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Exosomal subgroups isolated from MSCs by tangential flow filtration combined with size exclusion chromatography reals distinct molecular properties and functions

ABSTRACT: Using a tangential flow filtration and size exclusion chromatography system, the exosomes derived from human umbilical cord mesenchymal stem cells (hUC-MSCs) were purified and separated, resulting in two subgroups with different characterization. These subgroups were named S1-Exos and S2-Exos. The different exosomal subgroups were subjected to proteomic analysis using protein mass spectrometry.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Jing Li

LAB HEAD: Jing Li

PROVIDER: PXD050064 | Pride | 2025-05-06

REPOSITORIES: Pride

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			Action	DRS
	Database_search_result.zip	Other
	P1-Exo-1B.d.zip	Other
	P1-Exo-2B.d.zip	Other
	P1-Exo-3B.d.zip	Other
	P2-Exo-1B.d.zip	Other

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Publications

Distinct molecular properties and functions of small EV subpopulations isolated from human umbilical cord MSCs using tangential flow filtration combined with size exclusion chromatography.

Liu Wei W Wang Xinyu X Chen Yating Y Yuan Jiapei J Zhang Huiyu H Jin Xin X Jiang Yuying Y Cao Junjing J Wang Zibin Z Yang Shuo S Wang Bingwei B Wu Tinghe T Li Jing J

Journal of extracellular vesicles 20250101 1

As functional derivatives of mesenchymal stem cells (MSCs), small extracellular vesicles (sEVs) have garnered significant attention and application in regenerative medicine. However, the technical limitations for large-scale isolation of sEVs and their heterogeneous nature have added complexity to their applications. It remains unclear if the heterogeneous sEVs represent different aspects of MSCs functions. Here, we provide a method for the large-scale production of sEVs subpopulations derived f ...[more]

PMID: 39783889

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Exosomal subgroups isolated from MSCs by tangential flow filtration combined with size exclusion chromatography reals distinct molecular properties and functions

Project description:Here, by using TFF-SEC system to separate exosomal subgroups, our study provides an industrial-scale method for the scalable production of MSC exosomes with specific functions. The two exosome subgroups, S1-Exos and S2-Exos, differ in their biogenesis, characterization, and content of cargos, resulting in variations in their biological functions. Although stem cells have been widely used in clinical research and therapy, ineffectiveness or lack of stability still exists (26140604, 26908143). In spite of the well-known advantages of MSCs-Exos in clinical applications, our research introduces a new concept that involves leveraging distinct subpopulations of MSC exosomes for targeted therapeutic interventions in specific diseases.

2025-01-15 | GSE256371 | GEO

RNA-seq of Clostridioides difficile ∆cwp66 mutant against wild-type control

Project description:The experiment intends to reveal the difference in gene expression profiles between the wild-type strain and the ∆cwp66 mutant of Clostridioides difficile. We first constructed the ∆cwp66 mutant, and the phenotypic changes of the ∆cwp66 mutant against the wild-type strain were studied. To further elucidate the mechanism of phenotypic changes of the ∆cwp66 mutant, RNA-sequencing experiments were carried out to reveal the underlying mechanism of phenotypic changes.

2022-03-01 | E-MTAB-11180 | biostudies-arrayexpress

Proteogenomic landscape of medulloblastoma subgroups

Project description:Proteogenomic landscape of medulloblastoma subgroups

| PRJNA420382 | ENA

JOSD2 inhibits angiotensin II-induced vascular remodeling by deubiquitinating and stabilizing SMAD7

Project description:Increased level of angiotensin II (Ang II) plays a central role in the development of hypertensive vascular remodeling. Here, we identify the deubiquitinating enzyme JOSD2 as a protective factor and investigate its molecular mechanism in Ang II-induced vascular remodeling. Firstly, we found that JOSD2 was up-regulated in aortic smooth muscle cells but not endothelial cells of Ang II-challenged mouse vascular tissues. Whole-body knockout of JOSD2 significantly deteriorated Ang II-induced vascular remodeling in mice. Conversely, Ang II-induced vascular remodeling was reversed by VSMC-specific JOSD2 overexpression. In vitro, JOSD2 deficiency aggravated the fibrosis, proliferation, and migration induced by Ang II in vascular smooth muscle cells (VSMCs), while these changes were reversed by JOSD2 overexpression. RNA-seq analysis showed that the protective effects of JOSD2 in VSMCs were related to TGFβ-SMAD pathway. Furthermore, the LC-MS/MS analysis identified SMAD7, a negative regulator in TGFβ-SMAD pathway, as the substrate of JOSD2. JOSD2 specifically bound to the MH1 domain of SMAD7 to removed K48-linked Ub chains of SMAD7 at lysine 220 to sustain SMAD7 stability. Taken together, our finding reveals that JOSD2-SMAD7 axis is critical for relieving Ang II-induced vascular remodeling and JOSD2 maybe a novel and potential therapeutic target for hypertensive vascular remodeling.

