Human Transaldolase-associated Repetitive Elements Are Transcribed by RNA Polymerase III

Perl, András; Colombo, Emanuela; Samoilova, Ella; Butler, Mark C.; Bánki, Katalin

doi:10.1074/jbc.275.10.7261

Cited by 12 publications

(20 citation statements)

References 59 publications

(71 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Figure 4C shows several sub-repeats with length ranging from 3 to 278 bp and with multiplicities ranging from 3 to 30 (the complex structure of some Alu elements was also discussed in Perl et al 2000 andBao andEddy 2002). These sub-repeats either represent common extensions of canonical Alu repeats or other repeats that are often found in conjunction with Alu repeats.…”

Section: Timingmentioning

confidence: 99%

De Novo Repeat Classification and Fragment Assembly

Pevzner¹,

Tang²,

Tesler³

2004

Genome Res.

198

137

View full text Add to dashboard Cite

Repetitive sequences make up a significant fraction of almost any genome, and an important and still open question in bioinformatics is how to represent all repeats in DNA sequences. We propose a new approach to repeat classification that represents all repeats in a genome as a mosaic of sub-repeats. Our key algorithmic idea also leads to new approaches to multiple alignment and fragment assembly. In particular, we show that our FragmentGluer assembler improves on Phrap and ARACHNE in assembly of BACs and bacterial genomes.

show abstract

Section: Timingmentioning

confidence: 99%

De Novo Repeat Classification and Fragment Assembly

Pevzner¹,

Tang²,

Tesler³

2004

Genome Res.

198

137

View full text Add to dashboard Cite

show abstract

“…Wild-type or mutant pGEM-T-B1-X35S constructs were used as templates. Hepa-1 protein extracts were pre-mixed with vehicle or with specific inhibitors of Pol II (3 mg/ mL a-amanitin, a-AMA) (Rollins et al 2007) or Pol III (10 mM tagetitoxin, TGT) (Perl et al 2000). Treated extracts were then mixed with templates and IVT started by addition of 0.4 mM rNTPs.…”

Section: In Vitro Transcription (Ivt)mentioning

confidence: 99%

Dioxin receptor and SLUG transcription factors regulate the insulator activity of B1 SINE retrotransposons via an RNA polymerase switch

Román¹,

González-Rico²,

Moltó³

et al. 2011

Genome Res.

View full text Add to dashboard Cite

Complex genomes utilize insulators and boundary elements to help define spatial and temporal gene expression patterns. We report that a genome-wide B1 SINE (Short Interspersed Nuclear Element) retrotransposon (B1-X35S) has potent intrinsic insulator activity in cultured cells and live animals. This insulation is mediated by binding of the transcription factors dioxin receptor (AHR) and SLUG (SNAI2) to consensus elements present in the SINE. Transcription of B1-X35S is required for insulation. While basal insulator activity is maintained by RNA polymerase (Pol) III transcription, AHR-induced insulation involves release of Pol III and engagement of Pol II transcription on the same strand. B1-X35S insulation is also associated with enrichment of heterochromatin marks H3K9me3 and H3K27me3 downstream of B1-X35S, an effect that varies with cell type. B1-X35S binds parylated CTCF and, consistent with a chromatin barrier activity, its positioning between two adjacent genes correlates with their differential expression in mouse tissues. Hence, B1 SINE retrotransposons represent genome-wide insulators activated by transcription factors that respond to developmental, oncogenic, or toxicological stimuli.

show abstract

“…The TAL-H locus contains a high copy number transcriptionally active retrotransposable element (TARE) which encodes the second and third exons to the TAL-H gene (66,67). Basal and tissue-specific expression of TAL-H is regulated by the transcription factor Staf/ZNF143 (68).…”

Section: Regulation Of the Ppp And Apoptosis By Talmentioning

confidence: 99%

The pathogenesis of transaldolase deficiency

Perl¹

2007

IUBMB Life

Self Cite

View full text Add to dashboard Cite

SummaryThe signaling networks that mediate cell growth, differentiation, and survival are dependent on complex metabolic and redox pathways. Metabolism of glucose through the pentose phosphate pathway (PPP) fulfills two unique functions: formation of ribose 5-phosphate for the synthesis of nucleotides, RNA, and DNA in support cell growth and formation of NADPH for biosynthetic reactions and neutralization of reactive oxygen intermediates (ROI). Balancing of NADPH and ROI levels by the PPP enzyme transaldolase (TAL) regulates the mitochondrial trans-membrane potential (Dw m ), a critical checkpoint of ATP synthesis and cell survival. While complete deficiency of glucose 6-phosphate dehydrogenase (G6PD) or transketolase (TK) is lethal, TAL-deficient mice developed normally with the exception of male sterility due to structural and functional damage of sperm cell mitochondria. Recently, two cases of complete TAL deficiency have been reported in patients with liver cirrhosis which results from increased cell death of hepatocytes. Delineation of the cell type-specific role that TAL plays in the PPP and cell death signal processing will be critical for understanding the pathogenesis of TAL deficiency.

show abstract

Human Transaldolase-associated Repetitive Elements Are Transcribed by RNA Polymerase III

Cited by 12 publications

References 59 publications

De Novo Repeat Classification and Fragment Assembly

De Novo Repeat Classification and Fragment Assembly

Dioxin receptor and SLUG transcription factors regulate the insulator activity of B1 SINE retrotransposons via an RNA polymerase switch

The pathogenesis of transaldolase deficiency

Contact Info

Product

Resources

About