Dataset: AT42-05 and FK190211 hydrography
Deployment: AT42-05

water column geochemistry AT42-05

View Data: For data, See Dataset Metadata Page: https://www.bco-dmo.org/dataset/818993

Principal Investigator:

Samantha B. Joye (University of Georgia, UGA)

Co-Principal Investigator:

Andreas Teske (University of North Carolina at Chapel Hill, UNC-Chapel Hill)

BCO-DMO Data Manager:

Amber D. York (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Collaborative Research: Microbial Carbon cycling and its interactions with Sulfur and Nitrogen transformations in Guaymas Basin hydrothermal sediments (Guaymas Basin Interactions)

Version:

Coordinated Deployments:

AT42-05_Alvin_Dives

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Description

Methods & Sampling

Dataset acquisition description

Data processed using Sea-Bird’s SBE Data Processing program/SeaSoft, version 7.23.2

Data processing protocol adapted from CalCOFI methods, found here: https://calcofi.org/data/ctd/165-ctd-processing/330-ctd-data-processing-protocol.html

Raw .hex files were converted to ASCII .cnv files without skipping scans; hysteresis correction was applied to oxygen data. A 9 s median window filter applied to all variables, and a 0.15 low pass filter was applied to pressure data only. A 4 s delay was applied to the raw oxygen data and v1 (also oxygen) as recommended in Sea-Bird’s software manual. Default settings were used for the cell thermal mass correction. Depth, potential temperature, salinity, density, oxygen concentration (tau correction applied), oxygen saturation, dynamic meters, and specific volume anomaly were derived from existing data using the EOS-8 option in SeaSoft.

Casts were not split or binned, because these steps obscure or eliminate the hydrothermal plume signal seen in the temperature data at the bottom depths of the casts.

Files were converted to .csv format using the text to column function in Microsoft Excel.

Data Processing Description

Dataset Processing Description

BCO-DMO Data Manager Processing Notes:
* Data submitted as seabird .cnv files (see "Data Files" section for originally submitted cnv files)
│ ├── [ 83M] at4205001_derived.cnv
│ ├── [109M] at4205002_derived.cnv
│ ├── [ 61M] at4205003_derived.cnv
│ ├── [ 69M] at4205004_derived.cnv
│ ├── [107M] at4205005_derived.cnv
│ ├── [ 76M] at4205006_derived.cnv
│ ├── [ 61M] at4205007_derived.cnv
│ ├── [106M] at4205008_derived.cnv
│ ├── [ 75M] at4205009_derived.cnv
│ └── [ 63M] at4205010_derived.cnv

├── [ 69M] FK190211_CTD002actual_28022019.cnv
├── [ 73M] FK190211_CTD003actual_28022019.cnv
├── [ 97M] FK190211_CTD004_01032019.cnv
├── [142M] FK190211_CTD006_02032019.cnv
├── [ 65M] FK190211_CTD007_03032019.cnv
├── [ 24M] FK190211_CTD008_03032019.cnv
├── [ 97M] FK190211_CTD009_04032019.cnv
├── [ 17M] FK190211_CTD010_04032019.cnv
├── [ 86M] FK190211_CTD011_05032019.cnv
├── [ 39M] FK190211_CTD012_05032019.cnv
├── [100M] FK190211_CTD013_06032019.cnv
├── [ 99M] FK190211_CTD014_06032019.cnv
├── [140M] FK190211_CTD015_07032019.cnv
├── [ 84M] FK190211_CTD016_08032019.cnv
├── [ 95M] FK190211_CTD017_08032019.cnv
├── [ 12M] FK190211_CTD018_08032019.cnv
├── [ 11M] FK190211_CTD019_08032019.cnv
├── [ 70M] FK190211_CTD020_09032019.cnv
├── [ 13M] FK190211_CTD021_09032019.cnv
├── [ 81M] FK190211_CTD022_10032019.cnv
├── [100M] FK190211_CTD023_11032019.cnv
├── [152M] FK190211_CTD024_11032019.cnv
├── [ 20M] FK190211_CTD025_12032019.cnv
└── [7.9M] FK190211_CTDtest_22022019.cnv

