http://lod.bco-dmo.org/id/dataset/551239
eng; USA
utf8
dataset
Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
2015-02-20
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Nutrients, chlorophyll-a, and light attenuation in the Delaware estuary from the R/V Hugh R. Sharp HRS110805DK, HRS111107DK, HRS120809DK, HRS121112DK, HRS1313, HRS1324 in 2011 - 2013 (PAPI: Photochemistry and Photoheterotroph Interactions project)
2020-10-01
publication
2020-10-01
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2020-10-01
publication
https://doi.org/10.26008/1912/bco-dmo.551239.2
David J. Kieber
State University of New York College of Environmental Science and Forestry
principalInvestigator
David L. Kirchman
University of Delaware
principalInvestigator
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
publisher
Cite this dataset as: Kieber, D. J., Kirchman, D. L. (2020) Nutrients, chlorophyll-a, and light attenuation in the Delaware estuary from the R/V Hugh R. Sharp HRS110805DK, HRS111107DK, HRS120809DK, HRS121112DK, HRS1313, HRS1324 in 2011 - 2013 (PAPI: Photochemistry and Photoheterotroph Interactions project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 2) Version Date 2020-10-01 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.551239.2 [access date]
Nutrients, chlorophyll-a, and light attenuation from the Delaware estuary, Aug. and Nov. 2011-2013 Dataset Description: <p>Nutrients, chlorophyll-a, and light attenuation in the Delaware estuary from the R/V Hugh R. Sharp HRS110805DK, HRS111107DK, HRS120809DK, HRS121112DK, HRS1313, HRS1324 in 2011 - 2013 (PAPI: Photochemistry and Photoheterotroph Interactions project)</p> Methods and Sampling: <p>Nutrient concentrations were measured by standard wet chemical methods using a SEAL Analytical AA3 Continuous Segmented Flow Analyzer.&nbsp;</p>
<p>Samples for chlorophyll a concentrations were collected by filtering 100 ml of estuarine water through Whatman GF/F filters and stored at -20 <sup>o</sup>C until analysis. To estimate concentrations, the filters were placed into 90% acetone and 40% dimethyl sulfoxide <em>(</em><em>DMSO</em>) and then the fluorescence in the extract was measured with a Turner Designs 10-AU fluorometer.</p>
<p>The attenuation coefficient was estimated by measuring photosynthetically active radiance with a Biospherical PNF-210 radiometer over a depth profile.&nbsp; In nearly all cases, the downcast and upcast profiles of radiance were indistinguishable and all data were used.&nbsp; When differences between the down and upcasts were apparent, only the downcast data were used.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1029569 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1029569
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1030306 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1030306
completed
David J. Kieber
State University of New York College of Environmental Science and Forestry
315-470-6951
Chemistry Department One Forestry Drive
Syracuse
NY
13210
USA
djkieber@esf.edu
pointOfContact
David L. Kirchman
University of Delaware
302-645-4375
School of Marine Science and Policy 700 Pilottown Road
Lewes
DE
19958
USA
kirchman@udel.edu
pointOfContact
asNeeded
Dataset Version: 2
Unknown
cruise_id
cruise_name
date
time_local
lat
lon
station
cast
light_atten
atten_err
chl_a
chl_a_sd
NO3
NO3_sd
NH4
NH4_sd
PO4
PO4_sd
SiO4
SiO4_sd
comment
Fluorometer
theme
None, User defined
Cruise identfier
cruise name
date
time_local
latitude
longitude
station
cast
beam_c
chlorophyll a
standard deviation
Nitrate
Ammonium
reactive phosphorus (PO4)
Silicate (reactive silica)
comments
featureType
BCO-DMO Standard Parameters
Fluorometer
Nutrient Autoanalyzer
instrument
BCO-DMO Standard Instruments
HRS110805DK
HRS111107DK
HRS120809DK
HRS121112DK
HRS1313
HRS1324
service
Deployment Activity
Delaware Estuary
place
Locations
otherRestrictions
otherRestrictions
Access Constraints: none. Use Constraints: Please follow guidelines at: http://www.bco-dmo.org/terms-use Distribution liability: Under no circumstances shall BCO-DMO be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use of, or the inability to use, the materials in this data submission. If you are dissatisfied with any materials in this data submission your sole and exclusive remedy is to discontinue use.
