Dataset: Assembled genome sequence for the virus ANMV-1
Deployment: AT15-53

Assembled genome sequence for the virus ANMV-1

Principal Investigator:

David L. Valentine (University of California-Santa Barbara, UCSB)

Contact:

David L. Valentine (University of California-Santa Barbara, UCSB)

BCO-DMO Data Manager:

Stephen R. Gegg (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Dimensions: The Role of Viruses in Structuring Biodiversity in Methanotrophic Marine Ecosystems (Viruses in Methanotrophic Marine Ecosystems)

Current State:

Preliminary and in progress

Deployment Synonyms:

SEEPS09

Data URL:

https://www.bco-dmo.org/dataset-deployment/633027/data

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Description

Assembled genome sequence for the virus, ANMV-1, from marine sediments at a methane seep in the Santa Monica Basin and with a putative archaeal host.

Location:
Pacific Ocean: Santa Monica Basin, offshore California; Depth 820m; Lat. 33.799N, Long. 118.646W

Related files and references:
Henn, M. R., Sullivan, M. B., Stange-Thomann, N., Osburne, M. S., Berlin, A. M., Kelly, L., … Chisholm, S. W. (2010). Analysis of High-Throughput Sequencing and Annotation Strategies for Phage Genomes. PLoS ONE, 5(2), e9083. doi:10.1371/journal.pone.0009083

Paul, B. G., Bagby, S. C., Czornyj, E., Arambula, D., Handa, S., Sczyrba, A., … Valentine, D. L. (2015). Targeted diversity generation by intraterrestrial archaea and archaeal viruses. Nature Communications, 6(1). doi:10.1038/ncomms7585

Methods & Sampling

Dataset acquisition description

Sampling and Analytical Methodology:
Metagenomic sequencing was performed at the Broad Institute on 454-FLX plates, as part of the Gordon and Betty Moore Marine Phage Metagenome Initiative (Henn et al. 2010). Detailed methods on processing of metagenomic sequences, assembly, and genome annotation are described in Paul et al. (2015).

Data Processing Description

Dataset Processing Description

Data Processing:
Sediment metagenome ANM1 consists of raw reads from 454-FLX sequencing. To procure the ANMV-1 genome, metagenomic reads were first preprocessed, then assembled as described in Paul et al. (2015).

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-1046144	NSF Division of Ocean Sciences

Instruments

None available yet

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
CruiseId	Official UNOLS Cruise Id	text	cruise_id
Site	Site Id	text	site
Site_Description	Site Description	text	site_descrip
Collection_Date	Collection Date	DD-Mon-YYYY	date
Latitude	Latitude (South is negative)	decimal degrees	lat
Longitude	Longitude (West is negative)	decimal degrees	lon
Depth	Depth	meters	depth
Description	Sample Description	text	sample_descrip
Accession	Accession Id	text	accession_number
Version	Version	text	dataset_id
Link	Link to Accession in Genbank	text	external_link

Database

Contribute Data

Dataset: Assembled genome sequence for the virus ANMV-1
Deployment: AT15-53

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Assembled genome sequence for the virus ANMV-1Deployment: AT15-53

Dataset acquisition description

Dataset Processing Description

Dataset: Assembled genome sequence for the virus ANMV-1
Deployment: AT15-53