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454 Sequencing of Taxus cuspidata (Japanese Yew) transcriptome

ABSTRACT: 454 Sequencing of Taxus cuspidata (Japanese Yew) transcriptome from cultured cambial meristematic cells

PROVIDER: PRJEB2292 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	ERR019888.fastq.gz	Fastqsanger.gz
	ERR019889.fastq.gz	Fastqsanger.gz
	ERR019890.fastq.gz	Fastqsanger.gz
	ERR019891.fastq.gz	Fastqsanger.gz
	ERR019892.fastq.gz	Fastqsanger.gz

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Variations in the expression pattern and sequence similarity of the key genes involved in the metabolism of taxoids among three Taxus species

Project description:Background：Taxol is an efficient anticancer drug; however, the accumulation of taxoids can vary hugely among Taxus species. The mechanism underlying differential accumulation of taxoids are largely unknown. Thus, the comparative analysis of the transcriptomes in three Taxus species, including T. media, T. mairei and T. cuspidata, was performed. Results:KEGG enrichment analysis revealed that the diterpenoid biosynthesis and cytochrome P450 pathways were significantly enriched in the differential expressed genes. Dynamic expressions of the taxol biosynthesis related genes might be a potential explanation for the interspecific differential accumulation of taxol and its derivatives. Besides, the sequences of several key enzymes were re-assembled based on independent transcriptomes from different Taxus species. Our data showed that sequence diversity may be another factor that determines the variations in taxoids. Furthermore, five jasmonic acid (JA) metabolism-related GO terms were analyzed. The differential expression of these JA-related transcription factors suggested distinct responses to exogenous MeJA applications in the three Taxus species. Conclusions:Our results revealed the comprehensive variations in the expression pattern and sequence similarity of the key genes involved in the metabolism of taxoids among different Taxus species. The data give us an opportunity to reveal the mechanism underlying the variations in the taxoid contents and to select the highest-yielding Taxus species.

2018-10-20 | GSE121523 | GEO

Development of polymorphic microsatellite markers for Japanese yew, Taxus cuspidata, and T. cuspidata var. nana (Taxaceae).

Project description:PREMISE OF THE STUDY:Taxus cuspidata (Taxaceae), which is well known for the effective anticancer metabolite paclitaxel (e.g., taxol), is an evergreen needle-leaved tree widely distributed in eastern Eurasia including Japan. We developed 15 microsatellite markers from this species and confirmed their utility for the dwarf variety nana, which is common in alpine regions along the Sea of Japan. METHODS AND RESULTS:Thirteen polymorphic loci were characterized for genetic variation in three populations of T. cuspidata. The number of alleles per locus ranged from 11 to 31, with an average of 18.5; the expected heterozygosity ranged from 0.78 to 0.95, with an average of 0.89. All loci were successfully amplified in T. cuspidata var. nana and showed high polymorphism. CONCLUSIONS:These markers will be useful for investigating speciation and range formation of T. cuspidata in Japan, and the results will provide crucial information for the conservation of Taxus species.

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Seasonal expression analysis of Japanese cedar in cambium region and differentiation xylem

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