{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T14:03:48Z","timestamp":1787061828565,"version":"build-2736575974"},"reference-count":60,"publisher":"International Union of Crystallography (IUCr)","issue":"1","license":[{"start":{"date-parts":[[2025,1,1]],"date-time":"2025-01-01T00:00:00Z","timestamp":1735689600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/legalcode"},{"start":{"date-parts":[[2025,1,1]],"date-time":"2025-01-01T00:00:00Z","timestamp":1735689600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/legalcode"}],"funder":[{"name":"MICIU\/AEI and FSE+","award":["#RYC2022-035960-I"],"award-info":[{"award-number":["#RYC2022-035960-I"]}]},{"name":"Strategic Focal Area `Personalized Health and Related Technologies (PHRT)'","award":["#2017-303"],"award-info":[{"award-number":["#2017-303"]}]},{"name":"Chan Zuckerberg Initiative DAF","award":["2022-316777"],"award-info":[{"award-number":["2022-316777"]}]},{"name":"Fundaci\u00f3 Daniel Bravo i Andreu"}],"content-domain":{"domain":["iucr.org","wiley.com","iucrj.org"],"crossmark-restriction":true},"short-container-title":["J Synchrotron Rad","J Synchrotron Radiat"],"accepted":{"date-parts":[[2024,10,18]]},"published-print":{"date-parts":[[2025,1,1]]},"abstract":"<jats:p>One of the main limitations of conventional absorption-based X-ray micro-computed tomography imaging of biological samples is the low inherent X-ray contrast of soft tissue. To overcome this limitation, the use of ethanol as contrast agent has been proposed to enhance image contrast of soft tissues through dehydration. Some authors have shown that ethanol shrinks and hardens the tissue too much, also causing small tissue ruptures due to fast dehydration. However, the local tissue deformation occurring as a consequence of tissue dehydration and whether tissue shrinkage can modify myocardial architecture has not been quantified yet. The aim of this paper is to quantify the local myocardial tissue deformation due to ethanol dehydration based on 3D non-rigid registration and perform a detailed characterization of its myocardial tissue organization, before and after ethanol dehydration. A rat adult heart was imaged with synchrotron-radiation-based X-ray phase contrast imaging (X-PCI) three times: before, 9\u2005h after and 342\u2005h after ethanol immersion. The total volume shrinkage as well as changes in the left ventricular myocardial thickness were computed. Then, to determine local deformation of the heart caused by ethanol dehydration, the related 3D tomographic datasets were registered by means of a non-rigid registration algorithm. Finally, changes on the orientation and organization of myocytes were assessed. Our results show that the use of ethanol in synchrotron X-PCI can improve image contrast, but the tissue shrinkage is not homogeneous thus changing the local myocardial organization.<\/jats:p>","DOI":"10.1107\/s1600577524010221","type":"journal-article","created":{"date-parts":[[2024,11,18]],"date-time":"2024-11-18T05:00:42Z","timestamp":1731906042000},"page":"200-209","update-policy":"https:\/\/doi.org\/10.1107\/cm_01","source":"Crossref","is-referenced-by-count":2,"title":["The use of ethanol as contrast enhancer in synchrotron X-ray phase-contrast imaging leads to heterogeneous myocardial tissue shrinkage: a case report"],"prefix":"10.1107","volume":"32","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-8741-2566","authenticated-orcid":true,"given":"Gabriel","family":"Bernardino","sequence":"first","affiliation":[{"id":[{"id":"https:\/\/ror.org\/04n0g0b29","id-type":"ROR","asserted-by":"publisher"}],"department":["BCN MedTech"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"\u00c0ngels","family":"Calvet-Mirabent","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/021018s57","id-type":"ROR","asserted-by":"publisher"}],"department":["Institute of neurosciences, Department