[{"doi":"10.1126/sciadv.adz6517","publication_status":"published","article_processing_charge":"Yes","date_created":"2026-09-17T11:05:39Z","publication_identifier":{"eissn":["2375-2548"]},"oa_version":"Published Version","article_number":"eadz6517","file_date_updated":"2026-09-22T06:50:16Z","author":[{"last_name":"Venturino","full_name":"Venturino, Alessandro","first_name":"Alessandro","id":"41CB84B2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2356-9403"},{"id":"65a3f615-b651-11f1-9c4b-da4396a4174a","full_name":"Alam, Amin","first_name":"Amin","last_name":"Alam"},{"last_name":"Negrello","full_name":"Negrello, Thomas","first_name":"Thomas","id":"37d68bf2-b651-11f1-b680-ec86ff9a70f3"},{"last_name":"Jin","full_name":"Jin, Kelly","first_name":"Kelly"},{"first_name":"Cindy T. J.","full_name":"van Velthoven, Cindy T. J.","last_name":"van Velthoven"},{"last_name":"Cubero","full_name":"Cubero, Ryan J","first_name":"Ryan J","id":"850B2E12-9CD4-11E9-837F-E719E6697425","orcid":"0000-0003-0002-1867"},{"id":"123012b2-db30-11eb-b4d8-a35840c0551b","orcid":"0000-0003-1732-1559","first_name":"Jake","full_name":"Yeung, Jake","last_name":"Yeung"},{"full_name":"Koppensteiner, Peter","first_name":"Peter","orcid":"0000-0002-3509-1948","id":"3B8B25A8-F248-11E8-B48F-1D18A9856A87","last_name":"Koppensteiner"},{"full_name":"Tasic, Bosiljka","first_name":"Bosiljka","last_name":"Tasic"},{"first_name":"Sandra","full_name":"Siegert, Sandra","orcid":"0000-0001-8635-0877","id":"36ACD32E-F248-11E8-B48F-1D18A9856A87","last_name":"Siegert"}],"abstract":[{"lang":"eng","text":"Anesthesia recovery is critical for resuming normal physiological and neuronal functions; however, the mechanisms involved remain elusive. Here, we identify a female-selective corticosterone-mediated microglia-neuron interaction during ketamine anesthesia recovery, absent in males. This microglia-neuron interaction induces plastic and functional neuronal changes, as evidenced by increased mEPSC frequency, which was occluded upon microglia depletion. We showed that this process is driven through up-regulation of the stress-responsive co-chaperone Fkbp5 mRNA and its protein, Fkbp51, in female microglia. Fkbp5/Fkbp51 is a key intermediary in a corticosteroid-induced stress response, and its involvement points toward a critical interface between endocrine signaling and microglia. To counteract the observed ketamine anesthesia-mediated increase in blood corticosterone during recovery, we removed the primary source of corticosterone by adrenalectomy. Close microglia-neuron interaction was reduced and increased again following corticosterone injection. Our findings identify a sex-specific microglia-mediated mechanism of neuronal plasticity during anesthesia recovery, driven by corticosterone, thereby enhancing our understanding of sex differences in brain function."}],"external_id":{"pmid":["42536755 "]},"language":[{"iso":"eng"}],"corr_author":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","DOAJ_listed":"1","citation":{"short":"A. Venturino, A. Alam, T. Negrello, K. Jin, C.T.J. van Velthoven, R.J. Cubero, J. Yeung, P. Koppensteiner, B. Tasic, S. Siegert, Science Advances 12 (2026).","ama":"Venturino A, Alam A, Negrello T, et al. Corticosterone-linked microglial activity underpins sexually dimorphic neuroplasticity after ketamine anesthesia. <i>Science Advances</i>. 2026;12(31). doi:<a href=\"https://doi.org/10.1126/sciadv.adz6517\">10.1126/sciadv.adz6517</a>","chicago":"Venturino, Alessandro, Amin Alam, Thomas Negrello, Kelly Jin, Cindy T. J. van Velthoven, Ryan J Cubero, Jake Yeung, Peter Koppensteiner, Bosiljka Tasic, and Sandra Siegert. “Corticosterone-Linked Microglial Activity Underpins Sexually Dimorphic Neuroplasticity after Ketamine Anesthesia.” <i>Science Advances</i>. AAAS, 2026. <a href=\"https://doi.org/10.1126/sciadv.adz6517\">https://doi.org/10.1126/sciadv.adz6517</a>.","ista":"Venturino A, Alam A, Negrello T, Jin K, van Velthoven CTJ, Cubero RJ, Yeung J, Koppensteiner P, Tasic B, Siegert S. 2026. Corticosterone-linked microglial activity underpins sexually dimorphic neuroplasticity after ketamine anesthesia. Science Advances. 