Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Soil and earthworm metagenomme

ABSTRACT: soil and earthworm metagenome Raw sequence reads

PROVIDER: PRJNA1035277 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR26667630_1.fastq.gz	Fastqsanger.gz
	SRR26667630_2.fastq.gz	Fastqsanger.gz
	SRR26667631_1.fastq.gz	Fastqsanger.gz
	SRR26667631_2.fastq.gz	Fastqsanger.gz
	SRR26667632_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 120

Similar Datasets

earthworm&soil

Project description:earthworm&soil Raw sequence reads

| PRJNA810764 | ENA

soil and earthworm metagenome

Project description:soil and earthworm metagenome Raw sequence reads

| PRJNA1034291 | ENA

Ag2S-NPs earthworm soil

Project description:Ag2S-NPs earthworm soil Raw sequence reads

| PRJNA993626 | ENA

metagenome earthworm&soil

Project description:metagenome earthworm&soil Metagenome

| PRJNA884013 | ENA

soil and earthworm gut microbiome

Project description:soil and earthworm gut microbiome Raw sequence reads

| PRJNA450160 | 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

earthworm and soil

Project description:earthworm and soil

| PRJNA914475 | ENA

earthworm gut

Project description:earthworm gut metagenomes Raw sequence reads

| PRJNA782213 | ENA

earthworm gut content

Project description:earthworm gut content Raw sequence reads

| PRJNA847348 | ENA

Soil Earthworm Phyllosphere

Project description:Soil Earthworm Phyllosphere Genome sequencing