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16S metagenomic analysis of red amaranth

ABSTRACT: 16S metagenomic analysis of organically grown Red Amaranth grown with different soils

PROVIDER: PRJEB62721 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR11501946_1.fastq.gz	Fastqsanger.gz
	ERR11501946_2.fastq.gz	Fastqsanger.gz
	ERR11501956_1.fastq.gz	Fastqsanger.gz
	ERR11501956_2.fastq.gz	Fastqsanger.gz
	ERR11502060_1.fastq.gz	Fastqsanger.gz

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ITS metagenomic analysis of red amaranth

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16S rRNA metagenomic profiling of red amaranth grown organically with different composts and soils.

Project description:In recent years organic food is gaining popularity as it is believed to promote better human health and improve soil sustainability, but there are apprehensions about pathogens in organic produces. This study was designed to understand the effect of different composts and soils on the status of the microbiome present in organically grown leafy vegetables. 16S rRNA metagenomic profiling of the leaves was done, and data were analyzed. It was found that by adding composts, the OTU of the microbiome in the organic produce was higher than in the conventional produce. The beneficial genera identified across the samples included plant growth promoters (Achromobacter, Paenibacillus, Pseudomonas, Sphingobacterium) and probiotics (Lactobacillus), which were higher in the organic produce. Some pathogenic genera, viz., plant pathogenic bacteria (Cellvibrio, Georgenia) and human pathogenic bacteria (Corynebacterium, Acinetobacter, Streptococcus, Streptomyces) were also found but with relatively low counts in the organic produce. Thus, the present study highlights that organic produce has lesser pathogen contamination than the conventional produce. KEY POINTS: • 16S rRNA metagenomics profiling done for organic red amaranth cultivar • Microbial richness varied with respect to the soil and compost type used • The ratio of beneficial to pathogenic genera improves with the addition of compost.

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Project description:S. cerevisiae was grown on YEPD. For Congo Red experiments, yeast cells were grown overnight at 24 °C to an optical density 0.8 - 1 (A600). The culture was refreshed to 0.2 O.D and grown at 24 °C for 2h 30min. Next, culture was divided into two parts. One continues growing under same conditions (non-treated culture) while the other was supplemented with Congo Red to a final concentration of 30 μg/ml. At this time cells were collected t=0h. Keywords: repeat sample

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