12(31), eadz6517.","ieee":"A. Venturino <i>et al.</i>, “Corticosterone-linked microglial activity underpins sexually dimorphic neuroplasticity after ketamine anesthesia,” <i>Science Advances</i>, vol. 12, no. 31. AAAS, 2026.","mla":"Venturino, Alessandro, et al. “Corticosterone-Linked Microglial Activity Underpins Sexually Dimorphic Neuroplasticity after Ketamine Anesthesia.” <i>Science Advances</i>, vol. 12, no. 31, eadz6517, AAAS, 2026, doi:<a href=\"https://doi.org/10.1126/sciadv.adz6517\">10.1126/sciadv.adz6517</a>.","apa":"Venturino, A., Alam, A., Negrello, T., Jin, K., van Velthoven, C. T. J., Cubero, R. J., … Siegert, S. (2026). Corticosterone-linked microglial activity underpins sexually dimorphic neuroplasticity after ketamine anesthesia. <i>Science Advances</i>. AAAS. <a href=\"https://doi.org/10.1126/sciadv.adz6517\">https://doi.org/10.1126/sciadv.adz6517</a>"},"intvolume":"        12","publication":"Science Advances","date_published":"2026-07-01T00:00:00Z","OA_place":"publisher","das_tickbox":"1","oa":1,"volume":12,"month":"07","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"acknowledged_ssus":[{"_id":"Bio"},{"_id":"M-Shop"},{"_id":"PreCl"},{"_id":"LifeSc"}],"title":"Corticosterone-linked microglial activity underpins sexually dimorphic neuroplasticity after ketamine anesthesia","article_type":"original","publisher":"AAAS","_id":"22951","supplementarymaterial":"yes","OA_type":"gold","researchdata_availability":"yes","quality_controlled":"1","acknowledgement":"We thank the scientific service units at ISTA, especially the imaging optic facility (IOF), the machine shop (Miba), specifically T. Asenov, the preclinical facility (PCF), specifically M. Schunn and S. Haslinger, C. Jansen for bioinformatic support, and the laboratory support facility (LSF). We also thank M. Benevento for supporting the design and partial performance of electrophysiology and fluorescence in situ hybridization experiments and for extensive discussions about the manuscript draft, R. Schulz and G. Colombo for advice on morphological reconstruction, M. Schmidt for valuable discussions about Fkbp5, and all Siegert team members for constant feedback on the project and manuscript. Grammarly was used to assist with grammatical revisions. We specifically acknowledge the following experimental contributions: R.J.A.C. (Multiome quality control), P.K. (electrophysiology), B.T., C.T.J.V., K.J. (multiome), J.Y. (KXA estimates), M.A. and T.N. (morphOMICs).\r\nA.V., M.A., T.N., R.J.A.C., J.Y., P.K., and S.S. were supported by the Institute of Science and Technology Austria. C.T.J.V., K.J., and B.T. were supported by the Allen Institute.","department":[{"_id":"SaSi"},{"_id":"ScienComp"},{"_id":"PreCl"}],"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. This study did not generate new materials. Transcriptional data can be accessed at the NCBI GEO accession GSE298669. The code for the morphological analysis is available under DOI: https://doi.org/10.5281/zenodo.19057068. The codes for the single-nucleus analysis are accessible under DOI: 10.5281/zenodo.19019013 and DOI: 