1
|
Rafay A, Aziz M, Zia A, Asif AR. Automated Retrieval of Heterogeneous Proteomic Data for Machine Learning. J Pers Med 2023; 13:jpm13050790. [PMID: 37240960 DOI: 10.3390/jpm13050790] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2023] [Revised: 04/28/2023] [Accepted: 04/28/2023] [Indexed: 05/28/2023] Open
Abstract
Proteomics instrumentation and the corresponding bioinformatics tools have evolved at a rapid pace in the last 20 years, whereas the exploitation of deep learning techniques in proteomics is on the horizon. The ability to revisit proteomics raw data, in particular, could be a valuable resource for machine learning applications seeking new insight into protein expression and functions of previously acquired data from different instruments under various lab conditions. We map publicly available proteomics repositories (such as ProteomeXchange) and relevant publications to extract MS/MS data to form one large database that contains the patient history and mass spectrometric data acquired for the patient sample. The extracted mapped dataset should enable the research to overcome the issues attached to the dispersions of proteomics data on the internet, which makes it difficult to apply emerging new bioinformatics tools and deep learning algorithms. The workflow proposed in this study enables a linked large dataset of heart-related proteomics data, which could be easily and efficiently applied to machine learning and deep learning algorithms for futuristic predictions of heart diseases and modeling. Data scraping and crawling offer a powerful tool to harvest and prepare the training and test datasets; however, the authors advocate caution because of ethical and legal issues, as well as the need to ensure the quality and accuracy of the data that are being collected.
Collapse
Affiliation(s)
- Abdul Rafay
- Department for Clinical Chemistry/Interdisciplinary UMG Laboratories, University Medical Center, 37075 Göttingen, Germany
- Future Networks, eScience Group, Gesellschaft für Wissenschaftliche Datenverarbeitung mbH Göttingen (GWDG), 37077 Göttingen, Germany
| | - Muzzamil Aziz
- Future Networks, eScience Group, Gesellschaft für Wissenschaftliche Datenverarbeitung mbH Göttingen (GWDG), 37077 Göttingen, Germany
| | - Amjad Zia
- Department for Clinical Chemistry/Interdisciplinary UMG Laboratories, University Medical Center, 37075 Göttingen, Germany
| | - Abdul R Asif
- Department for Clinical Chemistry/Interdisciplinary UMG Laboratories, University Medical Center, 37075 Göttingen, Germany
- German Centre for Cardiovascular Research (DZHK), Partner Site Göttingen, 37075 Göttingen, Germany
| |
Collapse
|
2
|
Khan A, Zahid S, Hasan B, Asif AR, Ahmed N. Mass Spectrometry based identification of site-specific proteomic alterations and potential pathways underlying the pathophysiology of schizophrenia. Mol Biol Rep 2023; 50:4931-4943. [PMID: 37076706 DOI: 10.1007/s11033-023-08431-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2023] [Accepted: 04/04/2023] [Indexed: 04/21/2023]
Abstract
BACKGROUND Schizophrenia (SZ) is a complex multifactorial disorder that affects 1% of the population worldwide with no available effective treatment. Although proteomic alterations are reported in SZ however proteomic expression aberrations among different brain regions are not fully determined. Therefore, the present study aimed spatial differential protein expression profiling of three distinct regions of SZ brain and identification of associated affected biological pathways in SZ progression. METHODS AND RESULTS Comparative protein expression profiling of three distinct autopsied human brain regions (i.e., substantia nigra, hippocampus and prefrontal cortex) of SZ was performed with respective healthy controls. Using two-dimensional electrophoresis (2DE)-based nano liquid chromatography tandem mass spectrometry (Nano-LC MS /MS) analysis, 1443 proteins were identified out of which 58 connote to be significantly dysregulated, representing 26 of substantia nigra,14 of hippocampus and 18 of prefrontal cortex. The 58 differentially expressed proteins were further analyzed using Ingenuity pathway analysis (IPA). The IPA analysis provided protein-protein interaction networks of several proteins including nuclear factor kappa-light-chain-enhancer of activated B cells (NF-kb), extracellular signal regulated kinases 1/2 (ERK1/2), alpha serine / Threonine-protein kinase (AKT1), cellular tumor antigen p53 (TP53) and amyloid precursor protein (APP), holding prime positions in networks and interacts with most of the identified proteins and their closely interacting partners. CONCLUSION These findings provide conceptual insights of novel SZ related pathways and the cross talk of co and contra regulated proteins. This spatial proteomic analysis will further broaden the conceptual framework for schizophrenia research in future.
Collapse
Affiliation(s)
- Ayesha Khan
- Neurochemistry Research Laboratory, Department of Biochemistry, University of Karachi, Karachi, 75270, Pakistan
| | - Saadia Zahid
- Neurochemistry Research Laboratory, Department of Biochemistry, University of Karachi, Karachi, 75270, Pakistan
- Neurobiology Research Laboratory, Department of Healthcare Biotechnology, Atta-ur-Rahman School of Applied Biosciences, National University of Sciences and Technology, Islamabad, Pakistan
| | - Beena Hasan
- Neurochemistry Research Laboratory, Department of Biochemistry, University of Karachi, Karachi, 75270, Pakistan
| | - Abdul R Asif
- Institute of Clinical Chemistry, University Medical Center, Robert-Koch-Str. 40, 37075, Göttingen, Göttingen, Germany
| | - Nikhat Ahmed
- Neurochemistry Research Laboratory, Department of Biochemistry, University of Karachi, Karachi, 75270, Pakistan.
| |
Collapse
|
3
|
Kwiatkowski M, Hotze M, Schumacher J, Asif AR, Pittol JMR, Brenig B, Ramljak S, Zischler H, Herlyn H. Protein speciation is likely to increase the chance of proteins to be determined in 2‐DE/MS. Electrophoresis 2022; 43:1203-1214. [DOI: 10.1002/elps.202000393] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2020] [Revised: 11/30/2021] [Accepted: 02/02/2022] [Indexed: 11/08/2022]
Affiliation(s)
- Marcel Kwiatkowski
- Department of Biochemistry and Center for Molecular Biosciences Innsbruck University of Innsbruck Innsbruck Austria
| | - Madlen Hotze
- Department of Biochemistry and Center for Molecular Biosciences Innsbruck University of Innsbruck Innsbruck Austria
| | | | - Abdul R. Asif
- Department of Clinical Chemistry/UMG‐Laboratories University Medical Center Göttingen Germany
| | - Jose Miguel Ramos Pittol
- Department of Biochemistry and Center for Molecular Biosciences Innsbruck University of Innsbruck Innsbruck Austria
| | - Bertram Brenig
- Department of Molecular Biology of Livestock Institute of Veterinary Medicine University of Göttingen Göttingen Germany
| | | | - Hans Zischler
- Institute of Organismic and Molecular Evolution, Anthropology University of Mainz Mainz Germany
| | - Holger Herlyn
- Institute of Organismic and Molecular Evolution, Anthropology University of Mainz Mainz Germany
| |
Collapse
|
4
|
Asif M, Hayat Z, Rahman A, Qamar MF, Nawaz S, Ijaz M, Badar IH, Asif AR, Yar MK. Effects of mannan-oligosaccharide supplementation on gut health, immunity, and production performance of broilers. BRAZ J BIOL 2022; 84:e250132. [PMID: 35584455 DOI: 10.1590/1519-6984.250132] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2021] [Accepted: 03/15/2022] [Indexed: 11/22/2022] Open
Abstract
The study was designed to investigate the effect of mannan-oligosaccharide (MOS) supplementation on intestinal histomorphology, immunity against Newcastle disease virus (NDV) and productive parameters of broilers. A total of 1800, day old broiler chicks of Cobb-500 strain were selected and randomly assorted into 6 treatment groups: T1 (basal diet without antibiotics as negative control); T2 (basal diet plus antibiotics as positive control group); T3 (basal diet plus 200g/ton MOS); T4 (basal diet plus 400g/ton MOS); T5 (basal diet plus 600g/ton MOS) and T6 (basal diet plus 800g/ton MOS). Each treatment was having 6 replicates and the feed intake, body weight gain and feed conversion ratio (FCR) were recorded on weekly basis. Results showed that, MOS supplemented birds have significantly higher feed intake, weight gain and FCR (P < 0.05). Similarly, supplementation of MOS showed positive effect on villus height and crypt depth both in jejunum and ilium. Goblet cell density was unaffected by MOS addition (P < 0.05). Furthermore, birds fed with diets containing MOS, exhibited better productive performance in comparison to positive and negative control groups. In conclusion, MOS can replace antibiotic growth promoters (AGPs) as non-microbial performance-enhancing feed advocates.
Collapse
Affiliation(s)
- M Asif
- University of Veterinary and Animal Sciences, Department of Animal Sciences, Jhang Campus, Jhang, Pakistan
| | - Z Hayat
- University of Veterinary and Animal Sciences, Department of Animal Sciences, Jhang Campus, Jhang, Pakistan.,University of Sargodha, College of Agriculture, Department of Animal Sciences, Sargodha, Pakistan
| | - A Rahman
- University of Veterinary and Animal Sciences, Department of Animal Sciences, Jhang Campus, Jhang, Pakistan
| | - M F Qamar
- University of Veterinary and Animal Sciences, Department of Animal Sciences, Jhang Campus, Jhang, Pakistan
| | - S Nawaz
- University of Veterinary and Animal Sciences, Faculty of Animal Production and Technology, Department of Meat Science and Technology, Lahore, Pakistan
| | - M Ijaz
- University of Veterinary and Animal Sciences, Department of Animal Sciences, Jhang Campus, Jhang, Pakistan
| | - I H Badar
- University of Agriculture, Faculty of Veterinary Science, Department of Anatomy, Faisalabad, Pakistan
| | - A R Asif
- University of Veterinary and Animal Sciences, Department of Animal Sciences, Jhang Campus, Jhang, Pakistan.,Huazhong Agricultural University, Key Laboratory of Animal Genetics, Breeding and Reproduction, Wuhan, China
| | - M K Yar
- University of Veterinary and Animal Sciences, Department of Animal Sciences, Jhang Campus, Jhang, Pakistan
| |
Collapse
|
5
|
Abbas S, Iqbal A, Anjum KM, Sherzada S, Atique U, Khan MKA, Akmal M, Rahman A, Asif AR, Ahmad S, Malik A, Khan SA, Ahmad S, Inayat M. Body composition, growth performance and enzyme activities of Labeo rohita fed different commercial fish feeds. BRAZ J BIOL 2021; 83:e250402. [PMID: 34614125 DOI: 10.1590/1519-6984.250402] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2021] [Accepted: 06/07/2021] [Indexed: 11/22/2022] Open
Abstract
We have evaluated the effects of different fish feeds on the body composition, growth, and enzyme activities of Labeo rohita (Rohu). In total, 240 fishes between the average weights of 24.77±2.15g were studied. The treatments were applied in a completely randomized design, with 4 treatments of 60 fishes each. Treatments consisted of four different fish feeds [Oryza (T1), AMG (T2), Aqua (T3), and Supreme (T4)]. Body composition, growth performance, and enzyme activities were evaluated. There was a significant variation in performance of fishes fed with different type of feed; as fishes having Oryza feed showed the highest weight gain, specific growth rate (SGR), and best feed conversion ratio (FCR) as compared to other groups that were considered to be significant (P ≤ 0.05). High net weight gain was obtained in T4 when compared with T2 and T3. FCR value of T4 was less than T1 but higher than T2, T3 and T2, which showed the lowest values. The specific growth rate was recorded as average in T4, but T2 led a high SGR than T3. Similarly, crude protein level and digestive enzymes activity was recorded significantly highest in fed with Oryza (T1) as compared to AMG (T2), Aqua (T3), and Supreme (T4). Water quality parameters were recorded significant in all treatments except pH and DO of treatment (T1), significantly different from other treatments. It was concluded that Rohu (Labeo rohita) could show a promising growth rate and protease enzyme activity when fed with the Oryza feed of 25% protein.
