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 |
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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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