Spatiotemporal transcriptome atlas reveals the regional specification of the developing human brain

Li, Yanxin; Li, Zhongqiu; Wang, Changliang; Yang, Min; He, Ziqing; Wang, Feiyang; Zhang, Yuehong; Li, Rong; Gong, Yunxia; Wang, Binhong; Fan, Baoguang; Wang, Chunyue; Chen, Lei; Li, Hong; Shi, Peifu; Wang, Nana; Wei, Zhifeng; Wang, Yan-Ling; Jin, Lei; Du, Peng; Dong, Ji; Jiao, Jianwei

doi:10.1016/j.cell.2023.11.016

Cited by 16 publications

(3 citation statements)

References 72 publications

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“…Five major cell classes include RGCs (1-9), inIPC (10)(11)(12)(13)(14)(15)(16), mgeLin (17)(18)(19)(20)(21)(22)(23)(24)(25)(26)(27)(28)(29)(30)(31), cgeLin (32)(33)(34)(35)(36)(37)(38)(39)(40)(41)(42)(43)(44)(45)(46)(47)(48) and lgeLin (49)(50)(51)(52)(53)(54)(55)(56). The organization of 3 primary interneuron lineages is determined by the presumed birthplace and the expression of regional marker genes.…”

Section: Reporting Summarymentioning

confidence: 99%

“…The CGE mainly generates the vasoactive intestinal peptide (VIP) and LAMP5 PAX6 [synonymous with 5-hydroxytryptamine receptor 3A (Htr3a)-expressing, but lacking VIP] cortical interneurons (cgeInN), with speci c expression of NR2F1/2, PROX1, and SP8 [40][41][42] . Also, the recent reports claimed the dorsal LGE-derived interneurons (lgeInN) emerged in the cortical frontal lobe and persist in the deep white matter, expressing MEIS2, FOXP2 and PAX6 18,43 . Beyond these intrinsically encoded diversities, the interaction of cells traveling from their origins with the environment of distant destinations triggers transcriptomic changes accordingly, leading to an additional layer of heterogeneity 17 .…”

Section: Introductionmentioning

confidence: 99%

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Cortical arealization of interneurons defines shared and distinct molecular programs in developing human and macaque brains

Li,

Feng,

Gao

et al. 2024

Preprint

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Cortical interneurons generated from ganglionic eminence via a long-distance journey of tangential migration display evident cellular and molecular differences across brain regions, which seeds the heterogeneous cortical circuitry in primates. However, whether such regional specifications in interneurons are intrinsically encoded or gained through interactions with the local milieu remains elusive. Here, we recruit over 700,000 interneurons from cerebral cortex and subcortex including ganglionic eminence within the developing human and macaque species. Our integrative and comparative analyses reveal that less transcriptomic alteration is accompanied by interneuron migration within the ganglionic eminence subdivisions, in contrast to the dramatic changes observed in cortical tangentialmigration, which mostly characterize the transcriptomic specification for different destinations and for species divergence. Moreover, the in-depth survey of temporal regulation illustrates species differences in the developmental dynamics of cell types, e.g., the employment of CRH in primate interneurons during late-fetal stage distinguishes from their postnatal emergence in mice, and our entropy quantifications manifest the interneuron diversities gradually increase along the developmental ages in human and macaque cerebral cortices. Overall, our analyses depict the spatiotemporal features appended to cortical interneurons, providing a new proxy for understanding the relationship between cellular diversity and functional progression.

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Section: Reporting Summarymentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Cortical arealization of interneurons defines shared and distinct molecular programs in developing human and macaque brains

Li,

Feng,

Gao

et al. 2024

Preprint

View full text Add to dashboard Cite

show abstract

“…For example, single cell and spatial transcriptomic studies have identified several astrocyte subpopulations in the mouse cortex (Zhu et al 2018; Batiuk et al 2020; Bayraktar et al 2020). In human, although astrocyte heterogeneity remains largely elusive, heterogeneity in radial glia across brain regions and within midbrain has been reported (La Manno et al 2016; Li et al 2023). Furthermore, different molecular and physiological features and distinct responses to stimuli were also observed in astrocytes from different mouse brain regions (Takata and Hirase 2008; Chai et al 2017; Morel et al 2017; Itoh et al 2018; Kostuk et al 2019; Makarava et al 2019; Xin et al 2019; Lozzi et al 2020).…”

Section: Introductionmentioning

confidence: 99%

Differential growth and transcriptomic profile of stem cell-derived midbrain astrocytes

Li,

Cardo,

Rokicki

et al. 2024

Preprint

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Regional specificity of stem cell-derived astrocytes is believed to be an important prerequisite for their applications in disease modelling and cell-based therapies. The regional identity of these astrocytes is often defined by the positional characteristics of their antecedent, stem cell-derived neural progenitors patterned to a fate of interest, with the assumption that the positional specification is to be preserved by the derived astrocytes. Using a human induced pluripotent stem cell line designed for tracing midbrain floor plate derivatives, here we show that lineage composition of the derived astrocytes is not a faithful recapitulation of the founder progenitor population, as demonstrated by the loss of floor plate differentiated progeny in the final astrocyte products. Using deep single cell RNA sequencing, we identified distinct transcriptomic signatures of midbrain floor plate-derived astrocytes. Our study highlights the need for rigorous characterisation of pluripotent stem cell-derived regional astrocytes and provides a valuable resource for assessing midbrain floor plate-derived human astrocytes.

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Neuron-Astrocyte Interactions: A Human Perspective

Pio,

Hill,

Kebede

et al. 2024

Advances in Neurobiology

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Spatiotemporal transcriptome atlas reveals the regional specification of the developing human brain

Cited by 16 publications

References 72 publications

Cortical arealization of interneurons defines shared and distinct molecular programs in developing human and macaque brains

Cortical arealization of interneurons defines shared and distinct molecular programs in developing human and macaque brains

Differential growth and transcriptomic profile of stem cell-derived midbrain astrocytes

Neuron-Astrocyte Interactions: A Human Perspective

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