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Spatial transcriptomics reveals laminar and cell-type-specific A-to-I RNA editing signatures in the macaque cortex.

Λεπτομέρειες βιβλιογραφικής εγγραφής
Τίτλος: Spatial transcriptomics reveals laminar and cell-type-specific A-to-I RNA editing signatures in the macaque cortex.
Συγγραφείς: Chen C; College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen, China.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China., Yang J; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China., Zhu Z; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China., Wang Z; College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China., Huang Y; College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China., Ding L; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen, China.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China., Luo L; Department of Hepatology, The Fourth Clinical Medical College of Guangzhou University of Traditional Chinese Medicine, Shenzhen, China., Lan T; College of Wildlife and Protected Area, Northeast Forestry University, Harbin, China., Hou Y; College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.; MGI Tech, Shenzhen, China., Li Q; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen, China., Liu S; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China.; Key Laboratory of Spatial Omics of Zhejiang Province, BGI Research, Hangzhou, China., Lei Y; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen, China. leiying1@genomics.cn.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China. leiying1@genomics.cn.; Shanxi Medical University - BGI Collaborative Center for Future Medicine, Shanxi Medical University, Taiyuan, China. leiying1@genomics.cn., Huang J; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen, China. jinrcn@foxmail.com.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China. jinrcn@foxmail.com.
Πηγή: Nature communications [Nat Commun] 2026 Sep 03; Vol. 17 (1). Date of Electronic Publication: 2026 Sep 03.
Τύπος έκδοσης: Journal Article; Research Support, Non-U.S. Gov't
Γλώσσα: English
Στοιχεία περιοδικού: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE
Imprint Name(s): Original Publication: [London] : Nature Pub. Group
Ιατρικοί όροι (MeSH): RNA Editing*/genetics , Cerebral Cortex*/metabolism , Cerebral Cortex*/cytology, Neurons/metabolism ; Prefrontal Cortex/metabolism ; Prefrontal Cortex/cytology ; Inosine/metabolism ; Adenosine Deaminase/metabolism ; Parvalbumins/metabolism ; Animals ; Spatial Transcriptomics ; Male ; Macaca mulatta ; Transcriptome ; Female
Περίληψη: ADAR-mediated A-to-I RNA editing is crucial for proper neuronal function. However, its spatial signatures in the cerebral cortex remain largely unexplored. To address this, we developed SRDRE, an analysis framework for identifying RNA editing sites in spatial transcriptomics data. By analyzing over 40 million cells across 142 spatially annotated cortical regions in the adult macaque cortex, we uncovered laminar and cell-type-specific RNA editing landscapes. Notably, neuronal RNA editing levels correlated with cortical hierarchy in the visual and somatosensory systems. Parvalbumin neurons exhibited the highest editing activity in most regions. Furthermore, we identified primate-enriched sites within ion channel genes, specifically in excitatory neuronal subtypes of the prefrontal cortex. Finally, in a preliminary exploratory analysis, we observed altered RNA editing in deeper layers of the dorsolateral prefrontal cortex in macaques exhibiting depressive-like behaviors, suggesting a potential link that warrants further investigation. These findings underscore the role of RNA editing and its potential contributions to cortical specialization, brain evolution, and neuropsychiatric disorders.
(© 2026. The Author(s).)
Competing Interests: Competing interests: The authors declare no competing interests.
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Substance Nomenclature: 5A614L51CT (Inosine)
EC 3.5.4.4 (Adenosine Deaminase)
0 (Parvalbumins)
Entry Date(s): Date Created: 20261005 Date Completed: 20261005 Latest Revision: 20261008
Update Code: 20261008
PubMed Central ID: PMC13639015
DOI: 10.1038/s41467-026-77434-y
PMID: 42834064
Βάση Δεδομένων: MEDLINE
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  – Url: https://dx.doi.org/doi:10.1038/s41467-026-77434-y
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Items – Name: Title
  Label: Title
  Group: Ti
  Data: Spatial transcriptomics reveals laminar and cell-type-specific A-to-I RNA editing signatures in the macaque cortex.
– Name: Author
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  Data: <searchLink fieldCode="AU" term="%22Chen+C%22">Chen C</searchLink>; College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen, China.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China.<br /><searchLink fieldCode="AU" term="%22Yang+J%22">Yang J</searchLink>; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China.<br /><searchLink fieldCode="AU" term="%22Zhu+Z%22">Zhu Z</searchLink>; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China.<br /><searchLink fieldCode="AU" term="%22Wang+Z%22">Wang Z</searchLink>; College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China.<br /><searchLink fieldCode="AU" term="%22Huang+Y%22">Huang Y</searchLink>; College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China.<br /><searchLink fieldCode="AU" term="%22Ding+L%22">Ding L</searchLink>; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen, China.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China.<br /><searchLink fieldCode="AU" term="%22Luo+L%22">Luo L</searchLink>; Department of Hepatology, The Fourth Clinical Medical College of Guangzhou University of Traditional Chinese Medicine, Shenzhen, China.<br /><searchLink fieldCode="AU" term="%22Lan+T%22">Lan T</searchLink>; College of Wildlife and Protected Area, Northeast Forestry University, Harbin, China.<br /><searchLink fieldCode="AU" term="%22Hou+Y%22">Hou Y</searchLink>; College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China.; MGI Tech, Shenzhen, China.<br /><searchLink fieldCode="AU" term="%22Li+Q%22">Li Q</searchLink>; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen, China.<br /><searchLink fieldCode="AU" term="%22Liu+S%22">Liu S</searchLink>; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China.; Key Laboratory of Spatial Omics of Zhejiang Province, BGI Research, Hangzhou, China.<br /><searchLink fieldCode="AU" term="%22Lei+Y%22">Lei Y</searchLink>; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen, China. leiying1@genomics.cn.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China. leiying1@genomics.cn.; Shanxi Medical University - BGI Collaborative Center for Future Medicine, Shanxi Medical University, Taiyuan, China. leiying1@genomics.cn.<br /><searchLink fieldCode="AU" term="%22Huang+J%22">Huang J</searchLink>; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Shenzhen, China. jinrcn@foxmail.com.; State Key Laboratory of Genome and Multi-omics Technologies, BGI Research, Hangzhou, China. jinrcn@foxmail.com.
