Transcriptome Analysis of Methyl Jasmonate-Elicited Panax ginseng Adventitious Roots to Discover Putative Ginsenoside Biosynthesis and Transport Genes

Autor: Zhiyong Luo, Li Wang, Mohammed Nuruzzaman, Jingjia Huang, X. Chen, Hongzhe Cao, Kunlu Wu, Jijia Li, Sun-Jin Park, Hao Xiu, Fang Yang, Ji-Hak Jeong, Junli Luo
Jazyk: angličtina
Rok vydání: 2015
Předmět:
Ginsenosides
Acetates
Plant Roots
Transcriptome
lcsh:Chemistry
Illumina/Solexa
Ginseng
chemistry.chemical_compound
Databases
Genetic
Databases
Protein
lcsh:QH301-705.5
Spectroscopy
Phylogeny
Plant Proteins
Genetics
Expressed Sequence Tags
Expressed sequence tag
Methyl jasmonate
Genetic Pleiotropy
General Medicine
Computer Science Applications
Up-Regulation
Ginsenoside
Down-Regulation
Panax
Cyclopentanes
Biology
Catalysis
Article
Inorganic Chemistry
Oxylipins
Physical and Theoretical Chemistry
KEGG
Panax ginseng
Molecular Biology
Gene
adventitious root
Ethanol
Gene Expression Profiling
PDR (pleiotropic drug resistance) transporters
Organic Chemistry
Molecular Sequence Annotation
Sequence Analysis
DNA
methyl jasmonate
Gene expression profiling
ginsenoside biosynthesis
chemistry
lcsh:Biology (General)
lcsh:QD1-999
transcriptome
MVA (mevalonic acid) pathway
Zdroj: International Journal of Molecular Sciences
Volume 16
Issue 2
Pages 3035-3057
International Journal of Molecular Sciences, Vol 16, Iss 2, Pp 3035-3057 (2015)
ISSN: 1422-0067
DOI: 10.3390/ijms16023035
Popis: The Panax ginseng C.A. Meyer belonging to the Araliaceae has long been used as an herbal medicine. Although public databases are presently available for this family, no methyl jasmonate (MeJA) elicited transcriptomic information was previously reported on this species, with the exception of a few expressed sequence tags (ESTs) using the traditional Sanger method. Here, approximately 53 million clean reads of adventitious root transcriptome were separately filtered via Illumina HiSeq™2000 from two samples treated with MeJA (Pg-MeJA) and equal volumes of solvent, ethanol (Pg-Con). Jointly, a total of 71,095 all-unigenes from both samples were assembled and annotated, and based on sequence similarity search with known proteins, a total of 56,668 unigenes was obtained. Out of these annotated unigenes, 54,920 were assigned to the NCBI non-redundant protein (Nr) database, 35,448 to the Swiss-prot database, 43,051 to gene ontology (GO), and 19,986 to clusters of orthologous groups (COG). Searching in the Kyoto encyclopedia of genes and genomes (KEGG) pathway database indicated that 32,200 unigenes were mapped to 128 KEGG pathways. Moreover, we obtained several genes showing a wide range of expression levels. We also identified a total of 749 ginsenoside biosynthetic enzyme genes and 12 promising pleiotropic drug resistance (PDR) genes related to ginsenoside transport.
Databáze: OpenAIRE
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