Collapse
Affiliation(s)
- S Abbas
- University of Veterinary and Animal Sciences, Department of Fisheries and Aquaculture, Lahore, Pakistan
| | - Asia Iqbal
- University of Veterinary and Animal Sciences, Department of Wildlife and Ecology, Lahore, Pakistan
| | - K M Anjum
- University of Veterinary and Animal Sciences, Department of Wildlife and Ecology, Lahore, Pakistan
| | - S Sherzada
- University of Veterinary and Animal Sciences, Department of Fisheries and Aquaculture, Lahore, Pakistan
| | - U Atique
- University of Veterinary and Animal Sciences, Department of Fisheries and Aquaculture, Lahore, Pakistan.,Chungnam National University, Department of Bioscience and Biotechnology, Daejeon, South Korea
| | - M K A Khan
- University of Okara, Department of Zoology, Okara, Pakistan
| | - M Akmal
- University of Veterinary and Animal Sciences, Department of Fisheries and Aquaculture, Lahore, Pakistan
| | - A Rahman
- University of Veterinary and Animal Sciences, Department of Animal Sciences, Jhang Campus, Jhang, Pakistan
| | - A R Asif
- University of Veterinary and Animal Sciences, Department of Animal Sciences, Jhang Campus, Jhang, Pakistan
| | - S Ahmad
- University of Veterinary and Animal Sciences, Department of Fisheries and Aquaculture, Lahore, Pakistan
| | - A Malik
- University of Veterinary and Animal Sciences, Department of Fisheries and Aquaculture, Lahore, Pakistan
| | - S A Khan
- University of Veterinary and Animal Sciences, Department of Fisheries and Aquaculture, Lahore, Pakistan
| | - S Ahmad
- University of Veterinary and Animal Sciences, Faculty of Animal Production and Technology, Department of Poultry Production, Lahore, Pakistan
| | - M Inayat
- University of Veterinary and Animal Sciences, Department of Fisheries and Aquaculture, Lahore, Pakistan
| |
Collapse
|
6
|
Iqbal H, Rahman A, Khanum S, Arshad M, Badar IH, Asif AR, Hayat Z, Iqbal MA. Effect of Essential Oil and Organic Acid on Performance, Gut Health, Bacterial Count and Serological Parameters in Broiler. Braz J Poult Sci 2021. [DOI: 10.1590/1806-9061-2021-1443] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Affiliation(s)
- H Iqbal
- University of Veterinary and Animal Sciences, Pakistan
| | - A Rahman
- University of Veterinary and Animal Sciences, Pakistan
| | - S Khanum
- University of Veterinary and Animal Sciences, Pakistan
| | - M Arshad
- University of Veterinary and Animal Sciences, Pakistan
| | - IH Badar
- University of Veterinary and Animal Sciences, Pakistan
| | - AR Asif
- University of Veterinary and Animal Sciences, Pakistan
| | - Z Hayat
- University of Veterinary and Animal Sciences, Pakistan
| | - MA Iqbal
- University of Veterinary and Animal Sciences, Pakistan
| |
Collapse
|
7
|
Kwiatkowski M, Asif AR, Schumacher J, Brenig B, Zischler H, Herlyn H. Intra-Protein Coevolution Is Increasingly Functional with Greater Proximity to Fertilization. Cytogenet Genome Res 2020; 160:295-308. [PMID: 32683365 DOI: 10.1159/000509584] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2020] [Accepted: 06/08/2020] [Indexed: 11/19/2022] Open
Abstract
Intramolecular coevolution of amino acid sites has repeatedly been studied to improve predictions on protein structure and function. Thereby, the focus was on bacterial proteins with available crystallographic data. However, intramolecular coevolution has not yet been compared between protein sets along a gradient of functional proximity to fertilization. This is especially true for the potential effect of external selective forces on intraprotein coevolution. In this study, we investigated both aspects in equally sized sets of mammalian proteins representing spermatozoa, testis, entire body, and liver. For coevolutionary analyses, we derived the proportion of covarying sites per protein from amino acid alignments of 10 mammalian orthologues each. In confirmation of the validity of our coevolution proxy, we found positive associations with the nonsynonymous or amino acid substitution rate in all protein sets. However, our coevolution proxy negatively correlated with the number of protein interactants (node degree) in male reproductive protein sets alone. In addition, a negative association of our coevolution proxy with protein hydrophobicity was significant in sperm proteins only. Accordingly, the restrictive effect of protein interactants was most pronounced in male reproductive proteins, and the tendency of sperm proteins to form internal structures decreased the more coevolutionary sites they had. Both aspects illustrate that the share of outward and thus functional coevolution increases with greater proximity to fertilization. We found this conclusion confirmed by additional comparisons within sperm proteins. Thus, sperm proteins with high hydrophobicity had the lowest proportions of covarying sites and, according to gene annotations, localized more frequently to internal cellular structures. They should therefore be less exposed to postcopulatory forms of sexual selection. Their counterparts with low hydrophobicity had larger proportions of covarying sites and more often resided at the cell membrane or were secreted. At the cellular level, they are thus closer to externally induced forces of postcopulatory selection which are known for their potential to increase substitution rates. In addition, we show that the intermediary status of the testicular protein set in correlation analyses is probably due to a special combination of reproductive and somatic involvements.
Collapse
|
8
|
Popp D, Diekmann R, Binder L, Asif AR, Nussbeck SY. Liquid materials for biomedical research: a highly IT-integrated and automated biobanking solution. J LAB MED 2019. [DOI: 10.1515/labmed-2017-0118] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
AbstractVarious information technology (IT) infrastructures for biobanking, networks of biobanks and biomaterial management are described in the literature. As pre-analytical variables play a major role in the downstream interpretation of clinical as well as research results, their documentation is essential. A description for mainly automated documentation of the complete life-cycle of each biospecimen is lacking so far. Here, the example taken is from the University Medical Center Göttingen (UMG), where the workflow of liquid biomaterials is standardized between the central laboratory and the central biobank. The workflow of liquid biomaterials from sample withdrawal to long-term storage in a biobank was analyzed. Essential data such as time and temperature for processing and freezing can be automatically collected. The proposed solution involves only one major interface between the main IT systems of the laboratory and the biobank. It is key to talk to all the involved stakeholders to ensure a functional and accepted solution. Although IT components differ widely between clinics, the proposed way of documenting the complete life-cycle of each biospecimen can be transferred to other university medical centers. The complete documentation of the life-cycle of each biospecimen ensures a good interpretability of downstream routine as well as research results.
Collapse
|
9
|
Valerius O, Asif AR, Beißbarth T, Bohrer R, Dihazi H, Feussner K, Jahn O, Majcherczyk A, Schmidt B, Schmitt K, Urlaub H, Lenz C. Mapping Cellular Microenvironments: Proximity Labeling and Complexome Profiling (Seventh Symposium of the Göttingen Proteomics Forum). Cells 2019; 8:cells8101192. [PMID: 31581721 PMCID: PMC6830108 DOI: 10.3390/cells8101192] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2019] [Accepted: 10/01/2019] [Indexed: 11/16/2022] Open
Abstract
Mass spectrometry-based proteomics methods are finding increasing use in structural biology research. Beyond simple interaction networks, information about stable protein-protein complexes or spatially proximal proteins helps to elucidate the biological functions of proteins in a wider cellular context. To shed light on new developments in this field, the Göttingen Proteomics Forum organized a one-day symposium focused on complexome profiling and proximity labeling, two emerging technologies that are gaining significant attention in biomolecular research. The symposium was held in Göttingen, Germany on 23 May, 2019, as part of a series of regular symposia organized by the Göttingen Proteomics Forum.
Collapse
Affiliation(s)
- Oliver Valerius
- Institute for Microbiology and Genetics, Georg August University, 37077 Göttingen, Germany.
| | - Abdul R Asif
- Institute of Clinical Chemistry, University Medical Center Göttingen, 37075 Göttingen, Germany.
| | - Tim Beißbarth
- Department of Medical Statistics, University Medical Center Göttingen, 37075 Göttingen, Germany.
| | - Rainer Bohrer
- Gesellschaft für Wissenschaftliche Datenverarbeitung mbH Göttingen, 37077 Göttingen, Germany.
| | - Hassan Dihazi
- Clinic for Nephrology and Rheumatology, University Medical Center Göttingen, 37075 Göttingen, Germany.
- Center for Biostructural Imaging of Neurodegeneration (BIN), University Medical Center Göttingen, 37075 Göttingen, Germany.
| | - Kirstin Feussner
- Department of Plant Biochemistry, Albrecht von Haller Institute for Plant Sciences, Georg August University, 37073 Göttingen, Germany.
| | - Olaf Jahn
- Proteomics Group, Max Planck Institute of Experimental Medicine, 37075 Göttingen, Germany.
| | - Andrzej Majcherczyk
- Büsgen Institute, Section Molecular Wood Biotechnology and Technical Mycology, Georg August University, 37077 Göttingen, Germany.
| | - Bernhard Schmidt
- Institute for Biochemistry, University Medical Center Göttingen, 37075 Göttingen, Germany.
| | - Kerstin Schmitt
- Institute for Microbiology and Genetics, Georg August University, 37077 Göttingen, Germany.
| | - Henning Urlaub
- Institute of Clinical Chemistry, University Medical Center Göttingen, 37075 Göttingen, Germany.
- Bioanalytical Mass Spectrometry, Max Planck Institute for Biophysical Chemistry, 37077 Göttingen, Germany.
- DFG Collaborative Research Centre SFB1190 "Compartmental Gates and Contact Sites in Cells", 37075 Göttingen, Germany.
| | - Christof Lenz
- Institute of Clinical Chemistry, University Medical Center Göttingen, 37075 Göttingen, Germany.
- Bioanalytical Mass Spectrometry, Max Planck Institute for Biophysical Chemistry, 37077 Göttingen, Germany.
- DFG Collaborative Research Centre SFB1190 "Compartmental Gates and Contact Sites in Cells", 37075 Göttingen, Germany.
| |
Collapse
|
10
|
Eidizadeh A, Asif AR, von Ahsen N, Binder L, Schnelle M. Differences in procalcitonin measurements between three BRAHMS-partnered immunoassays (Liaison, Elecsys and Architect). ACTA ACUST UNITED AC 2019; 57:e207-e210. [DOI: 10.1515/cclm-2018-0916] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2018] [Accepted: 09/13/2018] [Indexed: 12/11/2022]
|
11
|
Dihazi H, Dihazi GH, Bibi A, Eltoweissy M, Mueller CA, Asif AR, Rubel D, Vasko R, Mueller GA. Correction: Secretion of ERP57 is important for extracellular matrix accumulation and progression of renal fibrosis, and is an early sign of disease onset (doi:10.1242/jcs.125088). J Cell Sci 2018; 131:131/13/jcs219014. [PMID: 29973398 DOI: 10.1242/jcs.219014] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
|
12
|
Dihazi GH, Mueller GA, Asif AR, Eltoweissy M, Wessels JT, Dihazi H. Correction to: Proteomic characterization of adrenal gland embryonic development reveals early initiation of steroid metabolism and reduction of the retinoic acid pathway. Proteome Sci 2018; 16:10. [PMID: 29875618 PMCID: PMC5977475 DOI: 10.1186/s12953-018-0138-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2018] [Accepted: 03/22/2018] [Indexed: 11/26/2022] Open
Affiliation(s)
- Gry H Dihazi
- Department of Nephrology and Rheumatology, University Medical Center Goettingen, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| | - Gerhard A Mueller
- Department of Nephrology and Rheumatology, University Medical Center Goettingen, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| | - Abdul R Asif
- 2Department of Clinical Chemistry, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| | - Marwa Eltoweissy
- Department of Nephrology and Rheumatology, University Medical Center Goettingen, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany.,3Department of Zoology, Faculty of Science, Alexandria University, Alexandria, Egypt
| | - Johannes T Wessels
- Department of Nephrology and Rheumatology, University Medical Center Goettingen, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| | - Hassan Dihazi
- Department of Nephrology and Rheumatology, University Medical Center Goettingen, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| |
Collapse
|
13
|
Dihazi H, Asif AR, Beißbarth T, Bohrer R, Feussner K, Feussner I, Jahn O, Lenz C, Majcherczyk A, Schmidt B, Schmitt K, Urlaub H, Valerius O. Integrative omics - from data to biology. Expert Rev Proteomics 2018; 15:463-466. [DOI: 10.1080/14789450.2018.1476143] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Hassan Dihazi
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Nephrology and Rheumatology, University Medical Center Göttingen, University of Göttingen, Göttingen, Germany
| | - Abdul R. Asif
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Institute for Clinical Chemistry/UMG-Laborateries, University Medical Center Göttingen, University of Göttingen, Göttingen, Germany
| | - Tim Beißbarth
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Department of Medical Statistics, University Medical Center Göttingen, University of Göttingen, Göttingen, Germany
| | - Rainer Bohrer
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Gesellschaft für Wissenschaftlische Datenverarbeitung mbH, Göttingen, Germany
| | - Kirstin Feussner
- Göttingen Metabolomics and Lipidomics Platform (GMLP), Göttingen, Germany
- Department of Plant Biochemistry, Albrecht-von-Haller-Institute for Plant Sciences, University of Göttingen, Göttingen, Germany
| | - Ivo Feussner
- Göttingen Metabolomics and Lipidomics Platform (GMLP), Göttingen, Germany
- Department of Plant Biochemistry, Albrecht-von-Haller-Institute for Plant Sciences, University of Göttingen, Göttingen, Germany
| | - Olaf Jahn
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Proteomics Group, Max Planck Institute of Experimental Medicine, Göttingen, Germany
| | - Christof Lenz
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Institute for Clinical Chemistry/UMG-Laborateries, University Medical Center Göttingen, University of Göttingen, Göttingen, Germany
- Bioanalytical Mass Spectrometry, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany
| | - Andrzej Majcherczyk
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Büsgen-Institute, Section Molecular Wood Biotechnology and Technical Mycology, University of Göttingen, Göttingen, Germany
| | - Bernhard Schmidt
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Department of Cellular Biochemistry, University Medical Center Göttingen, Göttingen, Germany
| | - Kerstin Schmitt
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Institute for Microbiology and Genetics, University of Göttingen, Göttingen, Germany
| | - Henning Urlaub
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Institute for Clinical Chemistry/UMG-Laborateries, University Medical Center Göttingen, University of Göttingen, Göttingen, Germany
- Bioanalytical Mass Spectrometry, Max Planck Institute for Biophysical Chemistry, Göttingen, Germany
| | - Oliver Valerius
- Göttingen Proteomics Forum (GPF), Göttingen, Germany
- Institute for Microbiology and Genetics, University of Göttingen, Göttingen, Germany
| |
Collapse
|
14
|
Khan N, Binder L, Pantakani DVK, Asif AR. MPA Modulates Tight Junctions' Permeability via Midkine/PI3K Pathway in Caco-2 Cells: A Possible Mechanism of Leak-Flux Diarrhea in Organ Transplanted Patients. Front Physiol 2017; 8:438. [PMID: 28694783 PMCID: PMC5483464 DOI: 10.3389/fphys.2017.00438] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2017] [Accepted: 06/09/2017] [Indexed: 12/16/2022] Open
Abstract
Mycophenolic acid (MPA) is prescribed to prevent allograft rejection in organ transplanted patients. However, its use is sporadically linked to leak flux diarrhea and other gastrointestinal (GI) disturbances in around 75% of patients through yet unknown mechanisms. Recently, we identified Midkine as a modulator of tight junctions (TJs) permeability in MPA treated Caco-2 monolayer. In the present study, we investigated the possible involvement of Midkine dependent PI3K pathway in alteration of TJs under MPA treatment. Caco-2 cells were grown as monolayer to develop TJs and were treated for 72 h with DMSO (control) or MPA in presence and absence of Midkine inhibitor (iMDK) or PI3K inhibitors (LY/AMG). Caco-2 monolayer integrity was assessed by transepithelial electrical resistance (TEER) and FITC-dextran assays. Our functional assays showed that PI3K inhibitors (LY/AMG) can significantly inhibit the compromised TJs integrity of MPA-treated Caco-2 cells monolayer. Chromatin immunoprecipitation analyses showed a significant epigenetic activation of Midkine, PI3K, Cdx-2, and Cldn-2 genes and epigenetic repression of Cldn-1 gene after MPA treatment. The MPA-induced epigenetic alterations were further confirmed by mRNA and protein expression analysis. Collectively, our data shows that PI3K pathway as the downstream target of Midkine which in turn modulates p38MAPK and pAKT signaling to alter TJs permeability in Caco-2 cell monolayers treated with MPA. These results highlight the possible use of either Midkine or PI3K inhibitors as therapeutic agents to prevent MPA induced GI disturbances.
