Aug 26, 2015

Cis-acting signals modulate the efficiency of programmed DNA elimination in Paramecium tetraurelia

Nucleic Acids Research
Diana FerroFrancesco Catania

Abstract

In Paramecium, the regeneration of a functional somatic genome at each sexual event relies on the elimination of thousands of germline DNA sequences, known as Internal Eliminated Sequences (IESs), from the zygotic nuclear DNA. Here, we provide evidence that IESs' length and sub-terminal bases jointly modulate IES excision by affecting DNA conformation in P. tetraurelia. Our study reveals an excess of complementary base pairing between IESs' sub-terminal and contiguous sites, suggesting that IESs may form DNA loops prior to cleavage. The degree of complementary base pairing between IESs' sub-terminal sites (termed Cin-score) is positively associated with IES length and is shaped by natural selection. Moreover, it escalates abruptly when IES length exceeds 45 nucleotides (nt), indicating that only sufficiently large IESs may form loops. Finally, we find that IESs smaller than 46 nt are favored targets of the cellular surveillance systems, presumably because of their relatively inefficient excision. Our findings extend the repertoire of cis-acting determinants for IES recognition/excision and provide unprecedented insights into the distinct selective pressures that operate on IESs and somatic DNA regions. This information potentia...Continue Reading

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Citations

Mentioned in this Paper

Cinnamon protein, Drosophila
Study
PDXP
Programmed DNA Elimination
Genome
Cytokinesis of the Fertilized Ovum
Pseudomonas sp. P-2
Excision
Site
Immunologic Surveillance

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