Phylogenetic marker development for target enrichment from transcriptome and genome skim data: the pipeline and its application in southern African Oxalis (Oxalidaceae)
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F67985939%3A_____%2F16%3A00464568" target="_blank" >RIV/67985939:_____/16:00464568 - isvavai.cz</a>
Alternative codes found
RIV/00216208:11310/16:10330109
Result on the web
<a href="http://dx.doi.org/10.1111/1755-0998.12487" target="_blank" >http://dx.doi.org/10.1111/1755-0998.12487</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1111/1755-0998.12487" target="_blank" >10.1111/1755-0998.12487</a>
Alternative languages
Result language
angličtina
Original language name
Phylogenetic marker development for target enrichment from transcriptome and genome skim data: the pipeline and its application in southern African Oxalis (Oxalidaceae)
Original language description
To facilitate the selection of orthologous low-copy nuclear (LCN) loci for phylogenetics in nonmodel organisms, we created an automated and interactive script to select hundreds of LCN loci by a comparison between transcriptome and genome skim data. We used our script to obtain LCN genes for southern African Oxalis (Oxalidaceae), a speciose plant lineage in the Greater Cape Floristic Region. Despite a wide range of gene trees, the phylogeny based on the LCN genes was very robust, as retrieved through various gene and species tree reconstruction methods as well as concatenation. This indicates that organellar phylogenies alone are unlikely to represent the species tree and stresses the utility of Hyb-Seq in phylogenetics.
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
EF - Botany
OECD FORD branch
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Result continuities
Project
<a href="/en/project/EE2.3.30.0048" target="_blank" >EE2.3.30.0048: Integration of the experimental and population biology using new methods of interdisciplinary issues - the way to excellence with young scientists</a><br>
Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2016
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
Molecular Ecology Resources
ISSN
1755-098X
e-ISSN
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Volume of the periodical
16
Issue of the periodical within the volume
5
Country of publishing house
GB - UNITED KINGDOM
Number of pages
12
Pages from-to
1124-1135
UT code for WoS article
000383281400007
EID of the result in the Scopus database
2-s2.0-84983028433