result of Cd exposure in the copepods were discussed. The study showed that most of these processes were changed in a sex-specific manner, accounting for the different sensitivities of male and female copepods. Results suggest and reinforce that sex is an important factor to be considered in ecotoxicogenomics.
Collapse
Affiliation(s)
- Esther U Kadiene
- Univ. Lille, CNRS, Univ. Littoral Côte D'Opale, UMR 8187 - LOG - Laboratoire D'Océanologie et de Géosciences, F-59000, Lille, France; Institute of Marine Biology, National Taiwan Ocean University, 20224, Keelung, Taiwan
| | - Baghdad Ouddane
- Université de Lille, Equipe Physico-Chimie de L'Environnement, Laboratoire LASIR UMR CNRS 8516, 59655, Villeneuve D'Ascq Cedex, France
| | - Hong-Yi Gong
- Department of Aquaculture, National Taiwan Ocean University, Keelung, 20224, Taiwan; Center of Excellence for the Oceans, National Taiwan Ocean University, Keelung, 20224, Taiwan
| | - Min-Sub Kim
- Department of Biological Sciences, College of Science, Sungkyunkwan University, Suwon, 16419, South Korea
| | - Jae-Seong Lee
- Department of Biological Sciences, College of Science, Sungkyunkwan University, Suwon, 16419, South Korea
| | - Yen-Ju Pan
- Univ. Lille, CNRS, Univ. Littoral Côte D'Opale, UMR 8187 - LOG - Laboratoire D'Océanologie et de Géosciences, F-59000, Lille, France; Department of Aquaculture, National Taiwan Ocean University, Keelung, 20224, Taiwan; Center of Excellence for the Oceans, National Taiwan Ocean University, Keelung, 20224, Taiwan
| | - Jiang-Shiou Hwang
- Institute of Marine Biology, National Taiwan Ocean University, 20224, Keelung, Taiwan; Center of Excellence for Ocean Engineering, National Taiwan Ocean University, Keelung 20224, Taiwan; Center of Excellence for the Oceans, National Taiwan Ocean University, Keelung, 20224, Taiwan.
| | - Sami Souissi
- Univ. Lille, CNRS, Univ. Littoral Côte D'Opale, UMR 8187 - LOG - Laboratoire D'Océanologie et de Géosciences, F-59000, Lille, France.
| |
Collapse
|
3
|
Gonçalves CDC, Pinheiro GMS, Dahlström KM, Souto DEP, Kubota LT, Barbosa LRS, Ramos CHI. On the structure and function of Sorghum bicolor CHIP (carboxyl terminus of Hsc70-interacting protein): A link between chaperone and proteasome systems. PLANT SCIENCE : AN INTERNATIONAL JOURNAL OF EXPERIMENTAL PLANT BIOLOGY 2020; 296:110506. [PMID: 32540021 DOI: 10.1016/j.plantsci.2020.110506] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2019] [Revised: 04/12/2020] [Accepted: 04/18/2020] [Indexed: 06/11/2023]
Abstract
The co-chaperone CHIP (carboxy terminus of Hsc70 interacting protein) is very important for many cell activities since it regulates the ubiquitination of substrates targeted for proteasomal degradation. However, information on the structure-function relationship of CHIP from plants and how it interacts and ubiquitinates other plant chaperones is still needed. For that, the CHIP ortholog from Sorghum bicolor (SbCHIP) was identified and studied in detail. SbCHIP was purified and produced folded and pure, being capable of keeping its structural conformation up to 42 °C, indicating that cellular function is maintained even in a hot environment. Also, SbCHIP was able to bind plant Hsp70 and Hsp90 with high affinity and interact with E2 enzymes, performing E3 ligase activity. The data allowed to reveal the pattern of plant Hsp70 and Hsp90 ubiquitination and described which plant E2 enzymes are likely involved in SbCHIP-mediated ubiquitination. Aditionally, we obtained information on the SbCHIP conformation, showing that it is a non-globular symmetric dimer and allowing to put forward a model for the interaction of SbCHIP with chaperones and E2 enzymes that suggests a mechanism of ubiquitination. Altogether, the results presented here are useful additions to the study of protein folding and degradation in plants.
