{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T22:15:02Z","timestamp":1790892902349,"version":"4.1.0"},"reference-count":89,"publisher":"The Company of Biologists","issue":"12","license":[{"start":{"date-parts":[[2019,6,12]],"date-time":"2019-06-12T00:00:00Z","timestamp":1560297600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/www.biologists.com\/user-licence-1-1\/"}],"funder":[{"DOI":"10.13039\/100014555","name":"Murdoch Children's Research Institute","doi-asserted-by":"crossref","id":[{"id":"10.13039\/100014555","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100004752","name":"State Government of Victoria","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100004752","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001782","name":"University of Melbourne","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001782","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000923","name":"Australian Research Council","doi-asserted-by":"publisher","award":["DE150100652"],"award-info":[{"award-number":["DE150100652"]}],"id":[{"id":"10.13039\/501100000923","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000925","name":"National Health and Medical Research Council","doi-asserted-by":"publisher","award":["GNT1156567"],"award-info":[{"award-number":["GNT1156567"]}],"id":[{"id":"10.13039\/501100000925","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000925","name":"NHMRC","doi-asserted-by":"publisher","award":["GNT1136085"],"award-info":[{"award-number":["GNT1136085"]}],"id":[{"id":"10.13039\/501100000925","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000925","name":"NHMRC","doi-asserted-by":"publisher","award":["APP1126157"],"award-info":[{"award-number":["APP1126157"]}],"id":[{"id":"10.13039\/501100000925","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Department of Education and Training, Australian Government"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,6,15]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:p>Recent advances in the generation of kidney organoids and the culture of primary nephron progenitors from mouse and human have been based on knowledge of the molecular basis of kidney development in mice. Although gene expression during kidney development has been intensely investigated, single cell profiling provides new opportunities to further subsect component cell types and the signalling networks at play. Here, we describe the generation and analysis of 6732 single cell transcriptomes from the fetal mouse kidney [embryonic day (E)18.5] and 7853 sorted nephron progenitor cells (E14.5). These datasets provide improved resolution of cell types and specific markers, including subdivision of the renal stroma and heterogeneity within the nephron progenitor population. Ligand-receptor interaction and pathway analysis reveals novel crosstalk between cellular compartments and associates new pathways with differentiation of nephron and ureteric epithelium cell types. We identify transcriptional congruence between the distal nephron and ureteric epithelium, showing that most markers previously used to identify ureteric epithelium are not specific. Together, this work improves our understanding of metanephric kidney development and provides a template to guide the regeneration of renal tissue.<\/jats:p>","DOI":"10.1242\/dev.178673","type":"journal-article","created":{"date-parts":[[2019,5,22]],"date-time":"2019-05-22T10:15:36Z","timestamp":1558520136000},"source":"Crossref","is-referenced-by-count":158,"title":["Single cell analysis of the developing mouse kidney provides deeper insight into marker gene expression and ligand-receptor crosstalk"],"prefix":"10.1242","volume":"146","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6008-8786","authenticated-orcid":false,"given":"Alexander N.","family":"Combes","sequence":"first","affiliation":[{"name":"University of Melbourne 1 Department of Anatomy & Neuroscience , , Parkville, Victoria 3010 , Australia"},{"name":"Cell Biology, Murdoch Children's Research Institute 2 , Flemington Rd, Parkville, Victoria 3052 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1711-7454","authenticated-orcid":false,"given":"Belinda","family":"Phipson","sequence":"additional","affiliation":[{"name":"Cell Biology, Murdoch Children's Research Institute 2 , Flemington Rd, Parkville, Victoria 3052 , Australia"},{"name":"The University of Melbourne 3 Department of Paediatrics , , Parkville, Victoria 3010 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4080-5439","authenticated-orcid":false,"given":"Kynan