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Transcript expression profiling for adventitious roots of Panax ginseng Meyer.
- Source :
-
Gene [Gene] 2014 Aug 01; Vol. 546 (1), pp. 89-96. Date of Electronic Publication: 2014 May 13. - Publication Year :
- 2014
-
Abstract
- Panax ginseng Meyer is one of the major medicinal plants in oriental countries belonging to the Araliaceae family which are the primary source for ginsenosides. However, very few genes were characterized for ginsenoside pathway, due to the limited genome information. Through this study, we obtained a comprehensive transcriptome from adventitious roots, which were treated with methyl jasmonic acids for different time points (control, 2h, 6h, 12h, and 24h) and sequenced by RNA 454 pyrosequencing technology. Reference transcriptome 39,304,529 (0.04GB) was obtained from 5,724,987,880 bases (5.7GB) of 22 libraries by de novo assembly and 35,266 (58.5%) transcripts were annotated with biological schemas (GO and KEGG). The digital gene expression patterns were obtained from in vitro grown adventitious root sequences which mapped to reference, from that, 3813 (6.3%) unique transcripts were involved in ≥2 fold up and downregulations. Finally, candidates for ginsenoside pathway genes were predicted from observed expression patterns. Among them, 30 transcription factors, 20 cytochromes, and 11 glycosyl transferases were predicted as ginsenoside candidates. These data can remarkably expand the existing transcriptome resources of Panax, especially to predict existence of gene networks in P. ginseng. The entity of the data provides a valuable platform to reveal more on secondary metabolism and abiotic stresses from P. ginseng in vitro grown adventitious roots.<br /> (Copyright © 2014 Elsevier B.V. All rights reserved.)
- Subjects :
- Acetates pharmacology
Cyclopentanes pharmacology
Gene Expression Profiling methods
Ginsenosides genetics
Ginsenosides metabolism
Molecular Sequence Annotation
Oxylipins pharmacology
Panax drug effects
Plant Roots drug effects
Secondary Metabolism genetics
Transcription Factors genetics
Transcriptome
Gene Expression Regulation, Plant
Panax genetics
Plant Roots genetics
Subjects
Details
- Language :
- English
- ISSN :
- 1879-0038
- Volume :
- 546
- Issue :
- 1
- Database :
- MEDLINE
- Journal :
- Gene
- Publication Type :
- Academic Journal
- Accession number :
- 24831831
- Full Text :
- https://doi.org/10.1016/j.gene.2014.05.024