of Medicine, School of Medicine and Health Sciences"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2584-9812","authenticated-orcid":true,"given":"Hector","family":"Dejea","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/02550n020","id-type":"ROR","asserted-by":"publisher"}]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Eduard","family":"Guasch","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anne","family":"Bonnin","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/03eh3y714","id-type":"ROR","asserted-by":"publisher"}]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0223-1617","authenticated-orcid":true,"given":"Patricia","family":"Garcia-Canadilla","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"329","published-online":{"date-parts":[[2025,1,1]]},"reference":[{"key":"gui5002_bb1","doi-asserted-by":"crossref","first-page":"7712","DOI":"10.1038\/s41598-018-26086-0","volume":"8","author":"Albers","year":"2018","journal-title":"Sci. Rep."},{"key":"gui5002_bb2","doi-asserted-by":"crossref","first-page":"697","DOI":"10.1111\/joa.13027","volume":"235","author":"Anderson","year":"2019","journal-title":"J. Anat."},{"key":"gui5002_bb3","doi-asserted-by":"crossref","unstructured":"Bali\u010devi\u0107, V., Lon\u010dari\u0107, S., C\u00e1rdenes, R., Gonzalez-Tendero, A., Paun, B., Crispi, F., Butakoff, C. & Bijnens, B. (2015). Functional Imaging and Modeling of the Heart, Vol. 9126 of Lecture Notes in Computer Science, pp. 111-119. Springer.","DOI":"10.1007\/978-3-319-20309-6_13"},{"key":"gui5002_bb4","doi-asserted-by":"crossref","first-page":"1","DOI":"10.18637\/jss.v086.i08","volume":"86","author":"Beare","year":"2018","journal-title":"J. Stat. Soft."},{"key":"gui5002_bb5","doi-asserted-by":"crossref","first-page":"1226","DOI":"10.1038\/s41592-019-0582-9","volume":"16","author":"Berg","year":"2019","journal-title":"Nat. Methods"},{"key":"gui5002_bb12","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1155\/2019\/8617406","volume":"2019","author":"Bournonville","year":"2019","journal-title":"Contrast Media Mol. Imaging"},{"key":"gui5002_bb6","doi-asserted-by":"crossref","first-page":"R1","DOI":"10.1088\/0031-9155\/58\/1\/R1","volume":"58","author":"Bravin","year":"2013","journal-title":"Phys. Med. Biol."},{"key":"gui5002_bb7","first-page":"031402","volume":"6","author":"Brombal","year":"2019","journal-title":"J. Med. Imaging"},{"key":"gui5002_bb8","doi-asserted-by":"crossref","first-page":"aaf2e1","DOI":"10.1088\/1361-6560\/aaf2e1","volume":"63","author":"Brombal","year":"2018","journal-title":"Phys. Med. Biol."},{"key":"gui5002_bb9","doi-asserted-by":"crossref","first-page":"2293","DOI":"10.1073\/pnas.1720862115","volume":"115","author":"Busse","year":"2018","journal-title":"Proc. Natl Acad. Sci. USA"},{"key":"gui5002_bb10","doi-asserted-by":"crossref","first-page":"1208","DOI":"10.1017\/S1431927614001329","volume":"20","author":"Buytaert","year":"2014","journal-title":"Microsc. Microanal."},{"key":"gui5002_bb11","unstructured":"Cibc. (2013). Seg3D: Volumetric Image Segmentation and Visualization. Scientific Computing and Imaging Institute (SCI), https:\/\/www.mendeley.com\/catalogue\/a702d9d1-b36d-38f0-9c4b-44f7c552a1b2\/?utm_source=desktop&utm_medium=1.17.9&utm_campaign=open_catalog&userDocumentId=%7Bc869e468-ef14-4cd4-988b-46570e2."},{"key":"gui5002_bb13","doi-asserted-by":"crossref","first-page":"6996","DOI":"10.1038\/s41598-019-43407-z","volume":"9","author":"Dejea","year":"2019","journal-title":"Sci. Rep."},{"key":"gui5002_bb14","doi-asserted-by":"crossref","first-page":"30385","DOI":"10.1038\/srep30385","volume":"6","author":"Dudak","year":"2016","journal-title":"Sci. Rep."},{"key":"gui5002_bb15","unstructured":"ESC. (2019). About Cardiovascular Disease in ESC Member Countries, https:\/\/www.escardio.org\/The-ESC\/Press-Office\/Fact-sheets."