Collapse
Affiliation(s)
| | - Glaucia M S Pinheiro
- Institute of Chemistry, University of Campinas-UNICAMP, Campinas, SP 13083-970, Brazil
| | - Käthe M Dahlström
- Institute of Chemistry, University of Campinas-UNICAMP, Campinas, SP 13083-970, Brazil
| | - Dênio E P Souto
- Institute of Chemistry, University of Campinas-UNICAMP, Campinas, SP 13083-970, Brazil
| | - Lauro T Kubota
- Institute of Chemistry, University of Campinas-UNICAMP, Campinas, SP 13083-970, Brazil
| | - Leandro R S Barbosa
- Institute of Physics, University of São Paulo-USP, São Paulo, SP 05508-090, Brazil
| | - Carlos H I Ramos
- Institute of Chemistry, University of Campinas-UNICAMP, Campinas, SP 13083-970, Brazil.
| |
Collapse
|
4
|
Ding G, Wu L, Feng H, Liu Y, Li J, Si H, Yao X, He M, He W. The specific binding of a new 1,2,3-triazole to three blood proteins and it's appended rhodamine complex for selective detection of Hg 2. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 228:117728. [PMID: 31748164 DOI: 10.1016/j.saa.2019.117728] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2019] [Revised: 10/26/2019] [Accepted: 10/28/2019] [Indexed: 06/10/2023]
Abstract
A synthesized compound, ethyl 2,5-diphenyl-2H-1,2,3-triazole-4- carboxylate (EDTC) was investigated on its physiochemical parameters and structural properties by using the quantum-chemical method. The results on the theoretical spectrum of EDTC were line with experimental fluorescence and absorption spectrum in large degree. Then EDTC was successfully synthesized to a novel rhodamine-based fluorescent probe (REDTC), which showed a distinct fluorescence enhancement upon the presence of Hg2+ in dimethyl formamide-water (DMF-H2O) buffer solution (pH 7.4). Meanwhile, the triazole appended colorless compound turns to pink upon complex formation with Hg2+ ions as 1:2 molar ratios and enables naked-eye detection. The chromogenic mechanism was determined by using spectroscopic measurements and TD DFT calculation. The fluorescence imaging experiments of Hg2+ in HeLa cell revealed that the probe REDTC could be labeled and it could be used in biological systems. Also, the intermediate EDTC was developed as a sensitive fluorescent probe for specific studies on the interactions to three kinds of blood proteins including human serum albumin (HSA), human immunoglobulin (HIg) and bovine hemoglobin (BHb) by using a series of spectroscopic methods and molecular docking under the simulative physiological conditions. The interactions between EDTC and these proteins led to the distinct fluorescence enhancement. The thermodynamic measured results further suggested that hydrophobic forces play a dominating role in stabilizing the complexes, which are in correspondence with the results from molecular docking. The UV-visible, synchronous, and three-dimensional (3D) fluorescence measurements demonstrated that EDTC influences the conformational of proteins and the microenvironment surrounding HSA, HIg, or BHb in aqueous solution.
