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12:29
mRNA Interactome Capture from Plant Protoplasts
Published on: July 28, 2017
Evidence of function for conserved noncoding sequences in Arabidopsis thaliana
Jacob B Spangler1, Sabarinath Subramaniam2, Michael Freeling2
1Department of Genetics & Biochemistry, Clemson University, Clemson, SC 29634, USA.
The New Phytologist
|September 30, 2011
Summary
Whole genome duplication created gene duplicates (α-pairs) and conserved noncoding sequences (CNSs) in Arabidopsis. CNSs may regulate α-pair co-expression and gene expression intensity, aiding adaptation.
Area of Science:
- Evolutionary biology
- Plant genomics
- Gene regulation
Background:
- Whole genome duplication (WGD) provides genetic novelty for adaptation.
- The alpha (α)-event in Arabidopsis thaliana generated duplicate genes (α-pairs) and conserved noncoding sequences (CNSs).
Purpose of the Study:
- To investigate the association between CNSs and α-pair co-functionality at the gene expression level.
- To determine if CNSs play a regulatory role in gene expression following WGD.
Main Methods:
- Correlating CNS counts with α-pair co-expression and expression intensity.
- Analyzing nine diverse Arabidopsis thaliana expression datasets (e.g., aerial tissue, flowers, roots, seeds).
- Examining the influence of gene function, subgene position, and transcription factor binding motifs.
Main Results:
- Evidence suggests a putative regulatory role for CNSs in gene expression.
- CNS association with α-pair co-expression and expression intensity is gene-specific.
- Regulatory roles depend on gene function, location, and transcription factor binding sites.
Conclusions:
- CNSs are implicated in maintaining gene expression patterns after WGD.
- This study offers a framework for understanding CNS function in post-WGD evolution.
- Potential CNS regulatory mechanisms include intron-mediated enhancement and transcriptional regulation.
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Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved DNA...
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