Dataset: Field collections: all data
Deployment: Lipp_2014-16

Vibrio abundance and nutrients

Principal Investigator:

Erin K. Lipp (University of Georgia, UGA)

Co-Principal Investigator:

William M. Landing (Florida State University, FSU - EOAS)

Elizabeth Ottesen (University of Georgia, UGA)

Michael Wetz (Texas A&M University, TAMU)

BCO-DMO Data Manager:

Nancy Copley (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Vibrio as a model microbe for opportunistic heterotrophic response to Saharan dust deposition events in marine waters (Vibrio-dust deposition)

Version Date:

2016-11-03

Data URL:

https://www.bco-dmo.org/dataset-deployment/663739/data

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Description

Nutrient concentrations, microbiology (Vibrio abundance), trace metals, and environmental conditions from collection sites in the Florida Keys National Marine Sanctuary, 2014-2016.

Methods & Sampling

Dataset acquisition description

Samples were collected offshore from Alligator Reef (2014) and Looe Key Reef (2015-2016). Measurements included temperature, salinity, pH, abundance of Vibrio, chlorophyll-a, DOC, TDN, DON, NH4, NO3, NO2, Orthophosphate ,SiO4, and dFe.

Dissolved organic carbon (DOC) and total dissolved nitrogen (TDN) were determined using the filtrate of water samples that were passed through precombusted 25 mm GF/F filters and stored frozen (-20C) until analysis. Samples were subsequently analyzed using the High Temperature Catalytic Oxidation method on a Shimadzu TOC-Vs analyzer with nitrogen module. Standard curves were run twice daily using a DIW blank and five concentrations of either acid potassium phthalate solution or potassium nitrate for DOC and TDN, respectively. Three to five subsamples were taken from each standard and water sample and injected in sequence. Reagent grade glucosamine was used as a laboratory check standard and inserted throughout each run, as were Certified Reference Material Program (CRMP) deep-water standards of known DOC/TDN concentration.

Nutrients data went through internal lab QAQC process. BDL means below detection limit. The method detection limit (MDL) was determined using 9 samples on two different runs and correct student-T value.

Data Processing Description

Dataset Processing Description

BCO-DMO Processing Notes:
- added conventional header with dataset name, PI name, version date
- modified parameter names to conform with BCO-DMO naming conventions
- nd (no data) was entered into all blank cells
- reduced number of significant digits of Vibrio and nutrient values to 2 digits to right of decimal and lat/lon to 5 digits.
- re-formatted date from m/d/yyyy to yyyy-mm-dd
- replaced spaces with underscores

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-1357423	NSF Division of Ocean Sciences

Instruments

Gas Analyzer

Supplied Name: chemoluminescence gas analyzer

Supplied Description:

To measure dissolved organic nitrogen

Instrument Type

Generic Name: Gas Analyzer

Generic Description:

Gas Analyzers - Instruments for determining the qualitative and quantitative composition of gas mixtures.

plate reader

Supplied Name:

Supplied Description:

To measure colony counts

Instrument Type

Generic Name: plate reader

Generic Description:

Plate readers (also known as microplate readers) are laboratory instruments designed to detect biological, chemical or physical events of samples in microtiter plates. They are widely used in research, drug discovery, bioassay validation, quality control and manufacturing processes in the pharmaceutical and biotechnological industry and academic organizations. Sample reactions can be assayed in 6-1536 well format microtiter plates. The most common microplate format used in academic research laboratories or clinical diagnostic laboratories is 96-well (8 by 12 matrix) with a typical reaction volume between 100 and 200 uL per well. Higher density microplates (384- or 1536-well microplates) are typically used for screening applications, when throughput (number of samples per day processed) and assay cost per sample become critical parameters, with a typical assay volume between 5 and 50 µL per well. Common detection modes for microplate assays are absorbance, fluorescence intensity, luminescence, time-resolved fluorescence, and fluorescence polarization. From: http://en.wikipedia.org/wiki/Plate_reader, 2014-09-0-23.

