All

What are you looking for?

All
Projects
Results
Organizations

Quick search

  • Projects supported by TA ČR
  • Excellent projects
  • Projects with the highest public support
  • Current projects

Smart search

  • That is how I find a specific +word
  • That is how I leave the -word out of the results
  • “That is how I can find the whole phrase”

Complex Analyses of Short Inverted Repeats in All Sequenced Chloroplast DNAs

The result's identifiers

  • Result code in IS VaVaI

    <a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F61988987%3A17310%2F18%3AA1901WIB" target="_blank" >RIV/61988987:17310/18:A1901WIB - isvavai.cz</a>

  • Alternative codes found

    RIV/68081707:_____/18:00502507 RIV/62156489:43110/18:43913803

  • Result on the web

    <a href="https://www.hindawi.com/journals/bmri/2018/1097018/" target="_blank" >https://www.hindawi.com/journals/bmri/2018/1097018/</a>

  • DOI - Digital Object Identifier

    <a href="http://dx.doi.org/10.1155/2018/1097018" target="_blank" >10.1155/2018/1097018</a>

Alternative languages

  • Result language

    angličtina

  • Original language name

    Complex Analyses of Short Inverted Repeats in All Sequenced Chloroplast DNAs

  • Original language description

    Chloroplasts are key organelles in the management of oxygen in algae and plants and are therefore crucial for all living beingsthat consume oxygen. Chloroplasts typically contain a circular DNA molecule with nucleus-independent replication and heredity.Using ?palindrome analyser? we performed complete analyses of short inverted repeats (S-IRs) in all chloroplast DNAs (cpDNAs)available fromthe NCBI genome database. Our results provide basic parameters of cpDNAs including comparative information onlocalization, frequency, and differences in S-IR presence. In a total of 2,565 cpDNA sequences available, the average frequency ofS-IRs in cpDNA genomes is 45 S-IRs/per kbp, significantly higher than that found in mitochondrialDNA sequences.The frequencyof S-IRs in cpDNAs generally decreased with S-IR length, but not for S-IRs 15, 22, 24, or 27 bp long, which are significantly moreabundant than S-IRs with other lengths. These results point to the importance of specific S-IRs in cpDNA genomes. Moreover,comparison by Levenshtein distance of S-IR similarities showed that a limited number of S-IR sequences are shared in the majorityof cpDNAs. S-IRs are not located randomly in cpDNAs, but are length-dependently enriched in specific locations, including therepeat region, stem, introns, and tRNA regions. The highest enrichment was found for 12 bp and longer S-IRs in the stem-loopregion followed by 12 bp and longer S-IRs located before the repeat region. On the other hand, S-IRs are relatively rare in rRNAsequences and around introns.These data show nonrandom and conserved arrangements of S-IRs in chloroplast genomes.

  • Czech name

  • Czech description

Classification

  • Type

    J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database

  • CEP classification

  • OECD FORD branch

    10600 - Biological sciences

Result continuities

  • Project

    Result was created during the realization of more than one project. More information in the Projects tab.

  • Continuities

    S - Specificky vyzkum na vysokych skolach

Others

  • Publication year

    2018

  • Confidentiality

    S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Data specific for result type

  • Name of the periodical

    BioMed research international

  • ISSN

    2314-6133

  • e-ISSN

    2314-6141

  • Volume of the periodical

    2018

  • Issue of the periodical within the volume

    24 July 2018

  • Country of publishing house

    US - UNITED STATES

  • Number of pages

    10

  • Pages from-to

    1-10

  • UT code for WoS article

    000439627100001

  • EID of the result in the Scopus database