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Epigenetic and Proteomic Regulations of Stem Cells Mediated Skin Regeneration
Linköping University, Department of Biomedical and Clinical Sciences, Division of Surgery, Orthopedics and Oncology. Linköping University, Faculty of Medicine and Health Sciences.ORCID iD: 0000-0001-5717-9206
2026 (English)Doctoral thesis, comprehensive summary (Other academic)
Abstract [en]

The treatment of chronic or hard-to-heal skin wounds remains a significant challenge in healthcare, with an estimated annual cost of approximately 60 billion euros in Europe for wound management.

Cutaneous wound healing requires coordinated activation of stem cells, epidermal cells, and extracellular signaling networks. While most wounds are resolved efficiently, impaired healing remains a major clinical challenge. Increasing evidence suggests that regenerative capacity is governed not only by cellular presence but by dynamic regulation of gene regulatory programs.

This thesis investigates how epigenetic modulation influences regenerative behavior in adipose-derived stem cells (ASCs) and keratinocytes in a wound-healing context. By targeting histone acetylation using the histone deacetylase inhibitor, SAHA, and analyzing microRNA-mediated regulation. In parallel, proteomic analyses were performed to explore the skin proteome using the Total Protein tissue Extraction reagent (TPER) as an efficient isolation method in clinical settings.

The findings demonstrate that SAHA modulates ASCs behavior by altering chromatin structure, DNA replication, and cell fate determination. The microRNA-based approach showed that key signaling pathways, such as those involving epidermal growth factor (EGF) and interleukin-1 alpha (IL-1α), are implicated in promoting skin cell proliferation and repair. Furthermore, skin proteomic analyses, including TPER reagent for protein isolation, may enhance clinical wound treatment.

Together, these results advance the understanding of the interplay between gene regulation and protein function in skin healing and the development of skin regeneration future therapies.

Abstract [sv]

Behandling av kroniska eller svårläkta sår är fortfarande en betydande utmaning inom hälso- och sjukvården. I Europa uppskattas den årliga kostnaden för sårbehandling till cirka 60 miljarder euro.

Hudens sårläkning är en komplex process som kräver samordnad aktivering av stamceller, epidermala celler och extracellulära signalsystem. Även om de flesta sår läker effektivt utgör försämrad sårläkning fortfarande en stor klinisk utmaning. Forskning visar i allt högre grad att vävnadens regenerativa kapacitet inte enbart beror på vilka celler som finns närvarande, utan även på hur genuttrycket regleras dynamiskt.

Denna avhandling undersöker hur epigenetisk reglering påverkar regenerativ kapacitet hos stamceller från fettvävnad (ASC) och keratinocyter vid sårläkning. Fokus har varit på histonacetylering med hjälp av histondeacetylashämmaren Vorinostat samt analys av mikroRNA-medierad genreglering. Parallellt genomfördes proteomikanalyser för att undersöka proteinprofiler med hjälp av Total Protein Extraction Reagent (TPER) som en potentiellt effektiv metod för proteinisolering i kliniska miljöer.

Resultaten visar att Vorinostat påverkar stamceller från fettvävnad genom att förändra kromatinstrukturen, DNA-replikationen och cellernas differentiering. Studier av mikroRNA visade att viktiga signalvägar, inklusive de som involverar epidermal tillväxtfaktor (EGF) och interleukin-1 alfa (IL-1α), spelar en viktig roll för att främja hudcellers proliferation och reparation. Dessutom visade proteomikanalyser att TPER kan vara en lovande metod inom klinisk sårbehandling.

Sammantaget bidrar resultaten till en ökad förståelse för samspelet mellan genreglering och proteinfunktion vid hudläkning och kan bidra till utvecklingen av framtida behandlingar.

Place, publisher, year, edition, pages
Linköping: Linköping University Electronic Press, 2026. , p. 105
Series
Linköping University Medical Dissertations, ISSN 0345-0082 ; 2045
Keywords [en]
Adipose derived stem cells, Epigenetics, Skin regeneration, Proteomics, Mass spectrometry, miRNA, SAHA
Keywords [sv]
Stamceller från fettvävnad, Epigenetik, Hudregenerering, Proteomik, Masspektrometri, MikroRNA, Vorinostat
National Category
Cell and Molecular Biology
Identifiers
URN: urn:nbn:se:liu:diva-224179DOI: 10.3384/9789181185454ISBN: 9789181185447 (print)ISBN: 9789181185454 (electronic)OAI: oai:DiVA.org:liu-224179DiVA, id: diva2:2061759
Public defence
2026-06-12, Berzeliussalen, building 463, Campus US, Linköping, 09:00 (English)
Opponent
Supervisors
Available from: 2026-05-22 Created: 2026-05-22 Last updated: 2026-05-22Bibliographically approved
List of papers
1. Modulation of biological activities in adipose derived stem cells by histone deacetylation
Open this publication in new window or tab >>Modulation of biological activities in adipose derived stem cells by histone deacetylation
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2025 (English)In: Scientific Reports, E-ISSN 2045-2322, Vol. 15, no 1, article id 3629Article in journal (Refereed) Published
Abstract [en]

