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ABSTRACT: Diversity of endophytic fungi in Taxus species and their potential Relation with taxol biosynthesis, transcriptome

PROVIDER: PRJNA1073191 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR27885369_1.fastq.gz	Fastqsanger.gz
	SRR27885369_2.fastq.gz	Fastqsanger.gz
	SRR27885370_1.fastq.gz	Fastqsanger.gz
	SRR27885370_2.fastq.gz	Fastqsanger.gz
	SRR27885371_1.fastq.gz	Fastqsanger.gz

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Project description:Diversity of endophytic fungi in Taxus species and their potential Relation with taxol biosynthesis

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Variations in the expression pattern and sequence similarity of the key genes involved in the metabolism of taxoids among three Taxus species

Project description:Background：Taxol is an efficient anticancer drug; however, the accumulation of taxoids can vary hugely among Taxus species. The mechanism underlying differential accumulation of taxoids are largely unknown. Thus, the comparative analysis of the transcriptomes in three Taxus species, including T. media, T. mairei and T. cuspidata, was performed. Results:KEGG enrichment analysis revealed that the diterpenoid biosynthesis and cytochrome P450 pathways were significantly enriched in the differential expressed genes. Dynamic expressions of the taxol biosynthesis related genes might be a potential explanation for the interspecific differential accumulation of taxol and its derivatives. Besides, the sequences of several key enzymes were re-assembled based on independent transcriptomes from different Taxus species. Our data showed that sequence diversity may be another factor that determines the variations in taxoids. Furthermore, five jasmonic acid (JA) metabolism-related GO terms were analyzed. The differential expression of these JA-related transcription factors suggested distinct responses to exogenous MeJA applications in the three Taxus species. Conclusions:Our results revealed the comprehensive variations in the expression pattern and sequence similarity of the key genes involved in the metabolism of taxoids among different Taxus species. The data give us an opportunity to reveal the mechanism underlying the variations in the taxoid contents and to select the highest-yielding Taxus species.

2018-10-20 | GSE121523 | GEO

The genome of Pseudotaxus chienii, a relict conifer endemic to China, provides insights into the origin and evolution of taxane biosynthesis

Project description:As a sister genus to Taxus, Pseudotaxus holds significant importance for studying the origin and evolution of the taxane biosynthesis pathway. However, the reference genome of P. chienii, the sole species of Pseudotaxus, is not yet available. We have completed a chromosome-level genome assembly of P. chienii, with a total length of 15.6 Gb. P. chienii possesses only a partial pathway for Taxol biosynthesis, which terminates before the enzyme taxane 2α-O-benzoyl transferase (TBT), a crucial enzyme responsible for the production of 10-deacetylbaccatin III. With the emergence of the Taxus genus, the limitation posed by TBT is overcome, allowing for the extension of the existing taxane biosynthesis pathway into a complete Taxol biosynthesis pathway. Protein structure analysis revealed that the structure of metal ion catalysis sites in taxadiene synthase (TS) is conserved across the Pseudotaxus and Taxus genera, providing potential sites for enhancing TS activity through enzyme engineering. This comparative genomic analysis contributes to our understanding of the origin and evolution of taxane biosynthesis within the Taxaceae family.

2025-01-27 | GSE288094 | GEO

Analysis of sexually dimorphic accumulation of taxoids identifies a female-specific MYB-bHLH complex involved in the paclitaxel biosynthesis of Taxus media