Collapse
Affiliation(s)
- Niamat Khan
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical CenterGoettingen, Germany.,Department of Biotechnology and Genetic Engineering, Kohat University of Science and TechnologyKohat, Pakistan
| | - Lutz Binder
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical CenterGoettingen, Germany.,German Center for Cardiovascular Research, Partner Site GoettingenGoettingen, Germany
| | - D V Krishna Pantakani
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical CenterGoettingen, Germany.,German Center for Cardiovascular Research, Partner Site GoettingenGoettingen, Germany
| | - Abdul R Asif
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical CenterGoettingen, Germany.,German Center for Cardiovascular Research, Partner Site GoettingenGoettingen, Germany
| |
Collapse
|
15
|
Zafar S, Behrens C, Dihazi H, Schmitz M, Zerr I, Schulz-Schaeffer WJ, Ramljak S, Asif AR. Cellular prion protein mediates early apoptotic proteome alternation and phospho-modification in human neuroblastoma cells. Cell Death Dis 2017; 8:e2557. [PMID: 28102851 PMCID: PMC5386350 DOI: 10.1038/cddis.2016.384] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2016] [Revised: 10/05/2016] [Accepted: 10/05/2016] [Indexed: 01/08/2023]
Abstract
Anti-apoptotic properties of physiological and elevated levels of the cellular prion protein (PrPc) under stress conditions are well documented. Yet, detrimental effects of elevated PrPc levels under stress conditions, such as exposure to staurosporine (STS) have also been described. In the present study, we focused on discerning early apoptotic STS-induced proteome and phospho-proteome changes in SH-SY5Y human neuroblastoma cells stably transfected either with an empty or PRNP-containing vector, expressing physiological or supraphysiological levels of PrPc, respectively. PrPc-overexpression per se appears to stress the cells under STS-free conditions as indicated by diminished cell viability of PrPc-overexpressing versus control cells. However, PrPc-overexpression becomes advantageous following exposure to STS. Thus, only a short exposure (2 h) to 1 μM STS results in lower survival rates and significantly higher caspase-3 activity in control versus PrPc-overexpressing cells. Hence, by exposing both experimental groups to the same apoptotic conditions we were able to induce apoptosis in control, but not in PrPc-overexpressing cells (as assessed by caspase-3 activity), which allowed for filtering out proteins possibly contributing to protection against STS-induced apoptosis in PrPc-overexpressing cells. Among other proteins regulated by different PrPc levels following exposure to STS, those involved in maintenance of cytoskeleton integrity caught our attention. In particular, the finding that elevated PrPc levels significantly reduce profilin-1 (PFN-1) expression. PFN-1 is known to facilitate STS-induced apoptosis. Silencing of PFN-1 expression by siRNA significantly increased viability of PrPc-overexpressing versus control cells, under STS treatment. In addition, PrPc-overexpressing cells depleted of PFN-1 exhibited increased viability versus PrPc-overexpressing cells with preserved PFN-1 expression, both subjected to STS. Concomitant increase in caspase-3 activity was observed in control versus PrPc-overexpressing cells after treatment with siRNA- PFN-1 and STS. We suggest that reduction of PFN-1 expression by elevated levels of PrPc may contribute to protective effects PrPc-overexpressing SH-SY5Y cells confer against STS-induced apoptosis.
Collapse
Affiliation(s)
- Saima Zafar
- Department of Neurology, Georg-August University, Goettingen 37075, Germany
| | - Christina Behrens
- Department of Neuropathology, Georg-August University, Goettingen 37075, Germany
| | - Hassan Dihazi
- Department of Nephrology and Rheumatology, Georg-August University, Goettingen 37075, Germany
| | - Matthias Schmitz
- Department of Neurology, Georg-August University, Goettingen 37075, Germany
| | - Inga Zerr
- Department of Neurology, Georg-August University, Goettingen 37075, Germany
| | | | | | - Abdul R Asif
- Institute for Clinical Chemistry / UMG-Laboratories, University Medical Center Goettingen, Georg-August University, Goettingen, Germany
| |
Collapse
|
16
|
Malik IA, Asif AR, Ramadori G, Wilting J. Effects of radiation and/or tumor necrosis factor alpha on cell damage in a healthy liver: a role for PECAM-1. Z Gastroenterol 2016. [DOI: 10.1055/s-0036-1597359] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- IA Malik
- University Medical Center, Goettingen, Institute for Anatomy and Cell Biology, Goettingen, Germany
| | - AR Asif
- University Medical Center, Goettingen, Institute for Clinical Chemistry, Goettingen, Germany
| | - G Ramadori
- University Medical Center, Goettingen, Clinic for Gastroenterology and Endocrinology, Goettingen, Germany
| | - J Wilting
- University Medical Center, Goettingen, Institute for Anatomy and Cell Biology, Goettingen, Germany
| |
Collapse
|
17
|
Reuss B, Asif AR, Almamy A, Schwerk C, Schroten H, Ishikawa H, Drummer C, Behr R. Antisera against Neisseria gonorrhoeae cross-react with specific brain proteins of the common marmoset monkey and other nonhuman primate species. Brain Res 2016; 1653:23-38. [PMID: 27765579 DOI: 10.1016/j.brainres.2016.10.012] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2016] [Revised: 10/13/2016] [Accepted: 10/14/2016] [Indexed: 01/01/2023]
Abstract
Prenatal maternal infections with Neisseria gonorrhoeae (NG) correlate with an increased lifetime probability for the offspring to develop psychosis. We could previously demonstrate that in human choroid plexus papilloma cells, anti-NG antibodies (α-NG) bind to mitochondrial proteins HSP60 and ATPB, and interfere with cellular energy metabolism. To assess the in vivo relevance for this, especially during prenatal neural development, we investigated here interactions of NG-specific antisera (α-NG1, α-NG2) with brain, choroid plexus and other non-neural tissues in pre- and perinatal samples of the nonhuman primate (NHP) Callithrix jacchus (CJ), a NHP model for preclinical research. In histological sections at embryonic day E75, immunohistochemistry revealed α-NG1 and -2-staining in choroid plexus, ganglionic hill, optic cup, heart, and liver. Within the cells, organelle-like structures were labeled, which could be identified by immunohistochemical double-labeling as mitochondria. Both one- and two-dimensional Western blot analysis revealed tissue specific patterns of α-NG1 immunoreactive bands and spots, respectively, which were subsequently characterized by mass spectrometry. Thereby we could confirm the interactions of α-NG1 with human HSP60 and ATPB also in CJ choroid plexus and liver. Even more important, in the CJ brain, several new targets, including NCAM1, CRMP2, and SYT1, were identified, which by unrelated studies have been previously suggested to correlate with an increased schizophrenia risk. These findings support the idea that the marmoset monkey is a useful NHP model to investigate the role of maternal bacterial infections during prenatal brain development, and thereby might improve the understanding of this important aspect of schizophrenia pathology.
Collapse
Affiliation(s)
- Bernhard Reuss
- Neuroanatomy, University Medical Center Göttingen, Germany.
| | - Abdul R Asif
- Clinical Chemistry/UMG-Labs, University Medical Center Göttingen, Germany
| | | | - Christian Schwerk
- Pediatric Infectious Diseases Unit, University of Heidelberg at Mannheim, Germany
| | - Horst Schroten
- Pediatric Infectious Diseases Unit, University of Heidelberg at Mannheim, Germany
| | | | - Charis Drummer
- Platform Degenerative Diseases, German Primate Center, Partner Site Göttingen, Göttingen, Germany; DZHK (German Center for Cardiovascular Research), Partner Site Göttingen, Göttingen, Germany
| | - Rüdiger Behr
- Platform Degenerative Diseases, German Primate Center, Partner Site Göttingen, Göttingen, Germany; DZHK (German Center for Cardiovascular Research), Partner Site Göttingen, Göttingen, Germany
| |
Collapse
|
18
|
Dihazi H, Koziolek MJ, Datta RR, Wallbach M, Jung K, Heise D, Dihazi GH, Markovic I, Asif AR, Müller GA. FABP1 and FABP3 Have High Predictive Values for Renal Replacement Therapy in Patients with Acute Kidney Injury. Blood Purif 2016; 42:202-13. [PMID: 27355328 DOI: 10.1159/000447115] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2016] [Accepted: 05/24/2016] [Indexed: 11/19/2022]
Abstract
BACKGROUND/AIMS Early initiation of renal replacement therapy (RRT) is recommended in order to improve the clinical outcome of patients who develop an acute kidney injury (AKI). However, markers that guide an early RRT initiation do not really exist currently. METHODS Urine and serum samples were prospectively collected from 120 AKI patients. Depending on the necessity of initiating RRT, patients were divided into 2 different groups: dialysis (n = 52) and non-dialysis (n = 68). RESULTS Comparative urinary proteomic analyses identified 4 different proteins (fatty acid binding proteins 1 and 3 (FABP1 and FABP3), β-2-microglobulin (B2M), cystatin-M (CST6)) that discriminate AKI patients with high risk for RRT. Western blot analysis confirmed the proteomics data for FABP1 and FABP3 but not for B2M and CST6. Validation analysis confirmed that the FABP1 and FABP3 fulfilled the requirement of functioning as markers for AKI patients with risk to dialysis (p < 0.001). CONCLUSION The release of high amounts of FABP1 and FABP3 in urine of AKI patients could serve as a diagnostic/prognosis marker for RRT initiation in these patients.
