A new method for determining ribosomal DNA copy number shows differences between Saccharomyces cerevisiae populations

Thousands of high-quality sequencing samples fail to show meaningful correlation between 5S and 45S ribosomal DNA arrays in humans

(2021) Ashley N. Hall et al.   Scientific Reports

Ribosomal DNA copy number is associated with P53 status and levels of heavy metals in gastrectomy specimens from gastric cancer patients

(2020) Lingfang Feng et al.   ENVIRONMENT INTERNATIONAL

rDNA Chromatin Activity Status as a Biomarker of Sensitivity to the RNA Polymerase I Transcription Inhibitor CX-5461

(2020) Jinbae Son et al.   Frontiers in Cell and Developmental Biology

Ribosomal DNA instability and genome adaptability

(2019) Devika Salim et al.   CHROMOSOME RESEARCH

RNA Polymerase I Activators Count and Adjust Ribosomal RNA Gene Copy Number

(2019) Tetsushi Iida et al.   MOLECULAR CELL

How do cells count multi-copy genes?: “Musical Chair” model for preserving the number of rDNA copies

(2019) Tetsushi Iida et al.   CURRENT GENETICS

Human rDNA Copy Number Is Unstable in Metastatic Breast Cancers

(2019) Virginia Valori et al.   Epigenetics

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

(2018) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Ribosomal DNA copy loss and repeat instability in ATRX-mutated cancers

(2018) Maheshi Udugama et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome evolution across 1,011 Saccharomyces cerevisiae isolates

(2018) Jackson Peter et al.   NATURE

Abundance of ribosomal RNA gene copies in the genomes of schizophrenia patients

(2018) I.V. Chestkov et al.   SCHIZOPHRENIA RESEARCH

The peculiar genetics of the ribosomal DNA blurs the boundaries of transgenerational epigenetic inheritance

(2018) Farah Bughio et al.   CHROMOSOME RESEARCH

Genomic Copy-Number Loss Is Rescued by Self-Limiting Production of DNA Circles

(2018) Andrés Mansisidor et al.   MOLECULAR CELL

Genome-based estimates of fungal rDNA copy number variation across phylogenetic scales and ecological lifestyles

(2018) Lotus A. Lofgren et al.   MOLECULAR ECOLOGY

Ribosomal DNA copy number loss and sequence variation in cancer

(2017) Baoshan Xu et al.   PLoS Genetics

DNA replication stress restricts ribosomal DNA copy number

(2017) Devika Salim et al.   PLoS Genetics

Ribosomal DNA copy number amplification and loss in human cancers is linked to tumor genetic context, nucleolus activity, and proliferation

(2017) Meng Wang et al.   PLoS Genetics

Variation in copy number of the 28S rDNA of Aspergillus fumigatus measured by droplet digital PCR and analog quantitative real-time PCR

(2016) Alexandre Alanio et al.   JOURNAL OF MICROBIOLOGICAL METHODS

More than 10% of yeast genes are related to genome stability and influence cellular senescence via rDNA maintenance

(2016) Kimiko Saka et al.   NUCLEIC ACIDS RESEARCH

phylosignal: an R package to measure, test, and explore the phylogenetic signal

(2016) François Keck et al.   Ecology and Evolution

Conserved Organisation of 45S rDNA Sites and rDNA Gene Copy Number among Major Clades of Early Land Plants

(2016) Marcela Rosato et al.   PLoS One

Polymorphism and evolution of ribosomal DNA in tea (Camellia sinensis, Theaceae)

(2015) Jing Xu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Regulation of ribosomal DNA amplification by the TOR pathway

(2015) Carmen V. Jack et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Transgenerational Inheritance of Diet-Induced Genome Rearrangements in Drosophila

(2015) John C. Aldrich et al.   PLoS Genetics

geiger v2.0: an expanded suite of methods for fitting macroevolutionary models to phylogenetic trees

(2014) Matthew W. Pennell et al.   BIOINFORMATICS

Copy Number of the Transposon, Pokey, in rDNA Is Positively Correlated with rDNA Copy Number in Daphnia obtusa

(2014) Kaitlynn LeRiche et al.   PLoS One

Ribosomal DNA Sequence Heterogeneity Reflects Intraspecies Phylogenies and Predicts Genome Structure in Two Contrasting Yeast Species

(2014) Claire West et al.   SYSTEMATIC BIOLOGY

Ribosomal DNA copy number is coupled with gene expression variation and mitochondrial abundance in humans

(2014) John G. Gibbons et al.   Nature Communications

Y chromosome mediates ribosomal DNA silencing and modulates the chromatin state in Drosophila

(2012) J. Zhou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulation of ribosomal RNA gene copy number and its role in modulating genome integrity and evolutionary adaptability in yeast

(2011) Takehiko Kobayashi   CELLULAR AND MOLECULAR LIFE SCIENCES

Monitoring the Rate and Dynamics of Concerted Evolution in the Ribosomal DNA Repeats of Saccharomyces cerevisiae Using Experimental Evolution

(2011) Austen R.D. Ganley et al.   MOLECULAR BIOLOGY AND EVOLUTION

Ribosomal DNA Deletions Modulate Genome-Wide Gene Expression: “rDNA–Sensitive” Genes and Natural Variation

(2011) Silvana Paredes et al.   PLoS Genetics

SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data

(2010) Murray P Cox et al.   BMC BIOINFORMATICS

Abundance of Ribosomal RNA Gene Copies Maintains Genome Integrity

(2010) S. Ide et al.   SCIENCE

Expression of I-CreI Endonuclease Generates Deletions Within the rDNA of Drosophila

(2009) S. Paredes et al.   GENETICS

Repetitive sequence variation and dynamics in the ribosomal DNA array of Saccharomyces cerevisiae as revealed by whole-genome resequencing

(2009) S. A. James et al.   GENOME RESEARCH

Sensitive and accurate detection of copy number variants using read depth of coverage

(2009) S. Yoon et al.   GENOME RESEARCH

Strain-Dependent Variation in 18S Ribosomal DNA Copy Numbers in Aspergillus fumigatus

(2009) M. L. Herrera et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Intragenomic variability and pseudogenes of ribosomal DNA in Stone flounder Kareius bicoloratus

(2009) Jianpeng Xu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Ribosomal DNA contributes to global chromatin regulation

(2009) S. Paredes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Epigenetics of rRNA Genes: From Molecular to Chromosome Biology

(2008) Brian McStay et al.   Annual Review of Cell and Developmental Biology