About: Quadruplex-forming sequences occupy discrete regions inside plant LTR retrotransposons

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About: Quadruplex-forming sequences occupy discrete regions inside plant LTR retrotransposons Goto Sponge NotDistinct Permalink

An Entity of Type : http://linked.opendata.cz/ontology/domain/vavai/Vysledek, within Data Space : linked.opendata.cz associated with source document(s)

Attributes	Values
rdf:type	skos:Concept http://linked.opendata.cz/ontology/domain/vavai/Vysledek
rdfs:seeAlso	http://nar.oxfordjournals.org/content/early/2013/10/07/nar.gkt893
Description	Retrotransposons with long terminal repeats (LTR) form a significant proportion of eukaryotic genomes, especially in plants. They have gag and pol genes and several regulatory regions necessary for transcription and reverse transcription. We searched for potential quadruplex-forming sequences (PQSs) and potential triplex forming sequences (PTSs) in 18 377 full-length LTR retrotransposons collected from 21 plant species. We found that PQSs were often located in LTRs, both upstream and downstream of promoters from which the whole retrotransposon is transcribed. Upstream-located guanine PQSs were dominant in the minus DNA strand, whereas downstream-located guanine PQSs prevailed in the plus strand, indicating their role both at transcriptional and post-transcriptional levels. Our circular dichroism spectroscopy measurements confirmed that these PQSs readily adopted guanine quadruplex structures - some of them were paralell-stranded, while others were anti-parallel-stranded. Retrotransposons with long terminal repeats (LTR) form a significant proportion of eukaryotic genomes, especially in plants. They have gag and pol genes and several regulatory regions necessary for transcription and reverse transcription. We searched for potential quadruplex-forming sequences (PQSs) and potential triplex forming sequences (PTSs) in 18 377 full-length LTR retrotransposons collected from 21 plant species. We found that PQSs were often located in LTRs, both upstream and downstream of promoters from which the whole retrotransposon is transcribed. Upstream-located guanine PQSs were dominant in the minus DNA strand, whereas downstream-located guanine PQSs prevailed in the plus strand, indicating their role both at transcriptional and post-transcriptional levels. Our circular dichroism spectroscopy measurements confirmed that these PQSs readily adopted guanine quadruplex structures - some of them were paralell-stranded, while others were anti-parallel-stranded. (en)
Title	Quadruplex-forming sequences occupy discrete regions inside plant LTR retrotransposons Quadruplex-forming sequences occupy discrete regions inside plant LTR retrotransposons (en)
skos:prefLabel	Quadruplex-forming sequences occupy discrete regions inside plant LTR retrotransposons Quadruplex-forming sequences occupy discrete regions inside plant LTR retrotransposons (en)
skos:notation	RIV/00216224:14740/14:00074769!RIV15-MSM-14740___
http://linked.open...avai/riv/aktivita	I P Z
http://linked.open...avai/riv/aktivity	I, P(ED1.1.00/02.0068), P(EE2.3.20.0045), P(GA522/09/0083), P(GAP205/12/0466), P(GAP305/10/0930), P(GAP501/10/0102), P(GPP501/10/P483), Z(AV0Z50040702)
http://linked.open...iv/cisloPeriodika	2
http://linked.open...vai/riv/dodaniDat	2015
http://linked.open...aciTvurceVysledku	Vorlíčková, Michaela Šteflová, Pavlína Lexa, Matej Konvalinová, Helena
http://linked.open.../riv/druhVysledku	J - Článek v odborném periodiku
http://linked.open...iv/duvernostUdaju	S - Úplné a pravdivé údaje nepodléhající ochraně podle zvláštních právních předpisů
http://linked.open...titaPredkladatele	Masarykova univerzita / Středoevropský technologický institut
http://linked.open...dnocenehoVysledku	40999
http://linked.open...ai/riv/idVysledku	RIV/00216224:14740/14:00074769
http://linked.open...riv/jazykVysledku	eng - angličtina
http://linked.open.../riv/klicovaSlova	INTRAMOLECULAR DNA QUADRUPLEXES; VIRUS TYPE-1 RNA; CIRCULAR-DICHROISM; GUANINE QUADRUPLEXES; HUMAN GENOME; IN-VIVO; IDENTIFICATION; STABILITY; BINDING; TRIPLEX (en)
http://linked.open.../riv/klicoveSlovo	CIRCULAR-DICHROISM BINDING STABILITY IN-VIVO HUMAN GENOME IDENTIFICATION GUANINE QUADRUPLEXES INTRAMOLECULAR DNA QUADRUPLEXES TRIPLEX VIRUS TYPE-1 RNA
http://linked.open...odStatuVydavatele	GB - Spojené království Velké Británie a Severního Irska
http://linked.open...ontrolniKodProRIV	[0191F03C1368]
http://linked.open...i/riv/nazevZdroje	Nucleic Acids Research
http://linked.open...in/vavai/riv/obor	EB
http://linked.open...ichTvurcuVysledku	4 (xsd:int)
http://linked.open...cetTvurcuVysledku	6 (xsd:int)
http://linked.open...vavai/riv/projekt	Central european institute of technology Sex chromosomes and dynamics of transposable elements Support of Professional Growth and International Integration of Research Teams in the Filed of Molecular Medicine Retrotransposon colonizing only recombining part of genome of dioecious plants DNA quadruplexes in the human genome associated with diseases and aging Comparative Analysis of Plant Sex Chromosomes Isolation of Sex Linked Genes to Study Evolution of Sex Chromosomes in Plants
http://linked.open...UplatneniVysledku	2014
http://linked.open...v/svazekPeriodika	42
http://linked.open...iv/tvurceVysledku	Kejnovský, Eduard Lexa, Matej Vorlíčková, Michaela Vyskot, Boris Šteflová, Pavlína Konvalinová, Helena
http://linked.open...ain/vavai/riv/wos	000331138100030
http://linked.open...n/vavai/riv/zamer	Genome and epigenome: 1D and 3D Structure, Dynamics, Interactions with Proteins and Functions
issn	0305-1048
number of pages	11 (xsd:int)
http://bibframe.org/vocab/doi	10.1093/nar/gkt893
http://localhost/t...ganizacniJednotka	14740

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