[{"ddc":["570"],"corr_author":"1","publication":"Current Opinion in Genetics & Development","status":"public","month":"05","intvolume":"        99","PlanS_conform":"1","language":[{"iso":"eng"}],"OA_type":"hybrid","publisher":"Elsevier","pmid":1,"date_created":"2026-06-07T22:01:35Z","has_accepted_license":"1","abstract":[{"text":"The cerebral cortex comprises diverse neuron and glial cell types generated by radial glial progenitors (RGPs) during development. Although RGPs broadly differentiate according to temporally and spatially regulated molecular logics, the lineage hierarchies linking individual progenitors to defined cell (sub)types are not well understood. Clone-resolved transcriptomics, combining molecular barcoding and single-cell RNA sequencing, allow high-resolution lineage tracing at the single-clone/cell level across different species and models. In this mini-review, we synthesize recent advances in this field, uncovering unexpected lineage relationships in the developing brain, with a particular focus on the cerebral cortex. We further highlight new insights into species-specific differences in the developmental programs generating cell-type diversity, linking changes in clonal architecture to lineage diversification during cortical evolution.","lang":"eng"}],"date_published":"2026-05-29T00:00:00Z","article_number":"102487","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"epub_ahead","article_processing_charge":"Yes (via OA deal)","year":"2026","oa":1,"type":"journal_article","oa_version":"Published Version","quality_controlled":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.gde.2026.102487"}],"_id":"21948","doi":"10.1016/j.gde.2026.102487","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"citation":{"chicago":"Varela Martínez, Irene, Fabrizia Pipicelli, and Simon Hippenmeyer. “Tracing Cell Lineages in the Developing Brain: Insights from Mosaic Analysis and Clone-Resolved Transcriptomics.” <i>Current Opinion in Genetics &#38; Development</i>. Elsevier, 2026. <a href=\"https://doi.org/10.1016/j.gde.2026.102487\">https://doi.org/10.1016/j.gde.2026.102487</a>.","short":"I. Varela Martínez, F. Pipicelli, S. Hippenmeyer, Current Opinion in Genetics &#38; Development 99 (2026).","ieee":"I. Varela Martínez, F. Pipicelli, and S. Hippenmeyer, “Tracing cell lineages in the developing brain: Insights from mosaic analysis and clone-resolved transcriptomics,” <i>Current Opinion in Genetics &#38; Development</i>, vol. 99. Elsevier, 2026.","mla":"Varela Martínez, Irene, et al. “Tracing Cell Lineages in the Developing Brain: Insights from Mosaic Analysis and Clone-Resolved Transcriptomics.” <i>Current Opinion in Genetics &#38; Development</i>, vol. 99, 102487, Elsevier, 2026, doi:<a href=\"https://doi.org/10.1016/j.gde.2026.102487\">10.1016/j.gde.2026.102487</a>.","ama":"Varela Martínez I, Pipicelli F, Hippenmeyer S. Tracing cell lineages in the developing brain: Insights from mosaic analysis and clone-resolved transcriptomics. <i>Current Opinion in Genetics &#38; Development</i>. 2026;99. doi:<a href=\"https://doi.org/10.1016/j.gde.2026.102487\">10.1016/j.gde.2026.102487</a>","apa":"Varela Martínez, I., Pipicelli, F., &#38; Hippenmeyer, S. (2026). Tracing cell lineages in the developing brain: Insights from mosaic analysis and clone-resolved transcriptomics. <i>Current Opinion in Genetics &#38; Development</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.gde.2026.102487\">https://doi.org/10.1016/j.gde.2026.102487</a>","ista":"Varela Martínez I, Pipicelli F, Hippenmeyer S. 2026. Tracing cell lineages in the developing brain: Insights from mosaic analysis and clone-resolved transcriptomics. Current Opinion in Genetics &#38; Development. 99, 102487."