scholarly journals Genomic copy-number loss is rescued by self-limiting production of DNA circles

2018 ◽  
Author(s):  
Andrés Mansisidor ◽  
Temistocles Molinar ◽  
Priyanka Srivastava ◽  
Hannah Blitzblau ◽  
Hannah Klein ◽  
...  
Keyword(s):  
Copy Number ◽  
Gene Loss ◽  
Phenotypic Variability ◽  
Copy Number Loss ◽  
Dependent Manner ◽  
Genomic Copy Number ◽  
Rdna Array ◽  
Health And Disease ◽  
Copy Number Changes ◽  
Rdna Copy

SummaryCopy-number changes generate phenotypic variability in health and disease. Whether organisms protect against copy-number changes is largely unknown. Here, we show that Saccharomyces cerevisiae monitors the copy number of its ribosomal DNA (rDNA) and rapidly responds to copy-number loss with the clonal amplification of extrachromosomal rDNA circles (ERCs) from chromosomal repeats. ERC production is proportional to repeat loss and reaches a dynamic steady state that responds to the addition of exogenous rDNA copies. ERC levels are also modulated by RNAPI activity and diet, suggesting that rDNA copy number is calibrated against the cellular demand for rRNA. Lastly, we show that ERCs reinsert into the genome in a dosage-dependent manner, indicating that they provide a reservoir for ultimately increasing rDNA array length. Our results reveal a DNA-based mechanism for rapidly restoring copy number in response to catastrophic gene loss that shares fundamental features with unscheduled copy-number amplifications in cancer cells.

P19: LDASS: a novel PCR-based amplification and labelling method for detection of genomic copy number changes using minute amounts of DNA

2005 ◽  
Vol 48 (4) ◽  
pp. 464-465
Author(s):  
Katleen De Preter ◽  
Frank Speleman ◽  
Stefaan Derveaux ◽  
Chris Roelant ◽  
Jo Vandesompele
Keyword(s):  
Copy Number ◽  
Genomic Copy Number ◽  
Genomic Copy ◽  
Copy Number Changes ◽  
Labelling Method

Development of a multiplex PCR assay for the detection of genomic copy number changes in myelodysplastic syndromes

2012 ◽  
Vol 36 (5) ◽  
pp. e93-e97 ◽  
Author(s):  
Aspasia Stamatoullas ◽  
Agathe Waultier ◽  
Fabrice Jardin ◽  
Marie Paule Callat ◽  
Françoise Parmentier ◽  
...  
Keyword(s):  
Multiplex Pcr ◽  
Myelodysplastic Syndromes ◽  
Copy Number ◽  
Pcr Assay ◽  
Genomic Copy Number ◽  
Genomic Copy ◽  
Multiplex Pcr Assay ◽  
Copy Number Changes

The importance of genomic copy number changes in the prognosis of glioblastoma multiforme

2004 ◽  
Vol 27 (1) ◽  
pp. 58-64 ◽  
Author(s):  
Ali Arslantas ◽  
Sevilhan Artan ◽  
�lk� �ner ◽  
Hamza M�sl�manoglu ◽  
Ramazan Durmaz ◽  
...  
Keyword(s):  
Glioblastoma Multiforme ◽  
Copy Number ◽  
Genomic Copy Number ◽  
Genomic Copy ◽  
Copy Number Changes

scholarly journals The retrotransposon R2 maintains Drosophila ribosomal DNA repeats

2021 ◽  
Author(s):  
Jonathan O Nelson ◽  
Alyssa Slicko ◽  
Yukiko M Yamashita
Keyword(s):  
Ribosomal Dna ◽  
Copy Number ◽  
Double Strand Breaks ◽  
Copy Number Loss ◽  
Dna Repeats ◽  
Dna Double Strand Breaks ◽  
Strand Breaks ◽  
Male Germline ◽  
Rdna Loci ◽  
Rdna Copy

Ribosomal RNAs (rRNAs) account for 80-90% of all transcripts in eukaryotic cells. To meet this demand, the ribosomal DNA (rDNA) gene that codes for rRNA is tandemly repeated hundreds of times, comprising rDNA loci on eukaryotic chromosomes. This repetitiveness imposes a challenge to maintaining sufficient copy number due to spontaneous intra-chromatid recombination between repetitive units causing copy number loss. The progressive shrinking of rDNA loci from generation to generation could lead to extinction of the lineage, yet the mechanism(s) to counteract spontaneous copy number loss remained unclear. Here, we show that the rDNA-specific retrotransposon R2 is essential for rDNA copy number (CN) maintenance in the Drosophila male germline, despite the perceived disruptive nature of transposable elements. Depletion of R2 led to defective rDNA CN maintenance in multiple contexts, causing a decline in fecundity over generations and eventual extinction of the lineage. Our data suggests that DNA double strand breaks generated by R2 is the initiating event of rDNA CN expansion, stimulating the repair processes proposed to underlie rDNA CN expansion. This study reveals that retrotransposons can provide a benefit to their hosts, contrary to their reputation as genomic parasitic, which may contribute to their widespread success throughout taxa.

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

2018 ◽  
Vol 72 (3) ◽  
pp. 583-593.e4 ◽  
Author(s):  
Andrés Mansisidor ◽  
Temistocles Molinar ◽  
Priyanka Srivastava ◽  
Demetri D. Dartis ◽  
Adriana Pino Delgado ◽  
...  
Keyword(s):  
Copy Number ◽  
Copy Number Loss ◽  
Genomic Copy Number ◽  
Genomic Copy

scholarly journals EP-2295: HNSCC derived cell lines and subclones differ in genomic copy number changes and radiation response

2018 ◽  
Vol 127 ◽  
pp. S1266-S1267
Author(s):  
O. Klymenko ◽  
P. Baumeister ◽  
H. Zitzelsberger ◽  
K. Unger ◽  
J. Heß ◽  
...  
Keyword(s):  
Cell Lines ◽  
Copy Number ◽  
Radiation Response ◽  
Genomic Copy Number ◽  
Genomic Copy ◽  
Copy Number Changes

scholarly journals High-Resolution Analysis of Genomic Copy Number Changes

Genomics ◽  
2010 ◽  
pp. 1-31 ◽  
Author(s):  
Mario Hermsen ◽  
Jordy Coffa ◽  
Bauke Ylstra ◽  
Gerrit Meijer ◽  
Hans Morreau ◽  
...  
Keyword(s):  
High Resolution ◽  
Copy Number ◽  
Genomic Copy Number ◽  
Genomic Copy ◽  
High Resolution Analysis ◽  
Resolution Analysis ◽  
Copy Number Changes

393 GENOMIC COPY NUMBER LOSS AT 9P IS ASSOCIATED WITH METASTASIS OF RENAL CELL CARCINOMA

2011 ◽  
Vol 185 (4S) ◽  
Author(s):  
Takahiro Narimatsu ◽  
Keiko Matsuura ◽  
Chisato Nakada ◽  
Toru Inoue ◽  
Takeo Nomura ◽  
...  
Keyword(s):  
Renal Cell Carcinoma ◽  
Cell Carcinoma ◽  
Renal Cell ◽  
Copy Number ◽  
Copy Number Loss ◽  
Genomic Copy Number ◽  
Genomic Copy
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