About: Evaluation of DNA bending models in their capacity to predict electrophoretic migration anomalies of satellite DNA sequences

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About: Evaluation of DNA bending models in their capacity to predict electrophoretic migration anomalies of satellite DNA sequences Goto Sponge NotDistinct Permalink

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rdf:type	skos:Concept http://linked.opendata.cz/ontology/domain/vavai/Vysledek
Description	DNA containing a sequence that generates a local curvature exhibits a pronounced retardation in electrophoretic mobility. Various theoretical models have been proposed to explain relationship between DNA structural features and migration anomaly. Here, we studied the capacity of 15 static wedge-bending models to predict electrophoretic behavior of 69 satellite monomers derived from four divergent families. All monomers exhibited retarded mobility in PAGE corresponding to retardation factors ranging 1.02-1.54. The curvature varied both within and across the groups and correlated with the number, position, and lengths of A-tracts. Two dinucleotide models provided strong correlation between gel mobility and curvature prediction; two trinucleotide models were satisfactory while remaining dinucleotide models provided intermediate results with reliable prediction for subsets of sequences only. In some cases, similarly shaped molecules exhibited relatively large differences in mobility and vice versa. DNA containing a sequence that generates a local curvature exhibits a pronounced retardation in electrophoretic mobility. Various theoretical models have been proposed to explain relationship between DNA structural features and migration anomaly. Here, we studied the capacity of 15 static wedge-bending models to predict electrophoretic behavior of 69 satellite monomers derived from four divergent families. All monomers exhibited retarded mobility in PAGE corresponding to retardation factors ranging 1.02-1.54. The curvature varied both within and across the groups and correlated with the number, position, and lengths of A-tracts. Two dinucleotide models provided strong correlation between gel mobility and curvature prediction; two trinucleotide models were satisfactory while remaining dinucleotide models provided intermediate results with reliable prediction for subsets of sequences only. In some cases, similarly shaped molecules exhibited relatively large differences in mobility and vice versa. (en)
Title	Evaluation of DNA bending models in their capacity to predict electrophoretic migration anomalies of satellite DNA sequences Evaluation of DNA bending models in their capacity to predict electrophoretic migration anomalies of satellite DNA sequences (en)
skos:prefLabel	Evaluation of DNA bending models in their capacity to predict electrophoretic migration anomalies of satellite DNA sequences Evaluation of DNA bending models in their capacity to predict electrophoretic migration anomalies of satellite DNA sequences (en)
skos:notation	RIV/68081707:_____/13:00422254!RIV14-GA0-68081707
http://linked.open...avai/predkladatel	Biofyzikální ústav AV ČR, v.v.i.
http://linked.open...avai/riv/aktivita	I P Z
http://linked.open...avai/riv/aktivity	I, P(GA13-10057S), P(GA206/09/1751), P(GAP501/10/0208), Z(AV0Z50040702)
http://linked.open...iv/cisloPeriodika	17
http://linked.open...vai/riv/dodaniDat	2014
http://linked.open...aciTvurceVysledku	Fulneček, Jaroslav Matyášek, Roman Kovařík, Aleš
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	Biofyzikální ústav AV ČR, v. v. i.
http://linked.open...dnocenehoVysledku	73571
http://linked.open...ai/riv/idVysledku	RIV/68081707:_____/13:00422254
http://linked.open...riv/jazykVysledku	eng - angličtina
http://linked.open.../riv/klicovaSlova	HIGHLY REPETITIVE DNA; DOUBLE-HELICAL DNA; CURVED DNA (en)
http://linked.open.../riv/klicoveSlovo	CURVED DNA DOUBLE-HELICAL DNA HIGHLY REPETITIVE DNA
http://linked.open...odStatuVydavatele	US - Spojené státy americké
http://linked.open...ontrolniKodProRIV	[71A3B7828187]
http://linked.open...i/riv/nazevZdroje	Electrophoresis
http://linked.open...in/vavai/riv/obor	BO
http://linked.open...ichTvurcuVysledku	3 (xsd:int)
http://linked.open...cetTvurcuVysledku	3 (xsd:int)
http://linked.open...vavai/riv/projekt	Struktura, exprese a evoluce genů pro ribosomální RNA u rostlin: novými přistupy k řešení starých otázek The impact of genomic shock associated with interspecific hybridization and polyploidization on evolution of rDNA loci in young invasive weeds. Genome reunions in plants: from DNA to chromosomes and reverse
http://linked.open...UplatneniVysledku	2013
http://linked.open...v/svazekPeriodika	34
http://linked.open...iv/tvurceVysledku	Fulneček, Jaroslav Kovařík, Aleš Matyášek, Roman
http://linked.open...ain/vavai/riv/wos	00327667000007
http://linked.open...n/vavai/riv/zamer	Genome and epigenome: 1D and 3D Structure, Dynamics, Interactions with Proteins and Functions
issn	0173-0835
number of pages	11 (xsd:int)
http://bibframe.org/vocab/doi	10.1002/elps.201300227

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