},"project":[{"grant_number":"ALTF 994-2023","name":"Role of cell lineage in generating cell-type diversity in developing neocortex’","_id":"7c084566-9f16-11ee-852c-c88a1dbbf1cf"},{"_id":"059F6AB4-7A3F-11EA-A408-12923DDC885E","grant_number":"F7805","name":"Stem Cell Modulation in Neural Development and Regeneration/ P05-Molecular Mechanisms of Neural Stem Cell Lineage Progression"}],"volume":99,"department":[{"_id":"SiHi"}],"scopus_import":"1","title":"Tracing cell lineages in the developing brain: Insights from mosaic analysis and clone-resolved transcriptomics","date_updated":"2026-08-12T09:56:19Z","author":[{"last_name":"Varela Martínez","first_name":"Irene","full_name":"Varela Martínez, Irene","id":"a69b5985-8829-11f0-8fc2-d0af58f64471"},{"last_name":"Pipicelli","first_name":"Fabrizia","id":"649134fd-d012-11ed-8f82-db1e5050f9ba","full_name":"Pipicelli, Fabrizia"},{"first_name":"Simon","orcid":"0000-0003-2279-1061","last_name":"Hippenmeyer","id":"37B36620-F248-11E8-B48F-1D18A9856A87","full_name":"Hippenmeyer, Simon"}],"external_id":{"pmid":["42214837"]},"OA_place":"publisher","license":"https://creativecommons.org/licenses/by/4.0/","day":"29","article_type":"original","acknowledgement":"We wish to thank all members of the Hippenmeyer laboratory at ISTA for exciting discussions on the subject of this review. We apologize to colleagues whose work we could not cite and/or discuss in the frame of the available space. Work in the Hippenmeyer laboratory on the discussed topic is supported by ISTA institutional funds, an EMBO LTF (ALTF 994–2023) to F.P., FWF SFB F78 (10.55776/F78) to S.H., and FWF Cluster of Excellence COE16 (10.55776/COE16) to S.H.","publication_identifier":{"eissn":["1879-0380"],"issn":["0959-437X"]}},{"DOAJ_listed":"1","file_date_updated":"2026-08-20T05:39:32Z","article_type":"original","publication_identifier":{"eissn":["2375-2548"]},"acknowledgement":"We thank M. caouyette for the plasmid construction for Pou3f1overexpression; d. Pinto-Benito for valuable assistance with shRnA validation in n2A cells andqPcR experiments; c. Varela-Martínez for help with the code for graphical analysis; allmembers from the nieto’s lab for comment on the manuscript, specially to F. Martín for theinsightful discussions; J. c. Oliveros and J. A. García from the computational service of the cnBfor help with the analysis of RnAseq dataset; c. O. Sorzano for help with statistical analysis; andA. Oña and the service of Advance Optical Microscopy of the cnB for technical advice.Funding: i.V.-M. holds a fellowship funded by MciciU (PRe-2018-083376) and 2023 eMBOscientific exchange grant 10214. the work was funded by grants to M.n. (Pid2020-112831GB- i00 and Pid2023-146322nB- i00 by Mcin/Aei/10.13039/501100011033 and by“eRdF A way of making europe”).","day":"07","external_id":{"pmid":["42555737"]},"OA_place":"publisher","dataavailabilitystatement":"All data and code needed to evaluate and reproduce the results in the paper are present in the paper and/or the Supplementary Materials. Source data underlying all figures (including the clonal atlas) are provided in the Supplementary Materials. RnA-seq analysis code has been deposited in Zenodo (dOi: 10.5281/zenodo.14609057). this study did not generate new materials.","author":[{"first_name":"Irene","last_name":"Varela Martínez","full_name":"Varela Martínez, Irene","id":"a69b5985-8829-11f0-8fc2-d0af58f64471"},{"orcid":"0000-0002-5615-5277","last_name":"Villalba Requena","first_name":"Ana","id":"68cb85a0-39f7-11eb-9559-9aaab4f6a247","full_name":"Villalba Requena, Ana"},{"full_name":"García-Marqués, Jorge","last_name":"García-Marqués","first_name":"Jorge"},{"full_name":"Aguilera, Alfonso","last_name":"Aguilera","first_name":"Alfonso"},{"first_name":"Diogo S.","last_name":"Castro","full_name":"Castro, Diogo S."