10.5281/zenodo.19071467.","file":[{"date_updated":"2026-09-22T06:50:16Z","creator":"dernst","content_type":"application/pdf","file_name":"2026_ScienceAdv_Venturino.pdf","relation":"main_file","success":1,"access_level":"open_access","file_id":"22980","date_created":"2026-09-22T06:50:16Z","checksum":"715a1f35a0805be85ef90556205a2cbc","file_size":4556377}],"PlanS_conform":"1","year":"2026","issue":"31","has_accepted_license":"1","status":"public","type":"journal_article","ddc":["570"],"scopus_import":"1","fulldoi":"https://doi.org/10.1126/sciadv.adz6517","pmid":1,"day":"01","date_updated":"2026-09-22T06:56:26Z"},{"oa_version":"Preprint","publication_status":"submitted","doi":"10.1101/2025.10.09.680955","article_processing_charge":"No","date_created":"2026-05-27T06:54:04Z","author":[{"first_name":"Yuri","full_name":"Ignatyev, Yuri","last_name":"Ignatyev"},{"last_name":"Papadopoulos","first_name":"Stavros","full_name":"Papadopoulos, Stavros","id":"40606b92-f128-11eb-9611-bf66a98cfa5c"},{"full_name":"Soretić, Mateja","first_name":"Mateja","last_name":"Soretić"},{"id":"123012b2-db30-11eb-b4d8-a35840c0551b","orcid":"0000-0003-1732-1559","first_name":"Jake","full_name":"Yeung, Jake","last_name":"Yeung"},{"full_name":"Lin, Tzi-Yang","first_name":"Tzi-Yang","last_name":"Lin"},{"first_name":"Elly M","full_name":"Tanaka, Elly M","last_name":"Tanaka"},{"full_name":"Peshkin, Leonid","first_name":"Leonid","last_name":"Peshkin"},{"first_name":"Ariel J","full_name":"Levine, Ariel J","last_name":"Levine"},{"full_name":"Gabitto, Mariano I","first_name":"Mariano I","last_name":"Gabitto"},{"last_name":"Sweeney","id":"56BE8254-C4F0-11E9-8E45-0B23E6697425","orcid":"0000-0001-9242-5601","first_name":"Lora Beatrice Jaeger","full_name":"Sweeney, Lora Beatrice Jaeger"}],"abstract":[{"text":"Vertebrates display remarkable diversity of sensorimotor behaviors, each adapted to distinct ecological and survival demands. This diversity raises fundamental questions about the evolutionary origin of motor control: do conserved spinal circuits underlie these behaviors, and how have they diverged across species. Recent studies detail spinal cell-type architecture in mammals but comparable, high-resolution atlases of the non-mammalian spinal cord are lacking. Here, we compare spinal cord cell types between fish, frogs, mice and humans, spanning ∼450 million years of evolution. Across species, we define highly conserved programs of cell type specification that segregate spinal neurons into nearly identical cardinal classes during development. This contrasts with adult stages, when spinal cell-type composition selectively diverges for excitatory neuron subpopulations. Using spatial transcriptomics, we localize this species divergence to the superficial, dorsal spinal cord, where variant neuropeptide expression defines mammalian-specific cell types. The most dorsal spinal cord thus emerges as a recently evolved hub for sensory integration in mammals, a neospinal cord analogous to the neocortex.</jats:p>","lang":"eng"}],"corr_author":"1","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","language":[{"iso":"eng"}],"publication":"bioRxiv","citation":{"mla":"Ignatyev, Yuri, et al. “Innovations in Spinal Cord Cell Type Heterogeneity across Vertebrate Evolution.” <i>BioRxiv</i>, doi:<a href=\"https://doi.org/10.1101/2025.10.09.680955\">10.1101/2025.10.09.680955</a>.","apa":"Ignatyev, Y., Papadopoulos, S., Soretić, M., Yeung, J., Lin, T.-Y., Tanaka, E. M., … Sweeney, L. B. (n.d.). Innovations in spinal cord cell type heterogeneity across vertebrate evolution. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2025.10.09.680955\">https://doi.org/10.1101/2025.10.09.680955</a>","short":"Y. Ignatyev, S. Papadopoulos, M. Soretić, J. Yeung, T.-Y. Lin, E.M. Tanaka, L. Peshkin, A.J. Levine, M.I. Gabitto, L.B. Sweeney, BioRxiv (n.d.).","ama":"Ignatyev Y, Papadopoulos S, Soretić M, et al. Innovations in spinal cord cell type heterogeneity across vertebrate evolution. