Nucleolar dominance: a model for rRNA gene silencing
Open accessAbstract
Research over the last decade has demonstrated that the regulated packaging of DNA into chromatin is fundamental to keeping genes in an active/open or a more condensed/inactive conformation. Nucleosomes, the basic repeating unit of chromatin, contain two molecules each of canonical histones, H2A, H2B, H3, and H4. These are organized as an H3–H4 tetramer associated with two H2A–H2B dimers. The NH2 termini of histones protrude from the nucleosome, and are the target for a wide array of covalent modifications including acetylation, methylation, and phosphorylation. These modifications are applied and removed in a highly specific manner to generate what has been described as the histone code (Jenuwein and Allis 2001). This code is, in turn, read by chromatin-associated factors. For example, individual acetylated lysine residues are recognized by factors with bromodomains and methylated lysines by chromodomain-containing proteins. Additionally, the action of ATP-dependent chromatin remodeling activities can displace nucleosomes altering the accessibility of DNA within chromatin templates (Flaus and OwenHughes 2001). While most of this work has focused on protein-encoding genes transcribed by RNA polymerase II, more recent studies, including one by Earley et al. (2006) in this issue of Genes & Development, are aimed at elucidating the role that chromatin plays in determining the activity status of the genes that encode ribosomal RNAs (rRNAs). Eukaryotic genomes contain many rRNA gene copies, ranging from hundreds to thousands in some plants, organized in tandem arrays. rRNA genes are transcribed by RNA polymerase I (Pol I) into a precursor RNA (prerRNA) that encodes the three largest RNA components of ribosomes. Pre-rRNA coding sequences are separated by intergenic spacers (IGS) that can range in size from 3 kb in yeast to 30 kb in mammals. Pre-rRNA synthesis is regulated by elements including promoters, transcriptional enhancers, and terminators that are located within the IGS (Grummt 1999). Transcription of rRNA gene arrays results in formation of a nucleolus; consequently, they are termed nucleolar organizer regions (NORs). Importantly, not all NORs are transcriptionally active. Species with multiple NORs can vary the active proportion. Pre-rRNA is matured into 18S, 5.8S, and 28S rRNA by a precisely ordered series of events that includes both cleavages and targeted base modifications. These are required to ensure correct folding of rRNAs for ribosome assembly and function. These multiple steps in ribosome biogenesis require a bewildering array of proteins and small nucleolar RNAs that converge on transcriptionally active NORs, forming such a high concentration of ribonucleoprotein complexes that nucleoli are the most prominent feature of the eukaryotic nucleus. The electron micrographs of Miller and Beatty (1969) demonstrated that the coding regions of active repeats are fully loaded with Pol I. rRNA gene transcription accounts for ∼50% of nascent RNA synthesis in a cell. This high density of transcription and the recent demonstration that it is tightly coupled to pre-rRNA processing (Granneman and Baserga 2004) argues that rRNA gene chromatin needs to be especially accessible. As cells approach metaphase, Pol I transcription is actively shut down and the nucleolus disappears. It is at this point that the specialized nature of active rRNA gene chromatin is most dramatically revealed by the appearance of NORs as secondary constrictions on metaphase chromosomes (McClintock 1934).
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Repression of a fraction of rRNA genes can maintain an optimal level of ribosome production regardless of the rDNA copy number in the genome.
“First, this phenomenon can be useful to maintain an optimal level of ribosome production regardless of the rDNA copy number in the genome (21).”
