Comparative analysis of affected and unaffected areas of systemic sclerosis skin biopsies by high-throughput proteomic approaches
Abstract Background Pathogenesis and aetiology of systemic sclerosis (SSc) are currently unclear, thus rendering disease prognosis, diagnosis and treatment challenging. The aim of this study was to use paired skin biopsy samples from affected and unaffected areas of the same patient, in order to com...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2020-05-01
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| Series: | Arthritis Research & Therapy |
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| Online Access: | http://link.springer.com/article/10.1186/s13075-020-02196-x |
| _version_ | 1818187624330821632 |
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| author | Paraskevi Chairta Paschalis Nicolaou Kleitos Sokratous Christine Galant Frédéric Houssiau Anastasis Oulas George M. Spyrou Marta E. Alarcon-Riquelme Bernard R. Lauwerys Kyproula Christodoulou |
| author_facet | Paraskevi Chairta Paschalis Nicolaou Kleitos Sokratous Christine Galant Frédéric Houssiau Anastasis Oulas George M. Spyrou Marta E. Alarcon-Riquelme Bernard R. Lauwerys Kyproula Christodoulou |
| author_sort | Paraskevi Chairta |
| collection | DOAJ |
| description | Abstract Background Pathogenesis and aetiology of systemic sclerosis (SSc) are currently unclear, thus rendering disease prognosis, diagnosis and treatment challenging. The aim of this study was to use paired skin biopsy samples from affected and unaffected areas of the same patient, in order to compare the proteomes and identify biomarkers and pathways which are associated with SSc pathogenesis. Methods Biopsies were obtained from affected and unaffected skin areas of SSc patients. Samples were cryo-pulverised and proteins were extracted and analysed using mass spectrometry (MS) discovery analysis. Differentially expressed proteins were revealed after analysis with the Progenesis QIp software. Pathway analysis was performed using the Enrichr Web server. Using specific criteria, fifteen proteins were selected for further validation with targeted-MS analysis. Results Proteomic analysis led to the identification and quantification of approximately 2000 non-redundant proteins. Statistical analysis showed that 169 of these proteins were significantly differentially expressed in affected versus unaffected tissues. Pathway analyses showed that these proteins are involved in multiple pathways that are associated with autoimmune diseases (AIDs) and fibrosis. Fifteen of these proteins were further investigated using targeted-MS approaches, and five of them were confirmed to be significantly differentially expressed in SSc affected versus unaffected skin biopsies. Conclusion Using MS-based proteomics analysis of human skin biopsies from patients with SSc, we identified a number of proteins and pathways that might be involved in SSc progression and pathogenesis. Fifteen of these proteins were further validated, and results suggest that five of them may serve as potential biomarkers for SSc. |
| first_indexed | 2024-12-11T23:13:59Z |
| format | Article |
| id | doaj.art-776684f593b243b6ae395cd485ba3138 |
| institution | Directory Open Access Journal |
| issn | 1478-6362 |
| language | English |
| last_indexed | 2024-12-11T23:13:59Z |
| publishDate | 2020-05-01 |
| publisher | BMC |
| record_format | Article |
| series | Arthritis Research & Therapy |
| spelling | doaj.art-776684f593b243b6ae395cd485ba31382022-12-22T00:46:36ZengBMCArthritis Research & Therapy1478-63622020-05-012211910.1186/s13075-020-02196-xComparative analysis of affected and unaffected areas of systemic sclerosis skin biopsies by high-throughput proteomic approachesParaskevi Chairta0Paschalis Nicolaou1Kleitos Sokratous2Christine Galant3Frédéric Houssiau4Anastasis Oulas5George M. Spyrou6Marta E. Alarcon-Riquelme7Bernard R. Lauwerys8Kyproula Christodoulou9Cyprus School of Molecular MedicineCyprus School of Molecular MedicineCyprus School of Molecular MedicineDepartment of Pathology, Université catholique de LouvainRheumatology Department, Cliniques Universitaires Saint-Luc, Pôle de Pathologies Rhumatismales Inflammatoires et Systémiques, Université catholique de LouvainCyprus School of Molecular MedicineCyprus School of Molecular MedicineArea of Medical Genomics, Pfizer–Universidad de Granada–Junta de Andalucía de Genómica e Investigación Oncológica (GENyO), Parque Tenológico de la Salud Fundación (PTS) Granada, Spain; Arthritis and Clinical Immunology, Oklahoma Medical Research FoundationDepartment of Pathology, Université catholique de LouvainCyprus School of Molecular MedicineAbstract Background Pathogenesis and aetiology of systemic sclerosis (SSc) are currently unclear, thus rendering disease prognosis, diagnosis and treatment challenging. The aim of this study was to use paired skin biopsy samples from affected and unaffected areas of the same patient, in order to compare the proteomes and identify biomarkers and pathways which are associated with SSc pathogenesis. Methods Biopsies were obtained from affected and unaffected skin areas of SSc patients. Samples were cryo-pulverised and proteins were extracted and analysed using mass spectrometry (MS) discovery analysis. Differentially expressed proteins were revealed after analysis with the Progenesis QIp software. Pathway analysis was performed using the Enrichr Web server. Using specific criteria, fifteen proteins were selected for further validation with targeted-MS analysis. Results Proteomic analysis led to the identification and quantification of approximately 2000 non-redundant proteins. Statistical analysis showed that 169 of these proteins were significantly differentially expressed in affected versus unaffected tissues. Pathway analyses showed that these proteins are involved in multiple pathways that are associated with autoimmune diseases (AIDs) and fibrosis. Fifteen of these proteins were further investigated using targeted-MS approaches, and five of them were confirmed to be significantly differentially expressed in SSc affected versus unaffected skin biopsies. Conclusion Using MS-based proteomics analysis of human skin biopsies from patients with SSc, we identified a number of proteins and pathways that might be involved in SSc progression and pathogenesis. Fifteen of these proteins were further validated, and results suggest that five of them may serve as potential biomarkers for SSc.http://link.springer.com/article/10.1186/s13075-020-02196-xSystemic sclerosisSclerodermaBiomarkersProteomicsMass spectrometryRheumatology |
| spellingShingle | Paraskevi Chairta Paschalis Nicolaou Kleitos Sokratous Christine Galant Frédéric Houssiau Anastasis Oulas George M. Spyrou Marta E. Alarcon-Riquelme Bernard R. Lauwerys Kyproula Christodoulou Comparative analysis of affected and unaffected areas of systemic sclerosis skin biopsies by high-throughput proteomic approaches Arthritis Research & Therapy Systemic sclerosis Scleroderma Biomarkers Proteomics Mass spectrometry Rheumatology |
| title | Comparative analysis of affected and unaffected areas of systemic sclerosis skin biopsies by high-throughput proteomic approaches |
| title_full | Comparative analysis of affected and unaffected areas of systemic sclerosis skin biopsies by high-throughput proteomic approaches |
| title_fullStr | Comparative analysis of affected and unaffected areas of systemic sclerosis skin biopsies by high-throughput proteomic approaches |
| title_full_unstemmed | Comparative analysis of affected and unaffected areas of systemic sclerosis skin biopsies by high-throughput proteomic approaches |
| title_short | Comparative analysis of affected and unaffected areas of systemic sclerosis skin biopsies by high-throughput proteomic approaches |
| title_sort | comparative analysis of affected and unaffected areas of systemic sclerosis skin biopsies by high throughput proteomic approaches |
| topic | Systemic sclerosis Scleroderma Biomarkers Proteomics Mass spectrometry Rheumatology |
| url | http://link.springer.com/article/10.1186/s13075-020-02196-x |
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