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2025.10.09.680955\">10.1101/2025.10.09.680955</a>","ista":"Ignatyev Y, Papadopoulos S, Soretić M, Yeung J, Lin T-Y, Tanaka EM, Peshkin L, Levine AJ, Gabitto MI, Sweeney LB. Innovations in spinal cord cell type heterogeneity across vertebrate evolution. bioRxiv, <a href=\"https://doi.org/10.1101/2025.10.09.680955\">10.1101/2025.10.09.680955</a>.","ieee":"Y. Ignatyev <i>et al.</i>, “Innovations in spinal cord cell type heterogeneity across vertebrate evolution,” <i>bioRxiv</i>. .","chicago":"Ignatyev, Yuri, Stavros Papadopoulos, Mateja Soretić, Jake Yeung, Tzi-Yang Lin, Elly M Tanaka, Leonid Peshkin, Ariel J Levine, Mariano I Gabitto, and Lora B. Sweeney. “Innovations in Spinal Cord Cell Type Heterogeneity across Vertebrate Evolution.” <i>BioRxiv</i>, n.d. <a href=\"https://doi.org/10.1101/2025.10.09.680955\">https://doi.org/10.1101/2025.10.09.680955</a>."},"month":"10","oa":1,"date_published":"2025-10-11T00:00:00Z","OA_place":"repository","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2025.10.09.680955"}],"title":"Innovations in spinal cord cell type heterogeneity across vertebrate evolution","_id":"21920","OA_type":"green","acknowledgement":"We would like to thank the members of the Sweeney Lab for discussion and support; Andrey\r\nBydanov for technical assistance with single-cell sequencing processing; and Jay Bikoff,\r\nNikos Konstantinides, Maria Tosches, and Graziana Gatto for comments on the manuscript. \r\nThis research was supported by: Horizon Europe ERC Starting Grant 101041551 (L.B.S,\r\nY.I., S.P.); Special Research Program (SFB) of the Austrian Science Fund (FWF) F7814-B\r\n(L.B.S., S.P., E.M.T); Austrian Science Fund (FWF) 10.55776/COE16 (L.B.S., Y.I., E.M.T.);\r\nAustrian Academy of Sciences DOC Fellowship 27229 (S.P.); ERC Advanced Grant 742046\r\n(E.M.T.); NIH award R24 OD031956 (L.P.); and in part by the Intramural Research\r\nProgram of the National Institutes of Health (NIH) through 1ZIA NS003153 to A.J.L.\r\nThe contributions of the NIH author are considered Works of the United States\r\nGovernment. The findings and conclusions presented in this paper are those of\r\nthe authors and do not necessarily reflect the views of the NIH or the U.S. Department\r\nof Health and Human Services. ","year":"2025","department":[{"_id":"LoSw"},{"_id":"ScienComp"}],"project":[{"grant_number":"101041551","name":"Development and Evolution of Tetrapod Motor Circuits","_id":"ebb66355-77a9-11ec-83b8-b8ac210a4dae"},{"name":"A Tale of Two Circuits: Rostrocaudal spinal cord patterning during the swim-to-limb transition of Xenopus metamorphosis","grant_number":"27229","_id":"907b765e-16d5-11f0-9cad-fef108a945b1"}],"type":"preprint","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","status":"public","day":"11","date_updated":"2026-05-27T07:25:41Z","fulldoi":"https://doi.org/10.1101/2025.10.09.680955"},{"department":[{"_id":"ScienComp"}],"file":[{"file_name":"2023_NatureBioTech_Yeung.pdf","relation":"main_file","content_type":"application/pdf","creator":"dernst","date_updated":"2023-08-16T11:30:45Z","file_size":12040976,"checksum":"668447a1c8d360b68f8aaf9e08ed644f","access_level":"open_access","file_id":"14066","date_created":"2023-08-16T11:30:45Z","success":1}],"year":"2023","acknowledgement":"We thank M. van Loenhout for experimental advice on purifying cell types from the bone marrow, R. van der Linden for expertise with FACS and M. Blotenburg for help with cell typing the mouse organogenesis dataset. We thank M. Saraswat and O. Stegle for discussions on multinomial distributions. This work was supported by a European Research Council Advanced grant (ERC-AdG 742225-IntScOmics); Nederlandse Organisatie voor Wetenschappelijk Onderzoek (NWO) TOP grant (NWO CW 714.016.001) and NWO grant (OCENW.GROOT.2019.017); the Swiss National Science