From Impaired function of rDNA transcription initiation machinery leads to derepression of ribosomal genes with insertions of R2 retrotransposon (2022) · cites this paper as [21]
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Cites
Jenuwein, T., & Allis, C. D. (2001) · Science · doi:10.1126/science.1063127 · Cited by 9,756 · see citing works
Visualization of nucleolar organizer regions in mammalian chromosomes using silver staining
Goodpasture, C., & Bloom, S. E. (1975) · Chromosoma · doi:10.1007/bf00329389 · Cited by 1,123 · see citing works
Visualization of nucleolar genes
Miller, O. L., & Beatty, B. R. (1969) · Science · doi:10.1126/science.164.3882.955 · Cited by 876 · see citing works
Pandey, R. (2002) · Nucleic Acids Research · doi:10.1093/nar/gkf660 · Cited by 783 · see citing works
The relation of a particular chromosomal element to the development of the nucleoli in Zea mays
McClintock, B. (1934) · Cell and Tissue Research · doi:10.1007/bf00374060 · Cited by 662 · see citing works
Life on a planet of its own: Regulation of RNA polymerase I transcription in the nucleolus
Grummt, I. (2003) · Genes & Development · doi:10.1101/gad.1098503r · Cited by 540 · see citing works
Santoro, R., Li, J., & Grummt, I. (2002) · Nature Genetics · doi:10.1038/ng1010 · Cited by 406 · see citing works
Two different chromatin structures coexist in ribosomal RNA genes throughout the cell cycle
Conconi, A., Widmer, R. M., Koller, T., & Sogo, J. (1989) · Cell · doi:10.1016/0092-8674(89)90790-3 · Cited by 390 · see citing works
Chen, Z. J., & Pikaard, C. S. (1997) · Genes & Development · doi:10.1101/gad.11.16.2124 · Cited by 375 · see citing works
Saitoh, Y., & Laemmli, U. K. (1994) · Cell · doi:10.1016/0092-8674(94)90502-9 · Cited by 370 · see citing works
Lawrence, R. J., Earley, K. W., Pontes, O., Silva, M., Chen, Z. J., Neves, N., Viegas, W. S., & Pikaard, C. S. (2004) · Molecular Cell · doi:10.1016/s1097-2765(04)00064-4 · Cited by 343 · see citing works
Navashin, M. S. (1934) · CYTOLOGIA · doi:10.1508/cytologia.5.169 · Cited by 331 · see citing works
NoRC—a novel member of mammalian ISWI‐containing chromatin remodeling machines
Strohner, R., Németh, A., Jansa, P., Hofmann‐Rohrer, U., Santoro, R., Längst, G., & Grummt, I. (2001) · The EMBO Journal · doi:10.1093/emboj/20.17.4892 · Cited by 308 · see citing works
Mylne, J. S., Barrett, L., Tessadori, F., Mesnage, S., Johnson, L. M., Bernatavichute, Y. V., Jacobsen, S. E., Fransz, P. F., & Dean, C. (2006) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0507427103 · Cited by 304 · see citing works
RNA-polymerase-I-directed rDNA transcription, life and works
Russell, J., & Zomerdijk, J. C. B. M. (2005) · Trends in Biochemical Sciences · doi:10.1016/j.tibs.2004.12.008 · Cited by 291 · see citing works
Roussel, P., André, C., Comai, L., & Hernandez-Verdun, D. (1996) · The Journal of Cell Biology · doi:10.1083/jcb.133.2.235 · Cited by 268 · see citing works
Probst, A. V., Fagard, M., Proux, F., Mourrain, P., Boutet‐Mercey, S., Earley, K. W., Lawrence, R. J., Pikaard, C. S., Murfett, J., Furner, I. J., et al. (2004) · The Plant Cell · doi:10.1105/tpc.018754 · Cited by 262 · see citing works
Molecular Mechanisms Mediating Methylation-Dependent Silencing of Ribosomal Gene Transcription
Santoro, R., & Grummt, I. (2001) · Molecular Cell · doi:10.1016/s1097-2765(01)00317-3 · Cited by 254 · see citing works
Chen, Z. J., & Pikaard, C. S. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.7.3442 · Cited by 249 · see citing works
Earley, K. W., Lawrence, R. J., Pontes, O., Reuther, R. A., Enciso, A. J., Silva, M., Neves, N., Gross, M. L., Viegas, W. S., & Pikaard, C. S. (2006) · Genes & Development · doi:10.1101/gad.1417706 · Cited by 240 · see citing works
Regulation of Mammalian Ribosomal Gene Transcription by RNA Polymerase I
Grummt, I. (1998) · Progress in nucleic acid research and molecular biology · doi:10.1016/s0079-6603(08)60506-1 · Cited by 237 · see citing works
Identification of Maize Histone Deacetylase HD2 as an Acidic Nucleolar Phosphoprotein
Lusser, A., Brosch, G., Loidl, A., Haas, H., & Loidl, P. (1997) · Science · doi:10.1126/science.277.5322.88 · Cited by 233 · see citing works
Ribosome biogenesis: of knobs and RNA processing
Granneman, S. (2004) · Experimental Cell Research · doi:10.1016/j.yexcr.2004.03.016 · Cited by 232 · see citing works
Chen, Z. J., Comai, L., & Pikaard, C. S. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.25.14891 · Cited by 217 · see citing works
Santoro, R., & Grummt, I. (2005) · Molecular and Cellular Biology · doi:10.1128/mcb.25.7.2539-2546.2005 · Cited by 188 · see citing works
The epigenetics of nucleolar dominance
Pikaard, C. S. (2000) · Trends in Genetics · doi:10.1016/s0168-9525(00)02113-2 · Cited by 181 · see citing works
Localization of the RNA polymerase I transcription factor hUBF during the cell cycle
Roussel, P., André, C., Masson, C., Géraud, G., & Hernandez‐Verdun, D. (1993) · Journal of Cell Science · doi:10.1242/jcs.104.2.327 · Cited by 180 · see citing works
UBF-binding site arrays form pseudo-NORs and sequester the RNA polymerase I transcription machineryPreprint
Mais, C., Wright, J. E., Prieto, J.-L., Raggett, S. L., & McStay, B. (2004) · Genes & Development · doi:10.1101/gad.310705 · Cited by 179 · see citing works
Self-citationClaypool, J. A., French, S. L., Johzuka, K., Eliason, K., Vũ, L., Dodd, J. A., Beyer, A. L., & Nomura, M. (2003) · Molecular Biology of the Cell · doi:10.1091/mbc.e03-08-0594 · Cited by 171 · see citing works
Mechanisms for ATP-dependent chromatin remodelling
Flaus, A., & Owen‐Hughes, T. (2001) · Current Opinion in Genetics & Development · doi:10.1016/s0959-437x(00)00172-6 · Cited by 164 · see citing works
Mechanisms of nucleolar dominance in animals and plants.