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  Data: <searchLink fieldCode="JN" term="%22101528555%22">Nature communications</searchLink> [Nat Commun] 2026 Sep 03; Vol. 17 (1). <i>Date of Electronic Publication: </i>2026 Sep 03.
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  Data: Journal Article; Research Support, Non-U.S. Gov't
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  Data: <i>Publisher: </i><searchLink fieldCode="PB" term="%22Nature+Pub%2E+Group%22">Nature Pub. Group </searchLink><i>Country of Publication: </i>England <i>NLM ID: </i>101528555 <i>Publication Model: </i>Electronic <i>Cited Medium: </i>Internet <i>ISSN: </i>2041-1723 (Electronic) <i>Linking ISSN: </i><searchLink fieldCode="IS" term="%2220411723%22">20411723 </searchLink><i>NLM ISO Abbreviation: </i>Nat Commun <i>Subsets: </i>MEDLINE
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  Data: <i>Original Publication</i>: [London] : Nature Pub. Group
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  Data: <searchLink fieldCode="MM" term="%22RNA+Editing%22">RNA Editing*</searchLink>/<searchLink fieldCode="MM" term="%22RNA+Editing+genetics%22">genetics</searchLink> <br /><searchLink fieldCode="MM" term="%22Cerebral+Cortex%22">Cerebral Cortex*</searchLink>/<searchLink fieldCode="MM" term="%22Cerebral+Cortex+metabolism%22">metabolism</searchLink> <br /><searchLink fieldCode="MM" term="%22Cerebral+Cortex%22">Cerebral Cortex*</searchLink>/<searchLink fieldCode="MM" term="%22Cerebral+Cortex+cytology%22">cytology</searchLink><br /><searchLink fieldCode="MH" term="%22Neurons%22">Neurons</searchLink>/<searchLink fieldCode="MH" term="%22Neurons+metabolism%22">metabolism</searchLink> ; <searchLink fieldCode="MH" term="%22Prefrontal+Cortex%22">Prefrontal Cortex</searchLink>/<searchLink fieldCode="MH" term="%22Prefrontal+Cortex+metabolism%22">metabolism</searchLink> ; <searchLink fieldCode="MH" term="%22Prefrontal+Cortex%22">Prefrontal Cortex</searchLink>/<searchLink fieldCode="MH" term="%22Prefrontal+Cortex+cytology%22">cytology</searchLink> ; <searchLink fieldCode="MH" term="%22Inosine%22">Inosine</searchLink>/<searchLink fieldCode="MH" term="%22Inosine+metabolism%22">metabolism</searchLink> ; <searchLink fieldCode="MH" term="%22Adenosine+Deaminase%22">Adenosine Deaminase</searchLink>/<searchLink fieldCode="MH" term="%22Adenosine+Deaminase+metabolism%22">metabolism</searchLink> ; <searchLink fieldCode="MH" term="%22Parvalbumins%22">Parvalbumins</searchLink>/<searchLink fieldCode="MH" term="%22Parvalbumins+metabolism%22">metabolism</searchLink> ; <searchLink fieldCode="MH" term="%22Animals%22">Animals</searchLink> ; <searchLink fieldCode="MH" term="%22Spatial+Transcriptomics%22">Spatial Transcriptomics</searchLink> ; <searchLink fieldCode="MH" term="%22Male%22">Male</searchLink> ; <searchLink fieldCode="MH" term="%22Macaca+mulatta%22">Macaca mulatta</searchLink> ; <searchLink fieldCode="MH" term="%22Transcriptome%22">Transcriptome</searchLink> ; <searchLink fieldCode="MH" term="%22Female%22">Female</searchLink>
– Name: Abstract
  Label: Abstract
  Group: Ab
  Data: ADAR-mediated A-to-I RNA editing is crucial for proper neuronal function. However, its spatial signatures in the cerebral cortex remain largely unexplored. To address this, we developed SRDRE, an analysis framework for identifying RNA editing sites in spatial transcriptomics data. By analyzing over 40 million cells across 142 spatially annotated cortical regions in the adult macaque cortex, we uncovered laminar and cell-type-specific RNA editing landscapes. Notably, neuronal RNA editing levels correlated with cortical hierarchy in the visual and somatosensory systems. Parvalbumin neurons exhibited the highest editing activity in most regions. Furthermore, we identified primate-enriched sites within ion channel genes, specifically in excitatory neuronal subtypes of the prefrontal cortex. Finally, in a preliminary exploratory analysis, we observed altered RNA editing in deeper layers of the dorsolateral prefrontal cortex in macaques exhibiting depressive-like behaviors, suggesting a potential link that warrants further investigation. These findings underscore the role of RNA editing and its potential contributions to cortical specialization, brain evolution, and neuropsychiatric disorders.<br /> (© 2026. The Author(s).)
– Name: Abstract
  Label: Competing Interests
  Group: Ab
  Data: Competing interests: The authors declare no competing interests.
– Name: Ref
  Label: References
  Group: RefInfo
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        Text: English
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              Text: 2026 Sep 03
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