Transcriptional responses for biosynthesis of ginsenoside in arbuscular mycorrhizal fungi-treated Panax quinquefolius L. seedlings using RNA-seq

2021 ◽  
Author(s):  
Zhifang Ran ◽  
Xiaotong Yang ◽  
Yongqing Zhang ◽  
Jie Zhou ◽  
Lanping Guo
Keyword(s):  
Arbuscular Mycorrhizal Fungi ◽  
Mycorrhizal Fungi ◽  
Arbuscular Mycorrhizal ◽  
Panax Quinquefolius ◽  
Rna Seq ◽  
Transcriptional Responses

Transcriptome Characterization of Panax Quinquefolius L. seedlings in Response to Arbuscular Mycorrhizal Fungi using RNA-seq

2021 ◽  
Author(s):  
Zhifang Ran ◽  
Xiaotong Yang ◽  
Yongqing Zhang ◽  
Jie Zhou
Keyword(s):  
Arbuscular Mycorrhizal Fungi ◽  
Stress Responses ◽  
Mycorrhizal Fungi ◽  
Differential Expression Analysis ◽  
Enrichment Analysis ◽  
Arbuscular Mycorrhizal ◽  
Transcriptome Profiling ◽  
Underlying Mechanism ◽  
Panax Quinquefolius ◽  
Rna Seq

Abstract Panax quinquefolius L. has been considered as an important traditional Chinese medicine with a history of more than 300 years in China. Ginsenoside is the main bioactive component. Our research group has found that the accumulation of ginsenoside could be affected by arbuscular mycorrhizal fungi (AMF). However the underlying mechanism how AMF affected the biosynthesis of ginsenoside in P. quinquefolius is still unclear. In this study, the RNA-seq analysis was used to evaluate the effects of AMF (Rhizophagus intraradices, R. intraradices) on the expression of ginsenoside synthesis related genes in P. quinquefolius root. The results indicated that a symbiotic relationship between R. intraradices and P. quinquefolius was established. RNA-seq achieved approximately 48.62 G reads of all samples. Assembly of all the reads involved in all samples produced 63420 transcripts and 24137 unigenes. Differential expression analysis was performed between the control and AMF group. A total of 111 differentially expressed genes (DEGs) in response to AMF vs control were identified, 78 and 33 transcripts were upregulated and downregulated, respectively. Based on the functional analysis, Gene ontology (GO) analysis revealed that most DEGs were related to stress responses and cellular metabolic processes. The Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis identified transduction, plant hormone signal transduction and terpenoids and polyketides biosynthesis pathways. Furthermore, the expression of glycolysis-related genes and ginsenoside synthesis related genes was largely induced by AMF. In conclusion, our results comprehensively elucidated the molecular mechanism how AMF affected the biosynthesis of ginsenoside in P.quinquefolius by transcriptome profiling.

scholarly journals Dual RNA-seq reveals large-scale non-conserved genotype x genotype specific genetic reprograming and molecular crosstalk in the mycorrhizal symbiosis

2018 ◽  
Author(s):  
Ivan D. Mateus ◽  
Frédéric G. Masclaux ◽  
Consolée Aletti ◽  
Edward C. Rojas ◽  
Romain Savary ◽  
...  
Keyword(s):  
Mycorrhizal Fungi ◽  
Large Scale ◽  
Molecular Mechanisms ◽  
Arbuscular Mycorrhizal ◽  
Mycorrhizal Symbiosis ◽  
Rna Seq ◽  
Plant Host ◽  
Transcriptional Responses ◽  
Plant Genes ◽  
Fungal Genetic

AbstractArbuscular mycorrhizal fungi (AMF) impact plant growth and are a major driver of plant diversity and productivity. We quantified the contribution of intra-specific genetic variability in cassava (Manihot esculenta) and Rhizophagus irregularis to gene reprogramming in symbioses using dual RNA-sequencing. A large number of cassava genes exhibited altered transcriptional responses to the fungus but transcription of most of these plant genes (72%) responded in a different direction or magnitude depending on the plant genotype. Two AMF isolates displayed large differences in their transcription, but the direction and magnitude of the transcriptional responses for a large number of these genes was also strongly influenced by the genotype of the plant host. This indicates that unlike the highly conserved plant genes necessary for the symbiosis establishment, plant and fungal gene transcriptional responses are not conserved and are greatly influenced by plant and fungal genetic differences, even at the within-species level. The transcriptional variability detected allowed us to identify an extensive gene network showing the interplay in plant-fungal reprogramming in the symbiosis. Key genes illustrated that the two organisms jointly program their cytoskeleton organisation during growth of the fungus inside roots. Our study reveals that plant and fungal genetic variation plays a strong role in shaping the genetic reprograming in response to symbiosis, indicating considerable genotype x genotype interactions in the mycorrhizal symbiosis. Such variation needs to be considered in order to understand the molecular mechanisms between AMF and their plant hosts in natural communities.

scholarly journals Phosphate availability and ectomycorrhizal symbiosis with Pinus sylvestris have independent effects on the Paxillus involutus transcriptome

Mycorrhiza ◽  
2020 ◽  
Vol 31 (1) ◽  
pp. 69-83
Author(s):  
Christina Paparokidou ◽  
Jonathan R. Leake ◽  
David J. Beerling ◽  
Stephen A. Rolfe
Keyword(s):  
Arbuscular Mycorrhizal Fungi ◽  
Pinus Sylvestris ◽  
Mycorrhizal Fungi ◽  
Arbuscular Mycorrhizal ◽  
Independent Effect ◽  
Paxillus Involutus ◽  
Artificial System ◽  
Transcriptional Responses ◽  
Ectomycorrhizal Symbiosis ◽  
Independent Effects

