ID 217089 - BioProject

Display Settings:

Format

Summary
BioProject ID list
Accessions List

Send to:

Choose Destination

File
Clipboard
Collections
My Bibliography

Links from BioProject

Accession: PRJNA217089 ID: 217089

Rifle Sediment Metagenome

The objective of the research at the Rifle site is to gain a comprehensive understanding of microbial diversity and metabolic potential in freshwater aquifer systems, including carbon turnover mechanisms and microbial community dynamics and heterogeneity over time, with depth in the aquifer, and as a function of geochemical conditions (natural variation or imposed via experiment).

Accession	PRJNA217089
Type	Umbrella Metagenome project (Subtype:Metagenome)
Grants	"Microbial community genomics in the subsurface of a contaminated groundwater site." (Grant ID DE-AC02-05CH11231, Department of Energy)
Submission	Registration date: 26-Aug-2013 University of California, Berkeley
Relevance	Environmental

Project Data:

Resource Name	Number of Links
Sequence data
Nucleotide (total)	336672
WGS master	3457
Genomic DNA	16387
SRA Experiments	82
Protein Sequences	4219954
Publications
PubMed	10
PMC	5
Other datasets
BioSample	3528
PopSet	6
Assembly	3474

SRA Data Details

Parameter	Value
Data volume, Gbases	1,219
Data volume, Tbytes	0.79

This project encompasses the following 16 sub-projects:

Project Type

Number of Projects

Genome sequencing

Highest level of assembly :

Complete genome
Scaffolds
Contigs
Total

2
3
2
7

BioProject accession	Assembly level	Organism	Title
PRJNA216121	Scaffolds	Parcubacteria bacterium RAAC4_OD1_1	OD1 - Small genome and sparse metabolism of a sediment-associated bacterium from a candidate phylum (University of California,...)
PRJNA208744	Contigs	candidate division Zixibacteria bacterium RBG-1	candidate division ZIXI bacterium RBG-1 Metagenomic Assembly (University of California,...)
PRJNA114691	Contigs	groundwater metagenome	Rifle CO Subsurface Groundwater Metagenome (University of California,...)
PRJNA273161	Complete genome	groundwater metagenome	Reconstruction of 8 complete and 793 draft genomes from a Candidate Phyla Radiation (CPR) (Banfield Lab, University...)
PRJNA167727	Scaffolds	sediment metagenome	Rifle Sediment Metagenome (University of California,...)

List all 7 'Genome sequencing' projects...

metagenome

BioProject accession	Organism	Title
PRJNA268031	groundwater metagenome	Rifle, CO metagenome from aquifer (Banfield Lab, University...)
PRJNA263279	sediment metagenome	4m sample from a Rifle, CO sediment metagenome (Banfield Lab, University...)
PRJNA263284	sediment metagenome	6m sample from a Rifle, CO sediment metagenome (Banfield Lab, University...)
PRJNA263282	sediment metagenome	5m sample from a Rifle, CO sediment metagenome (Banfield Lab, University...)

metagenomic assembly

BioProject accession	Organism	Title
PRJNA217186	Candidatus Saccharibacteria bacterium RAAC3_TM7_1	TM7 - Small genome and sparse metabolism of a sediment-associated bacterium from a candidate phylum (University of California,...)
PRJNA217185	candidate division SR1 bacterium RAAC1_SR1_1	SR1 - Small genome and sparse metabolism of a sediment-associated bacterium from a candidate phylum (University of California,...)
PRJNA217183	candidate division WWE3 bacterium RAAC2_WWE3_1	WWE3 - Small genome and sparse metabolism of a sediment-associated bacterium from a candidate phylum (University of California,...)

targeted loci

BioProject accession	Organism	Title
PRJNA269172	groundwater metagenome	Rifle Groundwater ribosomal proteins for Archaea (Banfield Lab, University...)
PRJNA169373	sediment metagenome	Rifle sediment bacterial community Targeted Locus (Loci) (University of California,...)

BioProject

Result Filters

Display Settings:

Send to:

Links from BioProject

Rifle Sediment Metagenome

Supplemental Content

Related information

LinkOut to external resources

Recent activity