Foundation Early Postdoc Mobility (P2ELP3-184488 to P.Z. and P2BSP3-174991 to J.Y.); Marie Sklodowska-Curie Actions Postdoc (798573 to P.Z.) and the Human Frontier for Science Program Long-Term Fellowships (LT000209-2018-L to P.Z. and LT000097-2019-L to J.Y.). This work is part of the Oncode Institute which is financed partly by the Dutch Cancer Society.","quality_controlled":"1","pmid":1,"fulldoi":"https://doi.org/10.1038/s41587-022-01560-3","date_updated":"2025-04-23T08:45:24Z","day":"01","ddc":["570"],"scopus_import":"1","has_accepted_license":"1","status":"public","type":"journal_article","page":"813–823","intvolume":"        41","citation":{"apa":"Yeung, J., Florescu, M., Zeller, P., De Barbanson, B. A., Wellenstein, M. D., &#38; Van Oudenaarden, A. (2023). scChIX-seq infers dynamic relationships between histone modifications in single cells. <i>Nature Biotechnology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41587-022-01560-3\">https://doi.org/10.1038/s41587-022-01560-3</a>","mla":"Yeung, Jake, et al. “ScChIX-Seq Infers Dynamic Relationships between Histone Modifications in Single Cells.” <i>Nature Biotechnology</i>, vol. 41, Springer Nature, 2023, pp. 813–823, doi:<a href=\"https://doi.org/10.1038/s41587-022-01560-3\">10.1038/s41587-022-01560-3</a>.","ama":"Yeung J, Florescu M, Zeller P, De Barbanson BA, Wellenstein MD, Van Oudenaarden A. scChIX-seq infers dynamic relationships between histone modifications in single cells. <i>Nature Biotechnology</i>. 2023;41:813–823. doi:<a href=\"https://doi.org/10.1038/s41587-022-01560-3\">10.1038/s41587-022-01560-3</a>","short":"J. Yeung, M. Florescu, P. Zeller, B.A. De Barbanson, M.D. Wellenstein, A. Van Oudenaarden, Nature Biotechnology 41 (2023) 813–823.","chicago":"Yeung, Jake, Maria Florescu, Peter Zeller, Buys Anton De Barbanson, Max D. Wellenstein, and Alexander Van Oudenaarden. “ScChIX-Seq Infers Dynamic Relationships between Histone Modifications in Single Cells.” <i>Nature Biotechnology</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41587-022-01560-3\">https://doi.org/10.1038/s41587-022-01560-3</a>.","ieee":"J. Yeung, M. Florescu, P. Zeller, B. A. De Barbanson, M. D. Wellenstein, and A. Van Oudenaarden, “scChIX-seq infers dynamic relationships between histone modifications in single cells,” <i>Nature Biotechnology</i>, vol. 41. Springer Nature, pp. 813–823, 2023.","ista":"Yeung J, Florescu M, Zeller P, De Barbanson BA, Wellenstein MD, Van Oudenaarden A. 2023. scChIX-seq infers dynamic relationships between histone modifications in single cells. Nature Biotechnology. 41, 813–823."},"publication":"Nature Biotechnology","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","corr_author":"1","isi":1,"file_date_updated":"2023-08-16T11:30:45Z","abstract":[{"lang":"eng","text":"Regulation of chromatin states involves the dynamic interplay between different histone modifications to control gene expression. Recent advances have enabled mapping of histone marks in single cells, but most methods are constrained to profile only one histone mark per cell. Here, we present an integrated experimental and computational framework, scChIX-seq (single-cell chromatin immunocleavage and unmixing sequencing), to map several histone marks in single cells. scChIX-seq multiplexes two histone marks together in single cells, then computationally deconvolves the signal using training data from respective histone mark profiles. This framework learns the cell-type-specific correlation structure between histone marks, and therefore does not require a priori assumptions of their genomic distributions. Using scChIX-seq, we demonstrate multimodal analysis of histone marks in single cells across a range of mark combinations. Modeling dynamics of in vitro macrophage differentiation enables integrated analysis of chromatin velocity. Overall, scChIX-seq unlocks systematic interrogation of the interplay between histone modifications in single cells."