Gene expression profiles in HEK-293 cells with low or high store-operated calcium entry: can regulatory as well as regulated genes be identified?

Zagranichnaya, Tatiana K.; Wu, Xiaoyan; Danos, Arpad; Villereal, Mitchel L.

doi:10.1152/physiolgenomics.00099.2004

Cited by 30 publications

(22 citation statements)

References 60 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Expression of SRm300/SRRM2 also increases by 2.6-fold upon induction by calcium (Zagranichnaya et al 2005), suggesting a conserved mode of regulation. The link between Cwc21p, ERD2 pre-mRNA splicing, and ER homeostasis (Copic et al 2009) discussed above may be relevant to this.…”

Section: Cwc21p In the Regulation Of Splicingmentioning

confidence: 93%

Physical and genetic interactions of yeast Cwc21p, an ortholog of human SRm300/SRRM2, suggest a role at the catalytic center of the spliceosome

Grainger¹,

Barrass²,

Jacquier³

et al. 2009

RNA

View full text Add to dashboard Cite

In Saccharomyces cerevisiae, Cwc21p is a protein of unknown function that is associated with the NineTeen Complex (NTC), a group of proteins involved in activating the spliceosome to promote the pre-mRNA splicing reaction. Here, we show that Cwc21p binds directly to two key splicing factors-namely, Prp8p and Snu114p-and becomes the first NTC-related protein known to dock directly to U5 snRNP proteins. Using a combination of proteomic techniques we show that the N-terminus of Prp8p contains an intramolecular fold that is a Snu114p and Cwc21p interacting domain (SCwid). Cwc21p also binds directly to the C-terminus of Snu114p. Complementary chemical cross-linking experiments reveal reciprocal protein footprints between the interacting Prp8 and Cwc21 proteins, identifying the conserved cwf21 domain in Cwc21p as a Prp8p binding site. Genetic and functional interactions between Cwc21p and Isy1p indicate that they have related functions at or prior to the first catalytic step of splicing, and suggest that Cwc21p functions at the catalytic center of the spliceosome, possibly in response to environmental or metabolic changes. We demonstrate that SRm300, the only SR-related protein known to be at the core of human catalytic spliceosomes, is a functional ortholog of Cwc21p, also interacting directly with Prp8p and Snu114p. Thus, the function of Cwc21p is likely conserved from yeast to humans.

show abstract

Section: Cwc21p In the Regulation Of Splicingmentioning

confidence: 93%

Physical and genetic interactions of yeast Cwc21p, an ortholog of human SRm300/SRRM2, suggest a role at the catalytic center of the spliceosome

Grainger¹,

Barrass²,

Jacquier³

et al. 2009

RNA

View full text Add to dashboard Cite

show abstract

“…The expression levels of the PERV target genes were based on a public HEK-293 microarray data set (GEO data set numbers GSM21381 and GSM21382) (57). These data sets were from the Affymetrix HG-U133A microarrays, which assay 22,215 probe sets.…”

Section: Methodsmentioning

confidence: 99%

Porcine Endogenous Retrovirus Integration Sites in the Human Genome: Features in Common with Those of Murine Leukemia Virus

Moalic¹,

Blanchard²,

Félix³

et al. 2006

J Virol

View full text Add to dashboard Cite

Porcine endogenous retroviruses (PERV) are a major concern when porcine tissues and organs are used for xenotransplantation. PERV has been shown to infect human cells in vitro, highlighting a potential zoonotic risk. No pathology is associated with PERV in its natural host, but the pathogenic potential might differ in the case of cross-species transmission and can only be inferred from knowledge of related gammaretroviruses. We therefore investigated the integration features of the PERV DNA in the human genome in vitro in order to further characterize the risk associated with PERV transmission. In this study, we characterized 189 PERV integration site sequences from human HEK-293 cells. Data showed that PERV integration was strongly enhanced at transcriptional start sites and CpG islands and that the frequencies of integration events increased with the expression levels of the genes, except for the genes with the highest levels of expression, which were disfavored for integration. Finally, we extracted genomic sequences directly flanking the integration sites and found an original 8-base statistical palindromic consensus sequence [TG(int)GTACCAGC]. All these results show similarities between PERV and murine leukemia virus integration site selection, suggesting that gammaretroviruses have a common pattern of integration and that the mechanisms of target site selection within a retrovirus genus might be similar.

show abstract

“…Interestingly, both of these proteins accumulated in Pff-td HEK293 ␣-syn cells but not in Pff-td-naive HEK293 cells that have negligible ␣-syn expression (Fig. 4C) (42) and therefore do not form ␣-syn aggregates (Fig. 4, A and B).…”

Section: Insoluble ␣-Syn Aggregates Interact With Protein Degradationmentioning

confidence: 99%

Lewy Body-like α-Synuclein Aggregates Resist Degradation and Impair Macroautophagy

Tanik

Schultheiss²,

Volpicelli‐Daley³

et al. 2013

Journal of Biological Chemistry

281

250

View full text Add to dashboard Cite

Background: ␣-Synuclein aggregates and macroautophagy are associated with neurodegeneration. Results: Modulation of macroautophagic activity does not affect ␣-synuclein aggregate levels, although these aggregates cause accumulation of immature autophagosomes. Conclusion: ␣-Synuclein aggregates are resistant to degradation and impair autophagy by delaying autophagosome maturation. Significance: Understanding the impact of ␣-synuclein aggregates on autophagy may help elucidate therapies for ␣-synucleinmediated neurodegeneration.

show abstract

Gene expression profiles in HEK-293 cells with low or high store-operated calcium entry: can regulatory as well as regulated genes be identified?

Cited by 30 publications

References 60 publications

Physical and genetic interactions of yeast Cwc21p, an ortholog of human SRm300/SRRM2, suggest a role at the catalytic center of the spliceosome

Physical and genetic interactions of yeast Cwc21p, an ortholog of human SRm300/SRRM2, suggest a role at the catalytic center of the spliceosome

Porcine Endogenous Retrovirus Integration Sites in the Human Genome: Features in Common with Those of Murine Leukemia Virus

Lewy Body-like α-Synuclein Aggregates Resist Degradation and Impair Macroautophagy

Contact Info

Product

Resources

About