Project description:Taxol is an efficient anticancer drug accumulated in Taxus trees. Taxus media, a large-scale cultured species, is a dioecious woody tree with high taxol yielding. However, the sexually dimorphic accumulation of taxoids in T. media is largely unknown. Our study identified a large number of differentially accumulated metabolites and differentially expressed genes, revealing the comprehensive differences between the female and male T. media trees. LC-MS analysis confirmed the high accumulation of taxoids in the female trees. Expression analysis showed that most Taxol biosynthesis-related genes were predominantly expressed in the female trees. To investigate the regulation mechanism underlying the sexually dimorphic accumulation of taxoids, a female-specific expressed gene, TmMYB39, was identified and its full-length sequence was cloned. Multiple sequence alignment and phylogenetic analyses showed that TmMYB39 is a typical R2R3-MYB factor and the subcellular localization of TmMYB39 is shown to be the nucleus. Furthermore, Y2H and BiFC assays showed that TmMYB39 interacts with TmbHLH13. Partial promoter sequences of 10 taxol biosynthesis-related genes were isolated, which were used for screening of the MYB recognition elements. TmMYB39 binds to the promoters of several taxol-related genes, such as GGPPS, T7OH, T10OH, T13OH, and TBT genes. Interaction between TmMYB39 and TmbHLH13 affected the expression of GGPS and T10OH genes, suggesting that TmMYB39 might function in the regulation of taxol biosynthesis through a ‘MYB-bHLH’ module. Our data provided a potential explanation for the sexually dimorphic accumulation of taxoids.

2021-05-28 | GSE175645 | GEO

Transcriptomic analysis revealed the mechanisms involved in the differential accumulation of taxoids, flavonoids and hormones among three Taxaceae trees

Project description:The natural product taxol is an efficient and worldwide accepted anticancer drug. Taxol and other taxoids accumulate in only a few specific genera of the Taxaceae family, such as Taxus and Pseudotaxus. The comprehensive variations among three Taxaceae trees, including one taxol-producing (TP) and two non-taxol producing (NTP) trees, were compared. In total, 3,655 metabolites and 88,609 functional genes were identified through metabolomic and transcriptomic analyses, respectively. KEGG enrichment analysis showed that many differentially expressed genes were enriched in several hormone-, flavonoid-, and terpenoid-related metabolic pathways. The hormones, abscisate and abscisic acid, highly accumulated in the NTP trees, whereas gibberellic acids substantially accumulated in the TP trees.

2018-10-27 | GSE121831 | GEO

Transcriptomic insights into the deconstruction of lignocellulosic biomass by Beauveria bassiana

Project description:This study was aimed at highlighting the endophytic to the saprophytic adaptive plasticity of B. bassiana. Thus the objective was to elucidate and compare the transcriptome of B. bassiana the fungi under endophytic, saprophytic and basal conditions.

2023-12-31 | GSE221727 | GEO

Proteomics of endophytic fungi enhance plant growth promotion in rice leaves

Project description:Endophytic fungi are fungi that live inside the roots of plants. They can promote plant growth through a variety of direct and indirect mechanisms. Direct mechanisms include the production of phytohormones, such as auxin and gibberellins, which can stimulate plant growth. Endophytic fungi can also fix nitrogen, solubilize phosphate, and produce siderophores, which are compounds that chelate iron and make it available to plants. In addition, some endophytic fungi produce antimicrobial metabolites that can protect plants from pests and pathogens. Indirect mechanisms include the induction of systemic resistance, which is a plant's ability to defend itself against pests and pathogens. Endophytic fungi can also help plants to tolerate abiotic stresses, such as drought, salinity, and heavy metals. In this study, we used a proteomic approach to identify the proteins that are expressed in rice plants after they are treated with endophytic fungi. We found that the treatment with endophytic fungi resulted in the expression of a number of proteins involved in plant growth, stress response, and defense. These results suggest that endophytic fungi can promote plant growth and improve plant resilience to stress.

2024-09-10 | PXD045243 | JPOST Repository

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Project description:Endophytic fungi with potential antitryposonomal activity

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Proteomics of endophytic fungi enhance plant growth promotion in rice root

Project description:Endophytic fungi are root-inhabiting fungi that can promote plant growth in a variety of ways. They can directly stimulate plant growth by producing phytohormones, such as auxin and gibberellins. They can also indirectly promote plant growth by helping plants to acquire nutrients, such as nitrogen and phosphorus, and by protecting plants from pests and pathogens.In this study, we used a proteomic approach to identify the proteins that are expressed in rice plants after they are treated with endophytic fungi. We found that the treatment with endophytic fungi resulted in the expression of a number of proteins involved in plant growth, nutrient acquisition, and defense. These results suggest that endophytic fungi can promote plant growth and improve plant resilience to stress.

2024-09-10 | PXD045242 | JPOST Repository

Endophytic fungi in Nepalese Taxus needles

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