},{"key":"gui5002_bb16","doi-asserted-by":"crossref","first-page":"1090","DOI":"10.1136\/jcp.2010.079905","volume":"63","author":"Essen","year":"2010","journal-title":"J. Clin. Pathol."},{"key":"gui5002_bb17","doi-asserted-by":"crossref","first-page":"e007753","DOI":"10.1161\/CIRCIMAGING.118.007753","volume":"11","author":"Garcia-Canadilla","year":"2018","journal-title":"Circ. Cardiovasc. Imaging"},{"key":"gui5002_bb18","doi-asserted-by":"crossref","first-page":"e0218192","DOI":"10.1371\/journal.pone.0218192","volume":"14","author":"Garcia-Canadilla","year":"2019","journal-title":"PLoS One"},{"key":"gui5002_bb19","doi-asserted-by":"crossref","first-page":"H287","DOI":"10.1152\/ajpheart.00824.2011","volume":"302","author":"Gilbert","year":"2012","journal-title":"Am. J. Physiol. Heart Circ. Physiol."},{"key":"gui5002_bb20","doi-asserted-by":"crossref","first-page":"732","DOI":"10.1093\/ehjci\/jew314","volume":"18","author":"Gonzalez-Tendero","year":"2017","journal-title":"Eur Heart J. Cardiovasc. Imaging"},{"key":"gui5002_bb21","doi-asserted-by":"crossref","first-page":"1371","DOI":"10.4067\/S0717-95022020000501371","volume":"38","author":"Haque","year":"2020","journal-title":"Int. J. Morphol."},{"key":"gui5002_bb22","doi-asserted-by":"crossref","first-page":"334","DOI":"10.1111\/joa.12469","volume":"229","author":"Ho\u0142da","year":"2016","journal-title":"J. Anat."},{"key":"gui5002_bb23","doi-asserted-by":"crossref","first-page":"1347","DOI":"10.1107\/S1600577514018128","volume":"21","author":"Hoshino","year":"2014","journal-title":"J. Synchrotron Rad."},{"key":"gui5002_bb24","doi-asserted-by":"crossref","first-page":"812","DOI":"10.1002\/jemt.23225","volume":"82","author":"Ko\u00e7","year":"2019","journal-title":"Microsc. Res. Tech."},{"key":"gui5002_bb25","first-page":"132","volume":"31","author":"Kunii","year":"2013","journal-title":"Med. Imaging Technol."},{"key":"gui5002_bb26","doi-asserted-by":"crossref","first-page":"e0254264","DOI":"10.1371\/journal.pone.0254264","volume":"16","author":"O","year":"2021","journal-title":"PLoS One"},{"key":"gui5002_bb27","unstructured":"LeGrice, I., Pope, A. & Smaill, B. (2005). Interstitial Fibrosis in Heart Failure, pp. 3-21. Springer."},{"key":"gui5002_bb28","doi-asserted-by":"crossref","first-page":"H571","DOI":"10.1152\/ajpheart.1995.269.2.H571","volume":"269","author":"LeGrice","year":"1995","journal-title":"Am. J. Physiol. Heart Circ. Physiol."},{"key":"gui5002_bb29","doi-asserted-by":"crossref","first-page":"670734","DOI":"10.3389\/fcvm.2021.670734","volume":"8","author":"Loncaric","year":"2021","journal-title":"Front. Cardiovasc. Med."},{"key":"gui5002_bb30","doi-asserted-by":"crossref","first-page":"73735","DOI":"10.3389\/fninf.2013.00045","volume":"7","author":"Lowekamp","year":"2013","journal-title":"Front. Neuroinform."},{"key":"gui5002_bb31","doi-asserted-by":"crossref","first-page":"1102","DOI":"10.1177\/02841851211030776","volume":"63","author":"Lwin","year":"2022","journal-title":"Acta Radiol."},{"key":"gui5002_bb32","doi-asserted-by":"crossref","first-page":"1029","DOI":"10.1107\/S0909049512032864","volume":"19","author":"Marone","year":"2012","journal-title":"J. Synchrotron Rad."},{"key":"gui5002_bb33","doi-asserted-by":"crossref","first-page":"1609","DOI":"10.1117\/12.431046","volume":"4322","author":"Mattes","year":"2001","journal-title":"Proc. SPIE"},{"key":"gui5002_bb34","doi-asserted-by":"crossref","unstructured":"Metscher, B. D. (2009). BMC Physiol. 