The Role of Developmental Genes in Chordoma

Skull Base ◽  
2007 ◽  
Vol 17 (S 2) ◽  
Author(s):  
Michael Kelley ◽  
Josh Sommer ◽  
Sufeng Li ◽  
Enyu Ding ◽  
Fan Dong
Keyword(s):  
2006 ◽  
Vol 188 (9) ◽  
pp. 3246-3256 ◽  
Author(s):  
Poorna Viswanathan ◽  
Mitchell Singer ◽  
Lee Kroos

ABSTRACT Starvation-induced development of Myxococcus xanthus is an excellent model for biofilm formation because it involves cell-cell signaling to coordinate formation of multicellular mounds, gene expression, and cellular differentiation into spores. The role of σD, an alternative σ factor important for viability in stationary phase and for stress responses, was investigated during development by measuring signal production, gene expression, and sporulation of a sigD null mutant alone and upon codevelopment with wild-type cells or signaling mutants. The sigD mutant responded to starvation by inducing (p)ppGpp synthesis normally but was impaired for production of A-signal, an early cell density signal, and for production of the morphogenetic C-signal. Induction of early developmental genes was greatly reduced, and expression of those that depend on A-signal was not restored by codevelopment with wild-type cells, indicating that σD is needed for cellular responses to A-signal. Despite these early developmental defects, the sigD mutant responded to C-signal supplied by codeveloping wild-type cells by inducing a subset of late developmental genes. σD RNA polymerase is dispensable for transcription of this subset, but a distinct regulatory class, which includes genes essential for sporulation, requires σD RNA polymerase or a gene under its control, cell autonomously. The level of sigD transcript in a relA mutant during growth is much lower than in wild-type cells, suggesting that (p)ppGpp positively regulates sigD transcription in growing cells. The sigD transcript level drops in wild-type cells after 20 min of starvation and remains low after 40 min but rises in a relA mutant after 40 min, suggesting that (p)ppGpp negatively regulates sigD transcription early in development. We conclude that σD synthesized during growth occupies a position near the top of a regulatory hierarchy governing M. xanthus development, analogous to σ factors that control biofilm formation of other bacteria.


2019 ◽  
Vol 48 (3) ◽  
pp. 1206-1224
Author(s):  
Julie M J Lepesant ◽  
Carole Iampietro ◽  
Eugenia Galeota ◽  
Benoit Augé ◽  
Marion Aguirrenbengoa ◽  
...  

Abstract The histone demethylase LSD1 is a key chromatin regulator that is often deregulated in cancer. Its ortholog, dLsd1 plays a crucial role in Drosophila oogenesis; however, our knowledge of dLsd1 function is insufficient to explain its role in the ovary. Here, we have performed genome-wide analysis of dLsd1 binding in the ovary, and we document that dLsd1 is preferentially associated to the transcription start site of developmental genes. We uncovered an unanticipated interplay between dLsd1 and the GATA transcription factor Serpent and we report an unexpected role for Serpent in oogenesis. Besides, our transcriptomic data show that reducing dLsd1 levels results in ectopic transposable elements (TE) expression correlated with changes in H3K4me2 and H3K9me2 at TE loci. In addition, our results suggest that dLsd1 is required for Piwi dependent TE silencing. Hence, we propose that dLsd1 plays crucial roles in establishing specific gene expression programs and in repressing transposons during oogenesis.


