Detail publikace

Guanine quadruplexes are formed by specific regions of human transposable elements

Originální název

Guanine quadruplexes are formed by specific regions of human transposable elements

Anglický název

Guanine quadruplexes are formed by specific regions of human transposable elements

Jazyk

en

Originální abstrakt

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.

Anglický abstrakt

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{BUT119812,
  author="Matej {Lexa} and Pavlína {Šteflová} and Tomáš {Martínek} and Michaela {Vorlíčková} and Boris {Vyskot} and Eduard {Kejnovský}",
  title="Guanine quadruplexes are formed by specific regions of human transposable elements",
  annote="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.",
  address="NEUVEDEN",
  chapter="119812",
  doi="10.1186/1471-2164-15-1032",
  edition="NEUVEDEN",
  howpublished="online",
  institution="NEUVEDEN",
  number="1032",
  volume="15",
  year="2014",
  month="november",
  pages="1--12",
  publisher="NEUVEDEN",
  type="journal article in Web of Science"
}