A Comparative Proteome Approach Reveals Metabolic Changes Associated with <i>Flammulina velutipes</i> Mycelia in Response to Cold and Light Stress

Liu, Jingyu; Chang, Mingchang; Meng, Jiao; Chen, Feng; Wang, Yu

doi:10.1021/acs.jafc.8b00383

Cited by 30 publications

(35 citation statements)

References 55 publications

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“…The extracted samples were solubilized with lysis buffer. Protein concentrations were determined with the Modified Bradford Protein Assay Kit according to the manufacturer's instructions (Liu et al, 2018).…”

Section: Protein Extractionmentioning

confidence: 99%

TMT-Based Quantitative Proteomic Profiling of Overwintering Lissorhoptrus oryzophilus

et al. 2020

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Adaptations to low temperature play a critical role in restricting the geographical distribution of insects. Decreasing day lengths and temperatures trigger seasonal cold adaptations in insects. These adaptions include changes in expression at the miRNA, mRNA and protein levels. The rice water weevil (RWW), Lissorhoptrus oryzophilus, introduced from the Mississippi River, is a globally invasive pest of wetland rice that can survive at the northern border of China. To investigate the changes in expression at the protein level in overwintering female RWW adults, 6-plex tandem mass tags (TMTs) were used in overwintering and summer adults. By using a proteome database available for Curculionidae, 1077 proteins were quantified, 183 of which differed significantly between the overwintering and summer samples. To further understand these differentially expressed proteins (DEPs), bioinformatics analyses such as gene ontology (GO) enrichment analyses were performed. DEPs associated with the terms binding, structural molecule activity, catalytic activity, multicellular organismal process, extracellular region, chitin binding, metabolic process, intracellular part and organic cyclic compound binding were altered by selection during winter. The changes in the expression of these proteins suggest that the proteins are important for RWW survival in winter.

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Section: Protein Extractionmentioning

confidence: 99%

TMT-Based Quantitative Proteomic Profiling of Overwintering Lissorhoptrus oryzophilus

et al. 2020

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“…For example, genome sequencing of the cultivars of F. velutipes from Korea and Japan revealed their high capacity for lignocellulose degradation [28,33]. Transcriptomic and proteomic analyses of F. velutipes revealed key genes associated with cold-and light-stress fruiting body morphogenesis [34]. These studies provided important information for the breeding and commercial cultivation of F. velutipes.…”

Section: F Filiformis Is One Of the Most Important And Popular Ediblmentioning

confidence: 95%

“…In addition to unique compounds, the wild strain F. filiformis Liu355 can produce fruiting bodies at relatively higher temperatures than the current commercial strains, indicating that it is a potential excellent breeding resource. A temperature downshift (cold stimulation) is considered to be one of the most important and essential environmental factors for the fruiting initiation and fruiting body formation of F. velutipes [34]. In general, the mycelia of F. velutipes can grow vegetatively at 20-24°C and fruit at an optimum temperature of 12-15 °C [32].…”

Section: Heat-shock Proteins Correspond To Temperature Changes In F mentioning

confidence: 99%

Genome-wide analysis and prediction of genes involved in the biosynthesis of polysaccharides and bioactive secondary metabolites in high-temperature-tolerant of wild Flammulina filiformis

Chen

Tang

et al. 2019

Preprint

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Background: Flammulina filiformis (=Asian “F.velutipes”) is a popular commercial edible mushroom. Many bioactive compounds with medicinal effects, such as polysaccharides and sesquiterpenoids, have been isolated and identified from F. filiformis, but their biosynthesis and regulation at the molecular level remains unclear. In this study, we sequenced the genome of the wild strain F. filiformis Liu355, predicated its the biosynthetic gene clusters (BGCs) and profiled the expression of these genes in wild and cultivar strains and in different developmental stages of the wild F. filiformis strain by a comparative transcriptomic analysis. Results: We found that the genome of the F. filiformis was 35.01 M bp in length and harbored 10396 gene models. Thirteen putative terpenoid gene clusters were predicted and 12 sesquiterpene synthase genes belonging to four different groups and two type I polyketide synthase gene clusters were identified in the F. filiformis genome. The number of genes related to terpenoid biosynthesis was higher in the wild strain (119 genes) than in the cultivar strain (81 genes). Most terpenoid biosynthesis genes were upregulated in the primordium and fruiting body of the wild strain, while the polyketide synthase genes were generally upregulated in the mycelium of the wild strain. Moreover, genes encoding UDP-glucose pyrophosphorylase and UDP-glucose dehydrogenase, which are involved in polysaccharide biosynthesis, had relatively high transcript levels both in the mycelium and fruiting body of the wild F. filiformis strain. Conclusions: F. filiformis is enriched in a number of gene clusters involved in the biosynthesis of polysaccharides and terpenoid bioactive compounds and these genes usually display differential expression between wild and cultivar strains, even in different developmental stages. This study expands our knowledge of the biology of F. filiformis and provides valuable data for elucidating the regulation of secondary metabolites in this unique F. filiformis strain.