* all cnv files imported into the BCO-DMO data system as one combined data table.
* added a conventional header with dataset name, PI name, version date
* modified parameter names to conform with BCO-DMO naming conventions (spaces, +, and - changed to underscores). Units in parentheses removed and added to Parameter Description metadata section.
* The defualt missing identifier in the original file N.D. for "not determined" is displayed as "nd" in the data. nd is the default missing data identifier in the BCO-DMO system.
* Added column "cast_datetime_start" from the NMEA timestamp in UTC within the seabird headerlines in each cnv file.
* Added column "station_name" with the station name used in the .cnv filename.
* Added column "cruise_id"
* Lat/lon converted to decimal degrees from degrees decimal minutes
* Comment column added to contain comments in the original seabird file header.

Version 2 (2023-03-23) replaces version 1(2020-08-27) :
* Version 2 has the data from the faulty sensors removed from the FK190211 files but is otherwise the same as version 1

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-1357360	NSF Division of Ocean Sciences

Instruments

CTD Sea-Bird 9

Supplied Name: Sea-Bird SBE 9 CTD rosette used for data and sample collection

Supplied Description:

Used with a Sea-Bird SBE11plus deck unit

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

Sea-Bird SBE 43 Dissolved Oxygen Sensor

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: Sea-Bird SBE 43 Dissolved Oxygen Sensor

Acronym: SBE-43 DO

Community Identifier: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0036/

Generic Description:

The Sea-Bird SBE 43 dissolved oxygen sensor is a redesign of the Clark polarographic membrane type of dissolved oxygen sensors. more information from Sea-Bird Electronics

Turbidity Meter

Supplied Name: WET labs ECO-NTU Turbidity Meter

Supplied Description:

Instrument Type

Generic Name: Turbidity Meter

Generic Description:

A turbidity meter measures the clarity of a water sample. A beam of light is shown through a water sample. The turbidity, or its converse clarity, is read on a numerical scale. Turbidity determined by this technique is referred to as the nephelometric method from the root meaning "cloudiness". This word is used to form the name of the unit of turbidity, the NTU (Nephelometric Turbidity Unit). The meter reading cannot be used to compare the turbidity of different water samples unless the instrument is calibrated. Description from: http://www.gvsu.edu/wri/education/instructor-s-manual-turbidity-10.htm

(One example is the Orion AQ4500 Turbidimeter)

Wet Labs ECO-AFL/FL Fluorometer

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: Wet Labs ECO-AFL/FL Fluorometer

Acronym: ECO AFL/FL

Community Identifier: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0172/

Generic Description:

The Environmental Characterization Optics (ECO) series of single channel fluorometers delivers both high resolution and wide ranges across the entire line of parameters using 14 bit digital processing. The ECO series excels in biological monitoring and dye trace studies. The potted optics block results in long term stability of the instrument and the optional anti-biofouling technology delivers truly long term field measurements.
more information from Wet Labs

WET Labs {Sea-Bird WETLabs} C-Star transmissometer

Supplied Name:

Supplied Description:

Instrument Type

Generic Name: WET Labs {Sea-Bird WETLabs} C-Star transmissometer

Acronym: WL CSTAR Trans

Community Identifier: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0160/

Generic Description:

The C-Star transmissometer has a novel monolithic housing with a highly intgrated opto-electronic design to provide a low cost, compact solution for underwater measurements of beam transmittance. The C-Star is capable of free space measurements or flow-through sampling when used with a pump and optical flow tubes. The sensor can be used in profiling, moored, or underway applications. Available with a 6000 m depth rating.