}],"author":[{"last_name":"Yeung","id":"123012b2-db30-11eb-b4d8-a35840c0551b","orcid":"0000-0003-1732-1559","first_name":"Jake","full_name":"Yeung, Jake"},{"full_name":"Florescu, Maria","first_name":"Maria","last_name":"Florescu"},{"full_name":"Zeller, Peter","first_name":"Peter","last_name":"Zeller"},{"last_name":"De Barbanson","first_name":"Buys Anton","full_name":"De Barbanson, Buys Anton"},{"last_name":"Wellenstein","first_name":"Max D.","full_name":"Wellenstein, Max D."},{"last_name":"Van Oudenaarden","first_name":"Alexander","full_name":"Van Oudenaarden, Alexander"}],"external_id":{"pmid":["36593403"],"isi":["000909067600003"]},"doi":"10.1038/s41587-022-01560-3","publication_status":"published","date_created":"2023-01-08T23:00:53Z","article_processing_charge":"No","oa_version":"Published Version","publication_identifier":{"issn":["1087-0156"],"eissn":["1546-1696"]},"publisher":"Springer Nature","_id":"12106","title":"scChIX-seq infers dynamic relationships between histone modifications in single cells","article_type":"original","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_published":"2023-06-01T00:00:00Z","oa":1,"volume":41,"month":"06"},{"has_accepted_license":"1","status":"public","type":"journal_article","page":"333-345","fulldoi":"https://doi.org/10.1038/s41588-022-01260-3","pmid":1,"day":"01","date_updated":"2025-04-23T08:45:00Z","ddc":["570","000"],"scopus_import":"1","acknowledgement":"We thank A. Giladi for sharing mRNA abundance tables of cell types together with J. van den Berg for critical reading of the manuscript. We thank M. Bartosovic for sharing method comparison data. pK19pA-MN was a gift from Ulrich Laemmli (Addgene plasmid 86973, http://n2t.net/addgene:86973; RRID:Addgene_86973). Figure 8 is adopted from Hematopoiesis (human) diagram by A. Rad and M. Häggström under CC-BY-SA 3.0 license. This work was supported by European Research Council Advanced under grant ERC-AdG 742225-IntScOmics and Nederlandse Organisatie voor Wetenschappelijk Onderzoek (NWO) TOP award NWO-CW 714.016.001. The SNF (P2BSP3-174991), HFSP (LT000209/2018-L) and Marie Skłodowska-Curie Actions (798573) supported P.Z. The SNF (P2ELP3_184488) and HFSP (LT000097/2019-L) supported J.Y. and the EMBO LTF (ALTF 1197–2019) supported V.B. This work is part of the Oncode Institute, which is partly financed by the Dutch Cancer Society. The funders had no role in study design, data collection and analysis, decision to publish or preparation of the manuscript.","keyword":["Genetics"],"quality_controlled":"1","department":[{"_id":"ScienComp"}],"file":[{"date_updated":"2023-02-27T07:46:45Z","creator":"dernst","file_name":"2023_NatureGenetics_Zeller.pdf","relation":"main_file","content_type":"application/pdf","success":1,"checksum":"6fdb8e34fbeea63edd0f2c6c2cc5823e","file_id":"12688","access_level":"open_access","date_created":"2023-02-27T07:46:45Z","file_size":21484855}],"year":"2023","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_published":"2023-02-01T00:00:00Z","oa":1,"month":"02","volume":55,"publisher":"Springer Nature","_id":"12158","title":"Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis","article_type":"review","file_date_updated":"2023-02-27T07:46:45Z","author":[{"full_name":"Zeller, Peter","first_name":"Peter","last_name":"Zeller"},{"full_name":"Yeung, Jake","first_name":"Jake","orcid":"0000-0003-1732-1559","id":"123012b2-db30-11eb-b4d8-a35840c0551b","last_name":"Yeung"},{"first_name":"Helena","full_name":"Viñas Gaza, Helena","last_name":"Viñas Gaza"},{"last_name":"de Barbanson","first_name":"Buys Anton","full_name":"de