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The Utility of Graph Clustering of 5S Ribosomal DNA Homoeologs in Plant Allopolyploids, Homoploid Hybrids, and Cryptic Introgressants

It is proposed that the analysis of 5S rDNA cluster graphs computed by the RE pipeline together with the cytogenetic analysis might be a reliable approach for the determination of the hybrid or allopolyploid plant species parentage and may also be useful for detecting historical introgression events.
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Epigenetics of the preferential silencing of Brachypodium stacei-originated 35S rDNA loci in the allotetraploid grass Brachypodium hybridum

The epigenetic status of 35S rRNA gene loci in the monocotyledonous Brachypodium hybridum, which is an allotetraploid that has resulted from a cross between B. distachyon and B. stacei, was investigated and it was revealed that the repressed B.Stacei-inherited rDNA loci are characterised by a high level of DNA methylation.
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Organization and evolution of two repetitive sequences, 18-24J and 12-13P, in the genome of Chenopodium (Amaranthaceae).

Combined cytogenetic and molecular analyses suggests that reorganization of these two repeats accompanied the diversification and speciation of diploid (especially A genome) and polyploid species of Chenopodium s.s.
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Cytomolecular Analysis of Ribosomal DNA Evolution in a Natural Allotetraploid Brachypodium hybridum and Its Putative Ancestors—Dissecting Complex Repetitive Structure of Intergenic Spacers

It is revealed that the nucleolar dominance is present not only in meristematic root-tip cells but also in differentiated cell fraction of B. hybridum and hypothesize that their preferential silencing is an effect of structural changes in the sequence rather than just the result of the sole inactivation at the epigenetic level.
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Ribosomal DNA loci derived from Brachypodium stacei are switched off for major parts of the life cycle of Brachypodium hybridum

Analysis of 35S rDNA activity in meiocytes, microspores, and different stages of embryo development in Brachypodium hybridum reveals that Brachypodium stacei-like loci are switched off.
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The fate of 35S rRNA genes in the allotetraploid grass Brachypodium hybridum

Nucleolar dominance (ND) consists of the reversible silencing of 35S/45S rDNA loci inherited from one of the ancestors of an allopolyploid, and is stabilized towards the D‐genome units, irrespective of the polyphyletic origin of the species.
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Tracing the Evolution of the Angiosperm Genome from the Cytogenetic Point of View

The use of modern cytogenetic approaches and the latest microscopes with image acquisition and processing systems enables the simultaneous two- or three-dimensional, multicolour visualisation of both single-copy and highly-repetitive sequences in the plant genome.
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To Be or Not to Be Expressed: The First Evidence of a Nucleolar Dominance Tissue-Specificity in Brachypodium hybridum

The results indicate that genotype-specific loss of ND in B. hybridum occurs probably after fertilization during developmental processes, and supports the view that B. Hybridum is an attractive model to study ND in grasses.
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Molecular Cytogenetics in the Genus Brachypodium

Fluorescence in situ hybridisation offers unprecedented insights into the various aspects of nuclear genome organisation at the level of mitotic and meiotic chromosomes and in the interphase nucleus.
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Brachypodium distachyon - a model plant to study grass genome structure, dynamics and evolution

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