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ProteomicsA mini-hairpin shaped nascent peptide blocks translation termination by a distinct mechanism
The mini-hairpin shaped nascent peptide that blocks translation termination was found by comprehensive proteomics approach for small ORFs overexpression.
ORGANISM(S): Escherichia Coli 
2025-02-17 | PXD052430 | JPOST Repository
TranscriptomicsRegulation of Transcription Termination by Glucosylated Hydroxymethyluracil, Base J, in L. major and T. brucei
Base J, β-D-glucosyl-hydroxymethyluracil, is an epigenetic modification of thymine in the nuclear DNA of flagellated protozoa of the order Kinetoplastida. J is enriched at sites involved in RNA Polymerase (RNAP) II initiation and termination. We have previously demonstrated a role of J in regulating...
ORGANISM(S): Trypanosoma brucei 
2015-05-18 | E-GEOD-57621 | biostudies-arrayexpress
TranscriptomicsA conserved factor Dhp1/Rat1/Xrn2 triggers premature transcription termination and nucleates heterochromatin to promote gene silencing [sRNA-seq]
Co-transcriptional RNA processing and surveillance factors mediate heterochromatin formation in fission yeast. In addition to RNAi, RNA elimination machinery including MTREC (Mtl1-Red1 core) and the exosome are involved in facultative heterochromatin assembly, however, the exact mechanisms remain un...
ORGANISM(S): Schizosaccharomyces pombe 
2016-01-05 | E-GEOD-74739 | biostudies-arrayexpress
TranscriptomicsBase J represses genes at the end of polycistronic gene clusters in Leishmania major by promoting RNAP II termination
Base J and H3.V promote RNA Polymerase (RNAP) II termination within polycistronic gene clusters in the kinetoplastid species Trypanosoma brucei. Although base J has been shown to promote RNAP II termination in the related kinetoplastid species Leishmania major and Leishmania tarentolae, the role of ...
ORGANISM(S): Leishmania major 
2016-07-20 | E-GEOD-77632 | biostudies-arrayexpress
TranscriptomicsCharacterization of extended transcripts by RNA-Seq suggests that Rrp6 influences Nrd1-dependent termination
RNAPII is responsible for transcription of protein-coding genes and short, regulatory RNAs. In Saccharomyces cerevisiae, termination of RNAPII-transcribed RNAs ≤1000 bases requires the NNS complex (comprised of Nrd1, Nab3, and Sen1) processing by the exosome, and the nuclear specific catalytic subun...
ORGANISM(S): Saccharomyces cerevisiae 
2015-04-14 | E-GEOD-57155 | biostudies-arrayexpress
TranscriptomicsCTD tyrosine phosphorylation impairs termination factor recruitment to transcribing RNA polymerase II
ChIP-chip was performed to identify the genomic binding locations for the termination factors Nrd1, and Rtt103, and for RNA polymerase (Pol) II phosphorylated at the tyrosine 1 and threonine 4 position of its C-terminal domain (CTD). In different phases of the transcription cycle, Pol II recruits di...
ORGANISM(S): Saccharomyces cerevisiae 
2012-06-29 | E-MTAB-1060 | biostudies-arrayexpress
ProteomicsCRL2LRR1 is required for CMG unloading during vertebrate replication termination
A key event during eukaryotic replication termination is the removal of the CMG helicase from chromatin. CMG unloading involves ubiquitylation of its MCM7 subunit and the action of the p97 ATPase. Using a proteomic screen in Xenopus egg extracts, we identified factors that are retained on chromatin...
ORGANISM(S): Xenopus laevis (African clawed frog) 
2017-02-02 | PXD004828 | Pride
Chromass Dna replication termination Cullin e3 ligases Xenopus egg extracts 
TranscriptomicsTranscriptome analysis of a Bacillus subtilis mutant defective in the transcription termination factor Rho.
This analysis is part of the study GSE27219, The condition-dependent transcriptome of Bacillus subtilis 168. In this study, 120 transcription units where identified for which transcription did not terminate at any specific site, leading to mRNA extension over long distances with slowly decreasing si...
ORGANISM(S): Bacillus subtilis 
2012-03-07 | E-GEOD-27303 | biostudies-arrayexpress
TranscriptomicsncRNA termination in Saccharomyces cerevisiae
Nuclear depletion of the essential transcription termination factor Nrd1 in Saccharomyces cerevisiae was studied using a combination of RNA-Seq, ChIP-Seq of Pol II and PAR-CLIP of Nrd1. The drug rapamycin induces the formation of a ternary complex between a protein of interest, the drug and the smal...
ORGANISM(S): Saccharomyces cerevisiae 
2013-11-14 | E-MTAB-1766 | biostudies-arrayexpress
GenomicsAKT phosphorylates H3-threonine 45 to facilitate termination of gene transcription in response to DNA damage.
Purpose: In this study, we show that DNA damage-activated AKT phosphorylates threonine 45 of core histone H3 (H3-T45) Result: By genome-wide chromatin immunoprecipitation sequencing (ChIP-seq) analysis, H3-T45 phosphorylation was distributed throughout DNA damage-responsive gene loci, particularly i...
ORGANISM(S): Homo sapiens 
2015-04-09 | E-GEOD-67699 | biostudies-arrayexpress
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