9, 11.","DOI":"10.1186\/1472-6793-9-11"},{"key":"gui5002_bb35","doi-asserted-by":"crossref","unstructured":"Mirea, I., Varray, F., Zhu, Y. M., Fanton, L., Langer, M., Jouk, P. S., Michalowicz, G., Usson, Y. & Magnin, I. E. (2015). Functional Imaging and Modeling of the Heart, Vol. 9126 of Lecture Notes in Computer Science, pp. 172-179. Springer.","DOI":"10.1007\/978-3-319-20309-6_20"},{"key":"gui5002_bb36","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1155\/2019\/2054262","volume":"2019","author":"Mrz\u00edlkov\u00e1","year":"2019","journal-title":"Biomed Res. Intl"},{"key":"gui5002_bb37","doi-asserted-by":"crossref","first-page":"108","DOI":"10.1016\/j.compositesa.2017.10.027","volume":"104","author":"Nelson","year":"2018","journal-title":"Composites Part A"},{"key":"gui5002_bb38","doi-asserted-by":"crossref","first-page":"500","DOI":"10.1007\/s11604-019-00830-6","volume":"37","author":"Patzelt","year":"2019","journal-title":"Jpn J. Radiol."},{"key":"gui5002_bb300","doi-asserted-by":"crossref","unstructured":"Pennec, X., Cachier, P. & Ayache, N. (1999). Medical Image Computing and Computer-Assisted Intervention (MICCAI'99), Vol. 1679 of Lecture Notes in Computer Science, pp. 597-606. Berlin, Heidelberg: Springer.","DOI":"10.1007\/10704282_64"},{"key":"gui5002_bb39","doi-asserted-by":"crossref","first-page":"73","DOI":"10.1016\/j.media.2018.02.004","volume":"46","author":"Pichat","year":"2018","journal-title":"Med. Image Anal."},{"key":"gui5002_bb40","doi-asserted-by":"crossref","first-page":"14020","DOI":"10.1038\/s41598-021-93054-6","volume":"11","author":"Planinc","year":"2021","journal-title":"Sci. Rep."},{"key":"gui5002_bb41","doi-asserted-by":"crossref","first-page":"11046","DOI":"10.3389\/ti.2023.11046","volume":"36","author":"Planinc","year":"2023","journal-title":"Transpl. Int."},{"key":"gui5002_bb42","doi-asserted-by":"crossref","first-page":"2633","DOI":"10.1364\/BOE.386576","volume":"11","author":"Reichardt","year":"2020","journal-title":"Biomed. Opt. Expr."},{"key":"gui5002_bb43","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1117\/1.JMI.7.2.023501","volume":"7","author":"Reichardt","year":"2020","journal-title":"J. Med. Imag."},{"key":"gui5002_bb44","doi-asserted-by":"crossref","first-page":"484","DOI":"10.1016\/j.media.2005.03.003","volume":"10","author":"Rogelj","year":"2006","journal-title":"Med. Image Anal."},{"key":"gui5002_bb45","doi-asserted-by":"crossref","first-page":"17","DOI":"10.1016\/j.jneumeth.2011.08.031","volume":"202","author":"Schulz","year":"2011","journal-title":"J. Neurosci. Methods"},{"key":"gui5002_bb46","doi-asserted-by":"crossref","first-page":"795","DOI":"10.1107\/S1600577514010558","volume":"21","author":"Shirai","year":"2014","journal-title":"J. Synchrotron Rad."},{"key":"gui5002_bb47","doi-asserted-by":"crossref","first-page":"14088","DOI":"10.1038\/srep14088","volume":"5","author":"Silva","year":"2015","journal-title":"Sci. Rep."},{"key":"gui5002_bb48","doi-asserted-by":"crossref","unstructured":"Sommer, C., Str\u00e4ehle, C., K\u00f6the, U. & Hamprecht, F. A. (2011). 2011 IEEE International Symposium on Biomedical Imaging, pp. 230-233. IEEE.","DOI":"10.1109\/ISBI.2011.5872394"},{"key":"gui5002_bb49","doi-asserted-by":"crossref","first-page":"837","DOI":"10.1002\/uog.21970","volume":"56","author":"Soveral","year":"2020","journal-title":"Ultrasound Obstet. Gyne"},{"key":"gui5002_bb50","doi-asserted-by":"crossref","first-page":"022004","DOI":"10.1088\/1742-6596\/425\/2\/022004","volume":"425","author":"Takeda","year":"2013","journal-title":"J. Phys. Conf. Ser."},{"key":"gui5002_bb51","unstructured":"Takeda, T., Lwin, T. T., Yoneyama, A. & Hyodo, K. (2013). Photon Factory Activity Report 2013. Photon Factory, Tsukuba, Japan."},{"key":"gui5002_bb52","unstructured":"Takeda, T., Yoneyama, A. & Hyodo, K. (2014). Photon Factory Activity Report 2014. Photon Factory, Tsukuba, Japan."},{"key":"gui5002_bb301","doi-asserted-by":"crossref","first-page":"243","DOI":"10.1016\/S1361-8415(98)80022-4","volume":"2","author":"Thirion","year":"1998","journal-title":"Med. Image Anal."},{"key":"gui5002_bb53","doi-asserted-by":"crossref","first-page":"117","DOI":"10.1016\/j.media.2017.02.006","volume":"38","author":"Varray","year":"2017","journal-title":"Med. Image Anal."},{"key":"gui5002_bb54","doi-asserted-by":"crossref","unstructured":"Varray, F., Wang, L., Fanton, L., Zhu, Y.