Dataset: Bacteria
Deployment: WB0413

Bacterial abundance, thymidine & leucine incorporation

Principal Investigator:

Craig A. Carlson (University of California-Santa Barbara, UCSB)

BCO-DMO Data Manager:

Cynthia L. Chandler (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Eddies Dynamics, Mixing, Export, and Species composition (EDDIES)

Version:

26 March 2008

Deployment Synonyms:

EDT2 2004 Transect 2

Version Date:

2008-03-26

Data URL:

https://www.bco-dmo.org/dataset-deployment/452350/data

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Description

Bacterial abundance, thymidine & leucine incorporation from R/V Weatherbird II WB0409, WB0413, WB0506, WB0508 cruises in the Sargasso Sea, 2004-2005.

 dataset:         Bacterial abundance, thymidine & leucine incorporation
 project/cruise:  EDDIES/WB0409 2004 Transect 1 (EDT1)
                  EDDIES/WB0413 2004 Transect 2 (EDT2)
                  EDDIES/WB0506 2005 Transect 1 (EDT3)
                  EDDIES/WB0508 2005 Transect 2 (EDT4)
 platform:        R/V Weatherbird II

Methods & Sampling

Dataset acquisition description

Methodology: (applies to entire data set)
Ewart, C.S., Meyers, M.K., Wallner, E., McGillicuddy, D.J., and Carlson, C.A. (2008). Microbial dynamics in cyclonic and anticylonic mode-water eddies in the Northwestern Sargasso Sea. Deep-Sea Research II, 55: 1334-1347.

Bacterial abundance:
Porter, K.G., Feig, Y.S., 1980. The use of DAPI for identifying and counting aquatic microflora. Limnology and Oceanography 25 (5), 943-948.

Campbell, L., 2001. Flow cytometric analysis of autotrophic picoplankton. In: Paul, J.H. (Ed.), Methods in Microbiology: Marine Microbiology. Academic Press, San Diego, CA, 317-341.

Marie, D., Partensky, F., Jacquet, S., Vaulot, D., 1997. Enumeration and cell cycle analysis of natural populations of marine picoplankton by flow cytometry using the nucleic acid stain SYBR Green I. Applied and Environmental Microbiology 63 (1), 186-193.

Bacterial Production:
Fuhrman, J.A., Azam, F., 1982. Thymidine incorporation as a measure of heterotrophic bacterioplankton production in marine surface waters: Evaluation and field results. Marine Biology 66, 109-120.

Smith, D.C., Azam, F., 1992. A simple, economical method for measuring bacterial protein synthesis rates in seawater using 3H-leucine. Marine Microbial Food Webs 6, 107-114.

Carbon Conversion factors:
Caron, D.A., Dam, H.G., Kremer, P., Lessard, E.J., Madin, L.P., Malone, T.C., Napp, J.M., Peele, E.R., Roman, M.R., Youngbluth, M.J., 1995. The contribution of microorganisms to particulate carbon and nitrogen in surface waters of the Sargasso Sea near Bermuda. Deep-Sea Research 42 (6), 943-972.

Ducklow, H., 2000. Bacterial production and biomass in the ocean. In: Kirchman, D.L. (Ed.), Microbial Ecology of the Oceans. Wiley-Liss, Inc, New York, 85-120.

Data Processing Description

Dataset Processing Description

BCO-DMO Processing Notes:
Change history: YYMMDD
080213: downloaded Excel file from EDDIES data Web site
080326: added to OCB database by Nancy Copley and Cyndy Chandler
090810: metadata records completed; cruise_ID corrected

Parameter names were modified to be consistent with OCB database.

More information about this dataset deployment

Funding

Award Number	Funding Source
MCB-0237728	NSF Division of Molecular and Cellular Biosciences
OCE-0425615	NSF Division of Ocean Sciences

Instruments

Niskin bottle

Supplied Name: 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

Supplied Name	Supplied description	Supplied Units	Standard Name
event	unique sampling event number	YYYYMMDDhhmm	event
date	start date of event (GMT)	YYYYMMDD	date
time	start time of event (GMT)	hhmm	time
lon	longitude, negative denotes West	decimal degrees	lon
lat	latitude, negative denotes South	decimal degrees	lat
sta	station number	dimensionless	sta
depth_n	depth, nominal bottle firing	meters	depth_n
Cruise_ID	cruise ID designation code	dimensionless	cruise_id
temp	temperature, from CTD, ITS-90	degrees Celsius	temp
sal_CTD	salinity, from CTD, PSS-78 (PSU) (from primary T0,C0 sensors)	dimensionless	sal_ctd
fluor	fluorescence; from CTD profiler	micrograms/liter	fluor
O2_umol_kg	oxygen, dissolved from SBE 43 CTD sensor	micromoles/kilogram	O2_umol_kg
O2_CTD_S_umol_kg	oxygen, dissolved from SBE CTD (secondary)	micromoles/kilogram	O2_umol_kg
cond	conductivity, from CTD (from primary C0 sensor)	Siemens/meter	cond
temp_S	temperature, from CTD, ITS-90 (from secondary T1 sensor)	degrees Celsius	temp2
sal_S	salinity, from CTD, PSS-78 (PSU) (from secondary T1,C1 sensors)	dimensionless	sal2
sigma_t	sigma-T (density)	kilograms/meter^3	sigma_t
density	density	kilograms/liter	density
sta_ref	reference station indicator	dimensionless	sta
staName	name of station (as a text string)	dimensionless	sta_name
thym_incorp	thymine incorporation	picomoles/liter/hour	thy_incorp
thym_sd	standard deviation of thymidine incorp	picomoles/liter/hour	thy_sd
leuc_incorp	leucine incorporation	picomoles/liter/hour	leuc_incorp
leuc_sd	standard deviation of leucine	picomoles/liter/hour	leuc_sd
bacteria	bacteria cell concentration	cells x 10^9/liter	bact_abund
bact_sd	standard deviation of bacteria conc.	cells x 10^9/liter	no_bcodmo_term

Database

Contribute Data

Dataset: Bacteria
Deployment: WB0413

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: BacteriaDeployment: WB0413

Dataset acquisition description

Dataset Processing Description

Dataset: Bacteria
Deployment: WB0413