Intragenomic heterogeneity of intergenic ribosomal DNA spacers in Cucurbita moschata is determined by DNA minisatellites with variable potential to form non-canonical DNA conformations

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F68081707%3A_____%2F19%3A00518371" target="_blank" >RIV/68081707:_____/19:00518371 - isvavai.cz</a>

Result on the web

<a href="https://academic.oup.com/dnaresearch/article-pdf/26/3/273/28855582/dsz008.pdf" target="_blank" >https://academic.oup.com/dnaresearch/article-pdf/26/3/273/28855582/dsz008.pdf</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1093/dnares/dsz008" target="_blank" >10.1093/dnares/dsz008</a>

Result language

angličtina

Original language name

Intragenomic heterogeneity of intergenic ribosomal DNA spacers in Cucurbita moschata is determined by DNA minisatellites with variable potential to form non-canonical DNA conformations

Original language description

The intergenic spacer (IGS) of rDNA is frequently built of long blocks of tandem repeats. To estimate the intragenomic variability of such knotty regions, we employed PacBio sequencing of the Cucurbita moschata genome, in which thousands of rDNA copies are distributed across a number of loci. The rRNA coding regions are highly conserved, indicating intensive interlocus homogenization and/or high selection pressure. However, the IGS exhibits high intragenomic structural diversity. Two repeated blocks, R1 (300-1250 bp) and R2 (290-643 bp), account for most of the IGS variation. They exhibit minisatellite-like features built of multiple periodically spaced short GC-rich sequence motifs with the potential to adopt non-canonical DNA conformations, G-quadruplex-folded and left-handed Z-DNA. The mutual arrangement of these motifs can be used to classify IGS variants into five structural families. Subtle polymorphisms exist within each family due to a variable number of repeats, suggesting the coexistence of an enormous number of IGS variants. The substantial length and structural heterogeneity of IGS minisatellites suggests that the tempo of their divergence exceeds the tempo of the homogenization of rDNA arrays. As frequently occurring among plants, we hypothesize that their instability may influence transcription regulation and/or destabilize rDNA units, possibly spreading them across the genome.

Czech name

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Czech description

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Type

J_imp - Article in a specialist periodical, which is included in the Web of Science database

CEP classification

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OECD FORD branch

10603 - Genetics and heredity (medical genetics to be 3)

Project

<a href="/en/project/GA17-11642S" target="_blank" >GA17-11642S: Genetic and epigenetic features of rDNA intergenic spacers and their potential regulatory functions in the establishment of nucleolar dominance</a><br>

Continuities

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Publication year

2019

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Dna Research

ISSN

1340-2838

e-ISSN

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Volume of the periodical

26

Issue of the periodical within the volume

3

Country of publishing house

GB - UNITED KINGDOM

Number of pages

14

Pages from-to

273-286

UT code for WoS article

000493010500007

EID of the result in the Scopus database

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