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
sample	sample identifier	unitless	sample
date	sampling date formatted as yyyy-mm-dd	year-month-day	date
time_start_local	local start time formatted as HH:MM	hours:minutes	time_start_local
depth	depth	feet	depth
location	sample collection location	unitless	site
station_notes	comments pertaining to the station	unitless	comment
lat	latitude; north is positive	decimal degrees	lat
lon	longitude; east is positive	decimal degrees	lon
temp	temperature	degrees Celsius	temp
sal	salinity	Practical Salinity Units (PSU)	sal
pH	pH: The measure of the acidity or basicity of an aqueous solution	unitless; pH scale	pH
Vibrio	Vibrio colony concentration. CFU/ml determined by spread on TCBS agar in triplicate for each experimental replicate and counting green and yellow colonies after 18 - 24 incubation at 30 C. limit of detection was 3.3 CFU/ml (determined using 100 ul spread volume in triplicate); 0.0 = below detection limit.	colony forming units/milliliter (CFU/ml)	no_bcodmo_term
Chl_a	Chlorophyll-a concentration determined by acetone freeze thaw using EPA method 445.0 (non-acidification); bdl for below detection limit.	micrograms/liter (ug/ml)	chl_a
DOC	Dissolved organic carbon concentration: determined using oxidative high temperature combustion-infrared analysis. MDL is 11.16 micromol/L.	micromoles/liter (ug/ml)	DOC
TDN	Total dissolved nitrogen concentration determined using oxidative high temperature combustion-infrared analysis.	micromoles/liter (ug/ml)	TDN
DON	Dissolved organic nitrogen concentration; MDL is 5.38 micromol/L (determined using 9 samples on two different runs and correct student-T value). bdl = below detection limit.	micromoles/liter (ug/ml)	DON
NH4	Ammonium concentration determined by the automated phenate method 4500-NH3G. (20th Edition Std. Meth.); MDL is 0.3 micro gram/L (determined using 9 samples on two different runs and correct student-T value). bdl = below detection limit.	micromoles/liter (ug/ml)	NH4
NO3	Nitrate concentration determined by the automated cadmium reduction method 4500-NO3- F (20th Edition Std. Meth.); MDL is 0.3 micro gram/L (determined using 9 samples on two different runs and correct student-T value). bdl = below detection limit.	micromoles/liter (ug/ml)	NO3
NO2	Nitrite concentration determined as with Nitrate without running the sample through a cadmium column (20th Edition Std. Meth.); MDL is 0.1 micro gram/L (determined using 9 samples on two different runs and correct student-T value). bdl = below detection limit.	micromoles/liter (ug/ml)	NO2
Orthophosphate	Orthophosphate concentration determined by the automated ascorbic acid reduction method 4500-P F. (20th Edition Std. Meth.); MDL is 0.2 micro gram/L (determined using 9 samples on two different runs and correct student-T value). bdl = below detection limit.	micromoles/liter (ug/ml)	PO4
SiO4	Silicate concentration determined by the automated molybdate-reactive silica method 4500-SiO2 E. (20th Edition Std. Meth.); MDL is 0.3 micro gram/L (determined using 9 samples on two different runs and correct student-T value). bdl = below detection limit.	micromoles/liter (ug/ml)	SiO4
dFe	dissolved iron concentration determined in the 0.2 um filtered fraction using ICP-MSas described in Milne et al. 2010. Analytica Chimera Acta 665: 200-207	nanomoles/liter (ug/ml)	Fe

Database

Contribute Data

Dataset: Field collections: all data
Deployment: Lipp_2014-16

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Field collections: all dataDeployment: Lipp_2014-16

Dataset acquisition description

Dataset Processing Description

Dataset: Field collections: all data
Deployment: Lipp_2014-16