Collapse
Affiliation(s)
- Hassan Dihazi
- Department of Nephrology and Rheumatology, University Medical Centre Göttingen, Georg-August University, Göttingen, Germany
| | | | | | | | | | | | | | | | | | | |
Collapse
|
19
|
Mohamed BA, Asif AR, Schnelle M, Qasim M, Khadjeh S, Lbik D, Schott P, Hasenfuss G, Toischer K. Proteomic analysis of short-term preload-induced eccentric cardiac hypertrophy. J Transl Med 2016; 14:149. [PMID: 27234427 PMCID: PMC4884361 DOI: 10.1186/s12967-016-0898-5] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2015] [Accepted: 05/07/2016] [Indexed: 12/18/2022] Open
Abstract
BACKGROUND Hemodynamic load leads to cardiac hypertrophy and heart failure. While afterload (pressure overload) induces concentric hypertrophy, elevation of preload (volume overload) yields eccentric hypertrophy and is associated with a better outcome. Here we analysed the proteomic pattern of mice subjected to short-term preload. METHODS AND RESULTS Female FVB/N mice were subjected to aortocaval shunt-induced volume overload that leads to an eccentric hypertrophy (left ventricular weight/tibia length +31 %) with sustained systolic heart function at 1 week after operation. Two-dimensional gel electrophoresis (2-DE) followed by mass spectrometric analysis showed alteration in the expression of 25 protein spots representing 21 different proteins. 64 % of these protein spots were up-regulated and 36 % of the protein spots were consistently down-regulated. Interestingly, α-1-antitrypsin was down-regulated, indicating higher elastin degradation and possibly contributing to the early dilatation. In addition to contractile and mitochondrial proteins, polymerase I and transcript release factor protein (PTRF) was also up-regulated, possibly contributing to the preload-induced signal transduction. CONCLUSIONS Our findings reveal the proteomic changes of early-stage eccentric myocardial remodeling after volume overload. Induced expression of some of the respiratory chain enzymes suggests a metabolic shift towards an oxidative phosphorylation that might contribute to the favorable remodeling seen in early VO. Down-regulation of α-1-antitrypsin might contribute to extracellular matrix remodeling and left ventricular dilatation. We also identified PTRF as a potential signaling regulator of volume overload-induced cardiac hypertrophy.
Collapse
Affiliation(s)
- Belal A Mohamed
- Department of Cardiology and Pneumology, University Medical Center, Goettingen, Germany.,DZHK (German Centre for Cardiovascular Research), Partner Site Goettingen, Germany.,Department of Medical Biochemistry and Molecular Biology, Faculty of Medicine, Mansoura University, Mansoura, Egypt
| | - Abdul R Asif
- Institute of Clinical Chemistry/UMG-Laboratories, University Medical Center, Goettingen, Germany
| | - Moritz Schnelle
- Department of Cardiology and Pneumology, University Medical Center, Goettingen, Germany
| | - Mohamed Qasim
- Institute of Clinical Chemistry/UMG-Laboratories, University Medical Center, Goettingen, Germany.,Department of Microbiology, Kohat University of Science and Technology, Kohat, Pakistan
| | - Sara Khadjeh
- Department of Cardiology and Pneumology, University Medical Center, Goettingen, Germany.,DZHK (German Centre for Cardiovascular Research), Partner Site Goettingen, Germany
| | - Dawid Lbik
- Department of Cardiology and Pneumology, University Medical Center, Goettingen, Germany.,DZHK (German Centre for Cardiovascular Research), Partner Site Goettingen, Germany
| | - Peter Schott
- Department of Cardiology and Pneumology, University Medical Center, Goettingen, Germany
| | - Gerd Hasenfuss
- Department of Cardiology and Pneumology, University Medical Center, Goettingen, Germany.,DZHK (German Centre for Cardiovascular Research), Partner Site Goettingen, Germany
| | - Karl Toischer
- Department of Cardiology and Pneumology, University Medical Center, Goettingen, Germany. .,DZHK (German Centre for Cardiovascular Research), Partner Site Goettingen, Germany. .,Abteilung Kardiologie und Pneumologie, Universitätsmedizin Göttingen, Robert-Koch-Str. 40, 37075, Göttingen, Germany.
| |
Collapse
|
20
|
Khan N, Lenz C, Binder L, Pantakani DVK, Asif AR. Active and Repressive Chromatin-Associated Proteome after MPA Treatment and the Role of Midkine in Epithelial Monolayer Permeability. Int J Mol Sci 2016; 17:E597. [PMID: 27104530 PMCID: PMC4849051 DOI: 10.3390/ijms17040597] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2016] [Revised: 04/01/2016] [Accepted: 04/12/2016] [Indexed: 12/04/2022] Open
Abstract
UNLABELLED Mycophenolic acid (MPA) is prescribed to maintain allografts in organ-transplanted patients. However, gastrointestinal (GI) complications, particularly diarrhea, are frequently observed as a side effect following MPA therapy. We recently reported that MPA altered the tight junction (TJ)-mediated barrier function in a Caco-2 cell monolayer model system. This study investigates whether MPA induces epigenetic changes which lead to GI complications, especially diarrhea. METHODS We employed a Chromatin Immunoprecipitation-O-Proteomics (ChIP-O-Proteomics) approach to identify proteins associated with active (H3K4me3) as well as repressive (H3K27me3) chromatin histone modifications in MPA-treated cells, and further characterized the role of midkine, a H3K4me3-associated protein, in the context of epithelial monolayer permeability. RESULTS We identified a total of 333 and 306 proteins associated with active and repressive histone modification marks, respectively. Among them, 241 proteins were common both in active and repressive chromatin, 92 proteins were associated exclusively with the active histone modification mark, while 65 proteins remained specific to repressive chromatin. Our results show that 45 proteins which bind to the active and seven proteins which bind to the repressive chromatin region exhibited significantly altered abundance in MPA-treated cells as compared to DMSO control cells. A number of novel proteins whose function is not known in bowel barrier regulation were among the identified proteins, including midkine. Our functional integrity assays on the Caco-2 cell monolayer showed that the inhibition of midkine expression prior to MPA treatment could completely block the MPA-mediated increase in barrier permeability. CONCLUSIONS The ChIP-O-Proteomics approach delivered a number of novel proteins with potential implications in MPA toxicity. Consequently, it can be proposed that midkine inhibition could be a potent therapeutic approach to prevent the MPA-mediated increase in TJ permeability and leak flux diarrhea in organ transplant patients.
Collapse
Affiliation(s)
- Niamat Khan
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Center, Robert-Koch-Str. 40, 37075 Göttingen, Germany.
- Department of Biotechnology & Genetic Engineering, Kohat University of Science and Technology, Kohat 26000, Khyber Pakhtunkhwa, Pakistan.
| | - Christof Lenz
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Center, Robert-Koch-Str. 40, 37075 Göttingen, Germany.
- Bioanalytical Mass Spectrometry, Max Planck Institute for Biophysical Chemistry, Am Fassberg 11, 37077 Göttingen, Germany.
| | - Lutz Binder
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Center, Robert-Koch-Str. 40, 37075 Göttingen, Germany.
| | | | - Abdul R Asif
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Center, Robert-Koch-Str. 40, 37075 Göttingen, Germany.
| |
Collapse
|
21
|
Eltoweissy M, Dihazi GH, Müller GA, Asif AR, Dihazi H. Protein DJ-1 and its anti-oxidative stress function play an important role in renal cell mediated response to profibrotic agents. Mol BioSyst 2016; 12:1842-59. [DOI: 10.1039/c5mb00887e] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
In the pathogenesis of renal fibrosis, oxidative stress (OS) enhances the production of reactive oxygen species (ROS) leading to sustained cell growth, inflammation, excessive tissue remodelling and accumulation, which results in the development and acceleration of renal damage.
Collapse
Affiliation(s)
- Marwa Eltoweissy
- Department of Nephrology and Rheumatology
- University Medical Center Göttingen
- Georg-August University Göttingen
- D-37075 Göttingen
- Germany
| | - Gry H. Dihazi
- Department of Nephrology and Rheumatology
- University Medical Center Göttingen
- Georg-August University Göttingen
- D-37075 Göttingen
- Germany
| | - Gerhard A. Müller
- Department of Nephrology and Rheumatology
- University Medical Center Göttingen
- Georg-August University Göttingen
- D-37075 Göttingen
- Germany
| | - Abdul R. Asif
- Department of Clinical Chemistry
- University Medical Center Göttingen
- Georg-August University Göttingen
- Germany
| | - Hassan Dihazi
- Department of Nephrology and Rheumatology
- University Medical Center Göttingen
- Georg-August University Göttingen
- D-37075 Göttingen
- Germany
| |
Collapse
|
22
|
Khan N, Pantakani DVK, Binder L, Qasim M, Asif AR. Immunosuppressant MPA Modulates Tight Junction through Epigenetic Activation of MLCK/MLC-2 Pathway via p38MAPK. Front Physiol 2015; 6:381. [PMID: 26733876 PMCID: PMC4687409 DOI: 10.3389/fphys.2015.00381] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2015] [Accepted: 11/24/2015] [Indexed: 12/24/2022] Open
Abstract
BACKGROUND Mycophenolic acid (MPA) is an important immunosuppressive drug (ISD) prescribed to prevent graft rejection in the organ transplanted patients, however, its use is also associated with adverse side effects like sporadic gastrointestinal (GI) disturbances. Recently, we reported the MPA induced tight junctions (TJs) deregulation which involves MLCK/MLC-2 pathway. Here, we investigated the global histone acetylation as well as gene-specific chromatin signature of several genes associated with TJs regulation in Caco-2 cells after MPA treatment. RESULTS The epigenetic analysis shows that MPA treatment increases the global histone acetylation levels as well as the enrichment for transcriptional active histone modification mark (H3K4me3) at promoter regions of p38MAPK, ATF-2, MLCK, and MLC-2. In contrast, the promoter region of occludin was enriched for transcriptional repressive histone modification mark (H3K27me3) after MPA treatment. In line with the chromatin status, MPA treatment increased the expression of p38MAPK, ATF-2, MLCK, and MLC-2 both at transcriptional and translational level, while occludin expression was negatively influenced. Interestingly, the MPA induced gene expression changes and functional properties of Caco-2 cells could be blocked by the inhibition of p38MAPK using a chemical inhibitor (SB203580). CONCLUSIONS Collectively, our results highlight that MPA disrupts the structure of TJs via p38MAPK-dependent activation of MLCK/MLC-2 pathway that results in decreased integrity of Caco-2 monolayer. These results led us to suggest that p38MAPK-mediated lose integrity of epithelial monolayer could be the possible cause of GI disturbance (barrier dysfunction) in the intestine, leading to leaky style diarrhea observed in the organ-transplanted patients treated with MPA.
Collapse
Affiliation(s)
- Niamat Khan
- Proteomics Group, Institute for Clinical Chemistry/UMG-Laboratories, University Medical CentreGoettingen, Germany; Department of Biotechnology and Genetic Engineering, Kohat University of Science and TechnologyKohat, Pakistan
| | - D V Krishna Pantakani
- Proteomics Group, Institute for Clinical Chemistry/UMG-Laboratories, University Medical Centre Goettingen, Germany
| | - Lutz Binder
- Proteomics Group, Institute for Clinical Chemistry/UMG-Laboratories, University Medical Centre Goettingen, Germany
| | - Muhammad Qasim
- Proteomics Group, Institute for Clinical Chemistry/UMG-Laboratories, University Medical CentreGoettingen, Germany; Department of Microbiology, Kohat University of Science and TechnologyKohat, Pakistan
| | - Abdul R Asif
- Proteomics Group, Institute for Clinical Chemistry/UMG-Laboratories, University Medical Centre Goettingen, Germany
| |
Collapse
|
23
|
Castillo-Gomez E, Kästner A, Steiner J, Schneider A, Hettling B, Poggi G, Ostehr K, Uhr M, Asif AR, Matzke M, Schmidt U, Pfander V, Hammer C, Schulz TF, Binder L, Stöcker W, Weber F, Ehrenreich H. The brain as immunoprecipitator of serum autoantibodies against N-Methyl-D-aspartate receptor subunit NR1. Ann Neurol 2015; 79:144-51. [PMID: 26505629 DOI: 10.1002/ana.24545] [Citation(s) in RCA: 68] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2015] [Revised: 09/26/2015] [Accepted: 10/17/2015] [Indexed: 01/23/2023]
Abstract
Autoantibodies (AB) against N-methyl-D-aspartate receptor subunit NR1 (NMDAR1) are highly seroprevalent in health and disease. Symptomatic relevance may arise upon compromised blood-brain barrier (BBB). However, it remained unknown whether circulating NMDAR1 AB appear in the cerebrospinal fluid (CSF). Of n = 271 subjects with CSF-serum pairs, 26 were NMDAR1 AB seropositive, but only 1 was CSF positive. Contrariwise, tetanus AB (non-brain-binding) were present in serum and CSF of all subjects, with CSF levels higher upon BBB dysfunction. Translational mouse experiments proved the hypothesis that the brain acts as an 'immunoprecipitator'; simultaneous injection of NMDAR1 AB and the non-brain-binding green fluorescent protein AB resulted in high detectability of the former in brain and the latter in CSF.
