http://lod.bco-dmo.org/id/dataset/3646
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
2012-05-09
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Diagnostic accessory pigment data analyzed by HPLC from samples collected on R/V Challenger cruise LIS0507 in the Long Island Sound in 2007
2012-05-09
publication
2012-05-09
revision
BCO-DMO Linked Data URI
2012-05-09
creation
http://lod.bco-dmo.org/id/dataset/3646
George McManus
University of Connecticut
principalInvestigator
Laura A. Katz
Smith College
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: McManus, G., Katz, L. A. (2012) Diagnostic accessory pigment data analyzed by HPLC from samples collected on R/V Challenger cruise LIS0507 in the Long Island Sound in 2007. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 09 May 2012) Version Date 2012-05-09 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/3646 [access date]
Diagnostic accessory pigment data analyzed by HPLC Dataset Description: <p>Accessory pigment analysis data for samples taken from 6 stations in Long Island Sound, including fucox, allox, lutein, gyrox, carotene, pheophorbide a, pheophytin a, chlorophyll, and others.</p>
<p>Related files and references:<br />
Doherty, M, M Tamura, BA Costas, ME Ritchie, GB McManus, and LA Katz. 2010. Ciliate Diversity and Distribution Across an Environmental and Depth Gradient in Long Island Sound, USA. Environmental Microbiology 12:886-898. doi:10.1111/j.1462-2920.2009.02133.x (<a target="_blank" href="http://www.science.smith.edu/departments/Biology/lkatz/documents/Doherty_LIS_2010.pdf">PDF</a>)</p> Methods and Sampling: <p>Samples were collected on research cruise LIS0507 in the estuary of Long Island Sound on 01 June 2007. Sampling occurred at stations designed to capture the area where water exiting the Connecticut River forms a shallow plume of low-salinity water. For the HPLC analyses,100 ml samples were collected on glass fiber filters and extracted in acetone.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0648711 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0648711
completed
George McManus
University of Connecticut
860-405-8602
Department of Marine Sciences, University of Connecticut 1080 Shennecossett Rd.
Groton
CT
06340
USA
george.mcmanus@uconn.edu
pointOfContact
Laura A. Katz
Smith College
413-585-3825
Department of Biological Sciences Smith College Burton Hall 201
Northampton
MA
01063
USA
lkatz@smith.edu
pointOfContact
asNeeded
Dataset Version: 09 May 2012
Unknown
cruiseid
year
month_gmt
day_gmt
yrday_gmt
station
sample
sample_lab
sample_seq
site_descrip
lat
lon
pigment
conc
time_gmt
depth
vol_filt
comments
vol_extr
High Performance Liquid Chromatograph
theme
None, User defined
cruise id
year
month_gmt
day_gmt
day of year and decimal time (time zone GMT)
station
sample identification
site description
latitude
longitude
pigment concentration
time_gmt
depth
volume of water filtered
comments
No BCO-DMO term
featureType
BCO-DMO Standard Parameters
High-Performance Liquid Chromatograph
instrument
BCO-DMO Standard Instruments
LIS0507
service
Deployment Activity
Long Island Sound
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.
Testing hypotheses about diversity, gene flow, and effective population size in marine planktonic ciliates
http://microzooplankton.uconn.edu
Testing hypotheses about diversity, gene flow, and effective population size in marine planktonic ciliates
<p>The microbial ecologist Tom Fenchel recently said, “The decoupling of molecular and classical (including experimental) approaches to environmental microbiology has not been fruitful and it represents one of the most important challenges for the field in the coming years.” (Fenchel 2005). Classical approaches center on the centuries-old tradition of describing individual species via meticulous observation and analysis to generate monographs, such as is done for plants and animals. Unfortunately, the rush to new molecular techniques has sometimes ignored this tradition, with claims about new lineages never seen before and reports of staggering diversity of microbial eukaryotes based on environmental DNA samples not backed up by even the most elementary microscopic observations.</p>
<p>In the face of this disconnect between the traditional and the molecular, we propose a marriage of the two approaches in the study of marine ciliate diversity and gene flow. Our own data show that in some clades of planktonic ciliates (Strombidiidae) there is indeed a high level of molecular diversity underlying a relatively small number of morphospecies. In other clades (some choreotrichs), the opposite appears to be true, with morphological heterogeneity underlain by apparently clonal lines, based on molecular data. Currently, we do not understand what sustains diversity in some clades; nor do we know why other clades show low diversity. But this problem is amenable to both experimental and observational approaches.</p>
<p>This proposal uses a two-pronged approach, combining molecular (clone libraries, DGGE,FISH) and traditional (light microscopy) techniques to address three broad questions:<br />
<b>i.</b> What are the most important physical and biological factors that affect distribution and diversity of planktonic marine ciliates?<br />
<b>ii.</b> What is the effective population size for marine ciliate populations, and how does this compare to census population sizes?<br />
<b>iii.</b> How well do traditional morphological descriptions of ciliate species fare when compared with molecular characterizations?</p>
<p>Using a combination of molecular and microscopy methods, we will address these questions in coastal planktonic ciliates. Analyses of the resulting data will yield insights into the nature of ciliate species and patterns of gene flow within the North Atlantic.</p>
CiliateDivGenePop
largerWorkCitation
project
eng; USA
oceans
Long Island Sound
