Dataset: Fluorescent in situ hybridization data from the Cariaco Basin
Deployment: CAR212_3

Fluorescent in situ hybridization data from the CAR212 and CAR216 cruises.

Principal Investigator:

Virginia P. Edgcomb (Woods Hole Oceanographic Institution, WHOI)

Gordon T. Taylor (Stony Brook University - SoMAS, SUNY-SB SoMAS)

Co-Principal Investigator:

Dr Craig Taylor (Woods Hole Oceanographic Institution, WHOI)

BCO-DMO Data Manager:

Hannah Ake (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Genetic and Metabolic Signatures of Marine Microorganisms in Oxygen Depleted and Varying Geochemical Seascapes (CariacoMetaOmics)

Current State:

Final with updates expected

Version:

final

Version Date:

2016-07-25

Data URL:

https://osprey.bco-dmo.org/dataset-deployment/652577/data

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Description

Fluorescent in situ hybridization (FISH) data enumerated from microscopic samples on 2 legs of each of the CAR212 and CAR216 cruises.

Methods & Sampling

Dataset acquisition description

All samples were collected via Niskin bottles.

Seawater samples were fixed with 2% borate-buffered formaldehyde, frozen overnight, then filtered the next day onto 0.2-um polycarbonate membrane filters. Filters were refrozen at -20 degrees celsius until hybridization. All FISH hybridization procedures were performed according to Pernthaler et al. (2001) with fluorescent probes labeled with CY3 or fluorescein. Filters were counterstained with DAPI and probe-positive cells were enumerated as a percentage of the total community (DAPI-positive). FISH probes were:

Data Processing Description

Dataset Processing Description

All data were normalized to volume of seawater.

DMO Notes:

-transferred FISH data section into separate a data object.
-reformatted the date to comply with BCO-DMO standards.
-reformatted some column names to comply with BCO-DMO standards.

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-1335436	NSF Division of Ocean Sciences
OCE-1336082	NSF Division of Ocean Sciences

Instruments

Niskin bottle

Supplied Description:

All samples were collected via Niskin bottles.

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

Supplied Name	Supplied description	Supplied Units	Standard Name
cruise_id	cariaco cruise number and leg number	unitless	cruise_id
date_start	start date; mm/dd/yyyy	unitless	date_start
depth	depth	meters	depth
delta495	percent Delta495 cells of total	dimensionless	no_bcodmo_term
delta495_sd	standard deviation of the percent Delta495 cells of total	dimensionless	std_dev
gam42a	percent Gam42a cells of total	dimensionless	no_bcodmo_term
gam42a_sd	standard deviation of the percent Gam42a cells of total	dimensionless	std_dev
eps682	percent Eps682 cells of total	dimensionless	no_bcodmo_term
eps682_sd	standard deviation of the percent Eps682 cells of total	dimensionless	std_dev
alf968	percent Alf968 cells of total	dimensionless	no_bcodmo_term
alf968_sd	standard deviation of the percent Alf968 cells of total	dimensionless	std_dev

Database

Contribute Data

Dataset: Fluorescent in situ hybridization data from the Cariaco Basin
Deployment: CAR212_3

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Fluorescent in situ hybridization data from the Cariaco BasinDeployment: CAR212_3

Dataset acquisition description

Dataset Processing Description

Dataset: Fluorescent in situ hybridization data from the Cariaco Basin
Deployment: CAR212_3