http://lod.bco-dmo.org/id/dataset/543314
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
2014-12-19
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Biogeochemical and microbial field surveys from the BATS site, Bermuda from R/V Atlantic Explorer cruises from 2009-2013 (Ocean Microbial Observatory project)
2020-05-04
publication
2020-05-04
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2020-05-11
publication
https://doi.org/10.26008/1912/bco-dmo.543314.1
Craig A. Carlson
University of California-Santa Barbara
principalInvestigator
Stephen Giovannoni
Oregon State University
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: Carlson, C., Giovannoni, S. (2020) Biogeochemical and microbial field surveys from the BATS site, Bermuda from R/V Atlantic Explorer cruises from 2009-2013 (Ocean Microbial Observatory project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2020-05-04 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.543314.1 [access date]
Biogeochemical and microbial field surveys from the BATS site, 2009-2013 Dataset Description: <p>Water samples collected from 2009-2013 at the Bermuda Hydrostation were analyzed for&nbsp;DOC, POC, bacterial abundance, leucine &nbsp;and thymidine incorporation.</p> Methods and Sampling: <p>Methods&nbsp;References:<br />
- Dissolved organic carbon method reference:&nbsp;Carlson,&nbsp;et al. (2010).<br />
- Particulate organic carbon methodological references, calibrations, precision and accuracy detailed at the UCSB MSI Analytical Lab Website: http://www.msi.ucsb.edu/services/analytical-lab<br />
- Bacterioplankton Abundance methodological reference:&nbsp;Porter, K.G. and Y.S. Feig (1980)<br />
- Bacterial Production method reference:&nbsp;Smith, D.C. and F. Azam (1992).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0802004 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0802004
completed
Craig A. Carlson
University of California-Santa Barbara
(805) 893-2541
University of California Department of Ecology, Evolution and Marine Biology
Santa Barbara
CA
93106-6150
USA
craig_carlson@ucsb.edu
pointOfContact
Stephen Giovannoni
Oregon State University
541-737-1835
OSU/Department of Microbiology Nash Hall Rm 248
Corvallis
OR
97331
United States
stephen.giovannoni@oregonstate.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
cruise_id
cruise_id2
station
cast_type
ISO_DateTime_UTC
lon
lat
cast
sample
depth_n
depth
DOC
DOC_stdev
POC
bact_abund
bact_abund_stdev
leuc_incorp
leu_sd
thy_incorp
thy_sd
CHN Elemental Analyzer
Shimadzu TOC-V
theme
None, User defined
Cruise identfier
station
cast type
ISO_DateTime_UTC
longitude
latitude
cast
sample identification
depth nominal
depth
dissolved organic Carbon
standard deviation
particulate organic Carbon (POC)
bacterial abundance
leucine incorporation rate
standard deviation of leucine incorporation rate
thymidine incorporation rate
standard deviation of thymidine incorporation rate
featureType
BCO-DMO Standard Parameters
CHN Elemental Analyzer
Fluorescence Microscope
Shimadzu TOC-V Analyzer
instrument
BCO-DMO Standard Instruments
AE0912
AE0914
AE0923
AE1004
AE1103
AE1114
AE1126
AE1215
AE1224
AE1015
AE1017
AE1030
AE1314
service
Deployment Activity
BATS site
Bermuda Atlantic Time-Series, Hydrostation
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.
Transitions in the Surface Layer and the Role of Vertically Stratified Microbial Communities in the Carbon Cycle - An Oceanic Microbial Observatory
http://www.bios.edu/research/projects/oceanic-microbial-observatory/
Transitions in the Surface Layer and the Role of Vertically Stratified Microbial Communities in the Carbon Cycle - An Oceanic Microbial Observatory
<p>(<em>Adapted from the NSF award abstract</em>)</p>
<p>The premise of this project is that stratified bacterioplankton clades engage in specialized biogeochemical activities that can be identified by integrated oceanographic and microbiological approaches. Specifically, the objective of this project is to assess if the mesopelagic microbial community rely on diagenetically altered organic matter and subcellular fragments that are produced by microbial processes in the euphotic zone and delivered into the upper mesopelagic by sinking or mixing. In past efforts this microbial observatory had greater success cultivating members of the euphotic zone microbial community, and revealed an unanticipated growth requirement for reduced sulfur compounds in alphaproteobacteria of the SAR11 clade. Genomic information showed that intense competition for substrates imposes trade-offs on bacterioplankton - there are regions of N dimensional nutrient space where specialists win. We postulate that specific growth requirements may explain some the regular spatial and temporal patterns that have been observed in upper mesopelagic bacterioplankton communities, and the difficulties of culturing some of these organisms.</p>
<p>The specific objectives of this project are: 1) to produce 13C and 15N labeled subcellular (e.g., soluble, cell wall, and membrane) and DOM fractions from photosynthetic plankton cultures and use stable isotope probing to identify specific clades in the surface and upper mesopelagic microbial community that assimilate fractions of varying composition and lability. 2) to use fluorescence in situ hybridization approaches to monitor temporal and spatial variability of specific microbial populations identified from the SIP and HTC experiments. To increase resolution we will use CARD-FISH protocols. 3) to measure the proteomes of bacterioplankton communities to identify highly translated genes in the surface layer and upper mesopelagic, and community responses to seasonal nutrient limitation. 4) and, to cultivate these organisms via high throughput culturing (HTC) by pursuing the hypothesis that they require specific nutrient factors and/or diagenetically altered organic substrates. Complete genome sequences from key organisms will be sought and used as queries to study patterns of natural variation in genes and populations that have been associated with biogeochemically important functions.</p>