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“…For example, genome sequencing of the cultivars of F.velutipes from Korea and Japan revealed the high capacity for lignocellulose degradation [28,33]. light stress-fruiting body formation and fruiting body morphogenesis [34]. These researches provided important information for its breeding and commercial cultivation of F. velutipes.…”

Section: F Filiformis Is One Of the Most Important And Popular Ediblmentioning

confidence: 99%

“…Besides with unique compounds, the wild strain of F. filiformis Liu 355 can produce the fruiting body at relative high temperature than current commercial strains, implying it is a potential excellent breeding resource. A temperature downshift (cold stimulation) is considered to be one of the most important and essential environmental factors for the fruiting initiation and fruiting body formation of F. velutipes [34]. In generally, mycelia of F. velutipes can grow vegetative at 20-24 °C and fruiting at an optimum temperature for 12-15 °C [32].…”

Section: Heat Shock Protein Correspond To Temperature Change In F Fimentioning

confidence: 99%

Genomic-wide analysis and prediction of genes involved in biosynthesis of polysaccharide and bioactive secondary metabolites in high-temperature-tolerance of wild Flammulina filiformis

Chen

Tang

et al. 2019

Preprint

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Background: Flammulina filiformis (=Asian “F.velutipes”) is a popular commercial edible mushroom. Many bioactive compounds such as polysaccharides and sesquiterpenoids with medicinal effects have been isolated and identified, but their biosynthesis and regulation in molecular level is unclear. In this study, we sequenced the genome of the wild strain F. filiformis Liu 355, predicated the biosynthetic gene clusters (BGCs) and profiled these genes expression between wild and cultivar strains and among different development stages of the wild strain of F. filiformis by a comparative transcriptomic analysis. Results: The results revealed that the genome of the F. filiformis was 35.01 M bp in length and annotated with 10396 gene models. 12 putative terpeniod gene clusters were predicted, 12 sesquiterpenes synthase genes belonged to four different groups and two type I PKS (polyketide synthase) gene clusters were identified from F. filiformis genome. The gene number related terpeniod biosynthesis is higher in wild strain (119 genes) than cultivar strain (81 genes) and most of them are up regulated in primodium and fruiting body of the wild strain, while PKS genes are usually up-regulated in the mycelium of wild strain. Moreover, genes encoding UDP-glucose pyrophosphorylase and UDP-glucose dehydrogenase involved in polysaccharide biosynthesis have relative high transcripts both in mycelium and fruiting bodies of F. filiformis. Conclusions: We identified candidate genes involved in the biosynthesis of polysaccharide and terpenoid bioactive compounds and profiled these genes expression during the development of F. filiformis. This study expends our knowledge for understanding the biology of F. filiformis and provides valuable data for elucidating the secondary metabolism regulation of the special strain of F. filiformis.

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A Comparative Proteome Approach Reveals Metabolic Changes Associated with Flammulina velutipes Mycelia in Response to Cold and Light Stress

Cited by 30 publications

References 55 publications

TMT-Based Quantitative Proteomic Profiling of Overwintering Lissorhoptrus oryzophilus

TMT-Based Quantitative Proteomic Profiling of Overwintering Lissorhoptrus oryzophilus

Genome-wide analysis and prediction of genes involved in the biosynthesis of polysaccharides and bioactive secondary metabolites in high-temperature-tolerant of wild Flammulina filiformis

Genomic-wide analysis and prediction of genes involved in biosynthesis of polysaccharide and bioactive secondary metabolites in high-temperature-tolerance of wild Flammulina filiformis

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