Reeder, R. H. (1985) · The Journal of Cell Biology · doi:10.1083/jcb.101.5.2013 · Cited by 144 · see citing works
Honjo, T., & Reeder, R. H. (1973) · Journal of Molecular Biology · doi:10.1016/0022-2836(73)90168-x · Cited by 141 · see citing works
Dammann, R., Lucchini, R., Koller, T., & Sogo, J. M. (1995) · Molecular and Cellular Biology · doi:10.1128/mcb.15.10.5294 · Cited by 137 · see citing works
Zhou, Y., & Grummt, I. (2005) · Current Biology · doi:10.1016/j.cub.2005.06.057 · Cited by 135 · see citing works
Längst, G., Blank, T. A., Becker, P. B., & Grummt, I. (1997) · The EMBO Journal · doi:10.1093/emboj/16.4.760 · Cited by 109 · see citing works
Croce, C. M., Talavera, A., Basilico, C., & Miller, O. J. (1977) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.74.2.694 · Cited by 107 · see citing works
The chromatin remodeling complex NoRC controls replication timing of rRNA genes
Li, J., Santoro, R., Koberna, K., & Grummt, I. (2004) · The EMBO Journal · doi:10.1038/sj.emboj.7600492 · Cited by 103 · see citing works
Strohner, R., Németh, A., Nightingale, K., Grummt, I., Becker, P., & Längst, G. (2004) · Molecular and Cellular Biology · doi:10.1128/mcb.24.4.1791-1798.2004 · Cited by 94 · see citing works
EVALUATING QUANTITATIVE VARIATION IN THE GENOME OF ZEA MAYS
Rivin, C. J., Cullis, C. A., & Walbot, V. (1986) · Genetics · doi:10.1093/genetics/113.4.1009 · Cited by 94 · see citing works
Evers, R., Smid, A., Rudloff, U., Lottspeich, F., & Grummt, I. (1995) · The EMBO Journal · doi:10.1002/j.1460-2075.1995.tb07108.x · Cited by 78 · see citing works
Héliot, L., Kaplan, H., Lucas, L., Klein, C., Beorchia, A., Doco‐Fenzy, M., Menager, M., Thiry, M., O’Donohue, M.-F., & Ploton, D. (1997) · Molecular Biology of the Cell · doi:10.1091/mbc.8.11.2199 · Cited by 77 · see citing works
Studies on the ribosomal RNA cistrons in interspecific Drosophila hybrids
Durica, D. S., & Krider, H. M. (1977) · Developmental Biology · doi:10.1016/0012-1606(77)90240-8 · Cited by 69 · see citing works
Species specificity of transcription by RNA polymerase I
Heix, J., & Grummt, I. (1995) · Current Opinion in Genetics & Development · doi:10.1016/0959-437x(95)80035-2 · Cited by 66 · see citing works
Robert‐Fortel, I., Jun�ra, H. R., G�raud, G., & Hernandez-Verdun, D. (1993) · Chromosoma · doi:10.1007/bf00387729 · Cited by 56 · see citing works
Caperta, A. D., Neves, N., Morais–Cecílio, L., Malhó, R., & Viegas, W. S. (2002) · Journal of Cell Science · doi:10.1242/jcs.115.14.2839 · Cited by 54 · see citing works
Stancheva, I., Lucchini, R., Koller, T., & Sogo, J. M. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.9.1727 · Cited by 51 · see citing works
Muscarella, D. E., Vogt, V. M., & Bloom, S. E. (1985) · The Journal of Cell Biology · doi:10.1083/jcb.101.5.1749 · Cited by 42 · see citing works
Suja, J. A., Gébrane‐Younès, J., Géraud, G., & Hernandez‐Verdun, D. (1997) · Chromosoma · doi:10.1007/bf02510483 · Cited by 24 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
Boisvert, F., van Koningsbruggen, S., Navascués, J., & Lamond, A. (2007) · Nature reviews. Molecular cell biology · doi:10.1038/nrm2184 · Cited by 1,581 · see citing works
Biogenesis and function of nuclear bodies
Mao, Y. S., Zhang, B., & Spector, D. L. (2011) · Trends in Genetics · doi:10.1016/j.tig.2011.05.006 · Cited by 707 · see citing works
The Epigenetics of rRNA Genes: From Molecular to Chromosome Biology
McStay, B., & Grummt, I. (2008) · Annual Review of Cell and Developmental Biology · doi:10.1146/annurev.cellbio.24.110707.175259 · Cited by 527 · see citing works