Collapse
Affiliation(s)
- Guohua Ding
- Key Laboratory of Tropical Medicinal Resource Chemistry of Ministry of Education, Hainan Normal University, 571158, Haikou, China
| | - Luyong Wu
- Key Laboratory of Tropical Medicinal Resource Chemistry of Ministry of Education, Hainan Normal University, 571158, Haikou, China
| | - Huajie Feng
- Key Laboratory of Tropical Medicinal Resource Chemistry of Ministry of Education, Hainan Normal University, 571158, Haikou, China
| | - Yanping Liu
- Key Laboratory of Tropical Medicinal Resource Chemistry of Ministry of Education, Hainan Normal University, 571158, Haikou, China
| | - Jianling Li
- Key Laboratory of Tropical Medicinal Resource Chemistry of Ministry of Education, Hainan Normal University, 571158, Haikou, China
| | - Hongzong Si
- Institute for Computational Science and Engineering, Qingdao University, 266071, Qingdao, China
| | - Xiaojun Yao
- College of Chemical and Chemical Engineering, Lanzhou University, 730000, Lanzhou, China
| | - Mengxiong He
- Key Laboratory of Tropical Medicinal Resource Chemistry of Ministry of Education, Hainan Normal University, 571158, Haikou, China
| | - Wenying He
- Key Laboratory of Tropical Medicinal Resource Chemistry of Ministry of Education, Hainan Normal University, 571158, Haikou, China.
| |
Collapse
|
5
|
Li J, Feng H, Liu R, Ding G, Si H, He W, Sun Z. The computational and experimental studies on a 1, 2, 3-triazole compound and its special binding to three kinds of blood proteins. J Biomol Struct Dyn 2019; 38:1185-1196. [PMID: 30909827 DOI: 10.1080/07391102.2019.1598498] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
A newly synthesized compound, ethyl 5-phenyl-2-(p-tolyl)-2H-1, 2, 3-triazole-4-carboxylate (EPPC) may be considered as a drug candidate and was exploited to study the structural and spectral properties by using quantum chemical calculation and multiple spectroscopic techniques. The results on theoretical spectrum of EPPC were consistent with experimental spectrum in great degree. In addition, EPPC has been as a special probe and investigated on the interactions with three kinds of blood proteins including human serum albumin (HSA), human immunoglobulin (HIgG) and bovine hemoglobin (BHb) by using UV-Vis, fluorescence spectroscopy and molecular modeling, respectively. Changes in various fluorescence and UV-Vis spectra were observed upon ligand binding along with a remarkable degree of fluorescence enhancement on complex formation under physiological condition with binding constant about 105 order of magnitudes, which caused the variations of conformation and microenvironment of these proteins in aqueous solution. The obtained results from the thermodynamic parameters calculated according to the van't Hoff equation indicated that the entropy change ΔS° and enthalpy change ΔH° were found to be 0.168 KJ/mol K and 22.154 KJ/mol for EPPC-HSA system, 0.284 KJ/mol K and 54.408 KJ/mol for EPPC-HIgG system, and 0.228 KJ/mol K and 37.548 KJ/mol for EPPC-BHb system, respectively, which demonstrated that the primary binding pattern is determined by hydrophobic interaction. The results of docking and molecular dynamics simulation using three proteins crystal models revealed that EPPC could bind to three proteins well into hydrophobic cavity, which showed good consistence with the spectroscopic measurements.Communicated by Ramaswamy H. Sarma.
