Quadruplex DNA in long terminal repeats in maize LTR
retrotransposons inhibits the expression of a reporter gene in
yeast

J 2018

Quadruplex DNA in long terminal repeats in maize LTR retrotransposons inhibits the expression of a reporter gene in yeast

TOKAN, Viktor, Janka PUTEROVÁ, Matej LEXA a Eduard KEJNOVSKÝ

Základní údaje

Originální název

Quadruplex DNA in long terminal repeats in maize LTR retrotransposons inhibits the expression of a reporter gene in yeast

Autoři

TOKAN, Viktor (203 Česká republika, garant), Janka PUTEROVÁ (703 Slovensko), Matej LEXA (703 Slovensko, domácí) a Eduard KEJNOVSKÝ (203 Česká republika)

Vydání

BMC Genomics, BioMed Central, 2018, 1471-2164

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10602 Biology , Evolutionary biology

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 3.501

Kód RIV

RIV/00216224:14330/18:00100852

Organizační jednotka

Fakulta informatiky

DOI

http://dx.doi.org/10.1186/s12864-018-4563-7

UT WoS

000427128900005

Klíčová slova anglicky

G4 motifs; Quadruplex DNA; Transposable elements; Maize LTR retrotransposons; Circular dichroism; NMM ligand

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 2. 10. 2018 15:06, doc. Ing. Matej Lexa, Ph.D.

Anotace

V originále

Background Many studies have shown that guanine-rich DNA sequences form quadruplex structures (G4) in vitro but there is scarce evidence of guanine quadruplexes in vivo. The majority of potential quadruplex-forming sequences (PQS) are located in transposable elements (TEs), especially close to promoters within long terminal repeats of plant LTR retrotransposons. Results In order to test the potential effect of G4s on retrotransposon expression, we cloned the long terminal repeats of selected maize LTR retrotransposons upstream of the lacZ reporter gene and measured its transcription and translation in yeast. We found that G4s had an inhibitory effect on translation in vivo since “mutants” (where guanines were replaced by adenines in PQS) showed higher expression levels than wild-types. In parallel, we confirmed by circular dichroism measurements that the selected sequences can indeed adopt G4 conformation in vitro. Analysis of RNA-Seq of polyA RNA in maize seedlings grown in the presence of a G4-stabilizing ligand (NMM) showed both inhibitory as well as stimulatory effects on the transcription of LTR retrotransposons. Conclusions Our results demonstrate that quadruplex DNA located within long terminal repeats of LTR retrotransposons can be formed in vivo and that it plays a regulatory role in the LTR retrotransposon life-cycle, thus also affecting genome dynamics.

Návaznosti

GA15-02891S, projekt VaV

Název: Rostlinné transpozony a konformace DNA

Investor: Grantová agentura ČR, Rostlinné transpozony a konformace DNA

Citovat

TOKAN, Viktor, Janka PUTEROVÁ, Matej LEXA a Eduard KEJNOVSKÝ. Quadruplex DNA in long terminal repeats in maize LTR retrotransposons inhibits the expression of a reporter gene in yeast. BMC Genomics. BioMed Central, 2018, roč. 19, 06 03 2018, s. 184-194. ISSN 1471-2164. Dostupné z: https://dx.doi.org/10.1186/s12864-018-4563-7.

@article{1410241,
   author = {Tokan, Viktor and Puterová, Janka and Lexa, Matej and Kejnovský, Eduard},
   article_number = {06 03 2018},
   doi = {http://dx.doi.org/10.1186/s12864-018-4563-7},
   keywords = {G4 motifs; Quadruplex DNA; Transposable elements; Maize LTR retrotransposons; Circular dichroism; NMM ligand},
   language = {eng},
   issn = {1471-2164},
   journal = {BMC Genomics},
   title = {Quadruplex DNA in long terminal repeats in maize LTR retrotransposons inhibits the expression of a reporter gene in yeast},
   url = {https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-018-4563-7},
   volume = {19},
   year = {2018}
}

TY  - JOUR
ID  - 1410241
AU  - Tokan, Viktor - Puterová, Janka - Lexa, Matej - Kejnovský, Eduard
PY  - 2018
TI  - Quadruplex DNA in long terminal repeats in maize LTR retrotransposons inhibits the expression of a reporter gene in yeast
JF  - BMC Genomics
VL  - 19
IS  - 06 03 2018
SP  - 184
EP  - 184
PB  - BioMed Central
SN  - 14712164
KW  - G4 motifs
KW  - Quadruplex DNA
KW  - Transposable elements
KW  - Maize LTR retrotransposons
KW  - Circular dichroism
KW  - NMM ligand
UR  - https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-018-4563-7
L2  - https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-018-4563-7
N2  - Background Many studies have shown that guanine-rich DNA sequences form quadruplex structures (G4) in vitro but there is scarce evidence of guanine quadruplexes in vivo. The majority of potential quadruplex-forming sequences (PQS) are located in transposable elements (TEs), especially close to promoters within long terminal repeats of plant LTR retrotransposons. Results In order to test the potential effect of G4s on retrotransposon expression, we cloned the long terminal repeats of selected maize LTR retrotransposons upstream of the lacZ reporter gene and measured its transcription and translation in yeast. We found that G4s had an inhibitory effect on translation in vivo since “mutants” (where guanines were replaced by adenines in PQS) showed higher expression levels than wild-types. In parallel, we confirmed by circular dichroism measurements that the selected sequences can indeed adopt G4 conformation in vitro. Analysis of RNA-Seq of polyA RNA in maize seedlings grown in the presence of a G4-stabilizing ligand (NMM) showed both inhibitory as well as stimulatory effects on the transcription of LTR retrotransposons. Conclusions Our results demonstrate that quadruplex DNA located within long terminal repeats of LTR retrotransposons can be formed in vivo and that it plays a regulatory role in the LTR retrotransposon life-cycle, thus also affecting genome dynamics.
ER  -

TOKAN, Viktor, Janka PUTEROVÁ, Matej LEXA a Eduard KEJNOVSKÝ. Quadruplex DNA in long terminal repeats in maize LTR retrotransposons inhibits the expression of a reporter gene in yeast. \textit{BMC Genomics}. BioMed Central, 2018, roč.~19, 06 03 2018, s.~184-194. ISSN~1471-2164. Dostupné z: https://dx.doi.org/10.1186/s12864-018-4563-7.

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