Dataset: Seeded microcosm experiments: all data

Name: Nutrients, microbiology, trace metals, and environmental conditions from seeded microcosm experiments
Published: 2016-11-09
Keywords: Saharan dust, Vibrio, iron, marine biogeochemistry, microbial ecology, biota, oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.682298.1

Spatial Extent: N:24.74287 E:-80.68487 S:24.54322 W:-81.41115

Temporal Extent: 2014-07-22 - 2015-05-09

Project:

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

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)

Version:

Version Date:

2016-11-09

Restricted:

Validated:

Yes

Current State:

Final with updates expected

Nutrients, microbiology, trace metals, and environmental conditions from seeded microcosm experiments

Abstract:

Nutrients, microbiology, trace metals, and environmental conditions from seeded microcosm experiments.

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Archival Copy

Version Date	Archive	Persistent Identifier (PID)	Date PID Issued
2016-11-09	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.682298.1	2020-06-03

Description

This dataset includes nutrients from 2014 and 2015 experiments using Saharan source material and water from the lower Florida Keys to create microcosms for natural seawater communities. For full details, see Westrich et al (2016) PNAS, DOI: 10.1073/pnas.1518080113.

Methods & Sampling

Samples were collected offshore from Alligator Reef (2014) and Looe Key Reef (2015). The experimental treatments included additions of dust and iron in 2014 with a control of acidified water. In 2015, treatments included additions of dust from Barbados, iron, nitrates, phosphates, and carbon with controls of acidified water and leachate.

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

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

Data Files

File
Vibrio_nuts.csv (Comma Separated Values (.csv), 37.00 KB) MD5:b3953416ba35803d3ba2236cdbca51b0 Primary data file for dataset ID 682298

More Information about this dataset

Funding Sources

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

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
Lipp_2014-16		2014-07-22	Florida Keys National Marine Sanctuary	Erin K. Lipp (Principal Investigator)	data info

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

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

Supplied Name	Supplied description	Supplied Units	Standard Name
year	year of measurement	year	year
expt	experiment identifier	unitless	exp_id
treatment	experimental treatments: For 2014: control acidified water; dust= dust leachate from Whatman41 filters used to collect dust aerosols from Barbados (added to provide +1 nM Fe); FeCl = FeCl3 (added to provide +1 nM Fe) For 2015: control acidified water; 2nMFe: 2 nM Fe provided by FeCl3 20nMFe: 20 nM Fe provided by FeCl3 control_leachate: control leachate (leached from Whatman41 blank filter); dust_barbados: dust leachate from Whatman41 filters used to collect dust aerosols from Barbados (added to provide +2 nM Fe); Fe: FeCl3 (added to provide +1 nM Fe); NO3: HNO3 added to provide +0.2 uM N; PO4: K2HPO4 added to provide +0.01 uM P; C: Pyruvate added to provide +10 uM C; FeCNP: mix of FeCl3 (+2 nM Fe), pyruvate (+10 uM C), HNO3 (+0.2 uM), and K2HPO4 (+0.01 uM)	unitless	treatment
light_dark	whether experiment took place in the light or dark	unitless	treatment
vessel	sample vessel identifier	unitless	sample
replicate	replicate identifier	unitless	replicate
time_elapsed_hr	time since start of experiment	hours	time_elapsed
sample	sample identifier: 'year_treatment_light or dark_vessel number_replicate_time	unitless	sample
Vibrio	Vibrio concentration: determined by spread plating on TCBS agar and countng ager 18-24 incubation at 30 C. Limit of detection was 3.3 CFU/ml (determined using 100 ul spread volume in triplicate). The data uses a value of 0.0 for 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-acidificaton). Data went through internal lab QAQC process. BDL= below detection limit.	microgram/liter (ug/L)	chl_a
DOC	Dissolved organic carbon concentration: determined using oxidatve high temperature combuston-infrared analysis. MDL is 11.16 micro mol/L.	micromol/liter C (umol/L)	DOC
DON	Dissolved organic nitrogen concentration: determined the same as DOC samples but the sample is converted to nitrogen monoxide and measured by a chemoluminescence gas analyzer. The analyte sampled is TDN and the inorganic values are subtracted to get DON. MDL is 5.38 micro mol/L.	micromol/liter N (umol/L)	DON
NH4	Ammonium concentration: determined by the automated phenate method 4500-NH3G. 20th Edition Std. Meth. MDL is 0.3 micro gram/L.	micromol/liter N (umol/L)	NH4
NO3	Nitrate concentration: determined by the automated cadmium reducton method 4500-NO3- F. 20th Edition Std. Method. MDL is 0.3 micro gram/L.	micromol/liter N (umol/L)	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.	micromol/liter N (umol/L)	NO2
Orthophosphate	Orthophosphate concentration: determined by the automated ascorbic acid reducton method 4500-P F. 20th Edition Std. Meth. MDL is 0.2 micro gram/ L.	micromol/liter P (umol/L)	PO4
SiO4	Silicate concentration: determined by the automated molybdate-reactve silica method 4500-SiO2 E. 20th Edition Std. Meth. MDL is 0.3 micro gram/L.	micromol/liter Si (umol/L)	SiO4
dFe	dissolved iron concentration: determined in the 0.2 um filtered fracton using ICP-MSas described in Milne et al. 2010. Analytca Chimera Acta 665: 200-207	nanoMolar (nM)	Fe