T.","family":"Lawlor","sequence":"additional","affiliation":[{"name":"Cell Biology, Murdoch Children's Research Institute 2 , Flemington Rd, Parkville, Victoria 3052 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8329-8767","authenticated-orcid":false,"given":"Aude","family":"Dorison","sequence":"additional","affiliation":[{"name":"Victor Chang Cardiac Research Institute 4 Developmental and Stem Cell Biology Division , , Darlinghurst, New South Wales 2010 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0956-1026","authenticated-orcid":false,"given":"Ralph","family":"Patrick","sequence":"additional","affiliation":[{"name":"Victor Chang Cardiac Research Institute 4 Developmental and Stem Cell Biology Division , , Darlinghurst, New South Wales 2010 , Australia"},{"name":"St. Vincent's Clinical School, University of New South Wales 5 , Kensington, New South Wales 2033 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7744-8565","authenticated-orcid":false,"given":"Luke","family":"Zappia","sequence":"additional","affiliation":[{"name":"Cell Biology, Murdoch Children's Research Institute 2 , Flemington Rd, Parkville, Victoria 3052 , Australia"},{"name":"School of Biosciences, University of Melbourne 6 , Parkville, Victoria 3010 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Richard P.","family":"Harvey","sequence":"additional","affiliation":[{"name":"Victor Chang Cardiac Research Institute 4 Developmental and Stem Cell Biology Division , , Darlinghurst, New South Wales 2010 , Australia"},{"name":"St. Vincent's Clinical School, University of New South Wales 5 , Kensington, New South Wales 2033 , Australia"},{"name":"School of Biotechnology and Biomolecular Science, University of New South Wales 7 , Kensington, New South Wales 2010 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9788-5690","authenticated-orcid":false,"given":"Alicia","family":"Oshlack","sequence":"additional","affiliation":[{"name":"University of Melbourne 1 Department of Anatomy & Neuroscience , , Parkville, Victoria 3010 , Australia"},{"name":"School of Biosciences, University of Melbourne 6 , Parkville, Victoria 3010 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0380-2263","authenticated-orcid":false,"given":"Melissa H.","family":"Little","sequence":"additional","affiliation":[{"name":"University of Melbourne 1 Department of Anatomy & Neuroscience , , Parkville, Victoria 3010 , Australia"},{"name":"Cell Biology, Murdoch Children's Research Institute 2 , Flemington Rd, Parkville, Victoria 3052 , Australia"},{"name":"The University of Melbourne 3 Department of Paediatrics , , Parkville, Victoria 3010 , Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"237","published-online":{"date-parts":[[2019,6,12]]},"reference":[{"key":"2024061301011004400_DEV178673C1","doi-asserted-by":"publisher","first-page":"3625","DOI":"10.1242\/dev.151142","article-title":"Psychrophilic proteases dramatically reduce single-cell RNA-seq artifacts: a molecular atlas of kidney 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Clin. Invest."},{"key":"2024061301011004400_DEV178673C3","doi-asserted-by":"publisher","first-page":"2128","DOI":"10.1038\/s41467-017-02001-5","article-title":"Differentiation dynamics of mammary epithelial cells revealed by single-cell RNA sequencing","volume":"8","author":"Bach","year":"2017","journal-title":"Nat. Commun."},{"key":"2024061301011004400_DEV178673C4","doi-asserted-by":"publisher","first-page":"1529","DOI":"10.1007\/s00467-011-1843-8","article-title":"Human nephron number: implications for health and disease","volume":"26","author":"Bertram","year":"2011","journal-title":"Pediatr. Nephrol."},{"key":"2024061301011004400_DEV178673C5","doi-asserted-by":"publisher","first-page":"25","DOI":"10.1016\/j.ydbio.2013.04.036","article-title":"Tbx18 expression demarcates multipotent precursor populations in the developing urogenital system but is exclusively required within the ureteric mesenchymal lineage to suppress a renal stromal fate","volume":"380","author":"Bohnenpoll","year":"2013","journal-title":"Dev. Biol."},{"key":"2024061301011004400_DEV178673C6","doi-asserted-by":"publisher","first-page":"234","DOI":"10.1016\/j.ydbio.2007.10.014","article-title":"Fate mapping using Cited1-CreERT2 mice demonstrates that the cap mesenchyme contains self-renewing progenitor cells and gives rise exclusively to nephronic epithelia","volume":"313","author":"Boyle","year":"2008","journal-title":"Dev. 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