Barbanson, Buys Anton"},{"last_name":"Bhardwaj","first_name":"Vivek","full_name":"Bhardwaj, Vivek"},{"first_name":"Maria","full_name":"Florescu, Maria","last_name":"Florescu"},{"last_name":"van der Linden","first_name":"Reinier","full_name":"van der Linden, Reinier"},{"first_name":"Alexander","full_name":"van Oudenaarden, Alexander","last_name":"van Oudenaarden"}],"abstract":[{"lang":"eng","text":"Post-translational histone modifications modulate chromatin activity to affect gene expression. How chromatin states underlie lineage choice in single cells is relatively unexplored. We develop sort-assisted single-cell chromatin immunocleavage (sortChIC) and map active (H3K4me1 and H3K4me3) and repressive (H3K27me3 and H3K9me3) histone modifications in the mouse bone marrow. During differentiation, hematopoietic stem and progenitor cells (HSPCs) acquire active chromatin states mediated by cell-type-specifying transcription factors, which are unique for each lineage. By contrast, most alterations in repressive marks during differentiation occur independent of the final cell type. Chromatin trajectory analysis shows that lineage choice at the chromatin level occurs at the progenitor stage. Joint profiling of H3K4me1 and H3K9me3 demonstrates that cell types within the myeloid lineage have distinct active chromatin but share similar myeloid-specific heterochromatin states. This implies a hierarchical regulation of chromatin during hematopoiesis: heterochromatin dynamics distinguish differentiation trajectories and lineages, while euchromatin dynamics reflect cell types within lineages."}],"external_id":{"pmid":["36539617"]},"date_created":"2023-01-12T12:09:09Z","publication_status":"published","doi":"10.1038/s41588-022-01260-3","article_processing_charge":"No","publication_identifier":{"issn":["1061-4036"],"eissn":["1546-1718"]},"oa_version":"Published Version","intvolume":"        55","citation":{"mla":"Zeller, Peter, et al. “Single-Cell SortChIC Identifies Hierarchical Chromatin Dynamics during Hematopoiesis.” <i>Nature Genetics</i>, vol. 55, Springer Nature, 2023, pp. 333–45, doi:<a href=\"https://doi.org/10.1038/s41588-022-01260-3\">10.1038/s41588-022-01260-3</a>.","apa":"Zeller, P., Yeung, J., Viñas Gaza, H., de Barbanson, B. A., Bhardwaj, V., Florescu, M., … van Oudenaarden, A. (2023). Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis. <i>Nature Genetics</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41588-022-01260-3\">https://doi.org/10.1038/s41588-022-01260-3</a>","short":"P. Zeller, J. Yeung, H. Viñas Gaza, B.A. de Barbanson, V. Bhardwaj, M. Florescu, R. van der Linden, A. van Oudenaarden, Nature Genetics 55 (2023) 333–345.","ama":"Zeller P, Yeung J, Viñas Gaza H, et al. Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis. <i>Nature Genetics</i>. 2023;55:333-345. doi:<a href=\"https://doi.org/10.1038/s41588-022-01260-3\">10.1038/s41588-022-01260-3</a>","ieee":"P. Zeller <i>et al.</i>, “Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis,” <i>Nature Genetics</i>, vol. 55. Springer Nature, pp. 333–345, 2023.","ista":"Zeller P, Yeung J, Viñas Gaza H, de Barbanson BA, Bhardwaj V, Florescu M, van der Linden R, van Oudenaarden A. 2023. Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis. Nature Genetics. 55, 333–345.","chicago":"Zeller, Peter, Jake Yeung, Helena Viñas Gaza, Buys Anton de Barbanson, Vivek Bhardwaj, Maria Florescu, Reinier van der Linden, and Alexander van Oudenaarden. “Single-Cell SortChIC Identifies Hierarchical Chromatin Dynamics during Hematopoiesis.” <i>Nature Genetics</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41588-022-01260-3\">https://doi.org/10.1038/s41588-022-01260-3</a>."},"publication":"Nature Genetics","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"}]