2012-05-09
Coastal Northwest Atlantic, from Long Island Sound to Maine
0
BCO-DMO catalogue of parameters from Diagnostic accessory pigment data analyzed by HPLC from samples collected on R/V Challenger cruise LIS0507 in the Long Island Sound in 2007
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/27513.rdf
Name: cruiseid
Units: dimensionless
Description: <p>Identifier that represents the research cruise.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27514.rdf
Name: year
Units: dimensionless
Description: <p>Year the sample was collected, in YYYY format.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27515.rdf
Name: month_gmt
Units: dimensionless
Description: <p>Month the sample was collected. Converted from text to GMT format (MM).</p>
http://lod.bco-dmo.org/id/dataset-parameter/27516.rdf
Name: day_gmt
Units: dimensionless
Description: <p>Day the sample was collected, in DD format.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27517.rdf
Name: yrday_gmt
Units: dimensionless
Description: <p>Sequential day of the year on which the sample was collected.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27518.rdf
Name: station
Units: dimensionless
Description: <p>Numeric identifier of the sample station.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27519.rdf
Name: sample
Units: dimensionless
Description: <p>Unique identifier of the sample. Column originally named 'Original PI Sample Code'.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27520.rdf
Name: sample_lab
Units: dimensionless
Description: <p>Sample code assigned by the lab. Column originally named 'Horn Point Lab sample code'.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27521.rdf
Name: sample_seq
Units: dimensionless
Description: <p>Sequential sample number.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27522.rdf
Name: site_descrip
Units: dimensionless
Description: <p>Indicates if the sample site is located in ('in_plume') or out ('out_plume') of the plume. Column originally named 'In plume or out'.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27523.rdf
Name: lat
Units: decimal degrees
Description: <p>Latitude in decimal degrees.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27524.rdf
Name: lon
Units: decimal degrees
Description: <p>Longitude in decimal degrees. Negative indicates West.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27525.rdf
Name: pigment
Units: dimensionless
Description: <p>Name of the pigment measured:<br />
chlide_a = chlorophyllide a<br />
p_phorbide = pheophorbide a (or pheide)<br />
fucox_but = 19-prime-butanoyloxyfucoxanthin<br />
fucox = fucoxanthin<br />
fucox_hex = 19-prime-hexanoyloxyfucoxanthin<br />
p_phytin = pheophytin a (or phaeophytin)</p>
http://lod.bco-dmo.org/id/dataset-parameter/27526.rdf
Name: conc
Units: ug/L
Description: <p>Concentration of the pigment in micrograms/Liter.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27527.rdf
Name: time_gmt
Units: dimensionless
Description: <p>GMT time in HHMM format.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27528.rdf
Name: depth
Units: meters
Description: <p>Sample depth in meters.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27529.rdf
Name: vol_filt
Units: mL
Description: <p>Volume of water filtered, in milliliters.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27530.rdf
Name: comments
Units: dimensionless
Description: <p>Comments.</p>
http://lod.bco-dmo.org/id/dataset-parameter/27531.rdf
Name: vol_extr
Units: mL
Description: <p>Volume extracted, measured in milliliters.</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
36888
https://datadocs.bco-dmo.org/file/3YY3q5oh9PVMko/HPLC_pigments.csv
HPLC_pigments.csv
Primary data file for dataset ID 3646
download
https://osprey.bco-dmo.org/dataset/3646/data/download
download
onLine
dataset
<p>Samples were collected on research cruise LIS0507 in the estuary of Long Island Sound on 01 June 2007. Sampling occurred at stations designed to capture the area where water exiting the Connecticut River forms a shallow plume of low-salinity water. For the HPLC analyses,100 ml samples were collected on glass fiber filters and extracted in acetone.</p>
Specified by the Principal Investigator(s)
<p>Samples were processed at Horn Point Lab (HPL). Samples were collected in a vacuum. Extraction in the lab took place on 06 November 2011. GF/F type filters of 25-mm diameter were used. Filters were stored at -70 degrees C prior to shipping to HPL. Pigment data were processed using CHEMTAX software.</p>
<p>BCO-DMO made the following modifications to the dataset: format of parameter names was changed to conform to BCO-DMO conventions; blanks were replaced with 'nd'.</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
High Performance Liquid Chromatograph
High Performance Liquid Chromatograph
PI Supplied Instrument Name: High Performance Liquid Chromatograph PI Supplied Instrument Description:HPLC pigment data was processed using CHEMTAX software. Instrument Name: High-Performance Liquid Chromatograph Instrument Short Name:HPLC Instrument Description: A High-performance liquid chromatograph (HPLC) is a type of liquid chromatography used to separate compounds that are dissolved in solution. HPLC instruments consist of a reservoir of the mobile phase, a pump, an injector, a separation column, and a detector. Compounds are separated by high pressure pumping of the sample mixture onto a column packed with microspheres coated with the stationary phase. The different components in the mixture pass through the column at different rates due to differences in their partitioning behavior between the mobile liquid phase and the stationary phase. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB11/
Cruise: LIS0507
LIS0507
R/V Challenger
R/V Challenger
vessel
LIS0507
George McManus
University of Connecticut
R/V Challenger
R/V Challenger
vessel