Proteome differences of dental stem cells between permanent and deciduous teeth by data-independent acquisition proteomics
Dental pulp stem cells hold significant prospects for tooth regeneration and repair. However, a comprehensive understanding of the molecular differences between dental pulp stem cells (DPSC, from permanent teeth) and stem cells from human exfoliated deciduous teeth (SHED, from deciduous teeth) remai...
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De Gruyter
2025-01-01
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| Series: | Open Life Sciences |
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| Online Access: | https://doi.org/10.1515/biol-2022-0998 |
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| author | Zhang Suping Liu Yuqing Dong Jin Jiao Min Gu Yongchun Chen Liling Yuan Na Wang Jianrong Yang Dezhao Meng Fanwen |
| author_facet | Zhang Suping Liu Yuqing Dong Jin Jiao Min Gu Yongchun Chen Liling Yuan Na Wang Jianrong Yang Dezhao Meng Fanwen |
| author_sort | Zhang Suping |
| collection | DOAJ |
| description | Dental pulp stem cells hold significant prospects for tooth regeneration and repair. However, a comprehensive understanding of the molecular differences between dental pulp stem cells (DPSC, from permanent teeth) and stem cells from human exfoliated deciduous teeth (SHED, from deciduous teeth) remains elusive, which is crucial for optimizing their therapeutic potential. To address this gap, we employed a novel data-independent acquisition (DIA) proteomics approach to compare the protein expression profiles of DPSC and SHED. Based on nano-LC-MS/MS DIA proteomics, we identified over 7,000 proteins in both cell types. By comparing their expression levels, 209 differentially expressed proteins were identified. Subsequent Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses, along with protein–protein interaction network construction, revealed significant metabolic differences and key regulatory nodes. DPSC exhibited significantly higher expression of proteins belonging to the NDUFB family, SMARC family, RPTOR and TLR3. These proteins are known to be involved in critical cellular processes such as mitochondrial energy metabolism, mTOR-related autophagy pathway, and innate immune response. Conversely, SHED displayed elevated expression of AKR1B family, which participated in glycerolipid metabolism and adipogenic differentiation, PRKG1, MGLL and UQCRB proteins associated with thermogenesis. These findings highlight the specific proteomic landscape of DPSC and SHED, suggesting their distinct biological roles and potential applications. |
| format | Article |
| id | doaj-art-75ac0af72e8d400ca0034fdd66fd8c01 |
| institution | Kabale University |
| issn | 2391-5412 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | De Gruyter |
| record_format | Article |
| series | Open Life Sciences |
| spelling | doaj-art-75ac0af72e8d400ca0034fdd66fd8c012025-02-02T15:44:51ZengDe GruyterOpen Life Sciences2391-54122025-01-01201136253010.1515/biol-2022-0998Proteome differences of dental stem cells between permanent and deciduous teeth by data-independent acquisition proteomicsZhang Suping0Liu Yuqing1Dong Jin2Jiao Min3Gu Yongchun4Chen Liling5Yuan Na6Wang Jianrong7Yang Dezhao8Meng Fanwen9Infectious Disease Prevention and Control Department, Suzhou Center for Disease Control and Prevention, Suzhou215131, ChinaCyrus Tang Medical Institute, Soochow University School of Medicine, Suzhou215123, ChinaCyrus Tang Medical Institute, Soochow University School of Medicine, Suzhou215123, ChinaRespiratory Disease Research Institute, Suzhou First Hospital affiliated to Soochow University, Suzhou215003, ChinaDepartment of Stomatology, Suzhou Ninth Hospital affiliated to Soochow University, Suzhou215200, ChinaInfectious Disease Prevention and Control Department, Suzhou Center for Disease Control and Prevention, Suzhou215131, ChinaCyrus Tang Medical Institute, Soochow University School of Medicine, Suzhou215123, ChinaCyrus Tang Medical Institute, Soochow University School of Medicine, Suzhou215123, ChinaOral Implantology Department, Suzhou Stomatological Hospital, Suzhou215005, ChinaOral Implantology Department, Suzhou Stomatological Hospital, Suzhou215005, ChinaDental pulp stem cells hold significant prospects for tooth regeneration and repair. However, a comprehensive understanding of the molecular differences between dental pulp stem cells (DPSC, from permanent teeth) and stem cells from human exfoliated deciduous teeth (SHED, from deciduous teeth) remains elusive, which is crucial for optimizing their therapeutic potential. To address this gap, we employed a novel data-independent acquisition (DIA) proteomics approach to compare the protein expression profiles of DPSC and SHED. Based on nano-LC-MS/MS DIA proteomics, we identified over 7,000 proteins in both cell types. By comparing their expression levels, 209 differentially expressed proteins were identified. Subsequent Gene Ontology and Kyoto Encyclopedia of Genes and Genomes enrichment analyses, along with protein–protein interaction network construction, revealed significant metabolic differences and key regulatory nodes. DPSC exhibited significantly higher expression of proteins belonging to the NDUFB family, SMARC family, RPTOR and TLR3. These proteins are known to be involved in critical cellular processes such as mitochondrial energy metabolism, mTOR-related autophagy pathway, and innate immune response. Conversely, SHED displayed elevated expression of AKR1B family, which participated in glycerolipid metabolism and adipogenic differentiation, PRKG1, MGLL and UQCRB proteins associated with thermogenesis. These findings highlight the specific proteomic landscape of DPSC and SHED, suggesting their distinct biological roles and potential applications.https://doi.org/10.1515/biol-2022-0998human dental pulp stem cellsdia proteomicsprotein profiledpscshed |
| spellingShingle | Zhang Suping Liu Yuqing Dong Jin Jiao Min Gu Yongchun Chen Liling Yuan Na Wang Jianrong Yang Dezhao Meng Fanwen Proteome differences of dental stem cells between permanent and deciduous teeth by data-independent acquisition proteomics Open Life Sciences human dental pulp stem cells dia proteomics protein profile dpsc shed |
| title | Proteome differences of dental stem cells between permanent and deciduous teeth by data-independent acquisition proteomics |
| title_full | Proteome differences of dental stem cells between permanent and deciduous teeth by data-independent acquisition proteomics |
| title_fullStr | Proteome differences of dental stem cells between permanent and deciduous teeth by data-independent acquisition proteomics |
| title_full_unstemmed | Proteome differences of dental stem cells between permanent and deciduous teeth by data-independent acquisition proteomics |
| title_short | Proteome differences of dental stem cells between permanent and deciduous teeth by data-independent acquisition proteomics |
| title_sort | proteome differences of dental stem cells between permanent and deciduous teeth by data independent acquisition proteomics |
| topic | human dental pulp stem cells dia proteomics protein profile dpsc shed |
| url | https://doi.org/10.1515/biol-2022-0998 |
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