AbstractMany plant species form symbioses with ectomycorrhizal fungi, which help them forage for limiting nutrients in the soil such as inorganic phosphate (Pi). The transcriptional responses to symbiosis and nutrient-limiting conditions in ectomycorrhizal fungal hyphae, however, are largely unknown. An artificial system was developed to study ectomycorrhizal basidiomycete Paxillus involutus growth in symbiosis with its host tree Pinus sylvestris at different Pi concentrations. RNA-seq analysis was performed on P. involutus hyphae growing under Pi-limiting conditions, either in symbiosis or alone. We show that Pi starvation and ectomycorrhizal symbiosis have an independent effect on the P. involutus transcriptome. Notably, low Pi availability induces expression of newly identified putative high-affinity Pi transporter genes, while reducing the expression of putative organic acid transporters. Additionally, low Pi availability induces a close transcriptional interplay between P and N metabolism. GTP-related signalling was found to have a positive effect in the maintenance of ectomycorrhizal symbiosis, whereas multiple putative cytochrome P450 genes were found to be downregulated, unlike arbuscular mycorrhizal fungi. We provide the first evidence of global transcriptional changes induced by low Pi availability and ectomycorrhizal symbiosis in the hyphae of P. involutus, revealing both similarities and differences with better-characterized arbuscular mycorrhizal fungi.

scholarly journals Structure-specific regulation of nutrient absorption, metabolism and transfer in arbuscular mycorrhizal fungi

2018 ◽  
Author(s):  
Hiromu Kameoka ◽  
Taro Maeda ◽  
Nao Okuma ◽  
Masayoshi Kawaguchi
Keyword(s):  
Arbuscular Mycorrhizal Fungi ◽  
Mycorrhizal Fungi ◽  
Expression Patterns ◽  
Arbuscular Mycorrhizal ◽  
Nutrient Absorption ◽  
Rna Seq ◽  
Specific Expression ◽  
Symbiotic Relationships ◽  
Specific Regulation ◽  
Fungal Nutrition

AbstractArbuscular mycorrhizal fungi (AMF) establish symbiotic relationships with most land plants, mainly for the purpose of nutrient exchange. Many studies have revealed the regulation of absorption, metabolism, and transfer of nutrients in AMF and the genes involved in these processes. However, the spatial regulation of the genes among the structures comprising each developmental stage are not well understood. Here, we demonstrate the structure-specific transcriptome of the model AMF species, Rhizophagus irregularis. We performed an ultra-low input RNA-seq analysis, SMART-seq2, comparing five extraradical structures, germ tubes, runner hyphae, branched absorbing structures, immature spores, and mature spores. In addition, we reanalyzed the recently reported RNA-seq data comparing intraradical hyphae and arbuscules. Our analyses captured the distinct features of each structure and revealed the structure-specific expression patterns of genes related to absorption, metabolism, and transfer of nutrients. Of note, the transcriptional profiles suggest the distinct functions of branched absorbing structures in nutrient absorption. These findings provide a comprehensive dataset to advance our understanding of the transcriptional dynamics of fungal nutrition in this symbiotic system.

DiverseSorghum bicoloraccessions show marked variation in growth and transcriptional responses to arbuscular mycorrhizal fungi

2019 ◽  
Vol 42 (5) ◽  
pp. 1758-1774 ◽  
Author(s):  
Stephanie J. Watts‐Williams ◽  
Bryan D. Emmett ◽  
Veronique Levesque‐Tremblay ◽  
Allyson M. MacLean ◽  
Xuepeng Sun ◽  
...  
Keyword(s):  
Arbuscular Mycorrhizal Fungi ◽  
Mycorrhizal Fungi ◽  
Arbuscular Mycorrhizal ◽  
Marked Variation ◽  
Transcriptional Responses

scholarly journals Structure-Specific Regulation of Nutrient Transport and Metabolism in Arbuscular Mycorrhizal Fungi

2019 ◽  
Vol 60 (10) ◽  
pp. 2272-2281 ◽  
Author(s):  
Hiromu Kameoka ◽  
Taro Maeda ◽  
Nao Okuma ◽  
Masayoshi Kawaguchi
Keyword(s):  
Arbuscular Mycorrhizal Fungi ◽  
Mycorrhizal Fungi ◽  
Expression Patterns ◽  
Nutrient Transport ◽  
Arbuscular Mycorrhizal ◽  
Nutrient Absorption ◽  
Rna Seq ◽  
Specific Expression ◽  
Symbiotic Relationships ◽  
Specific Regulation

Abstract Arbuscular mycorrhizal fungi (AMF) establish symbiotic relationships with most land plants, mainly for the purpose of nutrient exchange. Many studies have revealed the regulation of processes in AMF, such as nutrient absorption from soil, metabolism and exchange with host plants, and the genes involved. However, the spatial regulation of the genes within the structures comprising each developmental stage is not well understood. Here, we demonstrate the structure-specific transcriptome of the model AMF species, Rhizophagus irregularis. We performed an ultra-low input RNA-seq analysis, SMART-seq2, comparing five extraradical structures, germ tubes, runner hyphae, branched absorbing structures (BAS), immature spores and mature spores. In addition, we reanalyzed the recently reported RNA-seq data comparing intraradical mycelium and arbuscule. Our analyses captured the distinct features of each structure and revealed the structure-specific expression patterns of genes related to nutrient transport and metabolism. Of note, the transcriptional profiles suggest distinct functions of BAS in nutrient absorption. These findings provide a comprehensive dataset to advance our understanding of the transcriptional dynamics of fungal nutrition in this symbiotic system.

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