Evolution of neuronal and endothelial transcriptomes in primates
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ABSTRACT:
PROVIDER: PRJNA113585 | ENA |
REPOSITORIES: ENA
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Project description:Neurons and endothelial cells were identified by immunohistochemistry in human brains, isolated by laser-capture-microdissection and used to find genes preferentially expressed in the two cell types. Keywords: cell type comparison Laser capture microdissection was used to isolate approximately 1000 neurons and endothelial cells from 6 (for neurons) and 7 (for endothelial cells) human post mortem brain samples. RNA was isolated and amplified (3 linear amplifications) and genome wide expression was measured. This allowed the identification of genes that are differentially expressed between neurons and endothelial cells in the human brain.
2010-06-08 | E-GEOD-12293 | biostudies-arrayexpress
Project description:Neurons and endothelial cells were identified by immunohistochemistry in human brains, isolated by laser-capture-microdissection and used to find genes preferentially expressed in the two cell types. Keywords: cell type comparison
2010-05-20 | GSE12293 | GEO
Project description:Cortical expansion and folding have gradually increased during primate evolution, reaching the highest in the human brain. Indeed, cortical folding has a concerted relationship with neocortex expansion, underlying evolution of human cognitive functions. However, molecular mechanisms underlying concerted evolution remain largely unknown. Here, using Chinese tree shrew as an outgroup of primate, we identify the Cyclin B1 Interacting Protein 1 gene CCNB1IP1 (also named HEI10) as a key regulator of cortically concerted evolution. CCNB1IP1 has acquired brain expression in primates, and is highly expressed in human neuronal progenitor cells. The expression of CCNB1IP1 has gradually increased along primate brain evolution, coinciding with the increase of cortical size and folding. Mechanistically, we elucidated that overexpression of CCNB1IP1, leading to a decrease of G1 duration, and subsequently causes an increase in basal progenitors and neurons. Furthermore, we generated a novel CCNB1IP1 knock-in mouse model and provide confirmation that CCNB1IP1 can induce cortical folding in otherwise smooth mouse brain. Moreover, the CCNB1IP1 knock-in mouse model exhibited traits associated with enhanced learning and memory abilities. Together, our study reveals how the changes in CCNB1IP1 expression may have contributed to the increase of cortical size and folding during human brain evolution.
2026-07-29 | GSE247966 | GEO
Project description:The evolution of N6-methyladenosine in primates
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Project description:LEUTX is a homeodomain transcription factor expressed in the very early embryo with a function around embryonic genome activation. The LEUTX gene is found only in eutherian mammals, including humans, but unlike the majority of homeobox genes, the encoded amino acid sequence is very different between divergent mammalian species. However, whether dynamic evolution has also occurred between closely related mammalian species remains unclear. In this work, we perform a comparative genomics study of LEUTX within the primates, revealing dramatic evolutionary sequence change between closely related species. Positive selection has acted on sites in the LEUTX protein, including six sites within the homeodomain; this suggests that selection may have driven changes in the set of downstream targets. Transfection into cell culture followed by transcriptomic analysis reveals small functional differences between human and marmoset LEUTX, suggesting rapid sequence evolution has fine-tuned the role of this homeodomain protein within the primates.
2023-02-06 | GSE224384 | GEO
Project description:This SuperSeries is composed of the following subset Series: GSE24770: Heterochronic Evolution Reveals Modular Timing Changes in Budding Yeast Transcriptomes (Mutation Accumulation Lines) GSE24771: Heterochronic Evolution Reveals Modular Timing Changes in Budding Yeast Transcriptomes (Natural Strain Timecourse) Refer to individual Series
2010-10-19 | E-GEOD-24772 | biostudies-arrayexpress
Project description:The evolution of the p53 transcriptional response across primates
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Project description:Transcriptomes of normal aging brains in female nonhuman primates.
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Project description:Complex multicellular organisms have evolved numerous cell types with many different functions. Comparative transcriptomic data yields valuable insights into cell type, tissue, and organ evolution. However, interpreting this data requires understanding how transcriptomes evolve. A particularly difficult problem is that cell type transcriptomes may not evolve independently, a key assumption of most evolutionary analyses. Non-independence of cell types can occur when cell types share regulatory mechanisms. This leads to concerted evolution in gene expression across different cell types, confounding efforts to unravel the history of cell type evolution, and identify cell type-specific patterns of expression. Here we present a statistical model to estimate the level of concerted transcriptome evolution and apply it to published and new data. The results indicate that tissues undergo pervasive concerted evolution in gene expression. Tissues related by morphology or developmental lineage exhibit higher levels of concerted evolution. Concerted evolution also causes tissues from the same species to be more similar in gene expression to each other than to homologous tissues in another species. This result may explain why some tissue transcriptomes cluster by species rather than homology. Our analysis of bird skin appendages data suggests levels of concerted evolution also varies with phylogenetic age of the tissue. Our study illustrates the importance of accounting for concerted evolution when interpreting comparative transcriptome data, and should serve as a foundation for future investigations of cell type evolution.
2017-10-13 | GSE89040 | GEO