{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,3]],"date-time":"2026-10-03T12:51:34Z","timestamp":1791031894847,"version":"4.1.0"},"reference-count":50,"publisher":"Wiley","issue":"18","license":[{"start":{"date-parts":[[2024,1,10]],"date-time":"2024-01-10T00:00:00Z","timestamp":1704844800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"}],"funder":[{"DOI":"10.13039\/501100006769","name":"Russian Science Foundation","doi-asserted-by":"publisher","award":["22\u201075\u201010120 (functional assays)"],"award-info":[{"award-number":["22\u201075\u201010120 (functional assays)"]}],"id":[{"id":"10.13039\/501100006769","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012190","name":"Ministry of Science and Higher Education of the Russian Federation","doi-asserted-by":"publisher","award":["075\u201015\u20102021\u2010596 (proteomic analysis)"],"award-info":[{"award-number":["075\u201015\u20102021\u2010596 (proteomic analysis)"]}],"id":[{"id":"10.13039\/501100012190","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["analyticalsciencejournals.onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["Proteomics"],"published-print":{"date-parts":[[2024,9]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>Multipotent mesenchymal stromal cells (MSCs)\u2010derived extracellular vesicles (EVs) play important roles in cellular communication and are extensively studied as promising therapeutic agents. While there is a substantial pool of studies on liquid\u2010phase EVs, data on EVs bound to the extracellular matrix (ECM) is lacking. There is also an emerging trend of accumulating and comparing data on characteristics of EVs obtained in different culturing conditions. Aiming to reveal proteomic signatures of EVs obtained from conditioned media and ECM of MSCs cultured in 2D and 3D conditions, we performed liquid chromatography with tandem mass spectrometry. Bioinformatic analysis revealed common patterns in proteomic composition of liquid\u2010phase EVs and matrix\u2010bound vesicles (MBVs), namely extracellular environment organization, immune, and transport pathways enrichment. However, extracellular environmental organization pathways are more enriched in liquid\u2010phase EVs than in MBVs, while MBVs proteins noticeably enrich enzymatic pathways. Furthermore, each type of EVs from 2D and 3D cultures has a unique differential abundance profile. We have also performed comparative functional assays, namely scratch assay to assess EVs effect on cell migration and tubulogenesis assay to evaluate EVs angiogenic potential. We found that both liquid\u2010phase EVs and MBVs enhance cell migration, while angiogenic potential is higher in MBVs. Results of the present study suggest that while both liquid\u2010phase EVs and MBVs have therapeutic potential, some unique features of each subgroup may determine optimal areas of their application.<\/jats:p>","DOI":"10.1002\/pmic.202300375","type":"journal-article","created":{"date-parts":[[2024,1,10]],"date-time":"2024-01-10T06:51:32Z","timestamp":1704869492000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":17,"title":["Four sides to the story: A proteomic comparison of liquid\u2010phase and matrix\u2010bound extracellular vesicles in 2D and 3D cell cultures"],"prefix":"10.1002","volume":"24","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-9429-6997","authenticated-orcid":false,"given":"Maria","family":"Peshkova","sequence":"first","affiliation":[{"name":"World\u2010Class Research Center \u201cDigital Biodesign and Personalized Healthcare\u201d Sechenov University  Moscow Russia"},{"name":"Institute for Regenerative Medicine Sechenov University  Moscow Russia"},{"name":"Laboratory of Clinical Smart Nanotechnologies Sechenov University  Moscow Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alexander","family":"Korneev","sequence":"additional","affiliation":[{"name":"Institute for Regenerative Medicine Sechenov University  Moscow Russia"},{"name":"Laboratory of Clinical Smart Nanotechnologies Sechenov University  Moscow Russia"},{"name":"Laboratory of the Polymers Synthesis for Medical Applications Sechenov University  