Activity and abundance of photoheterotrophs fueled by photochemically-produced substrates
https://osprey.bco-dmo.org/project/544594
Activity and abundance of photoheterotrophs fueled by photochemically-produced substrates
<p>Intellectual Merit: Bacteria that use both dissolved organic material (DOM) and light, i.e. photoheterotrophs, would fundamentally change views of how energy and material are processed in the oceans. However, it is still not clear if these microbes have unique roles in the oceans because standard experiments have not been successful in consistently demonstrating positive effects of light on growth and respiration of presumed photoheterotrophs. It is known that these microbes are abundant, with one type (those containing proteorhodopsin) alone constituting 50% or more of all microbes in the oceans. But why these microbes are so abundant is unknown as the ecological advantages of photoheterotrophy remain obscure.</p>
<p>The PIs will use a new approach and novel experiments to examine how light affects photoheterotrophs and to explore the contribution of these microbes to DOM fluxes. Their work is testing the following hypothesis: The biogeochemical role of photoheterotrophs is to use low energy-yielding DOM components such as products of photochemical reactions. The reactions involve chromophoric DOM (CDOM) which is a large and dynamic part of the carbon cycle especially in coastal oceans. They have hypothesized that the light energy gained by photoheterotrophs would enable these microbes to benefit from using photochemically-produced compounds which alone do not yield much energy. This hypothesis is supported by lab experiments showing that proteorhodopsin-generated energy becomes important only when respiration is inhibited and cells are limited by energy. Other lab experiments demonstrated that anaplerotic fixation of CO2 by PR-containing bacteria is stimulated by light. This fixation is needed for growth on C1-C4 compounds, including many produced by photochemical reactions.</p>
<p>The PIs are testing this hypothesis with experiments in the Delaware estuary where CDOM varies greatly spatially and seasonally. They are examining the effect of light (PAR) on the uptake and respiration of photochemically-produced low molecular weight (LMW) organic compounds and on gene expression (mRNA) of photoheterotrophs. The focus is on CO, pyruvate, acetaldehyde, and glyoxal; together these compounds constitute a large fraction of the photochemical-byproducts in seawater. Glycolate is also being examined because of its importance in phytoplankton excretion and because of its similarity to organic acids produced by photochemical reactions. Uptake of these compounds is estimated with 14C- tracers and HPLC measurements of concentrations. Rates are then compared with the abundance and mRNA levels of proteorhodopsin and pufM found in aerobic anoxygenic phototrophic bacteria as measured by QPCR assays. The PIs are also examining how light and the photochemically-produced LMW organic compounds affect bacterial respiration and growth efficiency. They are examining the relationships among anaplerotic CO2 fixation, uptake of photochemical byproducts, and photoheterotroph abundance and activity along transects of the Delaware estuary and during diel studies.</p>
<p>The proposed work is being conducted by a team consisting of microbial oceanographers (Kirchman and Cottrell) and a marine biogeochemist (Kieber) with expertise in photoheterotrophs and photochemical reactions, respectively.</p>
<p>Broader Impacts: This interdisciplinary project is supporting graduate students and also involves undergraduates in summer research projects. Results will be incorporated into web sites and used in courses taught by Kirchman and Kieber. The Kirchman lab is featured in lab tours open to the public and in Coast Day, an annual open house that attracts about 10,000 visitors. Kieber mentors undergraduates and coordinated a program for economically disadvantaged high school students.</p>
PAPI: Photochemistry and Photoheterotroph Interactions
largerWorkCitation
project
eng; USA
