Transcriptome analysis of field-grown Asian ginseng provides clues to environmental conditions and developmental mechanisms related to red skin root syndrome
Transcriptome analysis of field-grown Asian ginseng provides clues to environmental conditions and developmental mechanisms related to red skin root syndrome
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田间种植的亚洲人参的转录组分析为与红皮根综合征相关的环境条件和发育机制提供了线索
DOI：
10.1016/j.indcrop.2020.112486
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发表时间：
2020-10-01
影响因子：
5.9
通讯作者：
You, Jiangfeng
中科院分区：
文献类型：
--
作者：
Gong, Li;Gao, Jie;You, Jiangfeng
红皮根严重影响亚洲人参的质量和产量。然而，其发生和发展的分子机制仍不清楚。本研究使用Illumina高通量mRNA测序（RNA-seq）技术对现场采样的健康和红皮根影响的人参须根进行比较转录组分析。共组装了116，537个转录本，平均长度为794 bp。在NCBI非冗余蛋白质数据库中的BLAST搜索结果显示，注释的转录本主要富集在植物物种以及丛枝菌根真菌Rhizophagus irregularis和假定的真菌病原体Marssonina brunnea中。以1.5倍为界值（p < 0.01），红皮病人参须根中有1856个基因表达上调，1581个基因表达下调。除了基因本体论（GO）和京都基因和基因组百科全书（KEGG）丰富的分析外，还讨论了红色皮肤病起源和发展的环境刺激和酚类化合物代谢。本研究为深入了解人参红皮根的发生机制提供了分子线索。
Red skin root greatly decreases the quality and production of Asian ginseng (Panax ginseng). However, the molecular mechanisms of its origin and development are still obscure. The present study used Illumina high-throughput mRNA sequencing (RNA-seq) technology to conduct a comparative transcriptome analysis on field-sampled healthy and red skin root-affected ginseng fibrous roots. A total of 116,537 transcripts were assembled with an average length of 794 bp. Results of BLAST searches in the NCBI non-redundant protein database showed that the annotated transcripts were mostly enriched in plant species as well as the arbuscular mycorrhizae fungus Rhizophagus irregularis and the putative fungal pathogen Marssonina brunnea. With a cutoff of 1.5-fold (p < 0.01), the fibrous roots of red skin root-affected ginseng showed 1856 up-regulated genes and 1581 down-regulated genes compared with the healthy ginseng roots. In addition to Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enriched analyses, the environmental stimuli and phenolic compound metabolism underlying the origin and development of red skin disease were also discussed. The present study provides molecular clues to understanding the occurrence mechanisms of red skin root in ginseng.