More information on Sea-Bird website: https://www.seabird.com/c-star-transmissometer/product?id=60762467717

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
cruise_id	cruise identifier	untiless	cruise_id
station_name	station name	unitless	station
cast_datetime_start	Cast Date in ISO 8601 format (UTC time zone)	unitless	ISO_DateTime_UTC
scan	Scan Count	unitless	scan
timeY	Time, System	seconds	time_elapsed
timeS	Time, Elapsed	seconds	time_elapsed
prDM	Pressure, Digiquartz	decibars (db)	press
t090C	Temperature (ITS-90)	degrees Celsius	temp
t190C	Temperature, 2 (ITS-90)	degrees Celsius	temp
c0S_m	Conductivity	Siemens per meter (S/m)	cond
c1S_m	Conductivity, 2	Siemens per meter (S/m)	cond
v0	Voltage 0 (free)	volts (V)	no_bcodmo_term
v1	Voltage 1 (oxygen)	volts (V)	no_bcodmo_term
v2	Voltage 2 (transmissometer)	volts (V)	no_bcodmo_term
v3	Voltage 3 (free)	volts (V)	no_bcodmo_term
v4	Voltage 4 (fluorometer)	volts (V)	no_bcodmo_term
v5	Voltage 5 (turbidity)	volts (V)	no_bcodmo_term
v6	Voltage 6 (altimeter)	volts (V)	no_bcodmo_term
v7	Voltage 7 (free)	volts (V)	no_bcodmo_term
sbeox0V	Oxygen raw, SBE 43	volts (V)	O2_v
sbeox1V	Oxygen raw, SBE 43 2	volts (V)	O2_v
CStarAt0	Beam Attenuation, WET Labs C-Star	per meter (1/m)	beam_cp
CStarTr0	Beam Transmission, WET Labs C-Star	pecent (%)	trans
flECO_AFL	Fluorescence, WET Labs ECO-AFL/FL	milligrams per cubic meter (mg/m^3)	fluor
turbWETntu0	Turbidity, WET Labs ECO	Nephelometric Turbidity Units (NTU)	turbidity
par	PAR/Irradiance, Biospherical/Licor	unknown	PAR
altM	Altimeter	meters (m)	altitude
latitude	Latitude	decimal degrees	lat
longitude	Longitude	decimal degrees	lon
depSM	Depth ([salt water, m], lat = 27.0065)	meters (m)	depth
potemp090C	Potential Temperature (ITS-90)	degrees Celsius	potemp
potemp190C	Potential Temperature, 2 (ITS-90)	degrees Celsius	potemp
sal00	Salinity, Practical	Practical Salinity Units (PSU)	sal
sal11	Salinity, Practical, 2	Practical Salinity Units (PSU)	sal
sigma_e00	Density (sigma-theta)	kilograms per cubic meter (kg/m^3)	sigma_0
sigma_e11	Density, 2 (sigma-theta)	kilograms per cubic meter (kg/m^3)	sigma_0
sbeox0Mg_L	Oxygen, SBE 43. WS = 2	milligrams per liter (mg/L)	O2
sbeox0Mm_L	Oxygen, SBE 43. WS = 2	micromoles per liter (umol/L)	O2
sbeox1Mg_L	Oxygen, 2	milligrams per liter (mg/L)	O2
sbeox1Mm_L	Oxygen, 2	micromoles per liter (umol/L)	O2
oxsolMg_L	Oxygen Saturation, Garcia & Gordon	milligrams per liter (mg/L)	O2sat
oxsatMg_L	Oxygen Saturation, Weiss	milligrams per liter (mg/L)	O2sat
dm	Dynamic Meters	[10 J/kg]	no_bcodmo_term
sva	Specific Volume Anomaly	[10^-8 * m^3/kg]	no_bcodmo_term
T2_T190C	Temperature Difference, 2 - 1 (ITS-90)	degrees Celsius	no_bcodmo_term
secS_priS	Salinity, Practical, Difference, 2 - 1	Practical Salinity Units (PSU)	no_bcodmo_term
Comments	Comments (from seabird file header)	unitless	comment

Database

Contribute Data

Dataset: AT42-05 and FK190211 hydrography
Deployment: AT42-05

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: AT42-05 and FK190211 hydrographyDeployment: AT42-05

Dataset acquisition description

Dataset Processing Description

Dataset: AT42-05 and FK190211 hydrography
Deployment: AT42-05