oceans
Delaware Estuary
-75.5825
-1.248567
0.646267
39.857
2011-08-05
2013-11-21
Delaware Estuary
0
BCO-DMO catalogue of parameters from Nutrients, chlorophyll-a, and light attenuation in the Delaware estuary from the R/V Hugh R. Sharp HRS110805DK, HRS111107DK, HRS120809DK, HRS121112DK, HRS1313, HRS1324 in 2011 - 2013 (PAPI: Photochemistry and Photoheterotroph Interactions project)
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
http://lod.bco-dmo.org/id/dataset-parameter/551267.rdf
Name: cruise_id
Units: unitless
Description: <p>cruise identification</p>
http://lod.bco-dmo.org/id/dataset-parameter/551268.rdf
Name: cruise_name
Units: unitless
Description: <p>project assigned cruise name</p>
http://lod.bco-dmo.org/id/dataset-parameter/551269.rdf
Name: date
Units: yyyy-mm-dd
Description: <p>local sampling date</p>
http://lod.bco-dmo.org/id/dataset-parameter/551270.rdf
Name: time_local
Units: HH:MM
Description: <p>local time</p>
http://lod.bco-dmo.org/id/dataset-parameter/551271.rdf
Name: lat
Units: decimal degrees
Description: <p>latitude; north is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/551272.rdf
Name: lon
Units: decimal degrees
Description: <p>longitiude; east is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/551273.rdf
Name: station
Units: unitless
Description: <p>station</p>
http://lod.bco-dmo.org/id/dataset-parameter/551274.rdf
Name: cast
Units: unitless
Description: <p>cast number</p>
http://lod.bco-dmo.org/id/dataset-parameter/551275.rdf
Name: light_atten
Units: per meter
Description: <p>light attenuation</p>
http://lod.bco-dmo.org/id/dataset-parameter/551276.rdf
Name: atten_err
Units: per meter
Description: <p>light attenuation error; calculated by linear regression analysis of ln(irradiance) vs. depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/551277.rdf
Name: chl_a
Units: microgram/liter
Description: <p>chlorophyll-a concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/551278.rdf
Name: chl_a_sd
Units: microgram/liter
Description: <p>chlorophyll-a concentration standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/551279.rdf
Name: NO3
Units: micromoles/liter
Description: <p>nitrate concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/551280.rdf
Name: NO3_sd
Units: micromoles/liter
Description: <p>nitrate concentration standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/551281.rdf
Name: NH4
Units: micromoles/liter
Description: <p>ammonium concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/551282.rdf
Name: NH4_sd
Units: micromoles/liter
Description: <p>ammonium concentration standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/551283.rdf
Name: PO4
Units: micromoles/liter
Description: <p>phosphate concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/551284.rdf
Name: PO4_sd
Units: micromoles/liter
Description: <p>phosphate concentration standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/551285.rdf
Name: SiO4
Units: micromoles/liter
Description: <p>silicate concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/551286.rdf
Name: SiO4_sd
Units: micromoles/liter
Description: <p>silicate concentration standard deviation</p>
http://lod.bco-dmo.org/id/dataset-parameter/825843.rdf
Name: comment
Units: unitless
Description: <p>sampling comments</p>
GB/NERC/BODC > British Oceanographic Data Centre, Natural Environment Research Council, United Kingdom
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
21061
https://darchive.mblwhoilibrary.org/bitstream/1912/26260/1/dataset-551239_delaware-estuary-nutrients__v2.tsv
download
https://doi.org/10.26008/1912/bco-dmo.551239.2
download
onLine
dataset
<p>Nutrient concentrations were measured by standard wet chemical methods using a SEAL Analytical AA3 Continuous Segmented Flow Analyzer.&nbsp;</p>
<p>Samples for chlorophyll a concentrations were collected by filtering 100 ml of estuarine water through Whatman GF/F filters and stored at -20 <sup>o</sup>C until analysis. To estimate concentrations, the filters were placed into 90% acetone and 40% dimethyl sulfoxide <em>(</em><em>DMSO</em>) and then the fluorescence in the extract was measured with a Turner Designs 10-AU fluorometer.</p>
