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Root metagenome

ABSTRACT: Cover cropping rather than host crop identity may be a strong factor for influencing arbuscular mycorrhizal fungal communities in a cover crop rotational system with soybean and maize

PROVIDER: PRJDB7241 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	DRR144945_1.fastq.gz	Fastqsanger.gz
	DRR144945_2.fastq.gz	Fastqsanger.gz
	DRR144946_1.fastq.gz	Fastqsanger.gz
	DRR144946_2.fastq.gz	Fastqsanger.gz
	DRR144947_1.fastq.gz	Fastqsanger.gz

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Soybean root LC-MSMS - iTRAQ Proteomic Analysis of Continuously Cropped Soybean Root Inoculated With Funneliformis mosseae

Project description:Soybean (Glycine max) is susceptible to root rot when subjected to continuous cropping, and this disease can seriously diminish the crop yield. Herein, isobaric tag for relative and absolute quantitation (iTRAQ) labeling and liquid chromatography-tandem mass spectrometry (LC-MS/MS) were employed for proteomic analysis of continuously cropped soybean inoculated with the arbuscular mycorrhizal (AM) fungus Funneliformis mosseae. Differential expression of proteins in soybean roots was determined following 1 year of continuous cropping. A total of 131 differentially expressed proteins (DEPs) were identified in F. mosseae-treated samples, of which 49 and 82 were up- and down-regulated, respectively. The DEPs were annotated with 117 Gene Ontology (GO) terms, with 48 involved in biological processes, 31 linked to molecular functions, and 39 associated with cell components. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis mapped the DEPs to 113 mainly metabolic pathways including oxidative phosphorylation, glycolysis and amino acid metabolism. Expression of glucan 1,3-beta-glucosidase, chalcone isomerase, calcium-dependent phospholipid binding and other defense-related proteins was up-regulated by F. mosseae, suggesting inoculation promotes the growth and development of soybean and increases disease resistance. The findings provide an experimental basis for further research on the molecular mechanisms of AM fungi in resolving problems associated with continuous soybean cropping.

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Structure and variation in microbiome from continuous and rotational Pinellia ternata cropping soils

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Transcriptome analysis of mycorrhizal and non-mycorrhizal soybean root associated with F. virguliforme inoculation

Project description:Many of the microorganisms that are normally present in the soil, actually inhabit the rhizosphere and interact with plants. Those plant–microorganisms interactions may be beneficial or harmful. Among the first are the arbuscular mycorrhizal fungi (AMF). These soil fungi have been reported to improve plant resistance/tolerance to pests and diseases. On the other hand, soilborne pathogens represent a threat to agriculture generating important yield losses, depending upon the pathogen and the crop. One example is the “Sudden Death Syndrome” (SDS), a severe disease in soybean (Glycine max (L.) Merr) caused by a complex of at least four species of Fusarium sp., among which Fusarium virguliforme and F. tuccumaniae are the most prevalent in Argentina. This study provides, under strict in vitro culture conditions, a global analysis of transcript modifications in mycorrhizal and non-mycorrhizal soybean root associated with F. virguliforme inoculation. Microarray results showed qualitative and quantitative changes in the expression of defense-related genes in mycorrhizal soybean, suggesting that AMF are good candidates for sustainable plant protection against F. virguliforme.

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Transcriptional changes in mycorrhizal and non-mycorrhizal soybean roots in presence of the fungal pathogen Macrophomina phaseolina

Project description:Macrophomina phaseolina, a soil borne pathogen with a wide host range, causes the charcoal rot in soybean (Glycine max (L.) Merr). In Argentina, soybean is the most important crop as far as sowing surface cultivation concerns, and for this reason it is important to assess integrated disease management strategies in order to minimize the incidence of this disease and the consequent loss of performance culture. Previous studies have demonstrated the protective effect that arbuscular mycorrhizal can promote on their hosts against various pathogens invasion, especially against soil borne fungi. Therefore, the goal of this study was to analyze the phenomenon of mycorrhizae mediated protection by characterizing transcriptional changes using cDNA microarrays as a tool. The objective of the present study was to investigate, under strict in vitro culture conditions, the global transcriptional change in the roots of pre-mycorrhized soybean plantlets challenged by M. phaseolina as compared to non-mycorrhizal soybean plantlets. The MapMan software was used to distinguish transcriptional change under these conditions, with special emphasis on plant defence response.

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Project description:Arbuscular mycorrhiza (AM) interactions between plants and Glomeromycota fungi primarily support phosphate aquisition of most terrestrial plant species. To unravel gene expression in Medicago truncatula root colonization by AM fungi, we used genome-wide transcriptome profiling based on whole mycorrhizal roots. We used GeneChips to detail the global programme of gene expression in response to colonization by arbuscular mycorrhizal fungi and in response to a treatment with phosphate and identified genes differentially expressed during this process. Medicago truncatula roots were harvested at 28 days post inoculation with the two different arbuscular mycorrhizal fungi Glomus intraradices (Gi-Myc) and Glomus mosseae (Gm-Myc) under low phosphate conditions (20 µM phosphate) or after a 28 days treatment with 2 mM phosphate in the absence of arbuscular mycorrhizal fungi (2mM-P). As a control, uninfected roots grown under low phosphate conditions (20 µM phosphate) were used (20miM-P). Three biological replicates consisting of pools of five roots were used for RNA extraction and hybridization on Affymetrix GeneChips.

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root metagenome

Project description:Impacts of cover crop residue management on the arbuscular mycorrhizal fungal communities of maize

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