Self-citationEpigenetic control of rDNA loci in response to intracellular energy status
Murayama, A., Ohmori, K., Fujimura, A., Minami, H., Yasuzawa-Tanaka, K., Kuroda, T., Oie, S., Daitoku, H., Okuwaki, M., Nagata, K., et al. (2008) · Cell · doi:10.1016/j.cell.2008.03.030 · Cited by 394 · see citing works
SLERT Regulates DDX21 Rings Associated with Pol I Transcription
Xing, Y., Yao, R.-W., Zhang, Y., Guo, C., Jiang, S., Xu, G., Dong, R., Yang, L. C., & Chen, L. (2017) · Cell · doi:10.1016/j.cell.2017.04.011 · Cited by 280 · see citing works
Nucleolar organizer regions: genomic ‘dark matter’ requiring illuminationPreprint
McStay, B. (2016) · Genes & Development · doi:10.1101/gad.283838.116 · Cited by 256 · see citing works
Self-citationGuetg, C., Lienemann, P., Sirri, V., Grummt, I., Hernandez‐Verdun, D., Hottiger, M. O., Fussenegger, M., & Santoro, R. (2010) · The EMBO Journal · doi:10.1038/emboj.2010.17 · Cited by 184 · see citing works
Earley, K. W., Pontvianne, F., Wierzbicki, A. T., Blevins, T., Tucker, S., Costa‐Nunes, P., Pontes, O., & Pikaard, C. S. (2010) · Genes & Development · doi:10.1101/gad.1914110 · Cited by 161 · see citing works
Preuss, S. B., Costa‐Nunes, P., Tucker, S., Pontes, O., Lawrence, R. J., Mosher, R. A., Kasschau, K. D., Carrington, J. C., Baulcombe, D. C., Viegas, W. S., et al. (2008) · Molecular Cell · doi:10.1016/j.molcel.2008.11.009 · Cited by 151 · see citing works
Preuss, S. B., & Pikaard, C. S. (2007) · Biochimica et Biophysica Acta (BBA) - Gene Structure and Expression · doi:10.1016/j.bbaexp.2007.02.005 · Cited by 150 · see citing works
Chapter 4 Replication and Partitioning of Papillomavirus Genomes
McBride, A. A. (2008) · Advances in virus research · doi:10.1016/s0065-3527(08)00404-1 · Cited by 141 · see citing works
Espada, J., Ballestar, E., Santoro, R., Fraga, M. F., Villar‐Garea, A., Németh, A., Lopez-Serra, L., Ropero, S., Aranda, A., Orozco, H., et al. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkm118 · Cited by 134 · see citing works
FACT facilitates chromatin transcription by RNA polymerases I and III
Birch, J. L., Tan, B. C., Panov, K. I., Panova, T. B., Andersen, J., Owen‐Hughes, T., Russell, J., Lee, S.-C., & Zomerdijk, J. C. B. M. (2009) · The EMBO Journal · doi:10.1038/emboj.2009.33 · Cited by 125 · see citing works
Mechanisms of rDNA Copy Number Maintenance
Nelson, J. O., Watase, G. J., Warsinger-Pepe, N., & Yamashita, Y. M. (2019) · Trends in Genetics · doi:10.1016/j.tig.2019.07.006 · Cited by 115 · see citing works
Nucleolar dominance and ribosomal RNA gene silencing
Tucker, S., Vitins, A. P., & Pikaard, C. S. (2010) · Current Opinion in Cell Biology · doi:10.1016/j.ceb.2010.03.009 · Cited by 114 · see citing works
NoRC‐dependent nucleosome positioning silences rRNA genes
Li, J., Längst, G., & Grummt, I. (2006) · The EMBO Journal · doi:10.1038/sj.emboj.7601454 · Cited by 109 · see citing works
Histone methyltransferases regulating rRNA gene dose and dosage control in ArabidopsisPreprint
Pontvianne, F., Blevins, T., Chandrasekhara, C., Feng, W., Stroud, H., Jacobsen, S. E., Michaels, S. D., & Pikaard, C. S. (2012) · Genes & Development · doi:10.1101/gad.182865.111 · Cited by 94 · see citing works
Asymmetric Epigenetic Modification and Elimination of rDNA Sequences by Polyploidization in Wheat
Guo, X., & Han, F. (2014) · The Plant Cell · doi:10.1105/tpc.114.129841 · Cited by 91 · see citing works
The epigenetic pathways to ribosomal DNA silencing
