{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,3]],"date-time":"2026-09-03T05:38:08Z","timestamp":1788413888295,"version":"build-2803163510"},"reference-count":43,"publisher":"Public Library of Science (PLoS)","issue":"6","license":[{"start":{"date-parts":[[2022,6,30]],"date-time":"2022-06-30T00:00:00Z","timestamp":1656547200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000097","name":"National Center for Research Resources","doi-asserted-by":"publisher","award":["1S10 OD016281"],"award-info":[{"award-number":["1S10 OD016281"]}],"id":[{"id":"10.13039\/100000097","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"abstract":"<jats:p>Cystinuria is one of various disorders that cause biomineralization in the urinary system, including bladder stone formation in humans. It is most prevalent in children and adolescents and more aggressive in males. There is no cure, and only limited disease management techniques help to solubilize the stones. Recurrence, even after treatment, occurs frequently. Other than a buildup of cystine, little is known about factors involved in the formation, expansion, and recurrence of these stones. This study sought to define the growth of bladder stones, guided by micro-computed tomography imaging, and to profile dynamic stone proteome changes in a cystinuria mouse model. After bladder stones developed <jats:italic>in vivo<\/jats:italic>, they were harvested and separated into four developmental stages (sand, small, medium and large stone), based on their size. Data-dependent and data-independent acquisitions allowed deep profiling of stone proteomics. The proteomic signatures and pathways illustrated major changes as the stones grew. Stones initiate from a small nidus, grow outward, and show major enrichment in ribosomal proteins and factors related to coagulation and platelet degranulation, suggesting a major dysregulation in specific pathways that can be targeted for new therapeutic options.<\/jats:p>","DOI":"10.1371\/journal.pone.0250137","type":"journal-article","created":{"date-parts":[[2022,6,30]],"date-time":"2022-06-30T17:40:44Z","timestamp":1656610844000},"page":"e0250137","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":7,"title":["Comprehensive proteomic quantification of bladder stone progression in a cystinuric mouse model using data-independent acquisitions"],"prefix":"10.1371","volume":"17","author":[{"given":"Jacob","family":"Rose","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nathan","family":"Basisty","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tiffany","family":"Zee","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Cameron","family":"Wehrfritz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Neelanjan","family":"Bose","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pierre-Yves","family":"Desprez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pankaj","family":"Kapahi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marshall","family":"Stoller","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9907-2749","authenticated-orcid":true,"given":"Birgit","family":"Schilling","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"340","published-online":{"date-parts":[[2022,6,30]]},"reference":[{"issue":"974","key":"pone.0250137.ref001","doi-asserted-by":"crossref","first-page":"799","DOI":"10.1136\/pgmj.2005.044156","article-title":"Cystine calculi: challenging group of stones","volume":"82","author":"K Ahmed","year":"2006","journal-title":"Postgrad Med J"},{"issue":"4","key":"pone.0250137.ref002","doi-asserted-by":"crossref","first-page":"420","DOI":"10.1038\/ng0494-420","article-title":"Cystinuria caused by mutations in rBAT, a gene involved in the transport of cystine","volume":"6","author":"MJ Calonge","year":"1994","journal-title":"Nature genetics"},{"issue":"6","key":"pone.0250137.ref003","doi-asserted-by":"crossref","first-page":"633","DOI":"10.1007\/BF00209478","article-title":"Assignment of the gene responsible for cystinuria (rBAT) and of markers D2S119 and D2S177 to 2p16 by fluorescence in situ hybridization","volume":"95","author":"MJ Calonge","year":"1995","journal-title":"Hum Genet"},{"issue":"2","key":"pone.0250137.ref004","doi-asserted-by":"crossref","first-page":"181","DOI":"10.1016\/j.semnephrol.2008.01.011","article-title":"Cystinuria.","volume":"28","author":"A Mattoo","year":"2008","journal-title":"Semin Nephrol"},{"issue":"3","key":"pone.0250137.ref005","doi-asserted-by":"crossref","first-page":"223","DOI":"10.1007\/s40257-013-0022-z","article-title":"Penicillamine revisited: historic overview and review of the clinical uses and cutaneous adverse effects","volume":"14","author":"R Ishak","year":"2013","journal-title":"Am J Clin Dermatol"},{"issue":"1","key":"pone.0250137.ref006","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.ucl.2012.09.006","article-title":"New insights into the pathogenesis of renal calculi.","volume":"40","author":"HS Bagga","year":"2013","journal-title":"Urol Clin North Am"},{"issue":"3","key":"pone.0250137.ref007","doi-asserted-by":"crossref","first-page":"295","DOI":"10.1016\/j.ucl.2007.05.007","article-title":"Pathogenesis of renal calculi.","volume":"34","author":"NL Miller","year":"2007","journal-title":"Urol Clin North Am"},{"issue":"4","key":"pone.0250137.ref008","doi-asserted-by":"crossref","first-page":"368","DOI":"10.1016\/0306-9877(91)90011-M","article-title":"Pathogenesis of kidney stones","volume":"36","author":"CH van Aswegen","year":"1991","journal-title":"Medical hypotheses"},{"issue":"10","key":"pone.0250137.ref009","doi-asserted-by":"crossref","first-page":"2547","DOI":"10.1097\/01.ASN.0000029586.17680.E5","article-title":"Comparison between SLC3A1 and SLC7A9 cystinuria patients and carriers: a need for a new classification","volume":"13","author":"L Dello Strologo","year":"2002","journal-title":"J Am Soc Nephrol"},{"key":"pone.0250137.ref010","doi-asserted-by":"crossref","first-page":"41","DOI":"10.4137\/BMI.S26229","article-title":"Urine Proteome Biomarkers in Kidney Diseases. 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