Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Archaeal microbiota of phyllosphre and soil

ABSTRACT: Archaeal microbiota of phyllosphre and soil Raw sequence reads

PROVIDER: PRJNA751210 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR15324121_1.fastq.gz	Fastqsanger.gz
	SRR15324121_2.fastq.gz	Fastqsanger.gz
	SRR15324122_1.fastq.gz	Fastqsanger.gz
	SRR15324122_2.fastq.gz	Fastqsanger.gz
	SRR15324123_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 48

Similar Datasets

Archaeal reads waste contaminated soil

Project description:Archaeal reads waste contaminated soil Raw sequence reads

| PRJNA613158 | ENA

soil microbiota

Project description:soil microbiota Raw sequence reads

| PRJNA591967 | ENA

soil microbiota

Project description:soil microbiota Raw sequence reads

| PRJNA629071 | ENA

Soil microbiota

Project description:Soil microbiota Raw sequence reads

| PRJNA1105398 | ENA

Archaeal diversity

Project description:Archaeal diversity Raw sequence reads

| PRJNA436179 | ENA

Archaeal diversity

Project description:Archaeal diversity Raw sequence reads

| PRJNA588367 | ENA

archaeal amoA 454

Project description:archaeal amoA 454 Raw sequence reads

| PRJNA431674 | ENA

Soil microbiota

Project description:Soil microbiota in the Northeastern of Thailand Raw sequence reads

| PRJNA686255 | ENA

RNA-Seq Analysis to confirm Different Transcriptomic Profiles of Soil-Derived Functional Module Consortia.

Project description:Purpose: Deconstructing the soil microbiome into reduced-complexity functional modules represents a novel method of microbiome analysis. The goals of this study are to confirm differences in transcriptomic patterns among five functional module consortia. Methods: mRNA profiles of 3 replicates each of functional module enrichments of soil inoculum in M9 media with either 1) xylose, 2) n-acetylglucosamine, 3) glucose and gentamycin, 4) xylan, or 5) pectin were generated by sequencing using an Illumina platform (GENEWIZ performed sequencing). Sequence reads that passed quality filters were aligned to a soil metagenome using Burrows Wheeler Aligner. Resulting SAM files were converted to raw reads using HTSeq, and annotated using Uniref90 or EGGNOG databases. Results: To reduce the size of the RNA-Seq counts table and increase its computational tractability, transcripts containing a minimum of 75 total counts, but no more than 3 zero counts, across the 15 samples were removed. The subsequent dataset was normalized using DESeq2, resulting in a dataset consisting of 6947 unique transcripts across the 15 samples, and 185,920,068 reads. We identified gene categories that were enriched in a sample type relative to the overall dataset using Fisher’s exact test. Conclusions: our dataset confirms that the functional module consortia generated from targeted enrichments of a starting soil inoculum had distinct functional trends by enrichment type.

2020-01-14 | GSE143587 | GEO

Archaeal, bacterial, and fungal across soil depths and agricultural practices

Project description:Archaeal, bacterial, and fungal across soil depths and agricultural practices Raw sequence reads

| PRJNA523109 | ENA