Srivastava, R., Srivastava, R., & Ahn, S. H. (2016) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00005-16 · Cited by 90 · see citing works
Huang, J., Ma, L., Yang, F., Fei, S., & Li, L. (2008) · PLoS ONE · doi:10.1371/journal.pone.0002167 · Cited by 90 · see citing works
Postembryonic Establishment of Megabase-Scale Gene Silencing in Nucleolar Dominance
Pontes, O., Lawrence, R. J., Silva, M., Preuss, S. B., Costa‐Nunes, P., Earley, K. W., Neves, N., Viegas, W. S., & Pikaard, C. S. (2007) · PLoS ONE · doi:10.1371/journal.pone.0001157 · Cited by 87 · see citing works
Chromatin: linking structure and function in the nucleolus
McKeown, P. C., & Shaw, P. (2008) · Chromosoma · doi:10.1007/s00412-008-0184-2 · Cited by 85 · see citing works
Grummt, I. (2007) · Human Molecular Genetics · doi:10.1093/hmg/ddm020 · Cited by 85 · see citing works
Li, C., Mueller, J. E., & Bryk, M. (2006) · Molecular Biology of the Cell · doi:10.1091/mbc.e06-03-0205 · Cited by 85 · see citing works
Regulation of Pol I-Transcribed 45S rDNA and Pol III-Transcribed 5S rDNA in Arabidopsis
Layat, E., Sáez‐Vasquez, J., & Tourmente, S. (2011) · Plant and Cell Physiology · doi:10.1093/pcp/pcr177 · Cited by 78 · see citing works
Transgenerational dynamics of rDNA copy number in drosophila male germline stem cells
Lu, K. L., Nelson, J. O., Watase, G. J., Warsinger-Pepe, N., & Yamashita, Y. M. (2018) · eLife · doi:10.7554/elife.32421 · Cited by 77 · see citing works
“3 incorporation) (Chandrasekhara et al., 2016; Greil and Ahmad, 2012; Lawrence and Pikaard, 2004; McStay, 2006; McStay and Grummt, 2008).”
Structure and function of ribosomal RNA gene chromatin
Birch, J. L., & Zomerdijk, J. C. B. M. (2008) · Biochemical Society Transactions · doi:10.1042/bst0360619 · Cited by 68 · see citing works
Functional ultrastructure of the plant nucleolus
Stępiński, D. (2014) · PROTOPLASMA · doi:10.1007/s00709-014-0648-6 · Cited by 67 · see citing works
Mouse Ribosomal RNA Genes Contain Multiple Differentially Regulated Variants
Tseng, H., Chou, W., Wang, J., Zhang, X., Zhang, S., & Schultz, R. M. (2008) · PLoS ONE · doi:10.1371/journal.pone.0001843 · Cited by 66 · see citing works
Processing and roles of snoRNA-ended long noncoding RNAs
Xing, Y., & Chen, L. (2018) · Critical Reviews in Biochemistry and Molecular Biology · doi:10.1080/10409238.2018.1508411 · Cited by 60 · see citing works
Sterility and Gene Expression in Hybrid Males of Xenopus laevis and X. muelleri
Malone, J. H., Chrzanowski, T. H., & Michalak, P. (2007) · PLoS ONE · doi:10.1371/journal.pone.0000781 · Cited by 58 · see citing works
Epigenetic Regulation of Retrotransposons within the Nucleolus of <i>Drosophila</i>
Eickbush, D. G., Ye, J., Zhang, X., Burke, W. D., & Eickbush, T. H. (2008) · Molecular and Cellular Biology · doi:10.1128/mcb.01015-08 · Cited by 55 · see citing works
The Functions of Non-coding RNAs in rRNA Regulation
Yan, Q., Zhu, C., Guang, S., & Feng, X. (2019) · Frontiers in Genetics · doi:10.3389/fgene.2019.00290 · Cited by 49 · see citing works
Poddar, A., Reed, S. C. O., McPhillips, M. G., Spindler, J., & McBride, A. A. (2008) · Journal of Virology · doi:10.1128/jvi.01936-08 · Cited by 49 · see citing works
BEND3 represses rDNA transcription by stabilizing a NoRC component via USP21 deubiquitinase
Khan, A. A., Giri, S., Wang, Y., Chakraborty, A., Ghosh, A. K., Anantharaman, A., Aggarwal, V., Sathyan, K. M., Ha, T., Prasanth, K. V., et al. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1424705112 · Cited by 46 · see citing works