Collapse
Affiliation(s)
- Esther Castillo-Gomez
- Department of Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen
| | - Anne Kästner
- Department of Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen
| | - Johann Steiner
- Department of Psychiatry, University of Magdeburg, Magdeburg
| | - Anja Schneider
- German Center for Neurodegenerative Diseases, Göttingen.,Deutsche Forschungsgemeinschaft Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen
| | - Bilke Hettling
- Department of Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen
| | - Giulia Poggi
- Department of Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen
| | - Kristin Ostehr
- Department of Psychiatry, University of Magdeburg, Magdeburg
| | | | - Abdul R Asif
- Institute for Clinical Chemistry, Göttingen Medical School, Göttingen
| | - Mike Matzke
- Department of Neurology, University of Magdeburg, Magdeburg
| | | | - Viktoria Pfander
- Department of Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen
| | - Christian Hammer
- Department of Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen
| | | | - Lutz Binder
- Institute for Clinical Chemistry, Göttingen Medical School, Göttingen
| | - Winfried Stöcker
- Institute for Experimental Immunology, (affiliated with Euroimmun, Lübeck), Göttingen, Germany
| | | | - Hannelore Ehrenreich
- Department of Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen.,Deutsche Forschungsgemeinschaft Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen
| |
Collapse
|
24
|
Reuss B, Schroten H, Ishikawa H, Asif AR. Cross-reactivity of Antibodies Directed to the Gram-Negative Bacterium Neisseria gonorrhoeae With Heat Shock Protein 60 and ATP-Binding Protein Correlates to Reduced Mitochondrial Activity in HIBCPP Choroid Plexus Papilloma Cells. J Mol Neurosci 2015; 57:123-38. [PMID: 26080747 DOI: 10.1007/s12031-015-0585-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/10/2014] [Accepted: 05/19/2015] [Indexed: 01/22/2023]
Abstract
Antibacterial antibodies can cause neurologic side-effects by cross-reactivity with cellular antigens. Here we investigated interactions of antibodies to Neisseria gonorrhoeae (α-NG) - maternal infections by which increases the offspring's risk for later psychosis-with HIBCPP cells, a cell culture model of choroid plexus epithelium. Immunocytochemistry and Western blotting with α-NG, revealed organelle-like intracellular staining in HIBCPP cells, and labelling of several immunoreactive bands in cellular protein. Two-dimensional Western blotting revealed several immunopositive spots, most prominent of which were identified by mass spectrometry as mitochondrially localized proteins heat shock protein 60 (Hsp60) and ATP-binding protein β-subunit (ATPB). Similarly α-NG interacted with commercial samples of these proteins as revealed by Western blotting. Three alternative methods (JC-1, Janus green and MTT staining) revealed α-NG to cause in HIBCPP cells a significant decrease in mitochondrial activity, which could be reverted by neuroleptic drugs. Immunoreactivity of α-NG with choroid plexus epithelium in human post mortem samples suggests in vivo relevance of these findings. Finally, distinctly different staining patterns of antibodies against Neisseria meningitidis (α-NM), confirmed antibody specificity. To our knowledge this is the first report that α-NG cross-reactivity with Hsp60 and ATPB impairs mitochondrial activity in choroid plexus epithelial cells, pathogenetic relevance of which needs further clarification.
Collapse
Affiliation(s)
- B Reuss
- Institute for Neuroanatomy, University Medicine Göttingen (UMG), Kreuzbergring 36, 37075, Göttingen, Federal Republic of Germany,
| | | | | | | |
Collapse
|
25
|
Reichard U, Herrmann S, Asif AR. Vaccination approaches against opportunistic fungal infections caused by Aspergillus fumigatus. Curr Protein Pept Sci 2015; 15:424-9. [PMID: 24818757 DOI: 10.2174/1389203715666140512122037] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2013] [Revised: 02/08/2013] [Accepted: 04/14/2013] [Indexed: 11/22/2022]
Abstract
Although innate immunity primarily combats systemic infections of opportunistic fungi such as Aspergillus and Candida spp., acquired and protective immunoreactions were observed long ago in animal trials following sublethal systemic infections caused by viable fungi or after challenging animals with inactivated fungal cells. Based on these observations, fungal antigens should exist which mediate such protective immunoreactions and have in part already been identified. In this context, this review focuses primarily on the various approaches that have been used to identify protection-mediating Aspergillus-antigens and their rationale. Emphasis is placed on screening methods that have exploited genetic or proteomic approaches on the basis of the corresponding fungal genome projects. Thereby, a survey and description is given of the antigens so far known to be capable of inducing immune responses that protect animals against acquiring lethal systemic aspergillosis.
Collapse
Affiliation(s)
| | | | - Abdul R Asif
- Department of Medical Microbiology, University Medical Center of Goettingen, Kreuzbergring 57, 37075 Goettingen, Germany.
| |
Collapse
|
26
|
Zerche M, Weissenborn K, Ott C, Dere E, Asif AR, Worthmann H, Hassouna I, Rentzsch K, Tryc AB, Dahm L, Steiner J, Binder L, Wiltfang J, Sirén AL, Stöcker W, Ehrenreich H. Preexisting Serum Autoantibodies Against the NMDAR Subunit NR1 Modulate Evolution of Lesion Size in Acute Ischemic Stroke. Stroke 2015; 46:1180-6. [PMID: 25765725 DOI: 10.1161/strokeaha.114.008323] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2014] [Accepted: 02/17/2015] [Indexed: 12/28/2022]
Abstract
BACKGROUND AND PURPOSE Recently, we reported high seroprevalence (age-dependent up to >19%) of N-methyl-d-aspartate-receptor subunit NR1 (NMDAR1) autoantibodies in both healthy and neuropsychiatrically ill subjects (N=4236). Neuropsychiatric syndrome relevance was restricted to individuals with compromised blood-brain barrier, for example, apolipoprotein E4 (APOE4) carrier status, both clinically and experimentally. We now hypothesized that these autoantibodies may upon stroke be protective in individuals with hitherto intact blood-brain barrier, but harmful for subjects with chronically compromised blood-brain barrier. METHODS Of 464 patients admitted with acute ischemic stroke in the middle cerebral artery territory, blood for NMDAR1 autoantibody measurements and APOE4 carrier status as indicator of a preexisting leaky blood-brain barrier was collected within 3 to 5 hours after stroke. Evolution of lesion size (delta day 7-1) in diffusion-weighted magnetic resonance imaging was primary outcome parameter. In subgroups, NMDAR1 autoantibody measurements were repeated on days 2 and 7. RESULTS Of all 464 patients, 21.6% were NMDAR1 autoantibody-positive (immunoglobulin M, A, or G) and 21% were APOE4 carriers. Patients with magnetic resonance imaging data available on days 1 and 7 (N=384) were divided into 4 groups according to NMDAR1 autoantibody and APOE4 status. Groups were comparable in all stroke-relevant presenting characteristics. The autoantibody+/APOE4- group had a smaller mean delta lesion size compared with the autoantibody-/APOE4- group, suggesting a protective effect of circulating NMDAR1 autoantibodies. In contrast, the autoantibody+/APOE4+ group had the largest mean delta lesion area. NMDAR1 autoantibody serum titers dropped on day 2 and remounted by day 7. CONCLUSIONS Dependent on blood-brain barrier integrity before an acute ischemic brain injury, preexisting NMDAR1 autoantibodies seem to be beneficial or detrimental.
Collapse
Affiliation(s)
- Maria Zerche
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Karin Weissenborn
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Christoph Ott
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Ekrem Dere
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Abdul R Asif
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Hans Worthmann
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Imam Hassouna
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Kristin Rentzsch
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Anita B Tryc
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Liane Dahm
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Johann Steiner
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Lutz Binder
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Jens Wiltfang
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Anna-Leena Sirén
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Winfried Stöcker
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.)
| | - Hannelore Ehrenreich
- From the Clinical Neuroscience, Max Planck Institute of Experimental Medicine, Göttingen, Germany (M.Z., C.O., E.D., I.H., L.D., H.E.); Department of Neurology, Hannover Medical School, Hannover, Germany (K.W., H.W., A.B.T.); DFG Center for Nanoscale Microscopy and Molecular Physiology of the Brain, Göttingen, Germany (J.W.); Institute of Clinical Chemistry, University Medical Center, Göttingen, Germany (A.R.A., L.B.); Institute for Experimental Immunology, affiliated to Euroimmun, Lübeck, Germany (K.R., W.S.); Department of Psychiatry, University of Magdeburg, Magdeburg, Germany (J.S.); Department of Psychiatry and Psychotherapy, University of Göttingen, Germany (J.W.); and Department of Neurosurgery, University of Würzburg, Germany (A.-L.S.).
| |
Collapse
|
27
|
Dihazi GH, Mueller GA, Asif AR, Eltoweissy M, Wessels JT, Dihazi H. Proteomic characterization of adrenal gland embryonic development reveals early initiation of steroid metabolism and reduction of the retinoic acid pathway. Proteome Sci 2015; 13:6. [PMID: 25694770 PMCID: PMC4331441 DOI: 10.1186/s12953-015-0063-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2014] [Accepted: 01/15/2015] [Indexed: 12/15/2022] Open
Abstract
Background Adrenal glands are essential endocrine organs composed of two embryological distinct tissues. Morphological changes during their development are well described, but less understood with regard to their molecular mechanisms. To identify proteins and pathways, which drive the initial steps of the specification of the endocrine function of the adrenal gland, rat’s adrenal glands were isolated at different embryonic days (E): E14, E16, E18, E19 and postnatal day 1 (P1). Results The alteration of the proteome during the stages E16, E19 and P1 was investigated by combining two dimensional gel electrophoresis and mass spectrometric analysis. Out of 594 excised protein spots, 464 spots were identified, resulting in 203 non-redundant proteins. The ontogenic classification of the identified proteins according to their molecular function resulted in 10 different categories, whereas the classification of their biological processes resulted in 19 different groups. This gives an insight into the complex mechanisms underlying adrenal gland development. Interestingly, the expression of retinoic acid pathway proteins was decreased during the development of the adrenal gland, suggesting that this pathway is only important at early stages. On the other hand, key proteins of the cholesterol synthesis increased their expression significantly at E19 revealing the initiation of the endocrine specialization of the adrenal glands. Conclusions This study presents the first comprehensive wide proteome analysis of three different stages of embryonic adrenal gland development. The identified proteins, which were expressed in early stages of development, will shed light on the molecular mechanisms underlying embryonic development of the adrenal gland. Electronic supplementary material The online version of this article (doi:10.1186/s12953-015-0063-8) contains supplementary material, which is available to authorized users.
Collapse
Affiliation(s)
- Gry H Dihazi
- Department of Nephrology and Rheumatology, University Medical Center Goettingen, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| | - Gerhard A Mueller
- Department of Nephrology and Rheumatology, University Medical Center Goettingen, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| | - Abdul R Asif
- Department of Clinical Chemistry, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| | - Marwa Eltoweissy
- Department of Nephrology and Rheumatology, University Medical Center Goettingen, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| | - Johannes T Wessels
- Department of Nephrology and Rheumatology, University Medical Center Goettingen, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| | - Hassan Dihazi
- Department of Nephrology and Rheumatology, University Medical Center Goettingen, Georg-August University Goettingen, Robert-Koch-Strasse 40, D-37075 Goettingen, Germany
| |
Collapse
|
28
|
Rahman H, Qasim M, Oellerich M, Asif AR. Crosstalk between Edc4 and mammalian target of rapamycin complex 1 (mTORC1) signaling in mRNA decapping. Int J Mol Sci 2014; 15:23179-95. [PMID: 25514416 PMCID: PMC4284759 DOI: 10.3390/ijms151223179] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2014] [Revised: 11/28/2014] [Accepted: 12/08/2014] [Indexed: 02/06/2023] Open
Abstract
The mammalian target of rapamycin complex 1 (mTORC1) is involved in the cellular transcription and translation processes. The undertaken study characterized the enhancer of mRNA decapping protein 4 (Edc4) as mTORC1 interacting protein. Human T lymphoblast (CCRF-CEM) cells were used for mTORC1 purification. Co-immunoprecipitation coupled with immunoblotting analysis was used to confirm the interaction of Edc4 in mTORC1 specific purifications. Further assays were incorporated to conclude the role of mTORC1 in mRNA decapping via Edc4. Edc4 was identified as a new interacting protein with mTORC1 in both the endogenous and myc-tag raptor component mTORC1 specific purifications. Quantitative co-localization using confocal microscopy demonstrated that raptor component of mTORC1 coexists with Edc4 in processing (P) bodies, a site for mRNA degradation. Incubation of cells with rapamycin, a known inhibitor of mTOR kinase activity, increased the total Edc4 protein expression but at the same time decreased the Edc4 interaction with mTORC1. Moreover, rapamycin treatment resulted in a significant decrease in total serine phosphorylated Edc4 protein signal and the total 5'-capped mRNA. These findings provide the first evidence for the pivotal role of mTORC1 in Edc4 regulation. Further in-depth studies are required to get a complete understanding of molecular crosstalk between mTORC1 signaling and mRNA decapping pathway.