<p>The attenuation coefficient was estimated by measuring photosynthetically active radiance with a Biospherical PNF-210 radiometer over a depth profile.&nbsp; In nearly all cases, the downcast and upcast profiles of radiance were indistinguishable and all data were used.&nbsp; When differences between the down and upcasts were apparent, only the downcast data were used.</p>
Specified by the Principal Investigator(s)
<p>Except for converting raw spectrometric or fluorometric readings to concentrations, the concentration data were not processed.</p>
<p>Radiance values at very shallow or very deep depths were excluded from the analysis to calculate the attenuation coefficient when these values were clearly not along the ln(radiance) vs. depth line.</p>
<p>&nbsp;</p>
<p><strong>BCO-DMO Processing:</strong></p>
<p>- added conventional header with dataset name, PI name, version date, reference information<br />
- renamed parameters to BCO-DMO standard<br />
- reformated date from m/d/yyyy to yyyy-mm-dd<br />
- replaced blank cells with nd; changed NA and ND to nd<br />
- replaced blanks and / with underscores<br />
- changed format of latititude and longitude to decimal degrees<br />
- matched cruise names to R2R standard names<br />
- revised 3 lat/lon positions - new version (2015-03-11) replaces 2015-01-19<br />
- revised 2 lat positions - new version (2020-10-01)</p>
Specified by the Principal Investigator(s)
asNeeded
7.x-1.1
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
Fluorometer
Fluorometer
PI Supplied Instrument Name: Fluorometer PI Supplied Instrument Description:Turner Designs 10-AU fluorometer Instrument Name: Fluorometer Instrument Short Name:Fluorometer Instrument Description: A fluorometer or fluorimeter is a device used to measure parameters of fluorescence: its intensity and wavelength distribution of emission spectrum after excitation by a certain spectrum of light. The instrument is designed to measure the amount of stimulated electromagnetic radiation produced by pulses of electromagnetic radiation emitted into a water sample or in situ. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/113/
PI Supplied Instrument Name: PI Supplied Instrument Description:SEAL Analytical AA3 Continuous Segmented Flow Analyzer Instrument Name: Nutrient Autoanalyzer Instrument Short Name:Nutrient Autoanalyzer Instrument Description: Nutrient Autoanalyzer is a generic term used when specific type, make and model were not specified. In general, a Nutrient Autoanalyzer is an automated flow-thru system for doing nutrient analysis (nitrate, ammonium, orthophosphate, and silicate) on seawater samples. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB04/
Cruise: HRS110805DK
HRS110805DK
R/V Hugh R. Sharp
Community Standard Description
International Council for the Exploration of the Sea
R/V Hugh R. Sharp
vessel
HRS110805DK
David L. Kirchman
University of Delaware
Cruise: HRS111107DK
HRS111107DK
R/V Hugh R. Sharp
Community Standard Description
International Council for the Exploration of the Sea
R/V Hugh R. Sharp
vessel
HRS111107DK
David L. Kirchman
University of Delaware
Cruise: HRS120809DK
HRS120809DK
R/V Hugh R. Sharp
Community Standard Description
International Council for the Exploration of the Sea
R/V Hugh R. Sharp
vessel
HRS120809DK
David L. Kirchman
University of Delaware
Cruise: HRS121112DK
HRS121112DK
R/V Hugh R. Sharp
Community Standard Description
International Council for the Exploration of the Sea
R/V Hugh R. Sharp
vessel
HRS121112DK
David L. Kirchman
University of Delaware
Cruise: HRS1313
HRS1313
R/V Hugh R. Sharp
Community Standard Description
International Council for the Exploration of the Sea
R/V Hugh R. Sharp
vessel
HRS1313
David L. Kirchman
University of Delaware
Cruise: HRS1324
HRS1324
R/V Hugh R. Sharp
Community Standard Description
International Council for the Exploration of the Sea
R/V Hugh R. Sharp
vessel
HRS1324
David L. Kirchman
University of Delaware
R/V Hugh R. Sharp
Community Standard Description
International Council for the Exploration of the Sea
R/V Hugh R. Sharp
vessel