-M. & Magnin, I. E. (2013). Functional Imaging and Modeling of the Heart, Vol. 7945 of Lecture Notes in Computer Science, pp. 150-157. Berlin, Heidelberg: Springer.","DOI":"10.1007\/978-3-642-38899-6_18"},{"key":"gui5002_bb55","doi-asserted-by":"crossref","first-page":"185","DOI":"10.1111\/joa.12068","volume":"223","author":"Vickerton","year":"2013","journal-title":"J. Anat."},{"key":"gui5002_bb56","doi-asserted-by":"crossref","first-page":"2887","DOI":"10.1088\/0031-9155\/50\/12\/011","volume":"50","author":"Wang","year":"2005","journal-title":"Phys. Med. Biol."},{"key":"gui5002_bb57","unstructured":"Wang, S., Mirea, I., Varray, F., Liu, W. Y. & Magnin, I. E. (2019). Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Springer."},{"key":"gui5002_bb58","doi-asserted-by":"crossref","first-page":"290","DOI":"10.1007\/s10278-017-0037-8","volume":"31","author":"Yaniv","year":"2018","journal-title":"J. Digit. Imaging"}],"container-title":["Journal of Synchrotron Radiation"],"original-title":[],"link":[{"URL":"https:\/\/journals.iucr.org\/s\/issues\/2025\/01\/00\/gui5002\/gui5002.pdf","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.iucr.org\/s\/issues\/2025\/01\/00\/gui5002\/gui5002.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,1,8]],"date-time":"2025-01-08T06:34:06Z","timestamp":1736318046000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.iucr.org\/paper?S1600577524010221"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,1,1]]},"references-count":60,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2025,1]]}},"alternative-id":["S1600577524010221"],"URL":"https:\/\/doi.org\/10.1107\/s1600577524010221","relation":{"is-supplemented-by":[{"id-type":"doi","id":"10.1107\/S1600577524010221\/gui5002sup1.pdf","asserted-by":"subject"}]},"ISSN":["1600-5775"],"issn-type":[{"value":"1600-5775","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,1,1]]},"assertion":[{"value":"Journal of Synchrotron Radiation","order":0,"name":"journal","label":"Publication","explanation":{"URL":"https:\/\/journals.iucr.org\/s"},"group":{"name":"general","label":"General"}},{"value":"research papers","order":1,"name":"content_type","label":"Content type","explanation":{"URL":"https:\/\/journals.iucr.org\/s\/services\/notesforauthors.html"},"group":{"name":"general","label":"General"}},{"value":"Available","URL":"https:\/\/scripts.iucr.org\/cgi-bin\/citedin?gui5002","order":2,"name":"article_metrics","label":"Article metrics","group":{"name":"general","label":"General"}},{"value":"Yes","order":0,"name":"peer_reviewed","label":"Peer reviewed","group":{"name":"peer_review","label":"Peer review"}},{"value":"Single blind","order":1,"name":"review_process","label":"Review process","group":{"name":"peer_review","label":"Peer review"}},{"value":"27 May 2024","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication history"}},{"value":"18 October 2024","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication history"}},{"value":"1 January 2025","order":2,"name":"published_online","label":"Published online","group":{"name":"publication_history","label":"Publication history"}},{"value":"This article has supporting information","name":"supplementary_materials","label":"Supplementary materials","explanation":{"URL":"https:\/\/scripts.iucr.org\/cgi-bin\/sendsup?gui5002"}},{"value":"\u00a9 2025 Gabriel Bernardino\n                      et al.","order":0,"name":"copyright","label":"Copyright","explanation":{"URL":"https:\/\/journals.iucr.org\/services\/copyrightpolicy.html"},"group":{"name":"copyright_and_licencing","label":"Copyright and licencing"}},{"value":"Creative Commons Attribution (CC-BY)","order":1,"name":"license","label":"Licence","explanation":{"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/legalcode"},"group":{"name":"copyright_and_licencing","label":"Copyright and licencing"}}]}}