Cell-type specific and thyroid hormone-dependent expression of genes of α1(I) and α2(I) collagen in intestine during amphibian metamorphosis

1999 ◽  
Vol 18 (1) ◽  
pp. 89-103 ◽  
Author(s):  
Kinji Asahina ◽  
Rie Utoh ◽  
Masanobu Obara ◽  
Katsutoshi Yoshizato
Keyword(s):  
Thyroid Hormone ◽  
Cell Type ◽  
Amphibian Metamorphosis ◽  
Expression Of Genes ◽  
Cell Type Specific

scholarly journals A conserved expression signature predicts growth rate and reveals cell & lineage-specific differences

2021 ◽  
Vol 17 (11) ◽  
pp. e1009582
Author(s):  
Zhisheng Jiang ◽  
Serena F. Generoso ◽  
Marta Badia ◽  
Bernhard Payer ◽  
Lucas B. Carey
Keyword(s):  
Growth Rate ◽  
Embryonic Stem ◽  
Cell Lineage ◽  
Proliferation Rate ◽  
Cell Type ◽  
Proliferating Cells ◽  
Mitochondria Membrane Potential ◽  
Transcriptional Signature ◽  
Expression Of Genes ◽  
Cell Type Specific

Isogenic cells cultured together show heterogeneity in their proliferation rate. To determine the differences between fast and slow-proliferating cells, we developed a method to sort cells by proliferation rate, and performed RNA-seq on slow and fast proliferating subpopulations of pluripotent mouse embryonic stem cells (mESCs) and mouse fibroblasts. We found that slowly proliferating mESCs have a more naïve pluripotent character. We identified an evolutionarily conserved proliferation-correlated transcriptomic signature that is common to all eukaryotes: fast cells have higher expression of genes for protein synthesis and protein degradation. This signature accurately predicted growth rate in yeast and cancer cells, and identified lineage-specific proliferation dynamics during development, using C. elegans scRNA-seq data. In contrast, sorting by mitochondria membrane potential revealed a highly cell-type specific mitochondria-state related transcriptome. mESCs with hyperpolarized mitochondria are fast proliferating, while the opposite is true for fibroblasts. The mitochondrial electron transport chain inhibitor antimycin affected slow and fast subpopulations differently. While a major transcriptional-signature associated with cell-to-cell heterogeneity in proliferation is conserved, the metabolic and energetic dependency of cell proliferation is cell-type specific.

Cell type-specific endometrial transcriptome changes during initial recognition of pregnancy in the mare

2019 ◽  
Vol 31 (3) ◽  
pp. 496 ◽  
Author(s):  
Iside Scaravaggi ◽  
Nicole Borel ◽  
Rebekka Romer ◽  
Isabel Imboden ◽  
Susanne E. Ulbrich ◽  
...  
Keyword(s):  
Gene Expression ◽  
Spatial Information ◽  
Gene Expression Regulation ◽  
Cell Types ◽  
Rna Seq ◽  
Cell Type ◽  
Expression Of Genes ◽  
Prostaglandin F ◽  
Cell Type Specific ◽  
Gene Expression Studies

Previous endometrial gene expression studies during the time of conceptus migration did not provide final conclusions on the mechanisms of maternal recognition of pregnancy (MRP) in the mare. This called for a cell type-specific endometrial gene expression analysis in response to embryo signals to improve the understanding of gene expression regulation in the context of MRP. Laser capture microdissection was used to collect luminal epithelium (LE), glandular epithelium and stroma from endometrial biopsies from Day 12 of pregnancy and Day 12 of the oestrous cycle. RNA sequencing (RNA-Seq) showed greater expression differences between cell types than between pregnant and cyclic states; differences between the pregnant and cyclic states were mainly found in LE. Comparison with a previous RNA-Seq dataset for whole biopsy samples revealed the specific origin of gene expression differences. Furthermore, genes specifically differentially expressed (DE) in one cell type were found that were not detectable as DE in biopsies. Overall, this study revealed spatial information about endometrial gene expression during the phase of initial MRP. The conceptus induced changes in the expression of genes involved in blood vessel development, specific spatial regulation of the immune system, growth factors, regulation of prostaglandin synthesis, transport prostaglandin receptors, specifically prostaglandin F receptor (PTGFR) in the context of prevention of luteolysis.

The Gene Regulating Activity of Thyroid Hormone Nuclear Receptors Is Modulated by Cell-Type Specific Factors

1997 ◽  
Vol 238 (2) ◽  
pp. 280-284 ◽  
Author(s):  
Kwang-huei Lin ◽  
Shen-liang Chen ◽  
Xu-Guang Zhu ◽  
Hsing-ying Shieh ◽  
Peter McPhie ◽  
...  
Keyword(s):  
Thyroid Hormone ◽  
Nuclear Receptors ◽  
Cell Type ◽  
Cell Type Specific ◽  
Specific Factors

Mosaic Expression of Thyroid Hormone Regulatory Genes Defines Cell Type-Specific Dependency in the Developing Chicken Cerebellum

2015 ◽  
Vol 15 (6) ◽  
pp. 710-725 ◽  
Author(s):  
Joke Delbaere ◽  
Stijn L. J. Van Herck ◽  
Nele M. A. Bourgeois ◽  
Pieter Vancamp ◽  
Shuo Yang ◽  
...  
Keyword(s):  
Thyroid Hormone ◽  
Regulatory Genes ◽  
Cell Type ◽  
Mosaic Expression ◽  
Cell Type Specific

scholarly journals The CrebA/Creb3-like transcription factors are major and direct regulators of secretory capacity