Collapse
Affiliation(s)
- Jianling Li
- College of Chemical and Chemical Engineering, Hainan Normal University, Haikou, China
| | - Huajie Feng
- College of Chemical and Chemical Engineering, Hainan Normal University, Haikou, China
| | - Rongqiang Liu
- College of Chemical and Chemical Engineering, Hainan Normal University, Haikou, China
| | - Guohua Ding
- College of Chemical and Chemical Engineering, Hainan Normal University, Haikou, China
| | - Hongzong Si
- Institute for Computational Science and Engineering, Qingdao University, Qingdao, China
| | - Wenying He
- Key Laboratory of Tropical Medicinal Resource Chemistry of Ministry of Education, Hainan Normal University, Haikou, China
| | - Zhenfan Sun
- College of Chemical and Chemical Engineering, Hainan Normal University, Haikou, China
| |
Collapse
|
6
|
Pinheiro GMS, Ramos CHI. Initial characterization of newly identified mitochondrial and chloroplast small HSPs from sugarcane shows that these chaperones have different oligomerization states and substrate specificities. PLANT PHYSIOLOGY AND BIOCHEMISTRY : PPB 2018; 129:285-294. [PMID: 29909242 DOI: 10.1016/j.plaphy.2018.06.002] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2018] [Revised: 05/31/2018] [Accepted: 06/01/2018] [Indexed: 06/08/2023]
Abstract
Chaperones belonging to the small heat shock protein (sHSP) family are ubiquitous and exhibit elevated expression under stresses conditions to protect proteins against aggregation, thereby contributing to the stress tolerance of the organism. Tropical plants are constantly exposed to high temperatures, and the mechanisms by which these plants tolerate heat stress are of foremost importance to basic science as well as applied agrobiotechnology. Therefore, this study aims to characterize sHSPs from different organelles from sugarcane, an important crop that is associated with sugar and bioenergy production. An expression sequence tag database of sugarcane was searched, and sHsp genes of mitochondrial and chloroplast organelles were selected and cloned. The proteins were expressed in Escherichia coli and isolated and purified by two chromatographic steps with high purity as single species. Circular dichroism and fluorescence spectroscopy showed that both proteins were purified in their folded states with a predominant β-sheet secondary structure. Determination of the molecular weight, diffusion coefficient and Stokes radius parameters showed that both chaperones form large spherical-like oligomers in solution. The two sHSPs had different oligomeric states and substrate specificities. The mitochondrial sHSP was a 20-mer with ability to protect model substrates that differ from that of the 16-meric sHSP from chloroplasts. These results indicate that both sHSPs are key agents to protect against stress confirming the importance of the great diversity of sHSP chaperones in plants for homeostasis maintenance. Moreover, to our knowledge, this is the first report about small HSPs from sugarcane organelles.
Collapse
Affiliation(s)
| | - Carlos H I Ramos
- Chemistry Institute, UNICAMP, P.O. Box 6154, Campinas, 13083-970, SP, Brazil.
| |
Collapse
|
7
|
Heat Shock Proteins in Aquaculture Disease Immunology and Stress Response of Crustaceans. HEAT SHOCK PROTEINS 2017. [DOI: 10.1007/978-3-319-73377-7_10] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/12/2023]
|
8
|
Zanphorlin LM, Lima TB, Wong MJ, Balbuena TS, Minetti CASA, Remeta DP, Young JC, Barbosa LRS, Gozzo FC, Ramos CHI. Heat Shock Protein 90 kDa (Hsp90) Has a Second Functional Interaction Site with the Mitochondrial Import Receptor Tom70. J Biol Chem 2016; 291:18620-31. [PMID: 27402847 PMCID: PMC5009240 DOI: 10.1074/jbc.m115.710137] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2015] [Revised: 07/07/2016] [Indexed: 12/19/2022] Open
Abstract
To accomplish its crucial role, mitochondria require proteins that are produced in the cytosol, delivered by cytosolic Hsp90, and translocated to its interior by the translocase outer membrane (TOM) complex. Hsp90 is a dimeric molecular chaperone and its function is modulated by its interaction with a large variety of co-chaperones expressed within the cell. An important family of co-chaperones is characterized by the presence of one TPR (tetratricopeptide repeat) domain, which binds to the C-terminal MEEVD motif of Hsp90. These include Tom70, an important component of the TOM complex. Despite a wealth of studies conducted on the relevance of Tom70·Hsp90 complex formation, there is a dearth of information regarding the exact molecular mode of interaction. To help fill this void, we have employed a combined experimental strategy consisting of cross-linking/mass spectrometry to investigate binding of the C-terminal Hsp90 domain to the cytosolic domain of Tom70. This approach has identified a novel region of contact between C-Hsp90 and Tom70, a finding that is confirmed by probing the corresponding peptides derived from cross-linking experiments via isothermal titration calorimetry and mitochondrial import assays. The data generated in this study are combined to input constraints for a molecular model of the Hsp90/Tom70 interaction, which has been validated by small angle x-ray scattering, hydrogen/deuterium exchange, and mass spectrometry. The resultant model suggests that only one of the MEEVD motifs within dimeric Hsp90 contacts Tom70. Collectively, our findings provide significant insight on the mechanisms by which preproteins interact with Hsp90 and are translocated via Tom70 to the mitochondria.
