Single-cell transcriptome profiling of radial glia cells in zebrafish adult telencephalon in response to traumatic brain injury
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ABSTRACT:
PROVIDER: PRJNA862132 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR20631873.fastq.gz | Fastqsanger.gz | |||
| SRR20631874.fastq.gz | Fastqsanger.gz | |||
| SRR20631875.fastq.gz | Fastqsanger.gz | |||
| SRR20631876.fastq.gz | Fastqsanger.gz |
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Project description:In zebrafish brain, radial glia cells (RG) show a remarkable ability to regenerate damaged neural tissue by reentering cell proliferation and produce neural precursors. To understand how RG respond to brain damage and initiate the regenerative response, we applied single-cell transcriptome analysis to RG in zebrafish adult telencephalon.
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Project description:Traumatic brain injuries (TBIs) represent a large global disease burden and can result in several short- and long-term deficits. Treatment for TBIs are limited, however stem cell therapies involving either transplantation of exogenous stem cells or stimulation of endogenous stem cells have been proposed. These approaches possess issues with survival and differentiation of stem/progenitor cells, which highlights the need to elucidate mechanisms necessary for complete regeneration. Zebrafish exhibit a robust neuronal regenerative capacity following damage in various parts of the central nervous system. In this study, we use a modified blunt-force TBI (bfTBI) model, the most common type of TBI seen in the human population, to damage the adult zebrafish telencephalon and examine cellular and molecular consequences. This model induces a variety of TBI-related phenotypes across different injury severities, which mimic the pathologies observed following bfTBI in humans. Additionally, we show that after bfTBI, cells in the zebrafish telencephalon, including radial glia (RGC), non-glial neural progenitors (NPs), and neuroblasts, proliferate and differentiate into various neural cell types. We performed a snRNA-Seq analysis of the damaged and regenerating telencephalon, which revealed heterogeneity among the progenitor cells. Further, the snRNA-Seq demonstrated that quiescent radial glia became activated upon injury and yielded neural progenitor cells. To functionally assess how the regenerative process is regulated, we knocked down the expression of PdgfrB and demonstrated that it played a role in maintaining RGC quiescence. Collectively, this study provides a foundation for future studies of neuronal regeneration in the adult zebrafish telencephalon following a bfTBI.
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Project description:Zebrafish display widespread and pronounced adult neurogenesis, which is fundamental for their regeneration capability after central nervous system injury. However, the cellular identity and the biological properties of adult newborn neurons are elusive for most brain areas. Here, we used short-term lineage tracing of radial glia progeny to prospectively isolate newborn neurons from the her4.1+ radial glia lineage in the homeostatic adult forebrain. Transcriptome analysis of radial glia, newborn neurons and mature neurons using single cell sequencing identified distinct transcriptional profiles including novel markers for each population. Specifically, we detected 2 separate newborn neuron types, which showed diversity of cell fate commitment and location. Further analyses showed homology of these cell types to neurogenic cells in the mammalian brain, identified neurogenic commitment in proliferating radial glia and indicated that glutamatergic projection neurons fate are generated in the adult zebrafish telecephalon. Thus, we prospectively isolated adult newborn neurons from the adult zebrafish forebrain, identified markers for newborn and mature neurons in the adult brain, revealed intrinsic heterogeneity among adult newborn neurons and their homology to mammalian adult neurogenic cell types.
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Project description:As the seat of our cognition, the human neocortex is an object of immense fascination. Human neocortex expansion during evolution has been attributed to an increase in the proliferative capacity of neural progenitor cells during development, particularly basal radial glia. Despite their evolutionary relevance, the genomic changes driving human basal radial glia biology remain uncharacterized. We used comparative chromatin and transcriptional profiling of neural progenitor cells isolated from gorilla, chimpanzee and human cerebral organoids to identify cis-regulatory elements that have gained activity in humans. Focusing specifically on basal radial glia, we discovered that morphoregulatory enhancer activity and gene expression signatures distinguish human basal radial glia from other great apes. Functional analysis of the morphoregulatory genes FAM107A and CNGA3 in human organoids revealed that these genes contribute to the morphological complexity of human basal radial glia. Taken together, our inter-species comparison of basal radial glia suggests that human-specific morphoregulatory signatures characterise neocortex evolution.
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Project description:As the seat of our cognition, the human neocortex is an object of immense fascination. Human neocortex expansion during evolution has been attributed to an increase in the proliferative capacity of neural progenitor cells during development, particularly basal radial glia. Despite their evolutionary relevance, the genomic changes driving human basal radial glia biology remain uncharacterized. We used comparative chromatin and transcriptional profiling of neural progenitor cells isolated from gorilla, chimpanzee and human cerebral organoids to identify cis-regulatory elements that have gained activity in humans. Focusing specifically on basal radial glia, we discovered that morphoregulatory enhancer activity and gene expression signatures distinguish human basal radial glia from other great apes. Functional analysis of the morphoregulatory genes FAM107A and CNGA3 in human organoids revealed that these genes contribute to the morphological complexity of human basal radial glia. Taken together, our inter-species comparison of basal radial glia suggests that human-specific morphoregulatory signatures characterise neocortex evolution.
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Project description:As the seat of our cognition, the human neocortex is an object of immense fascination. Human neocortex expansion during evolution has been attributed to an increase in the proliferative capacity of neural progenitor cells during development, particularly basal radial glia. Despite their evolutionary relevance, the genomic changes driving human basal radial glia biology remain uncharacterized. We used comparative chromatin and transcriptional profiling of neural progenitor cells isolated from gorilla, chimpanzee and human cerebral organoids to identify cis-regulatory elements that have gained activity in humans. Focusing specifically on basal radial glia, we discovered that morphoregulatory enhancer activity and gene expression signatures distinguish human basal radial glia from other great apes. Functional analysis of the morphoregulatory genes FAM107A and CNGA3 in human organoids revealed that these genes contribute to the morphological complexity of human basal radial glia. Taken together, our inter-species comparison of basal radial glia suggests that human-specific morphoregulatory signatures characterise neocortex evolution.
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