Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Soil samples

ABSTRACT: Soil samples Metagenome

PROVIDER: PRJNA556441 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR9854961_1.fastq.gz	Fastqsanger.gz
	SRR9854961_2.fastq.gz	Fastqsanger.gz
	SRR9854962_1.fastq.gz	Fastqsanger.gz
	SRR9854962_2.fastq.gz	Fastqsanger.gz
	SRR9854963_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

Soil metagenome from avocado orchards in Channybearup, Western Australia in 2024

Project description:Metagenome data from soil samples were collected at 0 to 10cm deep from 2 avocado orchards in Channybearup, Western Australia, in 2024. Amplicon sequence variant (ASV) tables were constructed based on the DADA2 pipeline with default parameters.

2025-06-15 | GSE298403 | GEO

Soil samples

Project description:Soil samples Metagenome

| PRJNA859781 | ENA

Rhizosphere soil samples

Project description:Rhizosphere soil samples Metagenome

| PRJNA1158536 | ENA

Yulongxueshan soil samples

Project description:Yulongxueshan soil samples Metagenome

| PRJNA955425 | ENA

Ghana soil samples

Project description:Ghana soil samples Metagenome

| PRJNA608009 | ENA

Soil Samples Along the Potomac River

Project description:Soil Samples Collected from Along the DC-Metro Area of the Potomac River

2023-10-06 | E-MTAB-13365 | biostudies-arrayexpress

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

hospital grassplot soil samples

Project description:hospital grassplot soil samples Metagenome

| PRJNA763776 | ENA

Ornithogenically influenced soil samples

Project description:Ornithogenically influenced soil samples Metagenome

| PRJNA1025294 | ENA

Yulongxueshan soil samples-ITS1

Project description:Yulongxueshan soil samples-ITS1 Metagenome

| PRJNA957854 | ENA