Comparative transcriptome analysis revealed genes involved in the fruiting body development of Ophiocordyceps sinensis
Comparative transcriptome analysis revealed genes involved in the fruiting body development of Ophiocordyceps sinensis
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比较转录组分析揭示了与冬虫夏草子实体发育相关的基因
DOI：
10.7717/peerj.8379
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发表时间：
2020-01-16
期刊：
影响因子：
2.7
通讯作者：
Guo, Jinlin
中科院分区：
文献类型：
--
作者：
Tong, Xinxin;Zhang, Han;Guo, Jinlin
Ophiocorphiumsinensis是一种非常有价值的真菌，已被用作传统的亚洲药物。这种真菌是青藏高原游牧民族最重要的收入来源之一。随着全球变暖和过度采集，野生O。中华鲟资源急剧减少。对O.由于子实体发育的遗传基础尚不清楚，在这里，我们的研究进行了成对比较转录组获得的不同生长阶段的O。sinensis包括无性菌丝体（CM）、发育中的子实体（DF）和成熟子实体（FB）。将所有RNA-Seq读数与O. sinensis CO 18进行比较分析。聚类分析表明，FB和DF的表达谱与CM高度相似。选择性剪接分析（AS）表明，这些阶段特异性剪接基因可能在子实体发育过程中发挥重要作用。功能富集分析表明，差异表达基因（DEG）在子实体发育过程中蛋白质合成和基础代谢中富集，表明子实体发育可能需要更多的蛋白质和能量。此外，一些与子实体发育相关的基因在FB样品中表达上调，如核苷二磷酸激酶基因（ndk）、脂肪酸合成酶β亚基基因（cel-2）和超氧化物歧化酶基因（sod）。此外，几个细胞骨架基因的表达水平显着改变，在所有这些生长阶段，这表明这些基因在营养生长和子实体发育中起着至关重要的作用。使用定量PCR（qPCR）来验证基因表达谱，并且结果支持RNA-Seq和DEG分析的准确性。我们的研究为理解O.子实体发育。
Ophiocordyceps sinensis is a highly valued fungus that has been used as traditional Asian medicine. This fungus is one of the most important sources of income for the nomadic populations of the Tibetan Plateau. With global warming and excessive collection, the wild O. sinensis resources declined dramatically. The cultivation of O. sinensis hasn’t been fully operational due to the unclear genetic basis of the fruiting body development. Here, our study conducted pairwise comparisons between transcriptomes acquired from different growth stages of O. sinensis including asexual mycelium (CM), developing fruiting body (DF) and mature fruiting body (FB). All RNA-Seq reads were aligned to the genome of O. sinensis CO18 prior to comparative analyses. Cluster analysis showed that the expression profiles of FB and DF were highly similar compared to CM. Alternative splicing analysis (AS) revealed that the stage-specific splicing genes may have important functions in the development of fruiting body. Functional enrichment analyses showed that differentially expressed genes (DEGs) were enriched in protein synthesis and baseline metabolism during fruiting body development, indicating that more protein and energy might be required for fruiting body development. In addition, some fruiting body development-associated genes impacted by ecological factors were up-regulated in FB samples, such as the nucleoside diphosphate kinase gene (ndk), β subunit of the fatty acid synthase gene (cel-2) and the superoxide dismutase gene (sod). Moreover, the expression levels of several cytoskeletons genes were significantly altered during all these growth stages, suggesting that these genes play crucial roles in both vegetative growth and the fruiting body development. Quantitative PCR (qPCR) was used to validate the gene expression profile and the results supported the accuracy of the RNA-Seq and DEGs analysis. Our study offers a novel perspective to understand the underlying growth stage-specific molecular differences and the biology of O. sinensis fruiting body development.