Interaction of the Betapapillomavirus E2 Tethering Protein with Mitotic Chromosomes
Sekhar, V., Reed, S. C. O., & McBride, A. A. (2009) · Journal of Virology · doi:10.1128/jvi.01908-09 · Cited by 43 · see citing works
Nucleolar Dominance of the Y Chromosome in Drosophila melanogaster
Greil, F., & Ahmad, K. (2012) · Genetics · doi:10.1534/genetics.112.141242 · Cited by 39 · see citing works
Genome Organization and Function: A View from Yeast and Arabidopsis
Sáez‐Vasquez, J., & Gadal, O. (2010) · Molecular Plant · doi:10.1093/mp/ssq034 · Cited by 36 · see citing works
Sequence and epigenetic landscapes of active and silent nucleolus organizer regions in Arabidopsis
Fultz, D., McKinlay, A., Enganti, R., & Pikaard, C. S. (2023) · Science Advances · doi:10.1126/sciadv.adj4509 · Cited by 33 · see citing works
Cytogenetic evidence of nucleolar dominance in allotetraploid species ofBrachypodium
Idziak-Helmcke, D., & Hasterok, R. (2008) · Genome · doi:10.1139/g08-017 · Cited by 31 · see citing works
Differential rRNA Genes Expression in Hexaploid Wheat Related to NOR Methylation
Carvalho, A., Polanco, C., Lima-Brito, J. E., & Guedes‐Pinto, H. (2010) · Plant Molecular Biology Reporter · doi:10.1007/s11105-009-0165-5 · Cited by 31 · see citing works
Liu, S., Zheng, J., Migeon, P., Ren, J., Hu, Y., He, C., Liu, H.-J., Fu, J.-J., White, F., Toomajian, C., et al. (2016) · Scientific Reports · doi:10.1038/srep42444 · Cited by 24 · see citing works
Epigenetic Engineering of Ribosomal RNA Genes Enhances Protein Production
Santoro, R., Lienemann, P. S., & Fussenegger, M. (2009) · PLoS ONE · doi:10.1371/journal.pone.0006653 · Cited by 27 · see citing works
H3K9 Demethylation-Induced R-Loop Accumulation Is Linked to Disorganized Nucleoli
Zhou, H. W., Li, L., Wang, Q., Hu, Y., Zhao, W., Gautam, M., & Li, L. (2020) · Frontiers in Genetics · doi:10.3389/fgene.2020.00043 · Cited by 25 · see citing works
Handa, H., Kanamori, H., Tanaka, T., Murata, K., Kobayashi, F., Robinson, S. J., Koh, C., Pozniak, C. J., Sharpe, A., Paux, E., et al. (2018) · The Plant Journal · doi:10.1111/tpj.14094 · Cited by 24 · see citing works
Functional repetitive sequences and fragile sites in chromosomes of Lolium perenne L.
Rocha, L. C., Bustamante, F. D. O., Silveira, R. A. D., Torres, G. A., Mittelmann, A., & Techio, V. H. (2014) · PROTOPLASMA · doi:10.1007/s00709-014-0690-4 · Cited by 23 · see citing works
Costa‐Nunes, P., Pontes, O., Preuss, S. B., & Pikaard, C. S. (2010) · Nucleus · doi:10.4161/nucl.1.3.11741 · Cited by 23 · see citing works
Xiao, J., Hu, F., Luo, K., Li, W., & Liu, S. (2016) · BMC Genetics · doi:10.1186/s12863-016-0457-3 · Cited by 21 · see citing works
Origins of Novel Phenotypic Variation in Polyploids
Finigan, P., Tanurdžić, M., & Martienssen, R. A. (2012) · Springer eBooks · doi:10.1007/978-3-642-31442-1_4 · Cited by 22 · see citing works
Hashimoto, D. T., Laudicina, A., Bortolozzi, J., Foresti, F., & Porto‐Foresti, F. (2009) · Genetica · doi:10.1007/s10709-009-9366-y · Cited by 17 · see citing works
Borowska-Żuchowska, N., & Hasterok, R. (2017) · Scientific Reports · doi:10.1038/s41598-017-05413-x · Cited by 17 · see citing works
Costa‐Nunes, P., Pontes, O., Preuss, S. B., & Pikaard, C. S. (2010) · Nucleus · doi:10.4161/nucl.11741 · Cited by 17 · see citing works
Fefelova, E. A., Pleshakova, I. M., Mikhaleva, E. A., Pirogov, S. A., Poltorachenko, V. A., Abramov, Y. A., Romashin, D. D., Shatskikh, A. S., Blokh, R. S., Gvozdev, V. A., et al. (2022) · Nucleic Acids Research · doi:10.1093/nar/gkab1276 · Cited by 15 · see citing works
