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Root metagenome isolate:ALR

ABSTRACT: Root tissue of Aloe vera plant isolate:ALR Metagenome

PROVIDER: PRJNA288893 | ENA |

REPOSITORIES: ENA

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Dataset's files

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			Action	DRS
	SRR2204344_1.fastq.gz	Fastqsanger.gz
	SRR2204344_2.fastq.gz	Fastqsanger.gz
	SRR2204707_1.fastq.gz	Fastqsanger.gz
	SRR2204707_2.fastq.gz	Fastqsanger.gz
	SRR2204159_1.fastq.gz	Fastqsanger.gz

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Analysis of the Aloe vera transcriptome using the Affymetrix ATH1 GenChip

Project description:The Aloe vera transcriptome was analysed by hybridising triplicate samples of root and leaf tissue to the Affymetrix Arabidopsis ATH1 array.

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Analysis of the Aloe vera transcriptome using the Affymetrix ATH1 GenChip

Project description:The Aloe vera transcriptome was analysed by hybridising triplicate samples of root and leaf tissue to the Affymetrix Arabidopsis ATH1 array. In total, 7 samples were hybridised to the array. Samples consisted of 1 genomic DNA, and triplicate samples of leaf and root RNA.

2011-03-26 | E-GEOD-24389 | biostudies-arrayexpress

The preceding root system drives the rhizosphere microbiome

Project description:Background: The soil environment is responsible for sustaining most terrestrial plant life on earth, yet we know surprisingly little about the important functions carried out by diverse microbial communities in soil. Soil microbes that inhabit the channels of decaying root systems, the detritusphere, are likely to be essential for plant growth and health, as these channels are the preferred locations of new root growth. Understanding the microbial metagenome of the detritusphere and how it responds to agricultural management such as crop rotations and soil tillage will be vital for improving global food production. Methods: The rhizosphere soils of wheat and chickpea growing under + and - decaying root were collected for metagenomics sequencing. A gene catalogue was established by de novo assembling metagenomic sequencing. Genes abundance was compared between bulk soil and rhizosphere soils under different treatments. Conclusions: The study describes the diversity and functional capacity of a high-quality soil microbial metagenome. The results demonstrate the contribution of the microbiome from decaying root in determining the metagenome of developing root systems, which is fundamental to plant growth, since roots preferentially inhabit previous root channels. Modifications in root microbial function through soil management, can ultimately govern plant health, productivity and food security.

2020-03-06 | GSE146427 | GEO

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Project description:In general, the endosphere isolate EC18 showed more numbers of genes significantly altered in the presence of root exudates than the soil isolate SB8 . Some of the altered genes in the two strains showed overlap. Some of these genes were previously reported to be involved in microbe-plant interactions, such as organic substance metabolism, oxidation reduction, transmembrane transportation and a subset with putative or unknown function. It was also found some genes showed opposite trend among the two strains.

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Project description:Aloe vera overview

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Pb stress and ectomycorrhizas: stronger and more effective proteomic responses in poplar roots inoculated with Paxillus involutus isolate characterised by a low root colonization ratio

Project description:The commonly observed increased heavy metal tolerance of ectomycorrhized plants is usually linked with the protective role of the fungal hyphae covering colonized plant root tips. However, the molecular effects of ECM-triggered increases in plant mass and the ‘dilution effect’ are unknown. Here, we examined Populus × canescens microcuttings inoculated with the Paxillus involutus isolate, which triggered an increase in poplar growth despite successful colonization of only 1.9% ± 0.8 of root tips. Analyzed plants grown for 6 weeks in agar medium enriched with 0.75 mM Pb(NO3)2 lacked a protective fungal biofilter. In minimally colonized ‘bare’ roots, the proteome response to Pb was similar to that in noninoculated plants (e.g., higher abundances of PM- and V-type H+ 31 ATPases and lower abundance of ribosomal proteins). However, the more intensive activation of molecular processes leading to Pb sequestration or redirection of the root metabolic flux into amino acid and Pb chelate (phenolic and citrate) biosynthesis coexisted with lower Pb uptake compared to that in controls. The molecular Pb response of inoculated roots was more intense and effective than that of noninoculated roots in poplars.

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Project description:Aloe vera genome and transcriptome sequence

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LC-MS based phytochemical profiling towards the identification of antioxidant markers in some endemic Aloe species from Mascarene Islands

Project description:Aloe plant species have been used for centuries in traditional medicine and reported to be an important source of natural products. However, despite the large number of species within the Aloe genus, only a few of them have been investigated chemotaxonomically. A Molecular Network approach was used to highlight the different chemical classes characterizing the leaves of five Aloe species: Aloe macra, Aloe vera, Aloe tormentorii, Aloe ferox and Aloe purpurea. Aloe macra, A. tormentorii and A. purpurea are endemic from the Mascarene Islands comprising Reunion, Mauritius and Rodrigues. UHPLC-MS/MS analysis followed by a dereplication process allowed the characterization of 93 metabolites. The newly developed MolNotator algorithm was used as a tool for molecular networking and allowed a better exploration of the Aloe metabolome chemodiversity. The five species appeared to be rich in polyphenols (anthracene derivatives, flavonoids, phenolic acids). Therefore, total phenolic content and antioxidant activity of the five species were evaluated, and a DPPH-On-Line-HPLC assay was used to determine the metabolites responsible for the radical scavenging activity. The use of computational tools allowed a better description of the chemotaxonomy of five Aloe species, which showed differences in their metabolite composition, both qualitative and quantitative. Moreover, the molecular network approach allowed the identification of metabolites responsible for the antioxidant activity.

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