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标题:De Novo Transcriptome Assembly in Shiraia bambusicola to Investigate Putative Genes Involved in the Biosynthesis of Hypocrellin A
时间:2020-03-26 20:12:15
DOI:10.3390/ijms17030311
作者:Zhao Ning; Lin Xi; Qi Shan-Shan
关键词:Shiraia bambusicola;ultraviolet mutagenesis;RNA-Seq;differentially expressed genes
出版源: 《International Journal of Molecular Sciences》 ,17 (3) :311-
摘要:Shiraia bambusicolais a species of the monotypic genusShiraiain the phylum Ascomycota. In China, it is known for its pharmacological properties that are used to treat rheumatic arthritis, sciatica, pertussis, tracheitis and so forth. Its major medicinal active metabolite is hypocrellin A, which exhibits excellent antiviral and antitumor properties. However, the genes involved in the hypocrellin A anabolic pathways were still unknown due to the lack of genomic information for this species. To investigate putative genes that are involved in the biosynthesis of hypocrellin A and determine the pathway, we performed transcriptome sequencing forShiraia bambusicolaS4201-W and the mutant S4201-D1 for the first time. S4201-W has excellent hypocrellin A production, while the mutant S4201-D1 does not. Then, we obtained 38,056,034 and 39,086,896 clean reads from S4201-W and S4201-D1, respectively. In all, 17,923 unigenes werede novoassembled, and the N50 length was 1970 bp. Based on the negative binomial distribution test, 716 unigenes were found to be upregulated, and 188 genes were downregulated in S4201-D1, compared with S4201-W. We have found seven unigenes involved in the biosynthesis of hypocrellin A and proposed a putative hypocrellin A biosynthetic pathway. These data will provide a valuable resource and theoretical basis for future molecular studies of hypocrellin A, help identify the genes involved in the biosynthesis of hypocrellin A and help facilitate functional studies for enhancing hypocrellin A production.
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目录:
  • Introduction
  • Results and Discussion
    • Transcriptome Sequencing and Assembly
    • Functional Annotation and Classification of Unigenes
    • Transcripts Differentially Expressed between the Wild Type and Mutant
    • Candidate Genes Involved in HA Biosynthesis and a Putative Biosynthetic Pathway
    • Autodefense by Shiraia bambusicola against HA
    • Real-Time PCR Analysis of Several Transcripts
  • Experimental Section
    • Materials
    • RNA Isolation and Illumina Sequencing
    • De Novo Transcriptome Assembly and Annotation
    • Analysis of Differential Gene Expression
    • Quantitative Real-Time PCR Analysis
  • Conclusions

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