RNA Silencing Systems and Their Relevance to Allele-Specific DNA Methylation in Plants
Shiba, H., & Takayama, S. (2007) · Bioscience Biotechnology and Biochemistry · doi:10.1271/bbb.70339 · Cited by 15 · see citing works
Cao, L., Qin, Q., Xiao, Q., Yin, H., Wen, J., Liu, Q., Huang, X., Huo, Y., Tao, M., Zhang, C., et al. (2018) · Frontiers in Genetics · doi:10.3389/fgene.2018.00386 · Cited by 13 · see citing works
Reaching for the off switch in nucleolar dominance
Pikaard, C. S., Chandrasekhara, C., McKinlay, A., Enganti, R., & Fultz, D. (2023) · The Plant Journal · doi:10.1111/tpj.16318 · Cited by 13 · see citing works
Kotov, A. A., Bazylev, S. S., Adashev, V. E., Shatskikh, A. S., & Olenina, L. V. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms23084184 · Cited by 12 · see citing works
Plata, M. P., Kang, H. J., Zhang, S., Kuruganti, S., Hsu, S.-J., & Labrador, M. (2009) · Chromosoma · doi:10.1007/s00412-008-0198-9 · Cited by 12 · see citing works
Long, H., Chen, C., Wang, B., & Feng, Y. (2015) · PLoS ONE · doi:10.1371/journal.pone.0117198 · Cited by 11 · see citing works
Singh, M. K., & Barman, A. S. (2012) · Molecular Biology Reports · doi:10.1007/s11033-012-2112-z · Cited by 10 · see citing works
Structural and functional features of the 5-methylcytosine distribution in the eukaryotic genome
Dyachenko, O. V., Шевчук, Т. В., & Buryanov, Y. I. (2010) · Molecular Biology · doi:10.1134/s0026893310020019 · Cited by 10 · see citing works
McKeown, P. C., & Spillane, C. (2014) · Methods in molecular biology · doi:10.1007/978-1-62703-773-0_1 · Cited by 10 · see citing works
Dynamic nucleolar activity in wheat × Aegilops hybrids: evidence of C-genome dominance
Mirzaghaderi, G., Abdolmalaki, Z., Zohouri, M., Moradi, Z., & Mason, A. S. (2017) · Plant Cell Reports · doi:10.1007/s00299-017-2152-x · Cited by 9 · see citing works
Under the magnifying glass: The ups and downs of rDNA copy number
Kindelay, S. M., & Maggert, K. A. (2022) · Seminars in Cell and Developmental Biology · doi:10.1016/j.semcdb.2022.05.006 · Cited by 10 · see citing works
Meiotic analysis and FISH with rDNA and rice BAC probes of the Thai KPS 01-01-25 sugarcane cultivar
Thumjamras, S., Iamtham, S., Prammanee, S., & de Jong, H. (2015) · Plant Systematics and Evolution · doi:10.1007/s00606-015-1264-4 · Cited by 9 · see citing works
McKinlay, A., Fultz, D., Wang, F., & Pikaard, C. S. (2021) · Frontiers in Plant Science · doi:10.3389/fpls.2021.656049 · Cited by 8 · see citing works
Nucleolar Dominance and DNA Methylation Directed by Small Interfering RNA
Finigan, P., & Martienssen, R. A. (2008) · Molecular Cell · doi:10.1016/j.molcel.2008.12.006 · Cited by 7 · see citing works
Lin, S., Rajan, S., Lemberg, S., Altawil, M., Anderson, K., Bryant, R., Cappeta, S., Chin, B., Hamdan, I., Hamer, A., et al. (2022) · Genetics · doi:10.1093/genetics/iyac070 · Cited by 7 · see citing works
Chromatin dynamics inTriturus cristatusoogenesis: an epigenetic approach
Burlibaşa, L., Zărnescu, O., Cucu, N., & Gavrilă, L. (2008) · Zygote · doi:10.1017/s0967199408004863 · Cited by 7 · see citing works
Hao, Q., Liu, M., Daulatabad, S. V., Gaffari, S., Srivastava, R., Song, Y. J., Bhaskar, S., Moitra, A., Mangan, H., Tseng, E., et al. (2024) · eLife · doi:10.7554/elife.80684 · Cited by 5 · see citing works
Self-citationRabey, H. A. E. (2013) · Molecular Biology Reports · doi:10.1007/s11033-013-2925-4 · Cited by 6 · see citing works
Together we are on together we are off -a conserved rule for ribosomal RNA (rRNA) gene regulation?