Collapse
Affiliation(s)
- Leticia M Zanphorlin
- From the Institute of Chemistry, University of Campinas UNICAMP, Campinas SP, 13083-970, Brazil
| | - Tatiani B Lima
- From the Institute of Chemistry, University of Campinas UNICAMP, Campinas SP, 13083-970, Brazil
| | - Michael J Wong
- the Department of Biochemistry, McGill University, Groupe de Recherche Axé sur la Structure des Protéines, Montreal, QC H3G 0B1, Canada
| | - Tiago S Balbuena
- the College of Agricultural and Veterinary Sciences, State University of Sao Paulo, Jaboticabal, Sao Paulo, 14884-900 Brazil
| | - Conceição A S A Minetti
- the Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854, and
| | - David P Remeta
- the Department of Chemistry and Chemical Biology, Rutgers, The State University of New Jersey, Piscataway, New Jersey 08854, and
| | - Jason C Young
- the Department of Biochemistry, McGill University, Groupe de Recherche Axé sur la Structure des Protéines, Montreal, QC H3G 0B1, Canada
| | - Leandro R S Barbosa
- the Instituto de Fisica, Universidade de Sao Paulo USP, Sao Paulo SP, 05508-090 Brazil
| | - Fabio C Gozzo
- From the Institute of Chemistry, University of Campinas UNICAMP, Campinas SP, 13083-970, Brazil
| | - Carlos H I Ramos
- From the Institute of Chemistry, University of Campinas UNICAMP, Campinas SP, 13083-970, Brazil,
| |
Collapse
|
9
|
Barnabas L, Ramadass A, Amalraj RS, Palaniyandi M, Rasappa V. Sugarcane proteomics: An update on current status, challenges, and future prospects. Proteomics 2016; 15:1658-70. [PMID: 25641866 DOI: 10.1002/pmic.201400463] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2014] [Revised: 11/27/2014] [Accepted: 01/09/2015] [Indexed: 12/23/2022]
Abstract
Sugarcane is one of the most important commercial crops cultivated worldwide for the production of crystal sugar, ethanol, and other related by-products. Unlike other comparable monocots like sorghum, maize, and rice, sugarcane genome by virtue of its polyploidy nature remains yet to be fully deciphered. Proteomics-an established complementary tool to genomics is at its infancy in sugarcane as compared to the other monocots. However, with the surge in genomics research accomplished by next-generation sequencing platforms, sugarcane proteomics has gained momentum. This review summarizes the available literature from 1970 to 2014, which ensures a comprehensive coverage on sugarcane proteomics-a topic first of its kind to be reviewed. We herewith compiled substantial contributions in different areas of sugarcane proteomics, which include abiotic and biotic stresses, cell wall, organelle, and structural proteomics. The past decade has witnessed a paradigm shift in the pace with which sugarcane proteomics is progressing, as evident by the number of research publications. In addition to extensively reviewing the progress made thus far, we intend to highlight the scope in sugarcane proteomics, with an aspiration to instigate focused research on sugarcane to harness its full potential for the human welfare.