Collapse
Affiliation(s)
- Hazir Rahman
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Center, Robert-Koch-Str. 40, Goettingen 37075, Germany.
| | - Muhammad Qasim
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Center, Robert-Koch-Str. 40, Goettingen 37075, Germany.
| | - Michael Oellerich
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Center, Robert-Koch-Str. 40, Goettingen 37075, Germany.
| | - Abdul R Asif
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Center, Robert-Koch-Str. 40, Goettingen 37075, Germany.
| |
Collapse
|
29
|
|
30
|
Rahman H, Qasim M, Oellerich M, Asif AR. Identification of the novel interacting partners of the mammalian target of rapamycin complex 1 in human CCRF-CEM and HEK293 cells. Int J Mol Sci 2014; 15:4823-36. [PMID: 24646917 PMCID: PMC3975426 DOI: 10.3390/ijms15034823] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2014] [Revised: 03/05/2014] [Accepted: 03/06/2014] [Indexed: 01/21/2023] Open
Abstract
The present study was undertaken to identify proteins that interact with the mammalian target of rapamycin complex 1 (mTORC1) to enable it to carry out its crucial cell signaling functions. Endogenous and myc-tag mTORC1 was purified, in-gel tryptic digested and then identified by nano-LC ESI Q-TOF MS/MS analysis. A total of nine novel interacting proteins were identified in both endogenous and myc-tag mTORC1 purifications. These new mTORC1 interacting partners include heterogeneous nuclear ribonucleoproteins A2/B1, enhancer of mRNA decapping protein 4, 60S acidic ribosomal protein, P0, nucleolin, dynamin 2, glyceraldehyde 3 phosphate dehydrogenase, 2-oxoglutarate dehydrogenase, glycosyl transferase 25 family member 1 and prohibitin 2. Furthermore hnRNP A2/B1 and dynamin 2 interaction with mTORC1 was confirmed on immunoblotting. The present study has for the first time identified novel interacting partners of mTORC1 in human T lymphoblasts (CCRF-CEM) and human embryonic kidney (HEK293) cells. These new interacting proteins may offer new targets for therapeutic interventions in human diseases caused by perturbed mTORC1 signaling.
Collapse
Affiliation(s)
- Hazir Rahman
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Centre, Robert-Koch-Str. 40, Goettingen 37075, Germany.
| | - Muhammad Qasim
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Centre, Robert-Koch-Str. 40, Goettingen 37075, Germany.
| | - Michael Oellerich
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Centre, Robert-Koch-Str. 40, Goettingen 37075, Germany.
| | - Abdul R Asif
- Institute for Clinical Chemistry/UMG-Laboratories, University Medical Centre, Robert-Koch-Str. 40, Goettingen 37075, Germany.
| |
Collapse
|
31
|
Qasim M, Rahman H, Ahmed R, Oellerich M, Asif AR. Mycophenolic acid mediated disruption of the intestinal epithelial tight junctions. Exp Cell Res 2014; 322:277-89. [PMID: 24509232 DOI: 10.1016/j.yexcr.2014.01.021] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2013] [Revised: 12/21/2013] [Accepted: 01/21/2014] [Indexed: 12/12/2022]
Abstract
Gastrointestinal toxicity is a common adverse effect of mycophenolic acid (MPA) treatment in organ transplant patients, through poorly understood mechanisms. Phosphorylation of myosin light chain 2 (MLC2) is associated with epithelial tight junction (TJ) modulation which leads to defective epithelial barrier function, and has been implicated in GI diseases. The aim of this study was to investigate whether MPA could induce epithelial barrier permeability via MLC2 regulation. Caco-2 monolayers were exposed to therapeutic concentrations of MPA, and MLC2 and myosin light chain kinase (MLCK) expression were analyzed using PCR and immunoblotting. Epithelial cell permeability was assessed by measuring transepithelial resistance (TER) and the flux of paracellular permeability marker FITC-dextran across the epithelial monolayers. MPA increased the expression of MLC2 and MLCK at both the transcriptional and translational levels. In addition, the amount of phosphorylated MLC2 was increased after MPA treatment. Confocal immunofluorescence analysis showed redistribution of TJ proteins (ZO-1 and occludin) after MPA treatment. This MPA mediated TJ disruption was not due to apoptosis or cell death. Additionally ML-7, a specific inhibitor of MLCK was able to reverse both the MPA mediated decrease in TER and the increase in FITC-dextran influx, suggesting a modulating role of MPA on epithelial barrier permeability via MLCK activity. These results suggest that MPA induced alterations in MLC2 phosphorylation and may have a role in the patho-physiology of intestinal epithelial barrier disruption and may be responsible for the adverse effects (GI toxicity) of MPA on the intestine.
Collapse
Affiliation(s)
- Muhammad Qasim
- Institute of Clinical Chemistry/UMG-Laboratories, University Medical Centre, Robert Koch Strasse 40, 37075 Goettingen, Germany; Department of Microbiology, Kohat University of Science and Technology, 26000 Kohat, Pakistan
| | - Hazir Rahman
- Institute of Clinical Chemistry/UMG-Laboratories, University Medical Centre, Robert Koch Strasse 40, 37075 Goettingen, Germany; Department of Microbiology, Kohat University of Science and Technology, 26000 Kohat, Pakistan
| | - Raees Ahmed
- Institute for Applied Science and Clinical Trials GmbH - IFS, Georg-August University, 37075 Goettingen, Germany
| | - Michael Oellerich
- Institute of Clinical Chemistry/UMG-Laboratories, University Medical Centre, Robert Koch Strasse 40, 37075 Goettingen, Germany
| | - Abdul R Asif
- Institute of Clinical Chemistry/UMG-Laboratories, University Medical Centre, Robert Koch Strasse 40, 37075 Goettingen, Germany.
| |
Collapse
|
32
|
Dihazi H, Bohrer R, Jahn O, Lenz C, Majcherczyk A, Schmidt B, Urlaub H, Valerius O, Asif AR. Mass spectrometry imaging: linking molecule profiles to tissue spatial distribution. Expert Rev Proteomics 2014; 10:17-20. [DOI: 10.1586/epr.12.73] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
|
33
|
Zahid S, Oellerich M, Asif AR, Ahmed N. Differential expression of proteins in brain regions of Alzheimer's disease patients. Neurochem Res 2013; 39:208-15. [PMID: 24306222 DOI: 10.1007/s11064-013-1210-1] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2013] [Revised: 10/29/2013] [Accepted: 11/25/2013] [Indexed: 10/25/2022]
Abstract
Alzheimer's disease (AD), a progressive neurodegenerative disorder and the most common form of dementia and cognitive impairment is usually characterized by neuritic amyloid plaques, cerebrovascular amyloidosis and neurofibrillary tangles. In order to find out the pathological protein expression, a quantitative proteome analysis of AD hippocampus, substantia nigra and cortex was performed and the extent of protein expression variation not only in contrast to age-matched controls but also among the understudied regions was analyzed. Expression alterations of 48 proteins were observed in each region along with significant co/contra regulation of malate dehydrogenase, lactate dehydrogenase B chain, aconitate hydratase, protein NipSnap homolog 2, actin cytoplasmic 1, creatine kinase U-type and glyceraldehyde-3-phosphate dehydrogenase. These differentially expressed proteins are mainly involved in energy metabolism, cytoskeleton integration, apoptosis and several other potent cellular/molecular processes. Interaction association network analysis further confirms the close interacting relationship between the co/contra regulated differentially expressed proteins among all the three regions. Elucidation of co/contra regulation of differentially expressed proteins will be helpful to understand disease progression and functional alterations associated with AD.
Collapse
Affiliation(s)
- Saadia Zahid
- Neurochemistry Research Laboratory, Department of Biochemistry, University of Karachi, Karachi, 75270, Pakistan
| | | | | | | |
Collapse
|
34
|
Dieks JK, Gawinecka J, Asif AR, Varges D, Gmitterova K, Streich JH, Dihazi H, Heinemann U, Zerr I. Low-abundant cerebrospinal fluid proteome alterations in dementia with Lewy bodies. J Alzheimers Dis 2013; 34:387-97. [PMID: 23254635 DOI: 10.3233/jad-121810] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Dementia with Lewy bodies (DLB) is one of the most common neurodegenerative diseases and shares multiple clinical and neuropathological parallels with Alzheimer's (AD) and Parkinson's disease (PD). A variety of clinical signs are suggestive for the diagnosis, and imaging (βCIT SPECT) contributes substantially to the diagnosis. The study reported here was performed in search for a biomarker in the cerebrospinal fluid (CSF) of these patients. We applied 2D fluorescence difference gel electrophoresis and mass spectrometry to analyze the CSF proteome pattern of DLB patients after depleting twelve high-abundant proteins. The densitometric analysis of 2D gels showed the up- or down-regulation of 44 protein spots. Subsequently, 23 different proteins were identified. The majority is involved in acute phase and immune response. Many of these proteins were previously reported before as being associated with AD or PD, which strongly suggests a molecular cross-talk and may explain clinical and pathological overlap of these disease entities. Among the identified proteins are two highly upregulated proteins-inter alpha trypsin inhibitor heavy chain (ITIH4) and calsyntenin 1-that may have the potential to serve as molecular biomarkers specific for DLB. The identification of DLB-associated proteome changes will help to further understand pathological processes occurring in DLB and may provide future prospects to diagnostic and therapeutic options.
Collapse
Affiliation(s)
- Jana-Katharina Dieks
- Department of Neurology, Clinical Dementia Center, Medical Center Georg-August University, Göttingen, Germany.
| | | | | | | | | | | | | | | | | |
Collapse
|
35
|
Zahid S, Khan R, Oellerich M, Ahmed N, Asif AR. Differential S-nitrosylation of proteins in Alzheimer's disease. Neuroscience 2013; 256:126-36. [PMID: 24157928 DOI: 10.1016/j.neuroscience.2013.10.026] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2013] [Revised: 10/10/2013] [Accepted: 10/11/2013] [Indexed: 12/24/2022]
Abstract
Numerous studies have provided evidence regarding the involvement of protein S-nitrosylation in the progression of Alzheimer's disease (AD) pathology and its implication in the formation and accumulation of misfolded protein aggregates. The identification of S-nitrosylated proteins can be a major step toward the understanding of mechanisms leading to neuronal degeneration. The present study targeted S-nitrosylated proteins in AD hippocampus, substantia nigra and cortex using the following work-flow that combines S-nitrosothiol-specific antibody detection, classical biotin switch method labeled with fluorescence dye followed by electrospray ionization quadrupole time of flight tandem MS (ESI-QTOF MS/MS) identification. Endogenous nitrosocysteines were identified in 45 proteins, mainly involved in metabolism, signaling pathways, apoptosis and redox regulation as assigned by REACTOME and KEGG pathway database analysis. Superoxide dismutase (SOD2) [Mn], fructose-bisphosphate aldolase C (ALDOC) and voltage-dependent anion-selective channel protein 2 (VDAC2) showed differential S-nitrosylation signal, not previously reported in AD regions. Extensive neuronal atrophy with increased protein S-nitrosylation in AD regions is also evident from immunofluorescence studies using S-nitrosocysteine antibody. A number of plausible cysteine modification sites were predicted via Group-based Prediction System-S-nitrosothiols (GPS-SNO) 1.0 while STRING 8.3 analysis revealed functional annotations in the modified proteins. The findings are helpful in characterization of functional abnormalities and may facilitate the understanding of molecular mechanisms and biological function of S-nitrosylation in AD pathology.
Collapse
Affiliation(s)
- S Zahid
- Neurochemistry Research Laboratory, Department of Biochemistry, University of Karachi, Karachi 75270, Pakistan; Department of Clinical Chemistry, University Medical Center Goettingen, Robert-Koch-Str. 40, 37075 Goettingen, Germany
| | - R Khan
- Neurochemistry Research Laboratory, Department of Biochemistry, University of Karachi, Karachi 75270, Pakistan
| | - M Oellerich
- Department of Clinical Chemistry, University Medical Center Goettingen, Robert-Koch-Str. 40, 37075 Goettingen, Germany
| | - N Ahmed
- Neurochemistry Research Laboratory, Department of Biochemistry, University of Karachi, Karachi 75270, Pakistan.
| | - A R Asif
- Department of Clinical Chemistry, University Medical Center Goettingen, Robert-Koch-Str. 40, 37075 Goettingen, Germany.
| |
Collapse
|
36
|
Schumacher J, Ramljak S, Asif AR, Schaffrath M, Zischler H, Herlyn H. Evolutionary conservation of mammalian sperm proteins associates with overall, not tyrosine, phosphorylation in human spermatozoa. J Proteome Res 2013; 12:5370-82. [PMID: 23919900 DOI: 10.1021/pr400228c] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
We investigated possible associations between sequence evolution of mammalian sperm proteins and their phosphorylation status in humans. As a reference, spermatozoa from three normozoospermic men were analyzed combining two-dimensional gel electrophoresis, immunoblotting, and mass spectrometry. We identified 99 sperm proteins (thereof 42 newly described) and determined the phosphorylation status for most of them. Sequence evolution was studied across six mammalian species using nonsynonymous/synonymous rate ratios (dN/dS) and amino acid distances. Site-specific purifying selection was assessed employing average ratios of evolutionary rates at phosphorylated versus nonphosphorylated amino acids (α). According to our data, mammalian sperm proteins do not show statistically significant sequence conservation difference, no matter if the human ortholog is a phosphoprotein with or without tyrosine (Y) phosphorylation. In contrast, overall phosphorylation of human sperm proteins, i.e., phosphorylation at serine (S), threonine (T), and/or Y residues, associates with above-average conservation of sequences. Complementary investigations suggest that numerous protein-protein interactants constrain sequence evolution of sperm phosphoproteins. Although our findings reject a special relevance of Y phosphorylation for sperm functioning, they still indicate that overall phosphorylation substantially contributes to proper functioning of sperm proteins. Hence, phosphorylated sperm proteins might be considered as prime candidates for diagnosis and treatment of reduced male fertility.
