Exploring the relationship between intron retention and chromatin accessibility in plants
Intron retention (IR) is the most prevalent form of alternative splicing in plants. IR, like other forms of alternative splicing, has an important role in increasing gene product diversity and regulating transcript functionality. Splicing is known to occur co-transcriptionally and is influenced by the speed of transcription which in turn, is affected by chromatin structure. It follows that chromatin structure may have an important role in the regulation of splicing, and there is preliminary evidence in metazoans to suggest that this is indeed the case; however, nothing is known about the role of chromatin structure in regulating IR in plants. DNase I-seq is a useful experimental tool for genome-wide interrogation of chromatin accessibility, providing information on regions of chromatin with very high likelihood of cleavage by the enzyme DNase I, known as DNase I Hypersensitive Sites (DHSs). While it is well-established that promoter regions are highly accessible and are over-represented with DHSs, not much is known about DHSs in the bodies of genes, and their relationship to splicing in general, and IR in particular.
- Research Organization:
- Colorado State Univ., Fort Collins, CO (United States)
- Sponsoring Organization:
- USDOE Office of Science (SC), Biological and Environmental Research (BER)
- Grant/Contract Number:
- SC0010733
- OSTI ID:
- 1618555
- Alternate ID(s):
- OSTI ID: 1504903
- Journal Information:
- BMC Genomics, Journal Name: BMC Genomics Vol. 19 Journal Issue: 1; ISSN 1471-2164
- Publisher:
- Springer Science + Business MediaCopyright Statement
- Country of Publication:
- United Kingdom
- Language:
- English
Web of Science
The changing paradigm of intron retention: regulation, ramifications and recipes
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journal | November 2019 |
Alternative Splicing and Protein Diversity: Plants Versus Animals
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journal | June 2019 |
Understanding epigenomics based on the rice model
|
journal | January 2020 |
Does co-transcriptional regulation of alternative splicing mediate plant stress responses?
|
journal | February 2019 |
The Temperature-Dependent Retention of Introns in GPI8 Transcripts Contributes to a Drooping and Fragile Shoot Phenotype in Rice
|
journal | December 2019 |
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