دورية أكاديمية
Brain-wide correspondence of neuronal epigenomics and distant projections.
| العنوان: | Brain-wide correspondence of neuronal epigenomics and distant projections. |
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| المؤلفون: | Zhou J; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.; Bioinformatics and Systems Biology Program, University of California San Diego, La Jolla, CA, USA., Zhang Z; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.; Department of Human Genetics, The University of Chicago, Chicago, IL, USA., Wu M; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.; Division of Biological Sciences, University of California San Diego, La Jolla, CA, USA., Liu H; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Pang Y; Systems Neurobiology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Bartlett A; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Peng Z; School of Mathematics and Computer Science, Nanchang University, Nanchang, China.; Henan Engineering Research Center of Intelligent Technology and Application, Henan University, Kaifeng, China., Ding W; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Rivkin A; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Lagos WN; Systems Neurobiology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Williams E; Molecular Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Lee CT; Peptide Biology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Miyazaki PA; Systems Neurobiology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Aldridge A; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Zeng Q; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA.; Division of Biological Sciences, University of California San Diego, La Jolla, CA, USA., Salinda JLA; Systems Neurobiology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Claffey N; Flow Cytometry Core Facility, The Salk Institute for Biological Studies, La Jolla, CA, USA., Liem M; Flow Cytometry Core Facility, The Salk Institute for Biological Studies, La Jolla, CA, USA., Fitzpatrick C; Flow Cytometry Core Facility, The Salk Institute for Biological Studies, La Jolla, CA, USA., Boggeman L; Flow Cytometry Core Facility, The Salk Institute for Biological Studies, La Jolla, CA, USA., Yao Z; Allen Institute for Brain Science, Seattle, WA, USA., Smith KA; Allen Institute for Brain Science, Seattle, WA, USA., Tasic B; Allen Institute for Brain Science, Seattle, WA, USA., Altshul J; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Kenworthy MA; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Valadon C; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Nery JR; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Castanon RG; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Patne NS; Systems Neurobiology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Vu M; Systems Neurobiology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Rashid M; Systems Neurobiology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Jacobs M; Systems Neurobiology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Ito T; Systems Neurobiology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Osteen J; Computational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Emerson N; Computational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Lee J; Computational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Cho S; Computational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Rink J; Computational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Huang HH; Molecular Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Pinto-Duartec A; Computational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Dominguez B; Peptide Biology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Smith JB; Molecular Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., O'Connor C; Flow Cytometry Core Facility, The Salk Institute for Biological Studies, La Jolla, CA, USA., Zeng H; Allen Institute for Brain Science, Seattle, WA, USA., Chen S; Henan Engineering Research Center of Intelligent Technology and Application, Henan University, Kaifeng, China.; School of Computer and Information Engineering, Henan University, Kaifeng, China., Lee KF; Peptide Biology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA., Mukamel EA; Department of Cognitive Science, University of California San Diego, La Jolla, CA, USA., Jin X; Center for Motor Control and Disease, Key Laboratory of Brain Functional Genomics, East China Normal University, Shanghai, China.; NYU-ECNU Institute of Brain and Cognitive Science, New York University Shanghai, Shanghai, China., Margarita Behrens M; Computational Neurobiology Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA., Ecker JR; Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA, USA. ecker@salk.edu.; Howard Hughes Medical Institute, The Salk Institute for Biological Studies, La Jolla, CA, USA. ecker@salk.edu., Callaway EM; Division of Biological Sciences, University of California San Diego, La Jolla, CA, USA. callaway@salk.edu.; Systems Neurobiology Laboratories, The Salk Institute for Biological Studies, La Jolla, CA, USA. callaway@salk.edu. |
| المصدر: | Nature [Nature] 2023 Dec; Vol. 624 (7991), pp. 355-365. Date of Electronic Publication: 2023 Dec 13. |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: Nature Publishing Group Country of Publication: England NLM ID: 0410462 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1476-4687 (Electronic) Linking ISSN: 00280836 NLM ISO Abbreviation: Nature Subsets: MEDLINE |
| أسماء مطبوعة: | Publication: Basingstoke : Nature Publishing Group Original Publication: London, Macmillan Journals ltd. |
| مواضيع طبية MeSH: | Brain*/cytology , Brain*/metabolism , Epigenomics* , Neural Pathways*/cytology , Neurons*/metabolism, Animals ; Mice ; Amygdala ; Consensus Sequence ; Datasets as Topic ; Gene Expression Profiling ; Hypothalamus/cytology ; Mesencephalon/cytology ; Neurotransmitter Agents/metabolism ; Regulatory Sequences, Nucleic Acid ; Rhombencephalon/cytology ; Single-Cell Analysis ; Thalamus/cytology ; Transcription Factors/metabolism |
| مستخلص: | Single-cell analyses parse the brain's billions of neurons into thousands of 'cell-type' clusters residing in different brain structures 1 . Many cell types mediate their functions through targeted long-distance projections allowing interactions between specific cell types. Here we used epi-retro-seq 2 to link single-cell epigenomes and cell types to long-distance projections for 33,034 neurons dissected from 32 different regions projecting to 24 different targets (225 source-to-target combinations) across the whole mouse brain. We highlight uses of these data for interrogating principles relating projection types to transcriptomics and epigenomics, and for addressing hypotheses about cell types and connections related to genetics. We provide an overall synthesis with 926 statistical comparisons of discriminability of neurons projecting to each target for every source. We integrate this dataset into the larger BRAIN Initiative Cell Census Network atlas, composed of millions of neurons, to link projection cell types to consensus clusters. Integration with spatial transcriptomics further assigns projection-enriched clusters to smaller source regions than the original dissections. We exemplify this by presenting in-depth analyses of projection neurons from the hypothalamus, thalamus, hindbrain, amygdala and midbrain to provide insights into properties of those cell types, including differentially expressed genes, their associated cis-regulatory elements and transcription-factor-binding motifs, and neurotransmitter use. (© 2023. The Author(s).) |
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| معلومات مُعتمدة: | R01 EY022577 United States EY NEI NIH HHS; U01 AG076805 United States AG NIA NIH HHS; R01 AG082151 United States AG NIA NIH HHS; R24 AG073205 United States AG NIA NIH HHS; S10 OD023689 United States OD NIH HHS; U19 MH114831 United States MH NIMH NIH HHS; U19 MH114830 United States MH NIMH NIH HHS |
| المشرفين على المادة: | 0 (Neurotransmitter Agents) 0 (Transcription Factors) |
| تواريخ الأحداث: | Date Created: 20231213 Date Completed: 20231222 Latest Revision: 20240514 |
| رمز التحديث: | 20240514 |
| مُعرف محوري في PubMed: | PMC10719087 |
| DOI: | 10.1038/s41586-023-06823-w |
| PMID: | 38092919 |
| قاعدة البيانات: | MEDLINE |
Full Text Finder | تدمد: | 1476-4687 |
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| DOI: | 10.1038/s41586-023-06823-w |