Collapse
Affiliation(s)
- Julia Schumacher
- Institute of Anthropology, University Mainz , Anselm-Franz-von-Bentzel-Weg 7, Mainz 55128, Germany
| | | | | | | | | | | |
Collapse
|
37
|
Gawinecka J, Nowak M, Carimalo J, Cardone F, Asif AR, Wemheuer WM, Schulz-Schaeffer WJ, Pocchiari M, Zerr I. Subtype-Specific Synaptic Proteome Alterations in Sporadic Creutzfeldt-Jakob Disease. ACTA ACUST UNITED AC 2013; 37:51-61. [DOI: 10.3233/jad-130455] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
Affiliation(s)
- Joanna Gawinecka
- National Reference Center for TSE, Medical Center Georg-August University, Goettingen, Germany
| | - Martin Nowak
- National Reference Center for TSE, Medical Center Georg-August University, Goettingen, Germany
| | - Julie Carimalo
- National Reference Center for TSE, Medical Center Georg-August University, Goettingen, Germany
| | - Franco Cardone
- Department of Cell Biology and Neurosciences, Istituto Superiore di Sanità, Rome, Italy
| | - Abdul R. Asif
- Department of Clinical Chemistry, Medical Center Georg-August University, Goettingen, Germany
| | - Wiebke M. Wemheuer
- Department of Neuropathology, Medical Center Georg-August University, Goettingen, Germany
| | | | - Maurizio Pocchiari
- Department of Cell Biology and Neurosciences, Istituto Superiore di Sanità, Rome, Italy
| | - Inga Zerr
- National Reference Center for TSE, Medical Center Georg-August University, Goettingen, Germany
| |
Collapse
|
38
|
Dihazi H, Dihazi GH, Bibi A, Eltoweissy M, Mueller CA, Asif AR, Rubel D, Vasko R, Mueller GA. Secretion of ERP57 is important for extracellular matrix accumulation and progression of renal fibrosis, and is an early sign of disease onset. J Cell Sci 2013; 126:3649-63. [PMID: 23781031 DOI: 10.1242/jcs.125088] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023] Open
Abstract
Renal fibrosis is characterized by excessive accumulation of extracellular matrix (ECM), which compromises organ function by replacing normal organ tissue. The molecular mechanisms leading to renal fibrosis are not fully understood. Here we demonstrated that TGFβ1, AGT or PDGF stimulation of renal cells resulted in endoplasmic reticulum (ER) stress followed by activation of the protective unfolded protein response pathway and a high secretory level of protein disulfide isomerase ERP57 (also known as PDIA3). The TGFβ1-induced impairment of ER function could be reversed by treatment with BMP7, suggesting a specific involvement in renal fibrosis. A clear correlation between the degree of fibrosis, ER stress and the level of ERP57 could be seen in fibrosis animal models and in biopsies of renal fibrosis patients. Protein interaction studies revealed that secreted ERP57 exhibits a strong interaction with ECM proteins. Knockdown of ERP57 or antibody-targeted inhibition of the secreted form significantly impaired the secretion and accumulation of ECM. Moreover, ERP57 was excreted in the early stages of chronic kidney disease, and its level in urine correlated with the degree of renal fibrosis, suggesting that the secretion of ERP57 represents one of the first signs of renal fibrosis onset and progression.
Collapse
Affiliation(s)
- Hassan Dihazi
- Department of Nephrology and Rheumatology, Georg-August University Goettingen, Robert-Koch-Strasse 40, 37075 Goettingen, Germany.
| | | | | | | | | | | | | | | | | |
Collapse
|
39
|
Biswas S, Sharma S, Saroha A, Bhakuni DS, Malhotra R, Zahur M, Oellerich M, Das HR, Asif AR. Identification of novel autoantigen in the synovial fluid of rheumatoid arthritis patients using an immunoproteomics approach. PLoS One 2013; 8:e56246. [PMID: 23418544 PMCID: PMC3572018 DOI: 10.1371/journal.pone.0056246] [Citation(s) in RCA: 67] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2012] [Accepted: 01/07/2013] [Indexed: 11/19/2022] Open
Abstract
Rheumatoid arthritis (RA) is a chronic, autoimmune and inflammatory joint disease with a poorly understood etiology. Despite widespread diagnostic use of anti-citrullinated protein antibodies and rheumatoid factor proteins there is a strong demand for novel serological biomarkers to improve the diagnosis this disease. The present study was aimed to identify novel autoantigens involved in rheumatoid arthritis (RA) pathogenesis through immune-proteomic strategy. Synovial fluid samples from clinically diagnosed RA patients were separated on two-dimensional gel electrophoresis (2-DE). Samples from patients with non-RA rheumatisms (osteoarthritis and trauma) were used as controls. Immunoreactive proteins were spotted by Western blotting followed by identification through Q-TOF mass spectrometer analysis. Forty Western blots were generated using plasma from ten individual RA patients and 33 reactive spots were identified, 20 from the high molecular weight (HMW) gel and 13 from the low molecular weight (LMW) gel. Among the 33 common immunogenic spots, 18 distinct autoantigens were identified, out of which 14 are novel proteins in this context. Expression analysis of five important proteins, vimentin, gelsolin, alpha 2 HS glycoprotein (AHSG), glial fibrillary acidic protein (GFAP), and α1B-glycoprotein (A1BG) by Western blot analysis using their specific antibodies revealed their higher expression in RA synovial fluid as compared to non-RA samples. Recombinantly expressed GFAP and A1BG protein were used to develop an in-house ELISA to quantify the amount of autoantibodies in the RA patients. RA patients revealed an increase in the expression of GFAP and A1BG in the plasma as compared to osteoarthritis patients. Therefore, GFAP and A1BG can be proposed as potential new autoantigens of diagnostic importance for RA subjects. Further characterization of these proteins in rheumatoid arthritis will be helpful in understanding the role of these proteins in the disease pathogenesis providing new diagnostic tool with better specificity and accurate detection of the disease.
Collapse
Affiliation(s)
- Sagarika Biswas
- Department of Genomics & Molecular Medicine, Institute of Genomics and Integrative Biology, New Delhi, India
- Department of Clinical Chemistry, University Medical Center Goettingen, Goettingen, Germany
| | - Saurabh Sharma
- Department of Genomics & Molecular Medicine, Institute of Genomics and Integrative Biology, New Delhi, India
| | - Ashish Saroha
- Department of Genomics & Molecular Medicine, Institute of Genomics and Integrative Biology, New Delhi, India
| | - D. S. Bhakuni
- Department of Clinical Immunology and Rheumatology, Army Hospital (Research and Referral), New Delhi, India
| | - Rajesh Malhotra
- Department of Orthopaedic, All India Institute of Medical Sciences, New Delhi, India
| | - Muzna Zahur
- Department of Biochemistry and Molecular Biology, University of Gujrat, Gujrat, Pakistan
| | - Michael Oellerich
- Department of Clinical Chemistry, University Medical Center Goettingen, Goettingen, Germany
| | - Hasi R. Das
- Department of Genomics & Molecular Medicine, Institute of Genomics and Integrative Biology, New Delhi, India
| | - Abdul R. Asif
- Department of Clinical Chemistry, University Medical Center Goettingen, Goettingen, Germany
- * E-mail:
| |
Collapse
|
40
|
Pešić I, Müller GA, Baumann C, Dihazi GH, Koziolek MJ, Eltoweissy M, Bramlage C, Asif AR, Dihazi H. Cellulose membranes are more effective in holding back vital proteins and exhibit less interaction with plasma proteins during hemodialysis. Biochim Biophys Acta 2013; 1834:754-62. [PMID: 23369790 DOI: 10.1016/j.bbapap.2013.01.021] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2012] [Revised: 01/15/2013] [Accepted: 01/18/2013] [Indexed: 11/27/2022]
Abstract
The vast majority of patients with end-stage renal disease are treated with intermittent hemodialysis as a form of renal replacement therapy. To investigate the impact of hemodialysis membrane material on vital protein removal, dialysates from 26 well-characterized hemodialysis patients were collected 5 min after beginning, during 5h of treatment, as well as 5 min before ending of the dialysis sessions. Dialysis sessions were performed using either modified cellulose (n=12) (low-flux and high flux) or synthetic Polyflux (n=14) (low-flux and high-flux) dialyzer. Protein removal during hemodialysis was quantified and the dialysate proteome patterns were analyzed by 2-DE, MS and Western blot. There was a clear correlation between the type of membrane material and the amount of protein removed. Synthetic Polyflux membranes exhibit strong interaction with plasma proteins resulting in a significantly higher protein loss compared to modified cellulosic membrane. Moreover, the proteomics analysis showed that the removed proteins represented different molecular weight range and different functional groups: transport proteins, protease inhibitors, proteins with role in immune response and regulations, constructive proteins and as a part of HLA immune complex. The effect of this protein removal on hemodialysis treatment outcome should be investigated in further studies.
Collapse
Affiliation(s)
- Ivana Pešić
- Department of Nephrology and Rheumatology, Georg-August University Goettingen, Goettingen, Germany
| | | | | | | | | | | | | | | | | |
Collapse
|
41
|
|
42
|
Gawinecka J, Cardone F, Asif AR, De Pascalis A, Wemheuer WM, Schulz-Schaeffer WJ, Pocchiari M, Zerr I. Sporadic Creutzfeldt-Jakob disease subtype-specific alterations of the brain proteome: impact on Rab3a recycling. Proteomics 2012; 12:3610-20. [PMID: 23070823 PMCID: PMC3565451 DOI: 10.1002/pmic.201200201] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2012] [Revised: 08/30/2012] [Accepted: 10/01/2012] [Indexed: 11/26/2022]
Abstract
Sporadic Creutzfeldt–Jakob disease (sCJD) is characterized by wide clinical and pathological variability, which is mainly influenced by the conformation of the misfolded prion protein, and by the methionine and valine polymorphism at codon 129 of the prion protein gene. This heterogeneity likely implies differences in the molecular cascade that leads to the development of certain disease phenotypes. In this study, we investigated the proteome of the frontal cortex of patients with the two most common sCJD subtypes (MM1 and VV2) using 2D-DIGE and MS. Analysis of 2D maps revealed that 46 proteins are differentially expressed in the sCJD. Common differential expression was detected for seven proteins, four showed opposite direction of differential expression, and the remaining ones displayed subtype-specific alteration. The highest number of differentially expressed proteins was associated with signal transduction and neuronal activity. Moreover, functional groups of proteins involved in cell cycle and death, as well as in structure and motility included subtype-specific expressed proteins exclusively. The expression of Rab GDP dissociation inhibitor alpha, which regulates Rab3a-mediated neurotransmitter release, was affected in both sCJD subtypes that were analyzed. Therefore, we also investigated as to whether Rab3a recycling is altered. Indeed, we found an accumulation of the membrane-associated form, thus the active one, which suggests that dysfunction of the Rab3a-mediated exocytosis might be implicated in sCJD pathology.
Collapse
Affiliation(s)
- Joanna Gawinecka
- National Reference Center for TSE Surveillance, Medical Center Georg-August University, Goettingen, Germany.
| | | | | | | | | | | | | | | |
Collapse
|
43
|
Abstract
Alzheimer's disease (AD) is the most common form of dementia and cognitive impairment usually characterized by widespread neurodegeneration throughout the association cortex, limbic system and hippocampus. Aberrant protein phosphorylation is a defining pathological hallmark of AD and implicated in the dysregulation of major cellular processes through highly dynamic and complex signaling pathways. Here in, we demonstrate 81 proteins, of 600 spots selected, unambiguously identified as phosphorylated, providing a partial phosphoproteome profile of AD substantia nigra and cortex and respective control brain regions. More importantly, abnormal phosphorylation signal intensity of nine physiologically important proteins observed can profoundly affect cell metabolism, signal transduction, cytoskeleton integration, and synaptic function and accounts for biological and morphological alterations. Our studies employed two-dimensional gel electrophoresis for protein separation, Pro-Q(®) Diamond phosphoprotein staining and electrospray ionization quadrupole time of flight tandem MS for protein identification. NetPhosk 1.0 is used for the confirmation of protein modification status as well known/putative phosphoproteins. A further insight into the links among the identified phosphoproteins and functional roles STRING 8.3, KEGG and REACTOME pathway databases were applied. The present quantitative phosphoproteomic analysis can be supportive in establishing a broad database of potential protein targets of abnormal phosphorylation in AD brain.
