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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).
AccessionPRJNA217089
TypeUmbrella Metagenome project (Subtype:Metagenome)
Grants
  • "Microbial community genomics in the subsurface of a contaminated groundwater site." (Grant ID DE-AC02-05CH11231, Department of Energy)
SubmissionRegistration date: 26-Aug-2013
University of California, Berkeley
RelevanceEnvironmental
Project Data:
Resource NameNumber
of Links
Sequence data
Nucleotide (total)336672
WGS master3457
Genomic DNA16387
SRA Experiments82
Protein Sequences4219954
Publications
PubMed10
PMC5
Other datasets
BioSample3528
PopSet6
Assembly3474
SRA Data Details
ParameterValue
Data volume, Gbases1,219
Data volume, Tbytes0.79
This project encompasses the following 16 sub-projects:
Project TypeNumber of Projects
Genome sequencing
Highest level of assembly :
Complete genome
Scaffolds
Contigs
Total

2
3
2
7
BioProject
accession
Assembly
level
OrganismTitle
PRJNA216121 ScaffoldsParcubacteria bacterium RAAC4_OD1_1OD1 - Small genome and sparse metabolism of a sediment-associated bacterium from a candidate phylum (University of California,...)
PRJNA208744 Contigscandidate division Zixibacteria bacterium RBG-1candidate division ZIXI bacterium RBG-1 Metagenomic Assembly (University of California,...)
PRJNA114691 Contigsgroundwater metagenomeRifle CO Subsurface Groundwater Metagenome (University of California,...)
PRJNA273161 Complete genomegroundwater metagenomeReconstruction of 8 complete and 793 draft genomes from a Candidate Phyla Radiation (CPR) (Banfield Lab, University...)
PRJNA167727 Scaffoldssediment metagenomeRifle Sediment Metagenome (University of California,...)
List all 7 'Genome sequencing' projects...
metagenome4
BioProject
accession
OrganismTitle
PRJNA268031groundwater metagenomeRifle, CO metagenome from aquifer (Banfield Lab, University...)
PRJNA263279sediment metagenome4m sample from a Rifle, CO sediment metagenome (Banfield Lab, University...)
PRJNA263284sediment metagenome6m sample from a Rifle, CO sediment metagenome (Banfield Lab, University...)
PRJNA263282sediment metagenome5m sample from a Rifle, CO sediment metagenome (Banfield Lab, University...)
metagenomic assembly3
BioProject
accession
OrganismTitle
PRJNA217186Candidatus Saccharibacteria bacterium RAAC3_TM7_1TM7 - Small genome and sparse metabolism of a sediment-associated bacterium from a candidate phylum (University of California,...)
PRJNA217185candidate division SR1 bacterium RAAC1_SR1_1SR1 - Small genome and sparse metabolism of a sediment-associated bacterium from a candidate phylum (University of California,...)
PRJNA217183candidate division WWE3 bacterium RAAC2_WWE3_1WWE3 - Small genome and sparse metabolism of a sediment-associated bacterium from a candidate phylum (University of California,...)
targeted loci2
BioProject
accession
OrganismTitle
PRJNA269172groundwater metagenomeRifle Groundwater ribosomal proteins for Archaea (Banfield Lab, University...)
PRJNA169373sediment metagenomeRifle sediment bacterial community Targeted Locus (Loci) (University of California,...)

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