Dataset: Whole genome sequence accessions from Ammonia-Oxidizing Archaea (AOA)
Deployment: RMP_2006_Sediment

Whole genome sequence accessions from Ammonia-Oxidizing Arachae (AOA)

View Data: For data, See Dataset Metadata Page: https://www.bco-dmo.org/dataset/684211

Principal Investigator:

Christopher Francis (Stanford University)

Contact:

Christopher Francis (Stanford University)

BCO-DMO Data Manager:

Amber D. York (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Spatial and Temporal Dynamics of Nitrogen-Cycling Microbial Communities Across Physicochemical Gradients in the San Francisco Bay Estuary (N-Cycling Microbial Communities)

Version:

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Description

This dataset contains Ammonia-Oxidizing Archaea (AOA) sequence accession information National Center for Biotechnology Information (NCBI). Samples were collected during the R/V Endeavor RMP Sediment Cruise in San Francisco Bay August 2-9, 2006.

For related datasets, click on the project link at the top of the page.

Methods & Sampling

Dataset acquisition description

The draft genome sequence of “Ca. Nitrosopumilus salaria” BD31 was obtained as described in Mosier et al. (2012a) and is available in the NCBI GenBank database under accession number AEXL00000000. The raw sequence reads are available in the NCBI SRA database under accession number PRJNA50075.

The draft genome sequence of “Ca. Nitrosoarchaeum limnia” BG20 was obtained as described in Mosier et al. (2012b) and is available in the NCBI GenBank database under accession number AHJG00000000. The raw sequence reads are available in the NCBI SRA database under accession number PRJNA50027.

The draft genome sequence of “Ca. Nitrosoarchaeum limnia” SFB1 was obtained as described in Blainey et al. (2011) and is available in the NCBI GenBank database under accession number AEGP00000000. The version described in the paper is the first version, AEGP01000000.

Data Processing Description

Dataset Processing Description

BCO-DMO Data Manager Processing Notes:
* added a conventional header with dataset name, PI name, version date
* blank values replaced with no data value 'nd'

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-0847266	NSF Division of Ocean Sciences

Instruments

None available yet

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
Station	Station sample was collected	unitless	station
Latitude	Latitude of sample	decimal degrees	lat
Longitude	Longitude of sample; west is negative	decimal degrees	lon
Salinity	Saility of sample	Practical Salinity Units (PSU)	sal
Depth	Depth of sample	meters	depth
Organism	Organism name (enriched and isolated from sediments)	unitless	sample_descrip
Draft_Genome_Accession	Link to accession at NCBI for the draft genome	unitless	accession_number
SRA_Accession	Link to accession at NCBI for SRA	unitless	accession_number

Database

Contribute Data

Dataset: Whole genome sequence accessions from Ammonia-Oxidizing Archaea (AOA)
Deployment: RMP_2006_Sediment

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Whole genome sequence accessions from Ammonia-Oxidizing Archaea (AOA)Deployment: RMP_2006_Sediment

Dataset acquisition description

Dataset Processing Description

Dataset: Whole genome sequence accessions from Ammonia-Oxidizing Archaea (AOA)
Deployment: RMP_2006_Sediment