Collapse
Affiliation(s)
- Leonard Barnabas
- Division of Crop Protection, Sugarcane Breeding Institute, Indian Council of Agricultural Research, Coimbatore, India
| | - Ashwin Ramadass
- Division of Crop Protection, Sugarcane Breeding Institute, Indian Council of Agricultural Research, Coimbatore, India
| | - Ramesh Sundar Amalraj
- Division of Crop Protection, Sugarcane Breeding Institute, Indian Council of Agricultural Research, Coimbatore, India
| | - Malathi Palaniyandi
- Division of Crop Protection, Sugarcane Breeding Institute, Indian Council of Agricultural Research, Coimbatore, India
| | - Viswanathan Rasappa
- Division of Crop Protection, Sugarcane Breeding Institute, Indian Council of Agricultural Research, Coimbatore, India
| |
Collapse
|
10
|
Hao P, Zhu J, Gu A, Lv D, Ge P, Chen G, Li X, Yan Y. An integrative proteome analysis of different seedling organs in tolerant and sensitive wheat cultivars under drought stress and recovery. Proteomics 2015; 15:1544-63. [DOI: 10.1002/pmic.201400179] [Citation(s) in RCA: 73] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2014] [Revised: 11/09/2014] [Accepted: 12/18/2014] [Indexed: 01/18/2023]
Affiliation(s)
- Pengchao Hao
- College of Life Science; Capital Normal University; Beijing P. R. China
| | - Jiantang Zhu
- College of Life Science; Capital Normal University; Beijing P. R. China
| | - Aiqin Gu
- College of Life Science; Capital Normal University; Beijing P. R. China
| | - Dongwen Lv
- College of Life Science; Capital Normal University; Beijing P. R. China
| | - Pei Ge
- College of Life Science; Capital Normal University; Beijing P. R. China
| | - Guanxing Chen
- College of Life Science; Capital Normal University; Beijing P. R. China
| | - Xiaohui Li
- College of Life Science; Capital Normal University; Beijing P. R. China
| | - Yueming Yan
- College of Life Science; Capital Normal University; Beijing P. R. China
- Hubei Collaborative Innovation Center for Grain Industry (HCICGI); Jingzhou P. R. China
| |
Collapse
|
11
|
The conformational response to Zn(II) and Ni(II) binding of Sporosarcina pasteurii UreG, an intrinsically disordered GTPase. J Biol Inorg Chem 2014; 19:1341-54. [PMID: 25200810 DOI: 10.1007/s00775-014-1191-9] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2014] [Accepted: 08/25/2014] [Indexed: 10/24/2022]
Abstract
Urease is an essential Ni(II) enzyme involved in the nitrogen metabolism of bacteria, plants and fungi. Ni(II) delivery into the enzyme active site requires the presence of four accessory proteins, named UreD, UreF, UreG and UreE, acting through a complex protein network regulated by metal binding and GTP hydrolysis. The GTPase activity is catalyzed by UreG, which couples this function to a non-enzymatic role as a molecular chaperone. This moonlighting activity is reflected in a flexible fold that makes UreG the first discovered intrinsically disordered enzyme. UreG binds Ni(II) and Zn(II),which in turn modulate the interactions with other urease chaperones. The aim of this study is to understand the structural implications of metal binding to Sporosarcina pasteurii UreG (SpUreG). A combination of light scattering, calorimetry, mass spectrometry, and NMR spectroscopy revealed that SpUreG exists in monomer-dimer equilibrium (K(d)= 45 µM), sampling three distinct folding populations with different degrees of compactness. Binding of Zn(II) ions, occurring in two distinct sites (K(d1) = 3 nM, K(d2) = 0.53 µM), shifts the protein conformational landscape toward the more compact population, while maintaining the overall protein structural plasticity. Differently, binding of Ni(II) ions occurs in three binding sites (K(d1(= 14 µM; K(d2) = 270 µM; K(d3)= 160 µM), with much weaker influence on the protein conformational equilibrium. These distinct conformational responses of SpUreG to Ni(II) and Zn(II) binding suggest that selective metal binding modulates protein plasticity, possibly having an impact on the protein-protein interactions and the enzymatic activity of UreG.
Collapse
|