{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,1]],"date-time":"2026-09-01T12:12:49Z","timestamp":1788264769576,"version":"build-2803163510"},"reference-count":95,"publisher":"The Company of Biologists","issue":"13","license":[{"start":{"date-parts":[[2025,7,1]],"date-time":"2025-07-01T00:00:00Z","timestamp":1751328000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/www.biologists.com\/user-licence-1-2\/"}],"funder":[{"name":"Institut Pasteur"},{"DOI":"10.13039\/501100004794","name":"Centre National de la Recherche Scientifique","doi-asserted-by":"crossref","award":["GDR3740"],"award-info":[{"award-number":["GDR3740"]}],"id":[{"id":"10.13039\/501100004794","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100004099","name":"Ligue Contre le Cancer","doi-asserted-by":"crossref","award":["RS21\/75-5"],"award-info":[{"award-number":["RS21\/75-5"]}],"id":[{"id":"10.13039\/501100004099","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100004099","name":"Ligue Contre le Cancer","doi-asserted-by":"crossref","award":["RS22\/75-9"],"award-info":[{"award-number":["RS22\/75-9"]}],"id":[{"id":"10.13039\/501100004099","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100019125","name":"Sorbonne Universit\u00e9","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100019125","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100001665","name":"Agence Nationale de la Recherche","doi-asserted-by":"crossref","award":["ANR-10-LABX-73"],"award-info":[{"award-number":["ANR-10-LABX-73"]}],"id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,7,1]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:p>Hematopoietic stem cells and more committed progenitors (collectively referred to as HSPCs) emerge from vessels during development, via endothelial-to-hematopoietic transition (EHT). Recently, using the zebrafish embryo, we showed that two EHT cell types emerge from the dorsal aorta, raising the question of their subsequent fate. To address this issue, we established a complex pipeline based on single-cell photoconversion and transgenic lines to characterize the abilities of EHT cell progenies to conquer hematopoietic organs and to obtain their transcriptomic profiles. We show that the two EHT cell types lead to partly differentially fated cells, with significant differences in thymus colonization and T-lymphoid lineage commitment. In addition, we investigated implantation of HSPCs in niches, with the support of HSPC signatures (gata2b and cd34\/podocalyxin), retrieved from our single-cell datasets. This revealed, at unprecedented resolution, the homing of HSPCs in niches of entire early larvae, including the pronephros, the sub-aortic and caudal regions, as well as the area contacting the supra-intestinal artery. Our work provides new insights into fundamental aspects of HSPC fate acquisition, from their emergence to their homing in specific niches.<\/jats:p>","DOI":"10.1242\/dev.204454","type":"journal-article","created":{"date-parts":[[2025,6,12]],"date-time":"2025-06-12T05:07:20Z","timestamp":1749704840000},"source":"Crossref","is-referenced-by-count":2,"title":["Single-cell and\n                    <i>in situ<\/i>\n                    spatial analyses reveal the diversity of newly born hematopoietic stem cells and of their niches"],"prefix":"10.1242","volume":"152","author":[{"ORCID":"https:\/\/orcid.org\/0009-0006-4674-8606","authenticated-orcid":false,"given":"L\u00e9a","family":"Torcq","sequence":"first","affiliation":[{"name":"Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR3738 1 , Department of Developmental and Stem Cell Biology, F-75015 Paris ,","place":["France"]},{"name":"Sorbonne Universit\u00e9 2 , Coll\u00e8ge Doctoral, F-75005 Paris ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Catherine","family":"Vivier","sequence":"additional","affiliation":[{"name":"Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR3738 1 , Department of Developmental and Stem Cell Biology, F-75015 Paris ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sandrine","family":"Schmutz","sequence":"additional","affiliation":[{"name":"Institut Pasteur, Universit\u00e9 Paris Cit\u00e9 3 , Cytometry and Biomarkers UTechS\/Cytometry Platform, F-75015 Paris ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1427-8014","authenticated-orcid":false,"given":"Yann","family":"Loe-Mie","sequence":"additional","affiliation":[{"name":"Institut Pasteur, Universit\u00e9 Paris Cit\u00e9 4 , Bioinformatics and Biostatistics Hub, F-75015 Paris ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8326-0937","authenticated-orcid":false,"given":"Anne A.","family":"Schmidt","sequence":"additional","affiliation":[{"name":"Institut Pasteur, Universit\u00e9 Paris Cit\u00e9, CNRS UMR3738 1 , Department of Developmental and Stem Cell Biology, F-75015 Paris ,","place":["France"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"237","published-online":{"date-parts":[[2025,7,3]]},"reference":[{"key":"2026090107132483800_DEV204454C1","doi-asserted-by":"publisher","first-page":"2799","DOI":"10.1182\/bloodadvances.2017004317","article-title":"Not just a marker: CD34 on human hematopoietic stem\/progenitor cells dominates vascular selectin binding along with CD44","volume":"1","author":"Abusamra","year":"2017","journal-title":"Blood Adv."},{"key":"2026090107132483800_DEV204454C2","doi-asserted-by":"publisher","first-page":"e64835","DOI":"10.7554\/eLife.64835","article-title":"Defining the ultrastructure of the hematopoietic stem cell niche by correlative light and electron microscopy","volume":"11","author":"Agarwala","year":"2022","journal-title":"eLife"},{"key":"2026090107132483800_DEV204454C3","doi-asserted-by":"publisher","first-page":"186","DOI":"10.1016\/j.cell.2009.04.017","article-title":"Evolution of genetic networks underlying the emergence of thymopoiesis in vertebrates","volume":"138","author":"Bajoghli","year":"2009","journal-title":"Cell"},{"key":"2026090107132483800_DEV204454C4","doi-asserted-by":"publisher","first-page":"1061","DOI":"10.3390\/cells11061061","article-title":"One size does not fit all: heterogeneity in developmental hematopoiesis","volume":"11","author":"Barone","year":"2022","journal-title":"Cells"},{"key":"2026090107132483800_DEV204454C5","doi-asserted-by":"publisher","first-page":"1549","DOI":"10.1016\/j.stemcr.2017.04.003","article-title":"Understanding hematopoietic stem cell development through functional correlation of their proliferative status with the intra-aortic cluster architecture","volume":"8","author":"Batsivari","year":"2017","journal-title":"Stem Cell Rep."},{"key":"2026090107132483800_DEV204454C6","doi-asserted-by":"publisher","first-page":"218","DOI":"10.1016\/j.exphem.2013.11.013","article-title":"Flk2\/Flt3 promotes both myeloid and lymphoid development by expanding non\u2013self-renewing multipotent hematopoietic progenitor cells","volume":"42","author":"Beaudin","year":"2014","journal-title":"Exp. 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