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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

  • Czech description

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

Result continuities

  • Project

  • 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

  • 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

  • UT code for WoS article

    000338833800008

  • EID of the result in the Scopus database