Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq

The mammalian cerebral cortex supports cognitive functions such as sensorimotor integration, memory, and social behaviors. Normal brain function relies on a diverse set of differentiated cell types, including neurons, glia, and vasculature. Here, we have used large-scale single-cell RNA sequencing (...

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Published in	Science (American Association for the Advancement of Science) Vol. 347; no. 6226; pp. 1138 - 1142
Main Authors	Zeisel, Amit, Muñoz-Manchado, Ana B., Codeluppi, Simone, Lönnerberg, Peter, La Manno, Gioele, Juréus, Anna, Marques, Sueli, Munguba, Hermany, He, Liqun, Betsholtz, Christer, Rolny, Charlotte, Castelo-Branco, Gonçalo, Hjerling-Leffler, Jens, Linnarsson, Sten
Format	Journal Article
Language	English
Published	Washington American Association for the Advancement of Science 06.03.2015 The American Association for the Advancement of Science
Subjects	Brain Categories Cellular Cellular biology Cognitive ability Cortexes Eyes Mammals Ribonucleic acid Ribonucleic acids RNA Rodents Signatures Social behavior
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Abstract	The mammalian cerebral cortex supports cognitive functions such as sensorimotor integration, memory, and social behaviors. Normal brain function relies on a diverse set of differentiated cell types, including neurons, glia, and vasculature. Here, we have used large-scale single-cell RNA sequencing (RNA-seq) to classify cells in the mouse somatosensory cortex and hippocampal CA1 region. We found 47 molecularly distinct subclasses, comprising all known major cell types in the cortex. We identified numerous marker genes, which allowed alignment with known cell types, morphology, and location. We found a layer I interneuron expressing Pax6 and a distinct postmitotic oligodendrocyte subclass marked by Itpr2. Across the diversity of cortical cell types, transcription factors formed a complex, layered regulatory code, suggesting a mechanism for the maintenance of adult cell type identity.
AbstractList	Cellular diversity in the brain revealedThe mammalian brain has an extraordinarily large number of cells. Although there are quite a few different cell types, many cells in any one category tend to look alike. Zeisel et al. analyzed the transcriptomes of mouse brain cells to reveal more than meets the eye. Interneurons of similar type were found in dissimilar regions of the brain. Oligodendrocytes that seemed to be all of one class were differentiated by their molecular signatures into a half-dozen classes. Microglia associated with blood vessels were distinguished from look-alike perivascular macrophages. Thus, the complex microanatomy of the brain can be revealed by the RNAs expressed in its cells.Science, this issue p. 1138 The mammalian cerebral cortex supports cognitive functions such as sensorimotor integration, memory, and social behaviors. Normal brain function relies on a diverse set of differentiated cell types, including neurons, glia, and vasculature. Here, we have used large-scale single-cell RNA sequencing (RNA-seq) to classify cells in the mouse somatosensory cortex and hippocampal CA1 region. We found 47 molecularly distinct subclasses, comprising all known major cell types in the cortex. We identified numerous marker genes, which allowed alignment with known cell types, morphology, and location. We found a layer I interneuron expressing Pax6 and a distinct postmitotic oligodendrocyte subclass marked by Itpr2. Across the diversity of cortical cell types, transcription factors formed a complex, layered regulatory code, suggesting a mechanism for the maintenance of adult cell type identity. The mammalian cerebral cortex supports cognitive functions such as sensorimotor integration, memory, and social behaviors. Normal brain function relies on a diverse set of differentiated cell types, including neurons, glia, and vasculature. Here, we have used large-scale single-cell RNA sequencing (RNA-seq) to classify cells in the mouse somatosensory cortex and hippocampal CA1 region. We found 47 molecularly distinct subclasses, comprising all known major cell types in the cortex. We identified numerous marker genes, which allowed alignment with known cell types, morphology, and location. We found a layer I interneuron expressing Pax6 and a distinct postmitotic oligodendrocyte subclass marked by Itpr2. Across the diversity of cortical cell types, transcription factors formed a complex, layered regulatory code, suggesting a mechanism for the maintenance of adult cell type identity. The mammalian brain has an extraordinarily large number of cells. Although there are quite a few different cell types, many cells in any one category tend to look alike. Zeisel et al. analyzed the transcriptomes of mouse brain cells to reveal more than meets the eye. Interneurons of similar type were found in dissimilar regions of the brain. Oligodendrocytes that seemed to be all of one class were differentiated by their molecular signatures into a half-dozen classes. Microglia associated with blood vessels were distinguished from look-alike perivascular