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Accession PRJNA907291
Title X-linked deletion of Crossfirre, Firre, and Dxz4 in vivo uncovers diverse phenotypes and combinatorial effects on autosomes
Relevance ModelOrganism
Data types Transcriptome or Gene expression
Sample scope Multiisolate
Organism Mus musculus [Taxonomy ID: 10090]
Description The lncRNA Crossfirre was identified as an imprinted X-linked gene, and is transcribed antisense to the trans-acting lncRNA Firre. The Firre locus forms an inactive-X-specific interaction with Dxz4, both loci providing the platform for the largest conserved chromatin structures. Here, we characterized the epigenetic profile of these loci, revealing them as the most female-specific accessible regions genome-wide. To address their in vivo role, we performed one of the largest X-linked knockout studies by deleting Crossfirre, Firre, and Dxz4 individually and in combination (TKO). Despite their distinct epigenetic features observed on the X chromosome, our allele-specific analysis uncovers these loci as dispensable for imprinted and random X chromosome inactivation. However, we provide evidence that Crossfirre affects autosomal gene regulation but only in combination with Firre. To shed light on the functional role of these sex-specific loci, we performed an extensive standardized phenotyping pipeline and uncovered diverse knockout and sex-specific phenotypes. Collectively, our study provides the foundation for exploring the intricate interplay of conserved X-linked loci in vivo. Overall design: RNA-seq from Crossfirre, Crossfirre-Firre and Crossfirre-Firre-Dxz4 deletion mouse strains (extraembryonic and adult organs). scRNA-seq from heterozygous Crossfirre-Firre-Dxz4 deletion mouse strains (adult spleen). RNA-seq from heterozygous Crossfirre-Firre-Dxz4 deletion mouse strains (adult spleen).
External link
Link description
Organization Andergassen, Institute of Pharmacology and Toxicology, Technical University Munich
Data Source NCBI

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Experiment (49)  show -