Moscow Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Daria","family":"Revokatova","sequence":"additional","affiliation":[{"name":"Institute for Regenerative Medicine Sechenov University  Moscow Russia"},{"name":"Laboratory of Clinical Smart Nanotechnologies Sechenov University  Moscow Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Olga","family":"Smirnova","sequence":"additional","affiliation":[{"name":"Institute for Regenerative Medicine Sechenov University  Moscow Russia"},{"name":"Laboratory of Clinical Smart Nanotechnologies Sechenov University  Moscow Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Timofey","family":"Klyucherev","sequence":"additional","affiliation":[{"name":"Institute for Regenerative Medicine Sechenov University  Moscow Russia"},{"name":"Laboratory of Clinical Smart Nanotechnologies Sechenov University  Moscow Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Victoria","family":"Shender","sequence":"additional","affiliation":[{"name":"Lopukhin Federal Research and Clinical Center of Physical\u2013Chemical Medicine of Federal Medical Biological Agency  Moscow Russia"},{"name":"Shemyakin\u2010Ovchinnikov Institute of Bioorganic Chemistry of the Russian Academy of Sciences  Moscow Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Georgij","family":"Arapidi","sequence":"additional","affiliation":[{"name":"Lopukhin Federal Research and Clinical Center of Physical\u2013Chemical Medicine of Federal Medical Biological Agency  Moscow Russia"},{"name":"Shemyakin\u2010Ovchinnikov Institute of Bioorganic Chemistry of the Russian Academy of Sciences  Moscow Russia"},{"name":"Moscow Institute of Physics and Technology National Research University  Dolgoprudny Moscow Region Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nastasia","family":"Kosheleva","sequence":"additional","affiliation":[{"name":"Institute for Regenerative Medicine Sechenov University  Moscow Russia"},{"name":"Laboratory of Clinical Smart Nanotechnologies Sechenov University  Moscow Russia"},{"name":"FSBSI Institute of General Pathology and Pathophysiology  Moscow Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Peter","family":"Timashev","sequence":"additional","affiliation":[{"name":"World\u2010Class Research Center \u201cDigital Biodesign and Personalized Healthcare\u201d Sechenov University  Moscow Russia"},{"name":"Institute for Regenerative Medicine Sechenov University  Moscow Russia"},{"name":"Laboratory of Clinical Smart Nanotechnologies Sechenov University  Moscow Russia"},{"name":"Chemistry Department Lomonosov Moscow State University  Moscow Russia"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2024,1,10]]},"reference":[{"key":"e_1_2_9_2_1","doi-asserted-by":"publisher","DOI":"10.1038\/bjc.1972.33"},{"key":"e_1_2_9_3_1","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-biochem-013118-111902"},{"key":"e_1_2_9_4_1","doi-asserted-by":"publisher","DOI":"10.1007\/s10571-016-0366-z"},{"key":"e_1_2_9_5_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.bbagen.2009.09.006"},{"key":"e_1_2_9_6_1","doi-asserted-by":"publisher","DOI":"10.1126\/sciadv.1600502"},{"key":"e_1_2_9_7_1","doi-asserted-by":"publisher","DOI":"10.1089\/dna.2021.0488"},{"key":"e_1_2_9_8_1","doi-asserted-by":"publisher","DOI":"10.1159\/000522575"},{"key":"e_1_2_9_9_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.actbio.2021.03.030"},{"key":"e_1_2_9_10_1","doi-asserted-by":"publisher","DOI":"10.3389\/fphar.2021.747223"},{"key":"e_1_2_9_11_1","doi-asserted-by":"publisher","DOI":"10.1593\/neo.13786"},{"key":"e_1_2_9_12_1","doi-asserted-by":"publisher","DOI":"10.1089\/ten.tea.2017.0102"},{"key":"e_1_2_9_13_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.regen.2019.01.001"},{"key":"e_1_2_9_14_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41598\u2010019\u201039861\u20104"},{"key":"e_1_2_9_15_1","doi-asserted-by":"publisher","DOI":"10.1126\/sciadv.aay4361"},{"key":"e_1_2_9_16_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-019-49671-3"},{"key":"e_1_2_9_17_1","doi-asserted-by":"publisher","DOI":"10.3389\/fcell.2022.819726"},{"key":"e_1_2_9_18_1","doi-asserted-by":"publisher","DOI":"10.1177\/0391398820986809"},{"key":"e_1_2_9_19_