Difficult-to-heal wounds management accounts for about 4% of healthcare costs, highlighting the need for innovative solutions. Extracellular signals drive cell proliferation during tissue regeneration, while epigenetic mechanisms regulate stem cell homeostasis, differentiation, and skin repair. Exploring epigenetic regulation in adipose-derived stem cells (ADSCs) holds promise for improving skin injury treatments. We investigated the effects of histone deacetylase inhibitor (SAHA) on ADSCs to better understand its cellular and molecular impacts. ADSCs were treated with SAHA for 72 h, showing no change in cell viability at the studied concentrations. However, the expression of histone deacetylase decreased at 1000 nM, while the cell proliferation marker Ki-67 increased after SAHA treatment, as confirmed by immunofluorescence. CCND1 gene expression increased, whereas protein expression of the proliferating cell nuclear antigen (PCNA) decreased. Cell cycle analysis showed an increase in G2 phase in SAHA-treated cells. Microarray analysis revealed 74 upregulated and 40 downregulated differentially expressed genes, including upregulation of P53 targets, CDKN1A and MDM2. Proteomic analysis identified 631 upregulated and 823 downregulated proteins compared to the vehicle. Pathway enrichment analysis showed cell cycle, ATP-dependent chromatin remodeling and DNA processes were among the affected pathways. This study suggests SAHA modulates ADSCs' biological processes, highlighting its potential for skin regeneration.

Place, publisher, year, edition, pages
NATURE PORTFOLIO, 2025
Keywords
Histone deacetylase inhibitor; Suberoylanilide hydroxamic acid; Adipose derived stem cells; Differentiation; Vorinostat; Epigenetic; Epigenetic modifier
National Category
Cell and Molecular Biology
Identifiers
urn:nbn:se:liu:diva-211586 (URN)10.1038/s41598-024-84652-1 (DOI)001410929000034 ()39880862 (PubMedID)
Note

Funding Agencies|Linkoping University; Hand and Plastic Surgery Department, Linkoeping University Hospital, Region Ostergoetland, Sweden; Centre for Advanced Medical Product, Sweden; SciLifeLab & Wallenberg Data Driven Life Science Program [KAW 2020.0239]; Swedish Cancer Society

Available from: 2025-02-11 Created: 2025-02-11 Last updated: 2026-05-22
2. miRNome and Proteome Profiling of Human Keratinocytes and Adipose Derived Stem Cells Proposed miRNA-Mediated Regulations of Epidermal Growth Factor and Interleukin 1-Alpha
Open this publication in new window or tab >>miRNome and Proteome Profiling of Human Keratinocytes and Adipose Derived Stem Cells Proposed miRNA-Mediated Regulations of Epidermal Growth Factor and Interleukin 1-Alpha
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2023 (English)In: International Journal of Molecular Sciences, ISSN 1661-6596, E-ISSN 1422-0067, Vol. 24, no 5, article id 4956Article in journal (Refereed) Published
Abstract [en]

Wound healing is regulated by complex crosstalk between keratinocytes and other cell types, including stem cells. In this study, a 7-day direct co-culture model of human keratinocytes and adipose-derived stem cells (ADSCs) was proposed to study the interaction between the two cell types, in order to identify regulators of ADSCs differentiation toward the epidermal lineage. As major mediators of cell communication, miRNome and proteome profiles in cell lysates of cultured human keratinocytes and ADSCs were explored through experimental and computational analyses. GeneChip(R) miRNA microarray, identified 378 differentially expressed miRNAs; of these, 114 miRNAs were upregulated and 264 miRNAs were downregulated in keratinocytes. According to miRNA target prediction databases and the Expression Atlas database, 109 skin-related genes were obtained. Pathway enrichment analysis revealed 14 pathways including vesicle-mediated transport, signaling by interleukin, and others. Proteome profiling showed a significant upregulation of the epidermal growth factor (EGF) and Interleukin 1-alpha (IL-1 alpha) compared to ADSCs. Integrated analysis through cross-matching the differentially expressed miRNA and proteins suggested two potential pathways for regulations of epidermal differentiation; the first is EGF-based through the downregulation of miR-485-5p and miR-6765-5p and/or the upregulation of miR-4459. The second is mediated by IL-1 alpha overexpression through four isomers of miR-30-5p and miR-181a-5p.

Place, publisher, year, edition, pages
MDPI, 2023
Keywords
keratinocytes; adipose-derived stem cells; direct co-culture; miRNA; proteome; epidermal growth factor; interleukin 1 alpha; stem cell differentiation
National Category
Medical Biotechnology (with a focus on Cell Biology (including Stem Cell Biology), Molecular Biology, Microbiology, Biochemistry or Biopharmacy)
Identifiers
urn:nbn:se:liu:diva-192940 (URN)10.3390/ijms24054956 (DOI)000948184700001 ()36902387 (PubMedID)
Note

Funding Agencies|Centre for Advanced Medical Product, Sweden; Hand and Plastic Surgery Department, Linkoeping University Hospital, Region OEstergoetland, Sweden

Available from: 2023-04-11 Created: 2023-04-11 Last updated: 2026-05-22

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