Profile of Ophiocordyceps sinensis transcriptome and differentially expressed genes in three different mycelia, sclerotium and fruiting body developmental stages

Zhong, Xin; Gu, Li; Wang, Haizhen; Lian, Danhong; Zheng, Yaguang; Zhou, Sha; Zhou, Wei; Gu, Jinlei; Zhang, Guren; Liu, Xin

doi:10.1016/j.funbio.2018.05.011

Cited by 20 publications

(21 citation statements)

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“…A previous study set the sampling time of mycelia at 3 d for growth period of secondary metabolite accumulation and 9 d for stable period, which was earlier than that in our study [31]. However, the present results showed that secondary metabolite increased dramatically from 4 d and maintained a steady level at the end of fermentation until 10 d. Furthermore, a fungal strain UM01 isolated from natural C. sinensis was sampled a er inoculating for 5 days, while it lacked the investigation on time course of mycelia biomass or production [36]. erefore, it is not difficult to perceive that 4 d and 10 d were better sampling time points for early and late stages, respectively.…”

Section: Resultscontrasting

confidence: 57%

“…Several studies have reported the transcriptome analysis of entomogenous fungi, and conducted the functional annotation of transcripts. Characterization of the O. sinensis transcriptome among three stages of the life cycle was investigated, and a total of 14,922 unigenes were identified and categorized under three gene ontology categories, which were obviously less than those in our study [36]. A previous study detected and analyzed the DEGs of H. sinensis growing during uridine, vernine, and thymidine production also slightly increased until 4 d and then sharply increased until 10 d. e dynamic profiles of mycelia biomass and purine contents were similar, which all have the same tendency of significant increase a er 4 d cultivation (Figure 1).…”

Section: Resultsmentioning

confidence: 57%

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Transcriptome Analysis Reveals the Molecular Mechanisms Underlying Adenosine Biosynthesis in Anamorph Strain of Caterpillar Fungus

Lin

Zou

Zhou

et al. 2019

BioMed Research International

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Caterpillar fungus is a well-known fungal Chinese medicine. To reveal molecular changes during early and late stages of adenosine biosynthesis, transcriptome analysis was performed with the anamorph strain of caterpillar fungus. A total of 2,764 differentially expressed genes (DEGs) were identified (p≤0.05, |log2 Ratio| ≥ 1), of which 1,737 were up-regulated and 1,027 were down-regulated. Gene expression profiling on 4–10 d revealed a distinct shift in expression of the purine metabolism pathway. Differential expression of 17 selected DEGs which involved in purine metabolism (map00230) were validated by qPCR, and the expression trends were consistent with the RNA-Seq results. Subsequently, the predicted adenosine biosynthesis pathway combined with qPCR and gene expression data of RNA-Seq indicated that the increased adenosine accumulation is a result of down-regulation of ndk, ADK, and APRT genes combined with up-regulation of AK gene. This study will be valuable for understanding the molecular mechanisms of the adenosine biosynthesis in caterpillar fungus.

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Section: Resultscontrasting

confidence: 57%

Section: Resultsmentioning

confidence: 57%

Transcriptome Analysis Reveals the Molecular Mechanisms Underlying Adenosine Biosynthesis in Anamorph Strain of Caterpillar Fungus

Lin

Zou

Zhou

et al. 2019

BioMed Research International

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“…Fruiting body development is also regulated by the special ecological stimulus. In general, the mycelia of O. sinensis grows in the dark, while fruiting body grows under the light to maturity (Zhong et al, 2018), indicating that light is required for fruiting body maturation. Previous studies showed that blue light initiates fruiting body formation in Coprinopsis cinerea and Schizophyllum commune (Durand, 1985;Purschwitz et al, 2006).…”

Section: Discussionmentioning

confidence: 99%

“…With the development of high throughput sequencing technology, the genomes and transcriptomes of O. sinensis and related species have been analyzed (Zhong et al, 2016;Zhong et al, 2018). Recent research detected the signals of the positive selection for genes involved in peroxidase and hypoxia to enable the highland adaptation by sequencing 31 whole genomes of O. sinensis from different distributions (Xia et al, 2017).…”

Section: Introductionmentioning

confidence: 99%

“…Xiang et al (2014) constructed an O. sinensis EST database by using Roche/454 GS-FLX (Titanium) pyrosequencing technology, four mating type genes and 121 genes putatively associated with fruiting body development were identified. Moreover, the transcripts of three developmental stages (mycelia, sclerotium and fruiting body) were sequenced and compared, however, both sclerotium and fruiting body were the worm-part and grass-part of O. sinensis respectively, which couldn't represent the different growth stages of O. sinensis (Zhong et al, 2018). Transcriptome analysis of O. sinensis before and after infection of Thitarodes offered insights into the infection biology by which the fungus enters into the host partner (Zhong et al, 2016).…”

Section: Introductionmentioning

confidence: 99%

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Comparative transcriptome analysis revealed genes involved in the fruiting body development ofOphiocordyceps sinensis

Tong

Zhang

Wang

et al. 2020

PeerJ

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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.

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Comparative analysis of transcriptomes revealed the molecular mechanism of development of Tricholoma matsutake at different stages of fruiting bodies

Tang

Ding

Hou

2020

Food Sci Biotechnol

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The purpose of the study is to investigate the molecular mechanisms of development of Tricholoma matsutake fruiting body at the primordial stage (TM-1), the intermediate stage (TM-2) and the mature stage (TM-3) using RNA-Seq sequencing technology. The analysis of gene expression level revealed that the Spn2 and Eef1a1 gene were the key genes in the primordial stage of T. matsutake by regulating cytokinesis, protein synthesis, and cell growth. And the Ubc, Atp6, Cytb, and Pth2 gene were the key genes in the mature stage of T. matsutake by regulating energy metabolism and protein synthesis. Differential expression genes (DEGs) analysis results showed that Cdc28, Rad53, Dun1, Pho85 and Pho81 were the key DEGs regulating cell cycle genes of T. matsutake from primordial stage to intermediate stage. And APC, Cyr1, Cdc45, Spo11 and Rec8 genes were the key DEGs for the meiosis and sporogenesis of T. matsutake from the intermediate stage to the mature stage.

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Profile of Ophiocordyceps sinensis transcriptome and differentially expressed genes in three different mycelia, sclerotium and fruiting body developmental stages

Cited by 20 publications

References 20 publications

Transcriptome Analysis Reveals the Molecular Mechanisms Underlying Adenosine Biosynthesis in Anamorph Strain of Caterpillar Fungus

Transcriptome Analysis Reveals the Molecular Mechanisms Underlying Adenosine Biosynthesis in Anamorph Strain of Caterpillar Fungus

Comparative transcriptome analysis revealed genes involved in the fruiting body development ofOphiocordyceps sinensis

Comparative analysis of transcriptomes revealed the molecular mechanism of development of Tricholoma matsutake at different stages of fruiting bodies

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