2019 ◽  
Author(s):  
Eshagh Dorafshan ◽  
Tatyana G. Kahn ◽  
Alexander Glotov ◽  
Mikhail Savitsky ◽  
Yuri B. Schwartz

AbstractAntagonistic functions of Polycomb and Trithorax proteins are essential for proper development of all metazoans. While the Polycomb proteins maintain the repressed state of key developmental genes, the Trithorax proteins ensure that these genes stay active in cells where they have to be expressed. Ash1 is the Trithorax protein that was proposed to counteract Polycomb repression by methylating lysine 36 of histone H3. However, recently it was shown that genetic replacement of Drosophila histone H3 with the variant that carried Arginine instead of Lysine at position 36 did not impair the ability of Ash1 to counteract Polycomb repression. This argues that Ash1 counteracts Polycomb repression by methylating, yet unknown, non-histone proteins. To find these substrates, one may need to look beyond the function of the Ash1 histone methyltransferase SET domain at other evolutionary conserved parts of the protein that received little attention. Here we used Drosophila genetics to demonstrate that Ash1 requires each of the BAH, PHD and SET domains to counteract Polycomb repression, while AT hooks are dispensable. Our findings argue that, in vivo, Ash1 acts as a multimer. Thereby, it can combine the input of the SET domain and PHD-BAH cassette residing in different peptides. Finally, using new loss of function alleles, we show that zygotic Ash1 is required to prevent erroneous repression of homeotic genes.


2006 ◽  
Vol 103 (17) ◽  
pp. 6676-6681 ◽  
Author(s):  
S. Gesta ◽  
M. Bluher ◽  
Y. Yamamoto ◽  
A. W. Norris ◽  
J. Berndt ◽  
...  

2020 ◽  
Author(s):  
Venkat Krishnan Sundaram ◽  
Rasha Barakat ◽  
Charbel Massaad ◽  
Julien Grenier

AbstractEmbryonic Dissociated Dorsal Root Ganglia cultures are often used to investigate the role of novel molecular pathways or drugs in Schwann cell development and myelination. These cultures largely recapitulate the order of cellular and molecular events that occur in Schwann cells of embryonic nerves. However, the timing of Schwann cell developmental transitions, notably the transition from Schwann Cell Precursors to immature Schwann cells, has not been estimated so far in this culture system. In this study, we use RTqPCR to determine the expression profiles of Schwann cell developmental genes during the first week of culture. We first identified stable reference genes that show minimal variation across different experimental time points. Consequently, we normalized the mRNA profiles of Schwann cell developmental genes using the best internal reference genes. We then compared our data to the expression profiles of these genes in developing spinal nerves elaborated in numerous high-throughput and lineage tracing studies. This comparison helped in identifying that Schwann Cell Precursors transition into immature Schwann Cells between the 5th and 7th day in vitro. In effect, our data allows for a better understanding and interpretation of DRG culture experiments especially in studies that aim to elucidate the role of a novel gene in Schwann Cell development and myelination.


2016 ◽  
Author(s):  
Nathan Harmston ◽  
Elizabeth Ing-Simmons ◽  
Ge Tan ◽  
Malcolm Perry ◽  
Matthias Merkenschlager ◽  
...  

AbstractIn vertebrates and other Metazoa, developmental genes are found surrounded by dense clusters of highly conserved noncoding elements (CNEs). CNEs exhibit extreme levels of sequence conservation of unexplained origin, with many acting as long-range enhancers during development. Clusters of CNEs, termed genomic regulatory blocks (GRBs), define the span of regulatory interactions for many important developmental regulators. The function and genomic distribution of these elements close to important regulatory genes raises the question of how they relate to the 3D conformation of these loci. We show that GRBs, defined using clusters of CNEs, coincide strongly with the patterns of topological organisation in metazoan genomes, predicting the boundaries of topologically associating domains (TADs) at hundreds of loci. The set of TADs that are associated with high levels of non-coding conservation exhibit distinct properties compared to TADs called in chromosomal regions devoid of extreme non-coding conservation. The correspondence between GRBs and TADs suggests that TADs around developmental genes are ancient, slowly evolving genomic structures, many of which have had conserved spans for hundreds of millions of years. This relationship also explains the difference in TAD numbers and sizes between genomes. While the close correspondence between extreme conservation and the boundaries of this subset of TADs does not reveal the mechanism leading to the conservation of these elements, it provides a functional framework for studying the role of TADs in long-range transcriptional regulation.


Sign in / Sign up

Export Citation Format

Share Document