Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Maize Soil Metagenome

ABSTRACT: Maize Soil Metagenome Raw sequence reads

PROVIDER: PRJNA622831 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR11526517_1.fastq.gz	Fastqsanger.gz
	SRR11526517_2.fastq.gz	Fastqsanger.gz
	SRR11526518_1.fastq.gz	Fastqsanger.gz
	SRR11526518_2.fastq.gz	Fastqsanger.gz
	SRR11526519_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 180

Similar Datasets

maize rhizosphere soil

Project description:maize rhizosphere soil Raw sequence reads

| PRJNA732943 | ENA

maize rhizosphere soil

Project description:maize rhizosphere soil Raw sequence reads

| PRJNA874544 | ENA

maize rhizosphere soil

Project description:maize rhizosphere soil Raw sequence reads

| PRJNA874494 | 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

rhizosphere soil of maize

Project description:Raw sequence reads of maize rhizosphere soil

| PRJNA951350 | ENA

rhizosphere soil of maize

Project description:rhizosphere soil of maize Raw sequence reads

| PRJNA951893 | ENA

maize rhizosphere metagenome

Project description:maize rhizosphere metagenome Raw sequence reads

| PRJNA555161 | ENA

maize endophytic metagenome

Project description:maize endophytic metagenome Raw sequence reads