Collapse
Affiliation(s)
- Saadia Zahid
- Neurochemistry Research Laboratory, Department of Biochemistry, University of Karachi, Karachi, Pakistan
| | | | | | | |
Collapse
|
44
|
Rahman H, Qasim M, Schultze FC, Oellerich M, R Asif A. Fetal calf serum heat inactivation and lipopolysaccharide contamination influence the human T lymphoblast proteome and phosphoproteome. Proteome Sci 2011; 9:71. [PMID: 22085958 PMCID: PMC3280938 DOI: 10.1186/1477-5956-9-71] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2011] [Accepted: 11/15/2011] [Indexed: 01/03/2023] Open
Abstract
BACKGROUND The effects of fetal calf serum (FCS) heat inactivation and bacterial lipopolysaccharide (LPS) contamination on cell physiology have been studied, but their effect on the proteome of cultured cells has yet to be described. This study was undertaken to investigate the effects of heat inactivation of FCS and LPS contamination on the human T lymphoblast proteome. Human T lymphoblastic leukaemia (CCRF-CEM) cells were grown in FCS, either non-heated, or heat inactivated, having low (< 1 EU/mL) or regular (< 30 EU/mL) LPS concentrations. Protein lysates were resolved by 2-DE followed by phospho-specific and silver nitrate staining. Differentially regulated spots were identified by nano LC ESI Q-TOF MS/MS analysis. RESULTS A total of four proteins (EIF3M, PRS7, PSB4, and SNAPA) were up-regulated when CCRF-CEM cells were grown in media supplemented with heat inactivated FCS (HE) as compared to cells grown in media with non-heated FCS (NHE). Six proteins (TCPD, ACTA, NACA, TCTP, ACTB, and ICLN) displayed a differential phosphorylation pattern between the NHE and HE groups. Compared to the low concentration LPS group, regular levels of LPS resulted in the up-regulation of three proteins (SYBF, QCR1, and SUCB1). CONCLUSION The present study provides new information regarding the effect of FCS heat inactivation and change in FCS-LPS concentration on cellular protein expression, and post-translational modification in human T lymphoblasts. Both heat inactivation and LPS contamination of FCS were shown to modulate the expression and phosphorylation of proteins involved in basic cellular functions, such as protein synthesis, cytoskeleton stability, oxidative stress regulation and apoptosis. Hence, the study emphasizes the need to consider both heat inactivation and LPS contamination of FCS as factors that can influence the T lymphoblast proteome.
Collapse
Affiliation(s)
- Hazir Rahman
- Department of Clinical Chemistry, University Medical Centre, Goettingen, Germany.
| | | | | | | | | |
Collapse
|
45
|
Qasim M, Rahman H, Oellerich M, Asif AR. Differential proteome analysis of human embryonic kidney cell line (HEK-293) following mycophenolic acid treatment. Proteome Sci 2011; 9:57. [PMID: 21933383 PMCID: PMC3189873 DOI: 10.1186/1477-5956-9-57] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2011] [Accepted: 09/20/2011] [Indexed: 01/10/2023] Open
Abstract
BACKGROUND Mycophenolic acid (MPA) is widely used as a post transplantation medicine to prevent acute organ rejection. In the present study we used proteomics approach to identify proteome alterations in human embryonic kidney cells (HEK-293) after treatment with therapeutic dose of MPA. Following 72 hours MPA treatment, total protein lysates were prepared, resolved by two dimensional gel electrophoresis and differentially expressed proteins were identified by QTOF-MS/MS analysis. Expressional regulations of selected proteins were further validated by real time PCR and Western blotting. RESULTS The proliferation assay demonstrated that therapeutic MPA concentration causes a dose dependent inhibition of HEK-293 cell proliferation. A significant apoptosis was observed after MPA treatment, as revealed by caspase 3 activity. Proteome analysis showed a total of 12 protein spots exhibiting differential expression after incubation with MPA, of which 7 proteins (complement component 1 Q subcomponent-binding protein, electron transfer flavoprotein subunit beta, cytochrome b-c1 complex subunit, peroxiredoxin 1, thioredoxin domain-containing protein 12, myosin regulatory light chain 2, and profilin 1) showed significant increase in their expression. The expression of 5 proteins (protein SET, stathmin, 40S ribosomal protein S12, histone H2B type 1 A, and histone H2B type 1-C/E/F/G/I) were down-regulated. MPA mainly altered the proteins associated with the cytoskeleton (26%), chromatin structure/dynamics (17%) and energy production/conversion (17%). Both real time PCR and Western blotting confirmed the regulation of myosin regulatory light chain 2 and peroxiredoxin 1 by MPA treatment. Furthermore, HT-29 cells treated with MPA and total kidney cell lysate from MMF treated rats showed similar increased expression of myosin regulatory light chain 2. CONCLUSION The emerging use of MPA in diverse pathophysiological conditions demands in-depth studies to understand molecular basis of its therapeutic response. The present study identifies the myosin regulatory light chain 2 and peroxiredoxin 1 along with 10 other proteins showing significant regulation by MPA. Further characterization of these proteins may help to understand the diverse cellular effects of MPA in addition to its immunosuppressive activity.
Collapse
Affiliation(s)
- Muhammad Qasim
- Department of Clinical Chemistry, University Medical Centre Goettingen, 37075, Goettingen, Germany.
| | | | | | | |
Collapse
|
46
|
Zafar S, von Ahsen N, Oellerich M, Zerr I, Schulz-Schaeffer WJ, Armstrong VW, Asif AR. Proteomics Approach to Identify the Interacting Partners of Cellular Prion Protein and Characterization of Rab7a Interaction in Neuronal Cells. J Proteome Res 2011; 10:3123-35. [DOI: 10.1021/pr2001989] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Saima Zafar
- Department of Clinical Chemistry, ‡Department of Neurobiology, and §Department of Neuropathology, University Medical Center Goettingen (UMG), Robert-Koch-Strasse 40, 37075, Goettingen, Germany
| | - Nicolas von Ahsen
- Department of Clinical Chemistry, ‡Department of Neurobiology, and §Department of Neuropathology, University Medical Center Goettingen (UMG), Robert-Koch-Strasse 40, 37075, Goettingen, Germany
| | - Michael Oellerich
- Department of Clinical Chemistry, ‡Department of Neurobiology, and §Department of Neuropathology, University Medical Center Goettingen (UMG), Robert-Koch-Strasse 40, 37075, Goettingen, Germany
| | - Inga Zerr
- Department of Clinical Chemistry, ‡Department of Neurobiology, and §Department of Neuropathology, University Medical Center Goettingen (UMG), Robert-Koch-Strasse 40, 37075, Goettingen, Germany
| | - Walter J. Schulz-Schaeffer
- Department of Clinical Chemistry, ‡Department of Neurobiology, and §Department of Neuropathology, University Medical Center Goettingen (UMG), Robert-Koch-Strasse 40, 37075, Goettingen, Germany
| | - Victor W. Armstrong
- Department of Clinical Chemistry, ‡Department of Neurobiology, and §Department of Neuropathology, University Medical Center Goettingen (UMG), Robert-Koch-Strasse 40, 37075, Goettingen, Germany
| | - Abdul R. Asif
- Department of Clinical Chemistry, ‡Department of Neurobiology, and §Department of Neuropathology, University Medical Center Goettingen (UMG), Robert-Koch-Strasse 40, 37075, Goettingen, Germany
| |
Collapse
|
47
|
Petrova DT, Brehmer F, Schultze FC, Asif AR, Gross O, Oellerich M, Brandhorst G. Differential Kidney Proteome Profiling in a Murine Model of Renal Fibrosis under Treatment with Mycophenolate Mofetil. Pathobiology 2011; 78:162-70. [DOI: 10.1159/000324597] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2010] [Accepted: 01/25/2011] [Indexed: 01/29/2023] Open
|
48
|
Wakeel A, Asif AR, Pitann B, Schubert S. Proteome analysis of sugar beet (Beta vulgaris L.) elucidates constitutive adaptation during the first phase of salt stress. J Plant Physiol 2011; 168:519-26. [PMID: 20980072 DOI: 10.1016/j.jplph.2010.08.016] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2010] [Revised: 08/19/2010] [Accepted: 08/20/2010] [Indexed: 05/21/2023]
Abstract
Salinity is one of the major stress factors responsible for growth reduction of most of the higher plants. In this study, the effect of salt stress on protein pattern in shoots and roots of sugar beet (Beta vulgaris L.) was examined. Sugar beet plants were grown in hydroponics under control and 125 mM salt treatments. A significant growth reduction of shoots and roots was observed. The changes in protein expression, caused by salinity, were monitored using two-dimensional gel-electrophoresis. Most of the detected proteins in sugar beet showed stability under salt stress. The statistical analysis of detected proteins showed that the expression of only six proteins from shoots and three proteins from roots were significantly altered. At this stage, the significantly changed protein expressions we detected could not be attributed to sugar beet adaptation under salt stress. However, unchanged membrane bound proteins under salt stress did reveal the constitutive adaptation of sugar beet to salt stress at the plasma membrane level.
Collapse
Affiliation(s)
- Abdul Wakeel
- Institute of Plant Nutrition, Justus Liebig University, Heinrich-Buff-Ring 26-32, 35392 Giessen, Germany.
| | | | | | | |
Collapse
|
49
|
Dihazi H, Dihazi GH, Jahn O, Meyer S, Nolte J, Asif AR, Mueller GA, Engel W. Multipotent adult germline stem cells and embryonic stem cells functional proteomics revealed an important role of eukaryotic initiation factor 5A (Eif5a) in stem cell differentiation. J Proteome Res 2011; 10:1962-73. [PMID: 21344951 DOI: 10.1021/pr1012015] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
Multipotent adult germline stem cells (maGSCs) are pluripotent cells that can be differentiated into somatic cells of the three primary germ layers. To highlight the protein profile changes associated with stem cell differentiation, retinoic acid (RA) treated mouse stem cells (maGSCs and ESCs) were compared to nontreated stem cells. 2-DE and DIGE reference maps were created, and differentially expressed proteins were further processed for identification. In both stem cell types, the RA induced differentiation resulted in an alteration of 36 proteins of which 18 were down-regulated and might be potential pluripotency associated proteins, whereas the other 18 proteins were up-regulated. These might be correlated to stem cell differentiation. Surprisingly, eukaryotic initiation factor 5A (Eif5a), a protein which is essential for cell proliferation and differentiation, was significantly down-regulated under RA treatment. A time-dependent investigation of Eif5a showed that the RA treatment of stem cells resulted in a significant up-regulation of the Eif5a in the first 48 h followed by a progressive down-regulation thereafter. This effect could be blocked by the hypusination inhibitor ciclopirox olamine (CPX). The alteration of Eif5a hypusination, as confirmed by mass spectrometry, exerts an antiproliferative effect on ESCs and maGSCs in vitro, but does not affect the cell pluripotency. Our data highlights the important role of Eif5a and its hypusination for stem cell differentiation and proliferation.
Collapse
Affiliation(s)
- Hassan Dihazi
- Department of Nephrology and Rheumatology, Georg-August University Goettingen , Robert-Koch-Strasse 40, D-37075 Goettingen, Germany.
| | | | | | | | | | | | | | | |
Collapse
|
50
|
Dihazi H, Dihazi GH, Mueller C, Lahrichi L, Asif AR, Bibi A, Eltoweissy M, Vasko R, Mueller GA. Proteomics characterization of cell model with renal fibrosis phenotype: osmotic stress as fibrosis triggering factor. J Proteomics 2010; 74:304-18. [PMID: 21118732 DOI: 10.1016/j.jprot.2010.11.007] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2010] [Revised: 10/15/2010] [Accepted: 11/10/2010] [Indexed: 11/29/2022]
Abstract
Renal fibroblasts are thought to play a major role in the development of renal fibrosis (RF). The mechanisms leading to this renal alteration remain poorly understood. We performed differential proteomic analyses with two established fibroblast cell lines with RF phenotype to identify new molecular pathways associated with RF. Differential 2-DE combined with mass spectrometry analysis revealed the alteration of more than 30 proteins in fibrotic kidney fibroblasts (TK188) compared to normal kidney fibroblast (TK173). Among these proteins, markers of the endoplasmic reticulum (ER) stress- and the unfolded protein response (UPR) pathway (GRP78, GRP94, ERP57, ERP72, and CALR) and the oxidative stress pathway proteins (PRDX1, PRDX2, PRDX6, HSP70, HYOU1) were highly up-regulated in fibrotic cells. Activation of these stress pathways through long time exposition of TK173, to high NaCl or glucose concentrations resulted in TK188 like phenotype. Parallel to an increase in reactive oxygen species, the stressed cells showed significant alteration of fibrosis markers, ER-stress and oxidative stress proteins. Similar effects of osmotic stress could be also observed on renal proximal tubule cells. Our data suggest an important role of the ER-stress proteins in fibrosis and highlights the pro-fibrotic effect of osmotic stress through activation of oxidative stress and ER-stress pathways.
Collapse
Affiliation(s)
- Hassan Dihazi
- Department of Nephrology and Rheumatology, Georg-August University Goettingen, Goettingen, Germany.
| | | | | | | | | | | | | | | | | |
Collapse
|