The fate of 35S rRNA genes in the allotetraploid grass Brachypodium hybridum
Abstract
Nucleolar dominance (ND) consists of the reversible silencing of 35S/45S rDNA loci inherited from one of the ancestors of an allopolyploid. The molecular mechanisms by which one ancestral rDNA set is selected for silencing remain unclear. We applied a combination of molecular (Southern blot hybridization and reverse-transcription cleaved amplified polymorphic sequence analysis), genomic (analysis of variants) and cytogenetic (fluorescence in situ hybridization) approaches to study the structure, expression and epigenetic landscape of 35S rDNA in an allotetraploid grass that exhibits ND, Brachypodium hybridum (genome composition DDSS), and its putative progenitors, Brachypodium distachyon (DD) and Brachypodium stacei (SS). In progenitor genomes, B. stacei showed a higher intragenomic heterogeneity of rDNA compared with B. distachyon. In all studied accessions of B. hybridum, there was a reduction in the copy number of S homoeologues, which was accompanied by their inactive transcriptional status. The involvement of DNA methylation in CG and CHG contexts in the silencing of the S-genome rDNA loci was revealed. In the B. hybridum allotetraploid, ND is stabilized towards the D-genome units, irrespective of the polyphyletic origin of the species, and does not seem to be influenced by homoeologous 35S rDNA ratios and developmental stage.
- Authors:
-
- Univ. of Silesia in Katowice (Poland)
- Academy of Sciences of the Czech Republic, Brno (Czech Republic)
- Tekirdag Namik Kemal Univ., Tekirdag (Turkey)
- Tekirdag Anatolian High School, Tekirdag (Turkey)
- USDOE Joint Genome Institute (JGI), Berkeley, CA (United States)
- USDOE Joint Genome Institute (JGI), Berkeley, CA (United States); Univ. of California, Berkeley, CA (United States)
- Publication Date:
- Research Org.:
- Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
- Sponsoring Org.:
- USDOE Office of Science (SC), Biological and Environmental Research (BER); Polish National Science Centre (NCN); Czech Science Foundation
- OSTI Identifier:
- 1713233
- Grant/Contract Number:
- AC02-05CH11231; 2018/31/B/NZ3/01761; 2018/02/X/NZ3/03518; 20-14133J
- Resource Type:
- Accepted Manuscript
- Journal Name:
- The Plant Journal
- Additional Journal Information:
- Journal Volume: 103; Journal Issue: 5; Journal ID: ISSN 0960-7412
- Publisher:
- Society for Experimental Biology
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; 35S rDNA evolution; 35S rRNA gene expression; allopolyploidy; Bracypodium hybridum; nucleolar dominance
Citation Formats
Borowska-Zuchowska, Natalia, Kovarik, Ales, Robaszkiewicz, Ewa, Tuna, Metin, Tuna, Gulsemin Savas, Gordon, Sean, Vogel, John P, and Hasterok, Robert. The fate of 35S rRNA genes in the allotetraploid grass Brachypodium hybridum. United States: N. p., 2020.
Web. doi:10.1111/tpj.14869.
Borowska-Zuchowska, Natalia, Kovarik, Ales, Robaszkiewicz, Ewa, Tuna, Metin, Tuna, Gulsemin Savas, Gordon, Sean, Vogel, John P, & Hasterok, Robert. The fate of 35S rRNA genes in the allotetraploid grass Brachypodium hybridum. United States. https://doi.org/10.1111/tpj.14869
Borowska-Zuchowska, Natalia, Kovarik, Ales, Robaszkiewicz, Ewa, Tuna, Metin, Tuna, Gulsemin Savas, Gordon, Sean, Vogel, John P, and Hasterok, Robert. Fri .
"The fate of 35S rRNA genes in the allotetraploid grass Brachypodium hybridum". United States. https://doi.org/10.1111/tpj.14869. https://www.osti.gov/servlets/purl/1713233.
@article{osti_1713233,
title = {The fate of 35S rRNA genes in the allotetraploid grass Brachypodium hybridum},
author = {Borowska-Zuchowska, Natalia and Kovarik, Ales and Robaszkiewicz, Ewa and Tuna, Metin and Tuna, Gulsemin Savas and Gordon, Sean and Vogel, John P and Hasterok, Robert},
abstractNote = {Nucleolar dominance (ND) consists of the reversible silencing of 35S/45S rDNA loci inherited from one of the ancestors of an allopolyploid. The molecular mechanisms by which one ancestral rDNA set is selected for silencing remain unclear. We applied a combination of molecular (Southern blot hybridization and reverse-transcription cleaved amplified polymorphic sequence analysis), genomic (analysis of variants) and cytogenetic (fluorescence in situ hybridization) approaches to study the structure, expression and epigenetic landscape of 35S rDNA in an allotetraploid grass that exhibits ND, Brachypodium hybridum (genome composition DDSS), and its putative progenitors, Brachypodium distachyon (DD) and Brachypodium stacei (SS). In progenitor genomes, B. stacei showed a higher intragenomic heterogeneity of rDNA compared with B. distachyon. In all studied accessions of B. hybridum, there was a reduction in the copy number of S homoeologues, which was accompanied by their inactive transcriptional status. The involvement of DNA methylation in CG and CHG contexts in the silencing of the S-genome rDNA loci was revealed. In the B. hybridum allotetraploid, ND is stabilized towards the D-genome units, irrespective of the polyphyletic origin of the species, and does not seem to be influenced by homoeologous 35S rDNA ratios and developmental stage.},
doi = {10.1111/tpj.14869},
journal = {The Plant Journal},
number = 5,
volume = 103,
place = {United States},
year = {Fri Jul 03 00:00:00 EDT 2020},
month = {Fri Jul 03 00:00:00 EDT 2020}
}
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