Dataset: Sargasso Sea surface bacteria accession numbers

Name: Paired metagenomic and metatranscriptomic data from R/V Atlantic Explorer AE1006, AE1024, Bermuda Atlantic Time Series Station (BATS), Sargasso Sea, Mar and Aug 2010 (Active bacteria in surface waters project)
Published: 2014-04-23
Keywords: oceans

Cite This Dataset

Spatial Extent: N:31.4 E:-64.1 S:31.4 W:-64.1

Project:

Are abundant bacteria more active than rare bacteria in the Sargasso Sea? (Active bacteria in surface waters)

Principal Investigator:

Dr Barbara Campbell (Clemson University, Clemson)

Co-Principal Investigator:

Dr John Heidelberg (University of Southern California, USC)

David L. Kirchman (University of Delaware)

Student:

Rohan Sachdeva (University of Southern California, USC)

BCO-DMO Data Manager:

Nancy Copley (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

2014-04-23

Version Date:

2014-04-23

Validated:

Yes

Current State:

Preliminary and in progress

Paired metagenomic and metatranscriptomic data from R/V Atlantic Explorer AE1006, AE1024, Bermuda Atlantic Time Series Station (BATS), Sargasso Sea, Mar and Aug 2010 (Active bacteria in surface waters project)

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Methods & Sampling

A combination of pyrosequencing and QPCR approaches were used to examine rRNA:rDNA ratios, BrdU incorporating cells, and transcript types and amounts in the metatranscriptome of Sargasso Sea surface water. The investigators also used Micro-FISH to examine incorporation of thymidine, leucine, and PO4. Samples were collected in 2010 during the spring phytoplankton bloom when heterotrophic bacterial production is lowest and during the peak of bacterial production in summer.

Data Files

File
bact_accessions.csv (Comma Separated Values (.csv), 1.54 KB) MD5:cd54d62accbb1c53a93efa0587b7385c Primary data file for dataset ID 512782

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-0824981
NSF Division of Ocean Sciences	OCE-0825468

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
AE1006	256 B256 GF256	2010-03-23	R/V Atlantic Explorer	Lilia Jackman (Chief Scientist)	data info
AE1024	B261 GF261	2010-08-19	R/V Atlantic Explorer	Steven Bell (Chief Scientist) Dr Barbara Campbell (Co-Chief Scientist)	data info

Instruments

Niskin bottle

Supplied Description:

Instrument Type

Generic Name: Niskin bottle

Community Identifier: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/

Generic Description:

A Niskin bottle (a next generation water sampler based on the Nansen bottle) is a cylindrical, non-metallic water collection device with stoppers at both ends. The bottles can be attached individually on a hydrowire or deployed in 12, 24, or 36 bottle Rosette systems mounted on a frame and combined with a CTD. Niskin bottles are used to collect discrete water samples for a range of measurements including pigments, nutrients, plankton, etc.

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
cruise_id	cruise identification; AE is Atlantic Explorer	unitless	cruise_id
date	date of collection	mm/dd/yyyy	date
lat	latitude; north is positive	decimal degrees	lat
lon	longitude; east is positive	decimal degrees	lon
depth	depth of sample	meters	depth
accession_number	NCBI accession number	unitless	accession_number

Status message

Database

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Dataset: Sargasso Sea surface bacteria accession numbers