2010 ◽  
Vol 191 (3) ◽  
pp. 479-492 ◽  
Author(s):  
Rebecca M. Fox ◽  
Caitlin D. Hanlon ◽  
Deborah J. Andrew
Keyword(s):  
Transcription Factors ◽  
Secretory Pathway ◽  
Cell Types ◽  
Secretory Cells ◽  
Cell Type ◽  
Expression Of Genes ◽  
Genes Encoding ◽  
Cell Type Specific ◽  
General Protein ◽  
Secretory Capacity

Secretion occurs in all cells, with relatively low levels in most cells and extremely high levels in specialized secretory cells, such as those of the pancreas, salivary, and mammary glands. How secretory capacity is selectively up-regulated in specialized secretory cells is unknown. Here, we find that the CrebA/Creb3-like family of bZip transcription factors functions to up-regulate expression of both the general protein machinery required in all cells for secretion and of cell type–specific secreted proteins. Drosophila CrebA directly binds the enhancers of secretory pathway genes and is both necessary and sufficient to activate expression of every secretory pathway component gene examined thus far. Microarray profiling reveals that CrebA also up-regulates expression of genes encoding cell type–specific secreted components. Finally, we found that the human CrebA orthologues, Creb3L1 and Creb3L2, have the ability to up-regulate the secretory pathway in nonsecretory cell types.

scholarly journals Ovarian Steroids, Mitogen-Activated Protein Kinases, and/or Aspartic Proteinases Cooperate to Control Endometrial Remodeling by Regulating Gene Expression in the Stroma and Glands

Endocrinology ◽  
2010 ◽  
Vol 151 (9) ◽  
pp. 4515-4526 ◽  
Author(s):  
Héloïse P. Gaide Chevronnay ◽  
Pascale Lemoine ◽  
Pierre J. Courtoy ◽  
Etienne Marbaix ◽  
Patrick Henriet
Keyword(s):  
Gene Expression ◽  
Expression Profiles ◽  
Gene Expression Profiles ◽  
Tissue Remodeling ◽  
Explant Culture ◽  
Cell Type ◽  
Aspartic Proteinases ◽  
Expression Of Genes ◽  
Mitogen Activated Protein ◽  
Cell Type Specific

Explants from nonmenstrual endometria cultured in the absence of ovarian hormones undergo tissue breakdown. Addition of estradiol and progesterone (EP) prevents proteolysis. Explants include stromal and epithelial compartments which play different but complementary roles in endometrial physiology, including tissue remodeling and hormonal response. In order to characterize the cell type-specific contribution to regulation of tissue breakdown, we characterized the transcriptomes of microdissected stromal and glandular areas from endometrial explants cultured with or without EP. The datasets were also compared to other published endometrial transcriptomes. Finally, the contribution of proteolysis, hypoxia, and MAPKs to the regulation of selected genes was further investigated in explant culture. This analysis identified distinct gene expression profiles in stroma and glands, with differential response to EP, but functional clustering underlined convergence in biological processes, further indicating that endometrial remodeling requires cooperation between the two compartments through expression of cell type-specific genes. Only partial overlaps were observed between lists of genes involved in different occurrences of endometrial breakdown, pointing to a limited number of potentially crucial regulators but also to the requirement for additional mechanisms controlling tissue remodeling. We identified a group of genes differentially regulated by EP in stroma and glands among which some were sensitive to MAPKs and/or aspartic proteinases and were not induced by hypoxia. In conclusion, MAPKs and/or aspartic proteinases likely act in concert with EP to locally and specifically control differential expression of genes between degrading and preserved areas of the human endometrium.

scholarly journals Unique molecular features and cellular responses differentiate two populations of motor cortical layer 5b neurons in a preclinical model of ALS.

2021 ◽  
Author(s):  
Maria V Moya ◽  
Rachel D Kim ◽  
Meghana N Rao ◽  
Bianca A Cotto ◽  
Sarah B Pickett ◽  
...  
Keyword(s):  
Motor Neurons ◽  
Cell Types ◽  
Projection Neuron ◽  
Cortical Layer ◽  
Preclinical Model ◽  
Cell Type ◽  
Molecular Features ◽  
Expression Of Genes ◽  
Neuron Populations ◽  
Cell Type Specific

Many neurodegenerative diseases, such as amyotrophic lateral sclerosis (ALS), lead to the selective degeneration of discrete cell types in the CNS despite the ubiquitous expression of many genes linked to disease. Therapeutic advancement depends on understanding unique cellular adaptations that underlie pathology of vulnerable cells in the context of disease-causing mutations. Here, we employ bacTRAP molecular profiling to elucidate cell type specific molecular responses of cortical upper motor neurons in a preclinical ALS model. Using two bacTRAP mouse lines that label distinct vulnerable or resilient projection neuron populations in motor cortex, we show that the regulation of oxidative phosphorylation (Oxphos) pathways is a common response in both cell types. However, differences in the baseline expression of genes involved in Oxphos and the handling of reactive oxygen species likely lead to the selective degeneration of the vulnerable cells. These results provide a framework to identify cell type-specific processes in neurodegenerative disease.

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