Dataset: Bottle Data
Deployment: OC425

Bottle Data

Principal Investigator:

Dennis J. McGillicuddy (Woods Hole Oceanographic Institution, WHOI)

Contact:

Dennis J. McGillicuddy (Woods Hole Oceanographic Institution, WHOI)

Data Manager:

Olga Kosnyrev (Woods Hole Oceanographic Institution, WHOI)

BCO-DMO Data Manager:

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

Project:

Investigations of Alexandrium fundyense dynamics in the Gulf of Maine (ALEX-GoME)

Current State:

Final no updates expected

Version:

21 March 2013

Version Date:

2013-03-21

Data URL:

https://www.bco-dmo.org/dataset-deployment/454680/data

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Description

Multi year bottle data 2003-2010
Note: Dataset updated with 2008/EN448 Version 3 data srg/21Mar2013

These data include version 2 data as submitted.
Version 2 NOTES: Version 2 means that Data set has been updated in part of the new data added: (1) 2010 cruises; (2) Previously unavailable Whole cell counts from the previous cruises; (3) Previously unavailable data for Underway stations (mostly date, location).

Data files newly created or updated in this version are indicated with "_v2" in file names.
(BCO-DMO Note: for original files as contributed)

Date of creation: 5/12/2011.
Matlab code used for data merging: GM_read_alex_nuts_BTL_v2.m

No data reported for cruises: OC440 (2007) or EN456 (2008).

Data not sampled or lost are indicated with NaN.
Data not available at the time but supposed to arrive are indicated with the "waiting" flag=-9.99.

Funding:
The cruises from 2003-2004 were supported by NOAA grant NA160P2785 (MERHAB). The cruises from 2005-2010 were jointly funded: NSF grant OCE-0430724, NIEHS grant 1P50-ES01274201 (Woods Hole Center for Oceans and Human Health) and NOAA grant NA06NOS4780245 (GOMTOX).

Methods & Sampling

Dataset acquisition description

Hydrographic profiles and water samples were collected with a standard CTD-rosette system with Niskin bottles. Nutrient samples were filtered through Millipore HA filters, placed immediately in a sea water-ice bath for 5–10 min, and frozen at −18°C. Concentrations of NO3+NO2, NH4, Si(OH)4 and PO4 were measured with a Bran Luebbe AA3 AutoAnalyzer using standard techniques.

A. fundyense cells were enumerated from water samples using an oligonucleotide probe and methods described in Anderson et al. (2005). Both A. tamarense and A. fundyense occur in the Gulf of Maine, and these are considered to be varieties of the same species. Available molecular probes cannot distinguish between them, and only detailed analysis of the thecal plates on individual cells can provide this resolution—which is not practical for large numbers of field samples. Accordingly, for the purpose of this study, the name A. fundyense is used to refer to both forms.

Anderson, D. M., D. M. Kulis, B. A. Keafer, K. E. Gribble, R. Marin, and C. A. Scholin. 2005. Identification and enumeration of Alexandrium spp. from the Gulf of Maine using molecular probes. Deep-Sea Research II 52: 2467-2490.

Data Processing Description

Dataset Processing Description

BCO-DMO Processing/Edits
- Generated from data in original file "GOM_GB_nuts_TS_Alex_v2.tar.gz" contributed by Olga Kosnyrev
- Awk routine "GoMEbottle2csv.awk" generated to convert bottle ".txt" files to BCO-DMO .csv files
- Updated with version 3 data for 2008/EN448 data 21March2013, srg
- All bottle data reprocessed to correct NH4 data 21March2013, srg

More information about this dataset deployment

Funding

Award Number	Funding Source
1P50-ES01274201	National Institute of Environmental Health Sciences
NA06NOS4780245 (GOMTOX)	National Oceanic and Atmospheric Administration
NA160P2785 (MERHAB)	National Oceanic and Atmospheric Administration
OCE-0430724	NSF Division of Ocean Sciences

Instruments

Bran Luebbe AA3 AutoAnalyzer

Supplied Description:

Instrument Type

Generic Name: Bran Luebbe AA3 AutoAnalyzer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB04/

Generic Description:

Bran Luebbe AA3 AutoAnalyzer

See the description from the manufacturer.

CTD Sea-Bird 9

Supplied Description:

Instrument Type

Generic Name: CTD Sea-Bird 9

Acronym: CTD SBE 9

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/130/

Generic Description:

The Sea-Bird SBE 9 is a type of CTD instrument package. The SBE 9 is the Underwater Unit and is most often combined with the SBE 11 Deck Unit (for real-time readout using conductive wire) when deployed from a research vessel. The combination of the SBE 9 and SBE 11 is called a SBE 911. The SBE 9 uses Sea-Bird's standard modular temperature and conductivity sensors (SBE 3 and SBE 4). The SBE 9 CTD can be configured with auxiliary sensors to measure other parameters including dissolved oxygen, pH, turbidity, fluorometer, altimeter, etc.). Note that in most cases, it is more accurate to specify SBE 911 than SBE 9 since it is likely a SBE 11 deck unit was used. more information from Sea-Bird Electronics

CTD Sea-Bird SBE 911plus

Supplied Description:

Instrument Type

Generic Name: CTD Sea-Bird SBE 911plus

Acronym: CTD SBE 911plus

Community Identifier: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0058/

Generic Description:

The Sea-Bird SBE 911 plus is a type of CTD instrument package for continuous measurement of conductivity, temperature and pressure. The SBE 911 plus includes the SBE 9plus Underwater Unit and the SBE 11plus Deck Unit (for real-time readout using conductive wire) for deployment from a vessel. The combination of the SBE 9 plus and SBE 11 plus is called a SBE 911 plus. The SBE 9 plus uses Sea-Bird's standard modular temperature and conductivity sensors (SBE 3 plus and SBE 4). The SBE 9 plus CTD can be configured with up to eight auxiliary sensors to measure other parameters including dissolved oxygen, pH, turbidity, fluorescence, light (PAR), light transmission, etc.). more information from Sea-Bird Electronics

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
station	Station Id	x.x	station
date	date (GMT) in yyyyMMdd format	unitless	date_gmt
time	time (GMT)	HHMM	time
lon	Station longitude (West is negative)	decimal degrees	lon
lat	Station latitude (South is negative)	decimal degrees	lat
depth_nominal	nominal depth	m	depth
Alex	Number of Alexandrium fundyense cells	cells/L	count
Alex_Live	Number of live Alexandrium fundyense cells	cells/L	count
Pressure	Pressure	decibars	press
Temperature	Temperature	degrees Celcius	temp
Salinity	Salinity	psu	sal
NO3_plus_NO2	nitrate plus nitrite	uM	NO3_NO2
Silicate	Silicate	uM	Silicate
NH4	ammonium	uM	NH4
PO4	phosphate	uM	PO4
Chla	total chlorophyll a pigment	ug/l	chl_a
Phaeo	total phaeopigment	ug/l	phaeo
Flag	Flag "NOTE" values and meaning: 1 - regular data; 2 - Alex multiple samples averaged; 3 - Nuts multiple samples averaged; 4 - Alex and Nuts multiple samples averaged; 5 - Alex Live multiple samples averaged	integer	flag
cruise_id	Official cruise id	text	cruise_id
Year		unitless	year

Database

Contribute Data

Dataset: Bottle Data
Deployment: OC425

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Bottle DataDeployment: OC425

Dataset acquisition description

Dataset Processing Description

Dataset: Bottle Data
Deployment: OC425