| Title |
Epistatic and allelic interactions control expression of ribosomal RNA gene clusters in Arabidopsis thaliana
|
|---|---|
| Published in |
Genome Biology, May 2017
|
| DOI | 10.1186/s13059-017-1209-z |
| Pubmed ID | |
| Authors |
Fernando A. Rabanal, Terezie Mandáková, Luz M. Soto-Jiménez, Robert Greenhalgh, David L. Parrott, Stefan Lutzmayer, Joshua G. Steffen, Viktoria Nizhynska, Richard Mott, Martin A. Lysak, Richard M. Clark, Magnus Nordborg |
| Abstract |
Ribosomal RNA (rRNA) accounts for the majority of the RNA in eukaryotic cells, and is encoded by hundreds to thousands of nearly identical gene copies, only a subset of which are active at any given time. In Arabidopsis thaliana, 45S rRNA genes are found in two large ribosomal DNA (rDNA) clusters and little is known about the contribution of each to the overall transcription pattern in the species. By taking advantage of genome sequencing data from the 1001 Genomes Consortium, we characterize rRNA gene sequence variation within and among accessions. Notably, variation is not restricted to the pre-rRNA sequences removed during processing, but it is also present within the highly conserved ribosomal subunits. Through linkage mapping we assign these variants to a particular rDNA cluster unambiguously and use them as reporters of rDNA cluster-specific expression. We demonstrate that rDNA cluster-usage varies greatly among accessions and that rDNA cluster-specific expression and silencing is controlled via genetic interactions between entire rDNA cluster haplotypes (alleles). We show that rRNA gene cluster expression is controlled via complex epistatic and allelic interactions between rDNA haplotypes that apparently regulate the entire rRNA gene cluster. Furthermore, the sequence polymorphism we discovered implies that the pool of rRNA in a cell may be heterogeneous, which could have functional consequences. |
X Demographics
The data shown below were collected from the profiles of 50 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Austria | 8 | 16% |
| United States | 7 | 14% |
| Germany | 4 | 8% |
| United Kingdom | 4 | 8% |
| China | 2 | 4% |
| Switzerland | 2 | 4% |
| Denmark | 1 | 2% |
| Canada | 1 | 2% |
| Sweden | 1 | 2% |
| Other | 2 | 4% |
| Unknown | 18 | 36% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 26 | 52% |
| Members of the public | 21 | 42% |
| Science communicators (journalists, bloggers, editors) | 3 | 6% |
Mendeley readers
The data shown below were compiled from readership statistics for 57 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United Kingdom | 1 | 2% |
| Mexico | 1 | 2% |
| Unknown | 55 | 96% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 13 | 23% |
| Researcher | 9 | 16% |
| Student > Bachelor | 6 | 11% |
| Student > Master | 5 | 9% |
| Student > Doctoral Student | 4 | 7% |
| Other | 12 | 21% |
| Unknown | 8 | 14% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 29 | 51% |
| Biochemistry, Genetics and Molecular Biology | 15 | 26% |
| Engineering | 2 | 4% |
| Medicine and Dentistry | 2 | 4% |
| Environmental Science | 1 | 2% |
| Other | 1 | 2% |
| Unknown | 7 | 12% |
Attention Score in Context
This research output has an Altmetric Attention Score of 28. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 22 June 2020.
All research outputs
#1,378,715
of 25,382,440 outputs
Outputs from Genome Biology
#1,085
of 4,468 outputs
Outputs of similar age
#26,715
of 324,466 outputs
Outputs of similar age from Genome Biology
#27
of 63 outputs
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