},{"first_name":"Simon","orcid":"0000-0003-2279-1061","last_name":"Hippenmeyer","id":"37B36620-F248-11E8-B48F-1D18A9856A87","full_name":"Hippenmeyer, Simon"},{"full_name":"Nieto, Marta","last_name":"Nieto","first_name":"Marta"}],"date_updated":"2026-08-20T05:45:28Z","researchdata_availability":"yes","title":"Early fate diversification of radial glial progenitors during corticogenesis","volume":12,"scopus_import":"1","department":[{"_id":"SiHi"}],"doi":"10.1126/sciadv.adw5487","tmp":{"image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"citation":{"chicago":"Varela Martínez, Irene, Ana Villalba Requena, Jorge García-Marqués, Alfonso Aguilera, Diogo S. Castro, Simon Hippenmeyer, and Marta Nieto. “Early Fate Diversification of Radial Glial Progenitors during Corticogenesis.” <i>Science Advances</i>. AAAS, 2026. <a href=\"https://doi.org/10.1126/sciadv.adw5487\">https://doi.org/10.1126/sciadv.adw5487</a>.","short":"I. Varela Martínez, A. Villalba Requena, J. García-Marqués, A. Aguilera, D.S. Castro, S. Hippenmeyer, M. Nieto, Science Advances 12 (2026) eadw5487.","mla":"Varela Martínez, Irene, et al. “Early Fate Diversification of Radial Glial Progenitors during Corticogenesis.” <i>Science Advances</i>, vol. 12, no. 32, AAAS, 2026, p. eadw5487, doi:<a href=\"https://doi.org/10.1126/sciadv.adw5487\">10.1126/sciadv.adw5487</a>.","ieee":"I. Varela Martínez <i>et al.</i>, “Early fate diversification of radial glial progenitors during corticogenesis,” <i>Science Advances</i>, vol. 12, no. 32. AAAS, p. eadw5487, 2026.","apa":"Varela Martínez, I., Villalba Requena, A., García-Marqués, J., Aguilera, A., Castro, D. S., Hippenmeyer, S., &#38; Nieto, M. (2026). Early fate diversification of radial glial progenitors during corticogenesis. <i>Science Advances</i>. AAAS. <a href=\"https://doi.org/10.1126/sciadv.adw5487\">https://doi.org/10.1126/sciadv.adw5487</a>","ama":"Varela Martínez I, Villalba Requena A, García-Marqués J, et al. Early fate diversification of radial glial progenitors during corticogenesis. <i>Science Advances</i>. 2026;12(32):eadw5487. doi:<a href=\"https://doi.org/10.1126/sciadv.adw5487\">10.1126/sciadv.adw5487</a>","ista":"Varela Martínez I, Villalba Requena A, García-Marqués J, Aguilera A, Castro DS, Hippenmeyer S, Nieto M. 2026. Early fate diversification of radial glial progenitors during corticogenesis. Science Advances. 12(32), eadw5487."},"quality_controlled":"1","oa_version":"Published Version","_id":"22714","page":"eadw5487","oa":1,"type":"journal_article","file":[{"creator":"dernst","checksum":"487c3703387080e8f3c4675d67763f0e","file_name":"2026_ScienceAdv_VarelaMartinez.pdf","date_created":"2026-08-20T05:39:32Z","relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_size":3056744,"file_id":"22738","success":1,"date_updated":"2026-08-20T05:39:32Z"}],"article_processing_charge":"Yes","year":"2026","publication_status":"published","date_published":"2026-08-07T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"AAAS","supplementarymaterial":"yes","has_accepted_license":"1","pmid":1,"abstract":[{"lang":"eng","text":"Radial glial progenitors (RGPs) generate all projection neurons (PNs) in the cerebral cortex through incompletely understood processes. We combined Mosaic Analysis with Double Markers at embryonic stages (E)12.5 and E13.5 with early postnatal callosal tracing to dissect RGP lineage progression. We find that multipotent RGPs generate all extra-telencephalic (ET) and intra-telencephalic (IT) PNs via parallel sublineages that emerge simultaneously at neurogenesis onset. ET-PN production progresses exclusively via small, self-consuming lineages; IT-PN lineages feature RGPs generating large translaminar outputs. The early emergence of IT-PN–fated RGPs, coinciding with a switch to direct neurogenesis, contributes to the stereotyped population-level progression of the multipotent lineage. We also identify POU3F transcription factors as candidate regulators of IT-PN fate via noncanonical mitotic chromatin binding. The results support a model whereby IT- and ET-PNs arise from an early bifurcation and parallel specification within the multipotent RGP lineage."}],"date_created":"2026-08-16T22:01:43Z","PlanS_conform":"1","intvolume":"        12","OA_type":"gold","language":[{"iso":"eng"}],"issue":"32","status":"public","month":"08","publication":"Science Advances","ddc":["570"],"das_tickbox":"1"}]