macrophages. Thus, the complex microanatomy of the brain can be revealed by the RNAs expressed in its cells. Science , this issue p. 1138 A close look at the genes expressed by cells in the brain reveals hidden and coordinated cellular complexity. The mammalian cerebral cortex supports cognitive functions such as sensorimotor integration, memory, and social behaviors. Normal brain function relies on a diverse set of differentiated cell types, including neurons, glia, and vasculature. Here, we have used large-scale single-cell RNA sequencing (RNA-seq) to classify cells in the mouse somatosensory cortex and hippocampal CA1 region. We found 47 molecularly distinct subclasses, comprising all known major cell types in the cortex. We identified numerous marker genes, which allowed alignment with known cell types, morphology, and location. We found a layer I interneuron expressing Pax6 and a distinct postmitotic oligodendrocyte subclass marked by Itpr2 . Across the diversity of cortical cell types, transcription factors formed a complex, layered regulatory code, suggesting a mechanism for the maintenance of adult cell type identity. The mammalian brain has an extraordinarily large number of cells. Although there are quite a few different cell types, many cells in any one category tend to look alike. Zeisel et al. analyzed the transcriptomes of mouse brain cells to reveal more than meets the eye. Interneurons of similar type were found in dissimilar regions of the brain. Oligodendrocytes that seemed to be all of one class were differentiated by their molecular signatures into a half-dozen classes. Microglia associated with blood vessels were distinguished from look-alike perivascular macrophages. Thus, the complex microanatomy of the brain can be revealed by the RNAs expressed in its cells. Science, this issue p. 1138 The mammalian cerebral cortex supports cognitive functions such as sensorimotor integration, memory, and social behaviors. Normal brain function relies on a diverse set of differentiated cell types, including neurons, glia, and vasculature. Here, we have used large-scale single-cell RNA sequencing (RNA-seq) to classify cells in the mouse somatosensory cortex and hippocampal CA1 region. We found 47 molecularly distinct subclasses, comprising all known major cell types in the cortex. We identified numerous marker genes, which allowed alignment with known cell types, morphology, and location. We found a layer I interneuron expressing Pax6 and a distinct postmitotic oligodendrocyte subclass marked by Itpr2. Across the diversity of cortical cell types, transcription factors formed a complex, layered regulatory code, suggesting a mechanism for the maintenance of adult cell type identity.
Author	Rolny, Charlotte Hjerling-Leffler, Jens Marques, Sueli Codeluppi, Simone Betsholtz, Christer Linnarsson, Sten La Manno, Gioele Munguba, Hermany Muñoz-Manchado, Ana B. Zeisel, Amit Castelo-Branco, Gonçalo Lönnerberg, Peter Juréus, Anna He, Liqun
Author_xml	– sequence: 1 givenname: Amit surname: Zeisel fullname: Zeisel, Amit – sequence: 2 givenname: Ana B. surname: Muñoz-Manchado fullname: Muñoz-Manchado, Ana B. – sequence: 3 givenname: Simone surname: Codeluppi fullname: Codeluppi, Simone – sequence: 4 givenname: Peter surname: Lönnerberg fullname: Lönnerberg, Peter – sequence: 5 givenname: Gioele surname: La Manno fullname: La Manno, Gioele – sequence: 6 givenname: Anna surname: Juréus fullname: Juréus, Anna – sequence: 7 givenname: Sueli surname: Marques fullname: Marques, Sueli – sequence: 8 givenname: Hermany surname: Munguba fullname: Munguba, Hermany – sequence: 9 givenname: Liqun surname: He fullname: He, Liqun – sequence: 10 givenname: Christer surname: Betsholtz fullname: Betsholtz, Christer – sequence: 11 givenname: Charlotte surname: Rolny fullname: Rolny, Charlotte – sequence: 12 givenname: Gonçalo surname: Castelo-Branco fullname: Castelo-Branco, Gonçalo – sequence: 13 givenname: Jens surname: Hjerling-Leffler fullname: Hjerling-Leffler, Jens – sequence: 14 givenname: Sten surname: Linnarsson fullname: Linnarsson, Sten
BackLink	https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-248806$$DView record from Swedish Publication Index http://kipublications.ki.se/Default.aspx?queryparsed=id:130827044$$DView record from Swedish Publication Index
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Snippet	The mammalian cerebral cortex supports cognitive functions such as sensorimotor integration, memory, and social behaviors. Normal brain function relies on a... The mammalian brain has an extraordinarily large number of cells. Although there are quite a few different cell types, many cells in any one category tend to... Cellular diversity in the brain revealedThe mammalian brain has an extraordinarily large number of cells. Although there are quite a few different cell types,...
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SubjectTerms	Brain Categories Cellular Cellular biology Cognitive ability Cortexes Eyes Mammals Ribonucleic acid Ribonucleic acids RNA Rodents Signatures Social behavior
Title	Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq
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