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ProteomicsPathogenic Natural Antibodies Recognizing Annexin IV Are Required to Develop Intestinal Ischemia-Reperfusion Injury
Intestinal ischemia-reperfusion (IR) injury is initiated when natural IgM antibodies recognize neo-epitopes that are revealed on ischemic cells. The target molecules and mechanisms whereby these neo-epitopes become accessible to recognition are not well understood. Proposing that isolated intestinal...
ORGANISM(S): Mus musculus 
2010-05-05 | E-GEOD-14862 | biostudies-arrayexpress
ProteomicsCLSY docking to Pol IV requires a conserved domain critical for small RNA biogenesis and transposon silencing
RNA polymerase IV (Pol IV) transcribes transposable elements (TEs) into precursors for small interfering RNAs (siRNAs) that guide DNA methylation to silence these potentially dangerious mobile elements in plants. Pol IV is recruited to TEs via SNF2-like CLASSY (CLSY) proteins. How Pol IV evolved to ...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2024-11-28 | PXD047743 | Pride
Rna polymerase iv Clsy-docking motif 
ProteomicsAtomic structures of respiratory complex III2 complex IV and supercomplex III2-IV from vascular plants
Mitochondrial complex III (CIII2) and complex IV (CIV) which can associate into a higher-order supercomplex (SC III2 IV) play key roles in respiration. However, structures of these plant complexes remain unknown. We present atomic models of CIII2, CIV and SC III2 IV from Vigna radiata determined by ...
ORGANISM(S): Vigna Radiata (ncbitaxon:157791) 
2020-10-05 | MSV000086237 | MassIVE
ProteomicsLysyl hydroxylase 3 mediated post-translational modifications are required for proper biosynthesis of collagen a1a1a2(IV)
We performed proteomic identification of type IV collagen gel bands from wild-type and lysyl hydroxylase 3 knockout cells by LC-MS after trypsin digestion.
ORGANISM(S): Mus Musculus (mouse) 
2022-11-21 | PXD035051 | JPOST Repository
GenomicsAssessment of the Pol IV largest subunit, NRPD1, DeCL domain deletion construct to rescue Pol IV-dependent siRNAs in the nrpd1-3 mutant (sRNA).
The Arabidopsis thaliana multi-subunit RNA Polymerase IV largest subunit DeCL domain was functionally assessed with an NRPD1 DeCL domain deletion construct.
ORGANISM(S): Arabidopsis thaliana 
2017-07-17 | GSE95824 | GEO
Methylation profilingAssessment of the Pol IV largest subunit, NRPD1, DeCL domain deletion construct to rescue Pol IV-dependent DNA methylation in the nrpd1-3 mutant (Bisulfite-Seq).
The Arabidopsis thaliana multi-subunit RNA Polymerase IV largest subunit DeCL domain was functionally assessed with an NRPD1 DeCL domain deletion construct.
ORGANISM(S): Arabidopsis thaliana 
2017-07-17 | GSE95823 | GEO
ProteomicsKingella kingae KK03 Type IV Pili
Type IV Pili (T4P) are dynamic surface appendages that mediate adherence, motility, and DNA uptake in Kingella kingae, an important pediatric pathogen that causes osteoarticular infections, bacteremia, and endocarditis. While the major pilin subunit in K. kingae T4P is well characterized, the contri...
ORGANISM(S): Bacteria Kingella kingae PYKK081 
2025-10-06 | PXD068177 | Pride
Type iv pili Bacteria 
TranscriptomicsDetection of Pol IV-dependent transcripts at the genomic scale in Arabidopsis reveals features and regulation of siRNA biogenesis
24 nucleotide siRNAs are central players in RNA-directed DNA methylation (RdDM), a process that establishes DNA methylation at transposable elements to ensure genome stability. The plant-specific RNA polymerase IV (Pol IV) is required for siRNA biogenesis and is thought to transcribe RdDM loci to pr...
ORGANISM(S): Arabidopsis thaliana 
2014-11-11 | E-GEOD-57215 | biostudies-arrayexpress
GenomicsDTF1 is a core component of RNA-directed DNA methylation and may assist in the recruitment of Pol IV
DNA methylation is an important epigenetic mark in many eukaryotic organisms. De novo DNA methylation in plants can be achieved by the RNA-directed DNA methylation (RdDM) pathway, where the plant-specific DNA-dependent RNA polymerase Pol IV transcribes target sequences to initiate 24-nt siRNA produ...
ORGANISM(S): Arabidopsis thaliana 
2013-06-03 | E-GEOD-44209 | biostudies-arrayexpress
GenomicsEpigenomic profiles of Brachypodium distachyon mutants deficient in RNA polymerase IV (Pol IV)
Epigenomic profiles of Brachypodium distachyon mutants deficient in RNA polymerase IV (Pol IV)
PRJNA1019624 | ENA
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