Journal article

LEXA Matej, ŠTEFLOVÁ Pavlína, MARTÍNEK Tomáš, VORLÍČKOVÁ Michaela, VYSKOT Boris and KEJNOVSKÝ Eduard. Guanine quadruplexes are formed by specific regions of human transposable elements. BMC Genomics. 2014, vol. 15, no. 1032, pp. 1-12. ISSN 1471-2164. Available from: http://www.biomedcentral.com/1471-2164/15/1032
Publication language:english
Original title:Guanine quadruplexes are formed by specific regions of human transposable elements
Title (cs):Guaninové kvadruplexy jsou formovány specifickými regiony lidských transponovatelných elementů
Pages:1-12
Place:GB
Year:2014
URL:http://www.biomedcentral.com/1471-2164/15/1032
Journal:BMC Genomics, Vol. 15, No. 1032, GB
ISSN:1471-2164
Keywords
G4 quadruplex; human transposable elements; circular dichroism; Bioconductor code; bioinformatics
Annotation
BACKGROUND:Transposable elements form a significant proportion of eukaryotic genomes. Recently, Lexa et al (Nucleic Acids Res 42:968-978, 2014) reported that plant long terminal repeat (LTR) retrotransposons often contain potential quadruplex sequences (PQSs) in their LTRs and experimentally confirmed their ability to adopt four-stranded DNA conformations.RESULTS:Here, we searched for PQSs in human retrotransposons and found that PQSs are specifically localized in the 3'-UTR of LINE-1 elements, in LTRs of HERV elements and are strongly accumulated in specific regions of SVA elements. Circular dichroism spectroscopy confirmed that most PQSs had adopted monomolecular or bimolecular guanine quadruplex structures. Evolutionarily young SVA elements contained more PQSs than older elements and their propensity to form quadruplex DNA was higher. Full-length L1 elements contained more PQSs than truncated elements; the highest proportion of PQSs was found inside transpositionally active L1 elements (PA2 and HS families).CONCLUSIONS:Conservation of quadruplexes at specific positions of transposable elements implies their importance in their life cycle. The increasing quadruplex presence in evolutionary young LINE-1 and SVA families makes these elements important contributors toward present genome-wide quadruplex distribution.
BibTeX:
@ARTICLE{
   author = {Matej Lexa and Pavl{\'{i}}na {\v{S}}teflov{\'{a}} and
	Tom{\'{a}}{\v{s}} Mart{\'{i}}nek and Michaela
	Vorl{\'{i}}{\v{c}}kov{\'{a}} and Boris Vyskot and Eduard
	Kejnovsk{\'{y}}},
   title = {Guanine quadruplexes are formed by specific regions of human
	transposable elements},
   pages = {1--12},
   journal = {BMC Genomics},
   volume = {15},
   number = {1032},
   year = {2014},
   ISSN = {1471-2164},
   language = {english},
   url = {http://www.fit.vutbr.cz/research/view_pub.php?id=10816}
}

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