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.biomaterials.2021.120742"},{"key":"e_1_2_9_20_1","doi-asserted-by":"publisher","DOI":"10.1007\/s00266-021-02254-y"},{"key":"e_1_2_9_21_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.biopha.2023.114557"},{"key":"e_1_2_9_22_1","doi-asserted-by":"publisher","DOI":"10.1080\/20013078.2018.1535750"},{"key":"e_1_2_9_23_1","doi-asserted-by":"publisher","DOI":"10.1038\/srep17319"},{"key":"e_1_2_9_24_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.micron.2021.103044"},{"key":"e_1_2_9_25_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btz931"},{"key":"e_1_2_9_26_1","doi-asserted-by":"publisher","DOI":"10.1038\/75556"},{"key":"e_1_2_9_27_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/28.1.27"},{"key":"e_1_2_9_28_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkr828"},{"key":"e_1_2_9_29_1","doi-asserted-by":"publisher","DOI":"10.3389\/fcell.2021.572727"},{"key":"e_1_2_9_30_1","doi-asserted-by":"publisher","DOI":"10.18063\/ijb.v6i3.269"},{"key":"e_1_2_9_31_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-019-09588-x"},{"key":"e_1_2_9_32_1","doi-asserted-by":"publisher","DOI":"10.7150\/thno.58468"},{"key":"e_1_2_9_33_1","doi-asserted-by":"publisher","DOI":"10.1074\/jbc.M112.449538"},{"key":"e_1_2_9_34_1","doi-asserted-by":"publisher","DOI":"10.1042\/EBC20190012"},{"key":"e_1_2_9_35_1","doi-asserted-by":"publisher","DOI":"10.1002\/advs.201800948"},{"key":"e_1_2_9_36_1","doi-asserted-by":"publisher","DOI":"10.1088\/1758-5090\/ac3b90"},{"key":"e_1_2_9_37_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.ymthe.2020.04.020"},{"key":"e_1_2_9_38_1","doi-asserted-by":"publisher","DOI":"10.1002\/jev2.12235"},{"key":"e_1_2_9_39_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.bioactmat.2022.07.004"},{"issue":"1","key":"e_1_2_9_40_1","first-page":"1","article-title":"Comprehensive proteomic analysis of exosomes derived from human bone marrow, adipose tissue, and umbilical cord mesenchymal stem cells","volume":"11","author":"Gang W. Z.","year":"2020","journal-title":"Stem Cell Research & Therapy"},{"key":"e_1_2_9_41_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13287-023-03381-w"},{"key":"e_1_2_9_42_1","doi-asserted-by":"publisher","DOI":"10.1210\/endo-122-6-2851"},{"key":"e_1_2_9_43_1","doi-asserted-by":"publisher","DOI":"10.1016\/8756-3282(88)90008-7"},{"key":"e_1_2_9_44_1","doi-asserted-by":"publisher","DOI":"10.1016\/0005-2760(75)90087-9"},{"key":"e_1_2_9_45_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13287-021-02317-6"},{"key":"e_1_2_9_46_1","doi-asserted-by":"publisher","DOI":"10.1186\/s41232-021-00154-x"},{"key":"e_1_2_9_47_1","doi-asserted-by":"publisher","DOI":"10.3389\/fcell.2022.824075"},{"key":"e_1_2_9_48_1","doi-asserted-by":"publisher","DOI":"10.1159\/000438594"},{"key":"e_1_2_9_49_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-022-06824-1"},{"key":"e_1_2_9_50_1","doi-asserted-by":"publisher","DOI":"10.1186\/s13287-020-01824-2"},{"key":"e_1_2_9_51_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkab1038"}],"container-title":["PROTEOMICS"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/analyticalsciencejournals.onlinelibrary.wiley.com\/doi\/pdf\/10.1002\/pmic.202300375","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,21]],"date-time":"2025-10-21T12:31:57Z","timestamp":1761049917000},"score":1,"resource":{"primary":{"URL":"https:\/\/analyticalsciencejournals.onlinelibrary.wiley.com\/doi\/10.1002\/pmic.202300375"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,1,10]]},"references-count":50,"journal-issue":{"issue":"18","published-print":{"date-parts":[[2024,9]]}},"alternative-id":["10.1002\/pmic.202300375"],"URL":"https:\/\/doi.org\/10.1002\/pmic.202300375","archive":["Portico"],"relation":{},"ISSN":["1615-9853","1615-9861"],"issn-type":[{"value":"1615-9853","type":"print"},{"value":"1615-9861","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024,1,10]]},"assertion":[{"value":"2023-09-26","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2023-12-19","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2024-01-10","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"2300375"}}