Transcriptome analysis of Panax vietnamensis var. fuscidicus discovers putative ocotillol-type ginsenosides biosynthesis genes and genetic markers

BMC Genomics
Guanghui ZhangShengchao Yang

Abstract

P. vietnamensis var. fuscidiscus, called "Yesanqi" in Chinese, is a new variety of P. vietnamensis, which was first found in Jinping County, the southern part of Yunnan Province, China. Compared with other Panax plants, this species contains higher content of ocotillol-type saponin, majonoside R2. Despite the pharmacological importance of ocotillol-type saponins, little is known about their biosynthesis in plants. Hence, P. vietnamensis var. fuscidiscus is a suitable medicinal herbal plant species to study biosynthesis of ocotillol-type saponins. In addition, the available genomic information of this important herbal plant is lacking. To investigate the P. vietnamensis var. fuscidiscus transcriptome, Illumina HiSeq™ 2000 sequencing platform was employed. We produced 114,703,210 clean reads, assembled into 126,758 unigenes, with an average length of 1,304 bp and N50 of 2,108 bp. Among these 126,758 unigenes, 85,214 unigenes (67.23%) were annotated based on the information available from the public databases. The transcripts encoding the known enzymes involved in triterpenoid saponins biosynthesis were identified in our Illumina dataset. A full-length cDNA of three Squalene epoxidase (SE) genes were obtained using reverse transcr...Continue Reading

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Dec 29, 2015·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·Binh NguyenTae-Jin Yang
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Datasets Mentioned

BETA
SRA146484
KJ946468
KJ946469

Methods Mentioned

BETA
glycosidation
Illumina
PCR
reverse transcription PCR
glucosylation
light scattering
RNA-Seq
electrophoresis
PCRs

Software Mentioned

BlastX
Scan
Trinity
Clustal X
MEGA5
Blast2GO
custom Perl script
BLAST
ESTScan
Primer3

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