Dataset: Microbial abundances from the Cariaco Basin
Deployment: CAR216_2

Microscopy 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:

2016-07-22

Data URL:

https://osprey.bco-dmo.org/dataset-deployment/652502/data

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Description

Quantitative polymerase chain reaction (qPCR) data collected from DNA samples on 1 leg of each of the CAR212 and CAR216 cruises.

Methods & Sampling

Dataset acquisition description

All samples were collected via Niskin bottles.

Total microbial biomass and flagellate abundance was determined by staining formaldehyde-preserved seawater with acridine orange and filtering onto black polycarbonate 0.2um or 0.8um filters, respectively, according to Hobbie et al. (1977) and Taylor et al. (2001). Cells were enumerated visually on a Zeiss Axioscope epifluorescent microscope with the appropriate filter set. Viral-like particles were stained with SYBRgreen, filtered onto 0.02µm black Anodisc filters and visually enumerated on the epifluorescent microscope with the appropriate filter set, according to Noble and Fuhrman (1998) and Taylor et al. (2001).

Data Processing Description

Dataset Processing Description

All data were normalized to volume of seawater.

DMO Notes:

-transferred microscopy 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

Fluorescence Microscope

Supplied Name: Zeiss Axioscope epifluorescent microscope

Supplied Description:

Cells and virus-like particles were enumerated using the appropriate filter set.

Instrument Type

Generic Name: Fluorescence Microscope

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB06/

Generic Description:

Instruments that generate enlarged images of samples using the phenomena of fluorescence and phosphorescence instead of, or in addition to, reflection and absorption of visible light. Includes conventional and inverted 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

None available yet

Database

Contribute Data

Dataset: Microbial abundances from the Cariaco Basin
Deployment: CAR216_2

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Microbial abundances from the Cariaco BasinDeployment: CAR216_2

Dataset acquisition description

Dataset Processing Description

Dataset: Microbial abundances from the Cariaco Basin
Deployment: CAR216_2