Intragenomic rDNA variation-the product of concerted evolution, mutation, or something in between?

W Wang, X Zhang, S Garcia, AR Leitch, A Kovařík - Heredity, 2023 - nature.com
The classical model of concerted evolution states that hundreds to thousands of ribosomal
DNA (rDNA) units undergo homogenization, making the multiple copies of the individual …

Ribosome biogenesis in plants: from functional 45S ribosomal DNA organization to ribosome assembly factors

J Sáez-Vásquez, M Delseny - The Plant Cell, 2019 - academic.oup.com
Abstract The transcription of 18S, 5.8 S, and 18S rRNA genes (45S rDNA), cotranscriptional
processing of pre-rRNA, and assembly of mature rRNA with ribosomal proteins are the …

Polyploidy, the nucleotype, and novelty: the impact of genome doubling on the biology of the cell

JJ Doyle, JE Coate - International Journal of Plant Sciences, 2019 - journals.uchicago.edu
Polyploidy is a key mechanism of genome evolution and speciation, particularly in plants.
Many aspects of polyploidy have been elucidated with the tools that have become available …

findGSE: estimating genome size variation within human and Arabidopsis using k-mer frequencies

H Sun, J Ding, M Piednoël, K Schneeberger - Bioinformatics, 2018 - academic.oup.com
Motivation Analyzing k-mer frequencies in whole-genome sequencing data is becoming a
common method for estimating genome size (GS). However, it remains uninvestigated how …

Gradual evolution of allopolyploidy in Arabidopsis suecica

R Burns, T Mandáková, J Gunis… - Nature Ecology & …, 2021 - nature.com
Most diploid organisms have polyploid ancestors. The evolutionary process of
polyploidization is poorly understood but has frequently been conjectured to involve some …

The Aquilegia genome provides insight into adaptive radiation and reveals an extraordinarily polymorphic chromosome with a unique history

DL Filiault, ES Ballerini, T Mandáková, G Aköz… - elife, 2018 - elifesciences.org
The columbine genus Aquilegia is a classic example of an adaptive radiation, involving a
wide variety of pollinators and habitats. Here we present the genome assembly of A …

[HTML][HTML] Loss of m1acp3Ψ ribosomal RNA modification is a major feature of cancer

A Babaian, K Rothe, D Girodat, I Minia, S Djondovic… - Cell reports, 2020 - cell.com
The ribosome is an RNA-protein complex that is essential for translation in all domains of
life. The structural and catalytic core of the ribosome is its ribosomal RNA (rRNA). While …

Mechanisms of rDNA copy number maintenance

JO Nelson, GJ Watase, N Warsinger-Pepe… - Trends in Genetics, 2019 - cell.com
rDNA, the genes encoding the RNA components of ribosomes (rRNA), are highly repetitive
in all eukaryotic genomes, containing 100s to 1000s of copies, to meet the demand for …

MSH 2 shapes the meiotic crossover landscape in relation to interhomolog polymorphism in Arabidopsis

AR Blackwell, J Dluzewska… - The EMBO …, 2020 - embopress.org
During meiosis, DNA double‐strand breaks undergo interhomolog repair to yield crossovers
between homologous chromosomes. To investigate how interhomolog sequence …

Pushing the limits of HiFi assemblies reveals centromere diversity between two Arabidopsis thaliana genomes

FA Rabanal, M Gräff, C Lanz, K Fritschi… - Nucleic Acids …, 2022 - academic.oup.com
Although long-read sequencing can often enable chromosome-level reconstruction of
genomes, it is still unclear how one can routinely obtain gapless assemblies. In the model …