bioRxiv Science⌕ Search

Biology subjects

Yamauchi, Y. Y.

Publications and source records attributed to Yamauchi, Y. Y..

2 recordsLinked to original sources

Coupled transcriptomic divergence establishes a human-specific synaptic glial precursor state

The mammalian cerebral cortex is built from a conserved developmental program, yet exhibits profound species-specific complexity. To decode the regulatory changes driving human brain evolution, we reconstructed and aligned continuous single-cell differentiation trajectories across the developing human, macaque, mouse, and ferret cortices. This comparative framework revealed a fundamental principle of transcriptomic evolution during mammalian cortical development: while stable expression is the mammalian default, genes that diverge strictly shift their allocation to cell differentiation trajectories and developmental timing in tandem. By isolating these coupled regulatory shifts to the human lineage, we revealed that a canonical synaptic gene network uniquely redeployed into early human oligodendrocyte precursor cells (OPCs). Human, chimpanzee, and gorilla cortical organoids confirmed that this neuron-like OPC state is an exclusively human innovation. Spatial transcriptome analysis found that these specialized OPCs engage adjacent neural progenitors (outer radial glia) via synaptic-adhesion signaling during neurogenetic period. These findings demonstrate that this coupled spatiotemporal rewiring establishes novel developmental microenvironments, providing a discrete molecular engine for human cortical evolution.

genomics↗

Orthogonal Modes of Gene Expression Evolution Shape Human Neocortical Development and Disease Vulnerability

The neocortex is responsible for higher-order cognitive abilities such as language, abstract reasoning, and executive function--capacities that are particularly advanced in humans. To elucidate the molecular foundations of neocortical evolution in the human lineage, it is essential to examine how conserved gene repertoires have undergone expression changes relative to other mammals. The expression changes in conserved genes are widely regarded as key drivers of the phenotypic evolution of human-specific traits. In this study, we performed a comprehensive comparative single-cell transcriptomic analysis of fetal neocortical development across four mammalian species: human, macaque, mouse, and ferret. To validate human-specific expression changes, we further analyzed brain organoids derived from both human and chimpanzee stem cells. Genes exhibiting human-specific expression shifts were systematically classified along three orthogonal dimensions: overall expression level (Human Level Distinctive; HLD), temporal expression trend (Human Trend Distinctive; HTD), and differentiation lineage specificity (Human Differentiation trajectory Distinctive; HDD). HLD genes were frequently enriched for long introns and located near Human Accelerated Regions (HARs), and showed pronounced upregulation in humans. These genes were strongly associated with neurodevelopmental disorders such as autism spectrum disorder and developmental delay, as well as with megalencephaly and glioblastoma. HTD genes, in contrast, exhibited a unique pattern in humans, peaking early in development and subsequently declining--opposite to the steadily increasing trends observed in other species. These genes were significantly enriched for oxidative phosphorylation and ribosomal functions, pointing to a temporally restricted elevation in biosynthetic activity in early human corticogenesis. HDD genes displayed a marked shift in lineage-specific expression: cilia-related genes that are typically expressed in apical progenitors in non-human species were instead highly expressed in outer radial glia (oRGs) in humans. This spatial reorganization of ciliary gene activity suggests an oRG-specific adaptation in signaling architecture. Together, these results highlight the diversity of regulatory changes that have shaped human cortical development. Distinct classes of gene expression evolution--mediated in part by HARs--appear to have contributed not only to the expansion and increased complexity of the human neocortex, but also to its heightened vulnerability to neurodevelopmental and oncogenic pathologies. The identified human distinctive genes will be the target of future experimental verification to elucidate the precise molecular mechanisms regulating human-specific aspects of cortical development.

bioinformatics↗