PXD058006-1

PXD058006 is an original dataset announced via ProteomeXchange.

Title	CTCF couples long-range loop extrusion and diffusional mechanism to mediate a diverse Igk repertoire
Description	Dynamic genome folding plays a crucial role in cellular functions, including V(D)J recombination at the immunoglobulin kappa (Igκ) locus for antibody generation. This process involves frequent recombination between Jκ and Vκ gene segments over a 3.2 Mb region in both deletional and inversional orientations. While loop extrusion and diffusion are thought to facilitate Igκ recombination, their cooperative mechanisms remain unclear. Our study demonstrates CTCF as a key regulator coupling loop extrusion and diffusion to enhance Vκ recombination in both orientations across large genomic distances. We show that CTCF's N-terminus promotes long-range loop extrusion important for distal Vκ usage by stabilizing cohesin against Wapl release. Furthermore, CTCF's loop barrier function is essential for inversional Vκ usage via enabling diffusion. In CTCF N-terminus mutants, defects in inversional Vκ joining were not corrected by Wapl depletion alone but improved with targeted dCas9 blockade mimicking the CTCF barrier. These findings reveal that CTCF regulates immune diversity via diverse mechanisms and underscore its versatility in gene regulation.
HostingRepository	PRIDE
AnnounceDate	2025-11-20
AnnouncementXML	Submission_2025-11-20_07:23:27.014.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Liangliang Sun
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: NEWT:10090;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2024-11-18 13:39:37	ID requested
⏵ 1	2025-11-20 07:23:27	announced

Dataset with its publication pending

submitter keyword: Bottom-up proteomics, LC-MS/MS

Liangliang Sun
contact affiliation	Department of Chemistry, Sun's Lab, Michigan State University, USA
contact email	lsun@chemistry.msu.edu
lab head
Liangliang Sun
contact affiliation	Michigan State University
contact email	lsun@chemistry.msu.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD058006
     1. Label: PRIDE project
     2. Name: CTCF couples long-range loop extrusion and diffusional mechanism to mediate a diverse Igk repertoire