Browse

Comprehensive analysis of Panax ginseng root transcriptomes

Cited 11 time in Web of Science Cited 29 time in Scopus
Authors
Jayakodi, Murukarthick; Lee, Sang-Choon; Lee, Yun Sun; Park, Hyun-Seung; Kim, Nam-Hoon; Jang, Woojong; Lee, Hyun Oh; Joh, Ho Jun; Yang, Tae-Jin
Issue Date
2015-06-12
Publisher
BioMed Central
Citation
BMC Plant Biology, 15(1):138
Keywords
Panax ginsengRootTranscriptomicsGinsenosideRNA-seq
Description
This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited.
Abstract
Background
Korean ginseng (Panax ginseng C.A. Meyer) is a highly effective medicinal plant containing ginsenosides with various pharmacological activities, whose roots are produced commercially for crude drugs.

Results
Here, we used the Illumina platform to generate over 232 million RNA sequencing reads from four root samples, including whole roots from one-year-old plants and three types of root tissue from six-year-old plants (i.e., main root bodies, rhizomes, and lateral roots). Through de novo assembly and reference-assisted selection, we obtained a non-redundant unigene set consisting of 55,949 transcripts with an average length of 1,250 bp. Among transcripts in the unigene set, 94 % were functionally annotated via similarity searches against protein databases. Approximately 28.6 % of the transcripts represent novel gene sequences that have not previously been reported for P. ginseng. Digital expression profiling revealed 364 genes showing differential expression patterns among the four root samples. Additionally, 32 were uniquely expressed in one-year-old roots, while seven were uniquely expressed in six-year-old root tissues. We identified 38 transcripts encoding enzymes involved in ginsenoside biosynthesis pathways and 189 encoding UDP-glycosyltransferases.

Conclusion
Our analysis provides new insights into the role of the root transcriptome in development and secondary metabolite biosynthesis in P. ginseng.
Language
English
URI
http://hdl.handle.net/10371/100660
DOI
https://doi.org/10.1186/s12870-015-0527-0
Files in This Item:
Appears in Collections:
College of Agriculture and Life Sciences (농업생명과학대학)Dept. of Plant Science (식물생산과학부)Journal Papers (저널논문_식물생산과학부)
  • mendeley

Items in S-Space are protected by copyright, with all rights reserved, unless otherwise indicated.

Browse