Proteomics

Dataset Information

0

Proximity labeling identifies a repertoire of site-specific R-loop modulators


ABSTRACT: R-loops are three stranded nucleic acid structures that accumulate on chromatin in neurological diseases and cancers and that contribute to genome instability. Using a proximity-dependent labeling system, we identified distinct classes of proteins that regulate R-loops in vivo through different mechanisms. We show that ATRX suppresses R-loops by interacting with RNAs and preventing R-loop formation. Our proteomics screen also discovered an unexpected enrichment for proteins containing zinc fingers and homeodomains at R-loops. One of the most consistently enriched proteins at R-loops was activity-dependent neuroprotective protein (ADNP), which is frequently mutated in ASD and causal in ADNP syndrome. We find that ADNP is necessary to suppress R-loops in vivo at its genomic targets and that it resolves R-loops in vitro. Furthermore, deletion of the homeodomain severely diminishes R-loop resolution activity in vitro, results in R-loop accumulation at ADNP targets and compromises neuronal differentiation. Notably, patient derived human induced pluripotent stem cells that contain an ADNP syndrome-causing mutation exhibit R-loop and CTCF accumulation at ADNP targets. Our findings point to a specific role for ADNP-mediated R-loop resolution in physiological and pathological neuronal function and, more broadly, to a previously unappreciated role for zinc finger and homeodomain proteins in R-loop regulation, with important implications for developmental disorders and cancers.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

SUBMITTER: Kavitha Sarma  

PROVIDER: MSV000087568 | MassIVE | Thu Jun 03 14:01:00 BST 2021

SECONDARY ACCESSION(S): PXD026473

REPOSITORIES: MassIVE

Dataset's files

Source:
Action DRS
Other
Items per page:
1 - 1 of 1

Similar Datasets

2007-10-26 | E-GEOD-4600 | biostudies-arrayexpress
2022-07-05 | GSE139285 | GEO
2006-06-15 | GSE4600 | GEO
2023-09-14 | GSE202723 | GEO
2013-02-28 | E-GEOD-26532 | biostudies-arrayexpress
2013-02-28 | GSE26532 | GEO
2013-01-31 | E-ERAD-112 | biostudies-arrayexpress
| phs001246 | dbGaP
| phs000602 | dbGaP
2019-01-26 | GSE125694 | GEO