Saradadevi, G. P., Priyadarshini, N., Bera, A., & Mohannath, G. (2020) · Journal of Plant Biochemistry and Biotechnology · doi:10.1007/s13562-020-00610-8 · Cited by 5 · see citing works
Maciak, S., Michalak, K., Kale, S. D., & Michalak, P. (2016) · Cytogenetic and Genome Research · doi:10.1159/000450665 · Cited by 4 · see citing works
Hutten, S., Westman, B. J., Boisvert, F., van Koningsbruggen, S., & Lamond, A. I. (2011) · Wiley eBooks · doi:10.1002/9783527639991.ch12 · Cited by 3 · see citing works
Pikaard, C. S. (2018) · Encyclopedia of Life Sciences · doi:10.1002/9780470015902.a0005976.pub3 · Cited by 4 · see citing works
Pikaard, C. S. (2014) · Encyclopedia of Life Sciences · doi:10.1002/9780470015902.a0005976.pub2 · Cited by 3 · see citing works
Sequence and epigenetic landscapes of active and silenced nucleolus organizers in ArabidopsisPreprint
Fultz, D., McKinlay, A., Enganti, R., & Pikaard, C. S. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.06.07.544131 · Cited by 3 · see citing works
Tian, B., Xia, X., Ma, X., Yang, Z.-Z., Dong, Y.-M., Liao, J., Deng, Y., & Zhu, L. (2025) · Gene · doi:10.1016/j.gene.2025.149622 · Cited by 2 · see citing works
rDNA and Nucleologenesis in Drosophila
DiMario, P. J., James, A., & Raje, H. S. (2013) · Springer eBooks · doi:10.1007/978-94-007-5818-6_3 · Cited by 2 · see citing works
Burlibaşa, L., & Suciu, I. (2014) · Zygote · doi:10.1017/s0967199414000562 · Cited by 2 · see citing works
Kwiatek, M. T., Drozdowska, Z., Kurasiak‐Popowska, D., Noweiska, A., & Nawracała, J. (2021) · Journal of Applied Genetics · doi:10.1007/s13353-020-00600-5 · Cited by 2 · see citing works
Meiotic behavior of genotypes of Lolium multiflorum Lam. of Brazil
Freitas, A. S., Mittelmann, A., & Techio, V. H. (2013) · Chromosome science · doi:10.11352/scr.16.23 · Cited by 2 · see citing works
The Continuing Evolution of the Xenopus Genome
Kondo, M., & Taira, M. (2022) · CRC Press eBooks · doi:10.1201/9781003050230-12 · Cited by 2 · see citing works
Lamond, A. I., Ly, T., Hutten, S., & Nicolas, A. (2015) · Elsevier eBooks · doi:10.1016/b978-0-12-394447-4.30036-0 · Cited by 2 · see citing works
The acetylation level of rDNA in Brassica campestris
Qiu, Z., Zhang, L., Hu, Y., He, S., & Li, L. (2012) · Journal of Plant Biology · doi:10.1007/s12374-011-0317-7 · Cited by 1 · see citing works
Genetic Determinants Of Reproductive Isolation In Xenopus
Malone, J. H. (2007) · UTA ResearchCommons (University of Texas Arlington) · Cited by 1 · see citing works
Sítios frágeis e sequências repetitivas funcionais em cromossomos de Lolium perenne L.
Rocha, L. C. (2013) · Portuguese National Funding Agency for Science, Research and Technology (RCAAP Project by FCT)
Antosch, M. (2015) · University of Regensburg Publication Server (University of Regensburg) · doi:10.5283/epub.31709
Birch, J. L., Tan, B. C., Panov, K. I., Panova, T. B., Andersen, J., Owen‐Hughes, T., Russell, J., Lee, S.-C., & Zomerdijk, J. C. B. M. (2009)
Cytogenetic Aberrations in Tissue Culture
Singh, R. J. (2016) · CRC Press eBooks · doi:10.1201/9781315374611-11
Lamond, A. I., Ly, T., Hutten, S., & Nicolas, A. (2022) · Elsevier eBooks · doi:10.1016/b978-0-12-821618-7.00222-4
Anticancer drug development against ribosome synthesis and the nucleolus
Loiacono, A., & Huang, S. (2025) · Biochemical Society Transactions · doi:10.1042/bst20253011
Binding characteristics and localization of Arabidopsis thaliana ribosomal protein S15a isoforms
Wakely, H. (2008) · University Library - University of Saskatchewan (University of Saskatchewan)
Etude fonctionnelle du gène REBELOTE chez Arabidopsis thaliana
de Bossoreille, S. (2011) · doi:10.70675/616bf1fdz6ee6z425bz9638z57be14c4f068
- Authors
- McStay, B.
- Affiliations
- University of Dundee (GB)
- Corresponding author
- McStay, Brian
- ORCID
- McStay, Brian
- Venue
- Genes & Development
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2006-05-15
- Volume
- 20
- Issue
- 10
- Pages
- 1207-1214
- ISSN
- 0890-9369 (ISSN-L)
- 1549-5477
- OpenAlex
- W2131818003
- Cited by
- 95
- References
- 48
- Citations by year
- 2025: 2 · 2024: 1 · 2023: 3 · 2022: 5 · 2021: 3 · 2020: 2 · 2019: 2 · 2018: 5 · 2017: 4 · 2016: 5 · 2015: 5 · 2014: 6 · 2013: 4 · 2012: 5
- Type
- posted content
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Genes & Development (publishedVersion)
- PubMed (publishedVersion)
- Funders
- Medical Research Council
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
- Keywords
- nucleolar dominance, nucleolar organizer regions, rDNA transcription, RNA polymerase I, chromatin regulation, histone modifications, histone code, nucleosome, intergenic spacer
- MeSH terms
- Animals, Cell Nucleolus, Plants, Genes, rRNA, Gene Silencing
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