2024-10-10 | PXD056674 | Pride

Proteogenomic landscape of medulloblastoma subgroups [SNP]

Project description:Proteogenomic landscape of medulloblastoma subgroups [SNP]

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Proteogenomic landscape of medulloblastoma subgroups [methylation]

Project description:Proteogenomic landscape of medulloblastoma subgroups [methylation]

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Genome-wide transcriptional response of the Arctic bacterium Pseudoalteromonas sp. A2 to oxidative stress

Project description:Transcriptomic sequencing was performed to obtain the key functional genes involved in the adaptation of oxidative stress induced by hydrogen peroxide (H2O2) in the Arctic bacterium Pseudoalteromonas sp. A2. Exposure to 1 mmol/L H2O2 resulted in large alterations of the transcriptome profile, including significant upregulation of 109 genes and significant downregulation of 174 genes. Functional classification of differentially expressed genes revealed that most of genes affiliated with biological adhesion, negative regulation of biological process, enzyme regulator activity, protein binding transcription factor activity and structural molecular activity were upregulated, and most of genes affiliated with multicellular organismal process and extracellular region were downregulated. It was notably that fifteen genes affiliated with flagella and four genes affiliated with heat shock proteins were significantly upregulated. Meanwhile, nine genes affiliated with cytochrome and cytochrome oxidase, and five genes affiliated with TonB-dependent receptor, were significantly downregulated. However, eighteen genes with antioxidant activity categorized by GO analysis showed differential expressions. This overall survey of transcriptome and oxidative stress-relevant genes can contribute to understand the adaptive mechanism of Arctic bacteria. five significant upregulated genes and five significant downregulated genes were selected using qRT-PCR to cinduct the oxidative stress. overall survey of transcriptomic sequencing by RNA-Seq of the Pseudoalteromonas sp. A2, an isolate from seawater with high activity against H2O2

2016-03-01 | E-GEOD-66773 | biostudies-arrayexpress

Exosomal subgroups isolated from MSCs by tangential flow filtration combined with size exclusion chromatography reals distinct molecular properties and functions

Project description:Exosomal subgroups isolated from MSCs by tangential flow filtration combined with size exclusion chromatography reals distinct molecular properties and functions

| PRJNA1079288 | ENA

PIK3C3/VPS34 controls Sertoli cell polarity in the mouse testis through the stabilization of the actin cytoskeleton

Project description:Sertoli cells are highly polarized testicular cells that provide a nurturing environment for germ cell development and maturation during spermatogenesis. The Class III PI3K, PIK3C3/VPS34 plays key roles in endosomal membrane traffic and macroautophagy in various cell types; however, its role in Sertoli cells remains unclear. Here, we generated a mouse line in which Pik3c3 was specifically deleted in Sertoli cells (cKO) and found that after one round of normal spermatogenesis, the cKO mice quickly became infertile and showed disruption of Sertoli cell polarity, loss of germ cells and impaired spermiogenesis. Subsequent proteomics and phosphoproteomics analyses enriched the F-actin cytoskeleton network involved in the disorganized Sertoli-cell structure in cKO testis, and showed significantly increased expression of the F-actin negative regulator SCIN and reduced phosphorylation of the α-tubulin deacetylase HDAC6. Our results further demonstrated that the accumulation of SCIN in cKO Sertoli cells caused the disassembly of the F-actin cytoskeleton, which was related to the failure of SCIN degradation through the autophagy-lysosome pathway. Additionally, we found that the phosphorylation of HDAC6 at site S59 by PIK3C3 was essential for its degradation through the ubiquitin-proteasome pathway. As a result, the HDAC6 that accumulated in cKO Sertoli cells deacetylated SCIN at site K189 and led to a disorganized F-actin cytoskeleton. Taken together, our findings elucidate the indispensable role of PIK3C3 in maintaining Sertoli cell polarity and reveal a new mechanism in which both its protein kinase activity and its regulation of autophagy are required for the stabilization of the actin cytoskeleton.

2024-08-09 | PXD036242 | Pride

Exosomes from mesenchymal stromal cells reduce murine colonic inflammation via a macrophage-dependent mechanism

Project description:Conventional treatments for inflammatory bowel disease (IBD) have multiple potential side effects. Therefore, alternative treatments are desperately needed. In the present study, we proposed a new therapeutic tool for the treatment of IBD in murine pre-clinical models by using MSC-Exos. We demonstrated that the infused MSC-Exos are immunotolerated by the host, which is convenient for a future clinical application of MSC-Exos in IBD. To understand the molecular basis mediating the anticolitic benefit of MSC-Exos, we performed proteomic analysis using iTRAQ technology to detect the protein expression profiles in MSC-Exos and the corresponding supernatants from their parent cell MSCs. Proteomic analysis revealed that MSC-Exos were enriched in proteins involved in regulating multiple biological processes associated with the anti-colitic benefit of MSC-Exos. Particularly, metallothionein-2 in MSC-Exos was required for the suppression of inflammatory responses in macrophages. Taken together, MSC-Exos are critical regulators of inflammatory responses and may be promising candidates for IBD treatment.

2020-05-27 | PXD015386 | Pride