Transposable Element Junctions in Marker Development and Genomic Characterization of Barley
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F61389030%3A_____%2F14%3A00433526" target="_blank" >RIV/61389030:_____/14:00433526 - isvavai.cz</a>
Result on the web
<a href="http://dx.doi.org/10.3835/plantgenome2013.10.0036" target="_blank" >http://dx.doi.org/10.3835/plantgenome2013.10.0036</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.3835/plantgenome2013.10.0036" target="_blank" >10.3835/plantgenome2013.10.0036</a>
Alternative languages
Result language
angličtina
Original language name
Transposable Element Junctions in Marker Development and Genomic Characterization of Barley
Original language description
Barley is a model plant in genomic studies of Triticeae species. However, barley's large genome size and high repetitive sequence content complicate the whole-genome sequencing. The majority of the barley genome is composed of transposable elements (TEs). In this study, TE repeat junctions (RJs) were used to develop a large-scale molecular marker platform, as a prerequisite to genome assembly. A total of 10.22 Gb of barley nonassembled 454 sequencing data were screened with RJPrimers pipeline. In total,9,881,561 TE junctions were identified. From detected RJs, 400,538 polymerase chain reaction (PCR)-based RJ markers (RJMs) were designed across the genome, with an average of 39 markers/Mb. The utility of designed markers was tested using a random subset of RJMs. Over 94% of the markers successfully amplified amplicons, among which similar to 90% were genome specific. In addition to marker design, identified RJs were utilized to detect 1190,885 TEs across the genome. In gene-poor region
Czech name
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Czech description
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Classification
Type
J<sub>x</sub> - Unclassified - Peer-reviewed scientific article (Jimp, Jsc and Jost)
CEP classification
EB - Genetics and molecular biology
OECD FORD branch
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Result continuities
Project
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Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2014
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Plant Genome
ISSN
1940-3372
e-ISSN
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Volume of the periodical
7
Issue of the periodical within the volume
1
Country of publishing house
US - UNITED STATES
Number of pages
8
Pages from-to
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UT code for WoS article
000338833800008
EID of the result in the Scopus database
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