Dataset: SPOT Environmental Data 2005-2018

Name: Environmental data, nutrients, and leucine and thymidine bacterial production from samples collected by CTD during cruises in the San Pedro Channel on R/V Yellowfin from 2005 to 2018
Published: 2022-12-29
Keywords: oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.885939.1

Spatial Extent: N:33.33 E:-118.24 S:33.33 W:-118.24

Temporal Extent: 2005-01-19 - 2018-07-18

Project:

Protistan, prokaryotic, and viral processes at the San Pedro Ocean Time-series (SPOT)

Principal Investigator:

Jed A. Fuhrman (University of Southern California, USC)

Scientist:

Yi-Chun Yeh (University of Southern California, USC)

Technician:

Laura Furtado (University of Southern California, USC)

BCO-DMO Data Manager:

Shannon Rauch (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2022-12-29

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Environmental data, nutrients, and leucine and thymidine bacterial production from samples collected by CTD during cruises in the San Pedro Channel on R/V Yellowfin from 2005 to 2018

Abstract:

This dataset includes temperature, oxygen, and fluorescence were recorded by a Seabird Scientific SBE25plus Sealogger CTD during San Pedro Ocean Time-series (SPOT) cruises from 2005 to 2018. Nutrient variables include nitrite, nitrate, and phosphate. Satellite sea surface temperature, chlorophyll-a concentration, and surface productivity estimates were downloaded from the NOAA Coastwatch browser website. Leucine and thymidine bacterial production data are also included.

Expand/Collapse All

Archival Copy

Version Date	Archive	Persistent Identifier (PID)	Date PID Issued
2022-12-29	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.885939.1	2023-01-30

Methods & Sampling

Monthly San Pedro Ocean Time-series (SPOT) cruises on R/V Yellowfin were conducted in the San Pedro Channel, off the coast of Los Angeles, California, USA (33 N, 118 W). Variables including temperature, oxygen, and fluorescence were recorded by a Seabird Scientific SBE25plus Sealogger CTD at the time of sample collection. Nutrient variables including nitrite, nitrate, and phosphate were analyzed by MSI Analytical Lab at the University of California Santa Barbara. Satellite sea surface temperature, chlorophyll-a concentration, and surface productivity estimates were downloaded from the NOAA Coastwatch browser website. Leucine and thymidine bacterial production assays were performed by incubating seawater with H3-tagged leucine or thymidine for one hour, killing with trichloroacetic acid, filtered onto a 0.45 µm MCE filter (EMD Millipore HAWP02500). Activity on the filters is measured using a liquid scintillation counter (Beckman Coulter LS6500), and then the rate of uptake is used to calculate bacterial cells per milliliter of each sample.

Data Processing Description

BCO-DMO Processing:
- converted dates to YYYY-MM-DD format;
- replaced "No data" with "nd".

Data Files

File
environmental_2005-18.csv (Comma Separated Values (.csv), 99.67 KB) MD5:b2306357503ab26267e938b37a3428e4 Primary data file for dataset ID 885939

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1737409
Simons Foundation	CBIOMES 549943
Gordon and Betty Moore Foundation: Marine Microbiology Initiative	GBMF3779

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
SPOT_Yellowfin_Cruises		2005-01-19	R/V Yellowfin		data info

Instruments

Liquid Scintillation Counter

Supplied Name: Beckman Coulter LS6500

Supplied Description:

Instrument Type

Generic Name: Liquid Scintillation Counter

Acronym: LSC

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB21/

Generic Description:

Liquid scintillation counting is an analytical technique which is defined by the incorporation of the radiolabeled analyte into uniform distribution with a liquid chemical medium capable of converting the kinetic energy of nuclear emissions into light energy. Although the liquid scintillation counter is a sophisticated laboratory counting system used the quantify the activity of particulate emitting (ß and a) radioactive samples, it can also detect the auger electrons emitted from 51Cr and 125I samples.

Sea-Bird SBE 25 Sealogger CTD

Supplied Name: Seabird Scientific SBE25plus Sealogger CTD

Supplied Description:

Serial Number 0251231

Instrument Type

Generic Name: Sea-Bird SBE 25 Sealogger CTD

Acronym: CTD SBE 25

Community Identifier: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0040/

Generic Description:

The Sea-Bird SBE 25 SEALOGGER CTD is battery powered and is typically used to record data in memory, eliminating the need for a large vessel, electrical sea cable, and on-board computer. All SBE 25s can also operate in real-time, transmitting data via an opto-isolated RS-232 serial port. Temperature and conductivity are measured by the SBE 3F Temperature sensor and SBE 4 Conductivity sensor (same as those used on the premium SBE 9plus CTD). The SBE 25 also includes the SBE 5P (plastic) or 5T (titanium) Submersible Pump and TC Duct. The pump-controlled, TC-ducted flow configuration significantly reduces salinity spiking caused by ship heave, and in calm waters allows slower descent rates for improved resolution of water column features. Pressure is measured by the modular SBE 29 Temperature Compensated Strain-Gauge Pressure sensor (available in eight depth ranges to suit the operating depth requirement). The SBE 25's modular design makes it easy to configure in the field for a wide range of auxiliary sensors, including optional dissolved oxygen (SBE 43), pH (SBE 18 or SBE 27), fluorescence, transmissivity, PAR, and optical backscatter sensors. More information from Sea-Bird Electronics: http:www.seabird.com.

Parameters

Date and time formats are described in python strftime() syntax.

Supplied Name	Supplied description	Supplied Units	Standard Name
Date	Day of collection Format: %Y-%m-%d	unitless	date
DepthBin	Bin category corresponding to targeted sampling depths. DCM is Deep Chlorophyll Maximum, which varies depending on environmental conditions.	unitless	depth
depth	Actual depth sampled for given DepthBin	meters (m)	depth
CTDTemp	Temperature as recorded by onboard CTD	degrees Celsius	temp
CTDSal	Salinity as recorded by onboard CTD	PSU	sal
CTDOxy	Oxygen concentration as recorded by onboard CTD	milliliters per liter (ml/L)	O2
CTDFlu	Chlorophyll fluorescence as recorded by onboard CTD	milligrams per cubic meter (mg/m^3)	chl_a
NO2NO3	Total nitrate and nitrite	micromolar (uM)	NO3_NO2
PO4	Phosphate	micromolar (uM)	PO4
ChlMo	Satellite-observed monthly average chlorophyll-a concentration	milligrams per cubic meter (mg/m^3)	chl_a
Chl8day	Satellite-observed 8-day average chlorophyll-a concentration	milligrams per cubic meter (mg/m^3)	chl_a
MEI	Multivariate ENSO index	unitless	no_bcodmo_term
SST	Satellite-observed monthly average sea surface temperature	degrees Celsius	SST
PP	Satellite-observed monthly average primary productivity	milligrams carbon per square meter per day (mg C/m^2/day)	PP
mean_Leu	Mean cell/mL/day based on leucine uptake	cells per milliliter per day (cell/ml/day)	leuc_incorp
sd_Leu	Standard deviation for leucine uptake assay in cells/mL/day	cells per milliliter per day (cell/ml/day)	leuc_incorp
mean_Thy	Mean cell/mL/day based on thymidine uptake	cells per milliliter per day (cell/ml/day)	thy_incorp
sd_Thy	Standard deviation for thymidine uptake assay in cells/mL/day	cells per milliliter per day (cell/ml/day)	thy_incorp

Status message

Database

Contribute Data

Dataset: SPOT Environmental Data 2005-2018