Large-Scale Structural Variation Detection in Subterranean Clover Subtypes Using Optical Mapping
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F61389030%3A_____%2F18%3A00492763" target="_blank" >RIV/61389030:_____/18:00492763 - isvavai.cz</a>
Result on the web
<a href="http://dx.doi.org/10.3389/fpls.2018.00971" target="_blank" >http://dx.doi.org/10.3389/fpls.2018.00971</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.3389/fpls.2018.00971" target="_blank" >10.3389/fpls.2018.00971</a>
Alternative languages
Result language
angličtina
Original language name
Large-Scale Structural Variation Detection in Subterranean Clover Subtypes Using Optical Mapping
Original language description
We selected two genetically diverse subspecies of the Trifolium model species, subterranean clover cvs. Daliak and Yarloop. The structural variations (SVs) discovered by Bionano optical mapping (BOM) were validated using Illumina short reads. In the analysis, BOM identified 12 large-scale regions containing deletions and 19 regions containing insertions in Yarloop. The 12 large-scale regions contained 71 small deletions when validated by Illumina short reads. The results suggest that BOM could detect the total size of deletions and insertions, but it could not precisely report the location and actual quantity of SVs in the genome. Nucleotide-level validation is crucial to confirm and characterize SVs reported by optical mapping. The accuracy of SV detection by BOM is highly dependent on the quality of reference genomes and the density of selected nickases.
Czech name
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Czech description
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Classification
Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
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OECD FORD branch
10611 - Plant sciences, botany
Result continuities
Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)
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
Frontiers in Plant Science
ISSN
1664-462X
e-ISSN
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Volume of the periodical
9
Issue of the periodical within the volume
JUL 17
Country of publishing house
CH - SWITZERLAND
Number of pages
5
Pages from-to
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UT code for WoS article
000438902900001
EID of the result in the Scopus database
2-s2.0-85050749479