Ocean Microbial Observatory
largerWorkCitation
project
eng; USA
biota
oceans
BATS site; Bermuda Atlantic Time-Series, Hydrostation
-64.51155
-64.16473
31.66381
32.1829
2009-06-18
2009-06-24
Bermuda Atlantic Time-Series study site
0
BCO-DMO catalogue of parameters from Biogeochemical and microbial field surveys from the BATS site, Bermuda from R/V Atlantic Explorer cruises from 2009-2013 (Ocean Microbial Observatory 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/543320.rdf
Name: cruise_id
Units: unitless
Description: <p>UNOLS cruise identification</p>
http://lod.bco-dmo.org/id/dataset-parameter/543321.rdf
Name: cruise_id2
Units: unitless
Description: <p>alternate cruise id</p>
http://lod.bco-dmo.org/id/dataset-parameter/543322.rdf
Name: station
Units: unitless
Description: <p>station label. HS = Hydrostation "S"</p>
http://lod.bco-dmo.org/id/dataset-parameter/543323.rdf
Name: cast_type
Units: unitless
Description: <p>cast type; B for bottle</p>
http://lod.bco-dmo.org/id/dataset-parameter/543324.rdf
Name: ISO_DateTime_UTC
Units: yyyyMMdd'T'HH:mm
Description: <p>date and time at start of cast [UTC], formatted as yyyymmddThh:mm</p>
http://lod.bco-dmo.org/id/dataset-parameter/543325.rdf
Name: lon
Units: decimal degrees
Description: <p>Longitude at start of cast; east is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/543326.rdf
Name: lat
Units: decimal degrees
Description: <p>Latitude at start of cast; north is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/543327.rdf
Name: cast
Units: unitless
Description: <p>unique Identified Code for each cast</p>
http://lod.bco-dmo.org/id/dataset-parameter/543328.rdf
Name: sample
Units: unitless
Description: <p>rosette bottle number</p>
http://lod.bco-dmo.org/id/dataset-parameter/543329.rdf
Name: depth_n
Units: meters
Description: <p>Bottle target depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/543330.rdf
Name: depth
Units: meters
Description: <p>CTD Depth in meters</p>
http://lod.bco-dmo.org/id/dataset-parameter/543331.rdf
Name: DOC
Units: micromoles per liter
Description: <p>Dissolved organic carbon concentration by HTCO. Glass fiber filtrate type GF/F (Whatman). Methodological reference is Carlson et al. 2010 DSRII</p>
http://lod.bco-dmo.org/id/dataset-parameter/543332.rdf
Name: DOC_stdev
Units: umol/L
Description: <p>standard deviation for DOC</p>
http://lod.bco-dmo.org/id/dataset-parameter/543333.rdf
Name: POC
Units: umol/L
Description: <p>Particulate organic carbon measured by combustion analysis (CEC 440HA). Collected on Glass fiber filter type GF/F (Whatman).</p>
http://lod.bco-dmo.org/id/dataset-parameter/543334.rdf
Name: bact_abund
Units: 10^8 cells/liter
Description: <p>Bacterioplankton abundance by microscopy. Methodological reference: Porter, K.G. and Y.S. Feig (1980)</p>
http://lod.bco-dmo.org/id/dataset-parameter/543335.rdf
Name: bact_abund_stdev
Units: 10^8 cells/liter
Description: <p>standard deviation for bacterioplankton abundance</p>
http://lod.bco-dmo.org/id/dataset-parameter/543336.rdf
Name: leuc_incorp
Units: picomoles per liter per hour
Description: <p>Heterotrophic bacterial production by 3H Leu uptake. Methodological reference: Smith DC, Azam F (1992)</p>
http://lod.bco-dmo.org/id/dataset-parameter/543337.rdf
Name: leu_sd
Units: picomoles per liter per hour
Description: <p>standard deviation for leucine incorporation</p>
http://lod.bco-dmo.org/id/dataset-parameter/551055.rdf
Name: thy_incorp
Units: picomoles per liter per hour
Description: <p>heterotrophic bacterial production by 3H Thymidine uptake</p>
http://lod.bco-dmo.org/id/dataset-parameter/551056.rdf
Name: thy_sd
Units: picomoles per liter per hour
Description: <p>standard deviation of heterotrophic bacterial production by 3H Thymidine uptake</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
30518
https://darchive.mblwhoilibrary.org/bitstream/1912/25756/1/dataset-543314_mo-biogeochemical-and-microbial-field-surveys__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.543314.1
download
onLine
dataset
<p>Methods&nbsp;References:<br />
- Dissolved organic carbon method reference:&nbsp;Carlson,&nbsp;et al. (2010).<br />
- Particulate organic carbon methodological references, calibrations, precision and accuracy detailed at the UCSB MSI Analytical Lab Website: http://www.msi.ucsb.edu/services/analytical-lab<br />
- Bacterioplankton Abundance methodological reference:&nbsp;Porter, K.G. and Y.S. Feig (1980)<br />
- Bacterial Production method reference:&nbsp;Smith, D.C. and F. Azam (1992).</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing:</strong><br />
- added conventional header with dataset name, PI name, version date, reference information<br />
- renamed parameters to BCO-DMO standard<br />
- added UNOLS cruise id's</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
CHN Elemental Analyzer
CHN Elemental Analyzer
PI Supplied Instrument Name: CHN Elemental Analyzer PI Supplied Instrument Description:CE440 Elemental Analyzer from Control Equipment Corp. (now Exeter Analytical) - for POC measurements Instrument Name: CHN Elemental Analyzer Instrument Short Name:CHN_EA Instrument Description: A CHN Elemental Analyzer is used for the determination of carbon, hydrogen, and nitrogen content in organic and other types of materials, including solids, liquids, volatile, and viscous samples.
PI Supplied Instrument Name: PI Supplied Instrument Description:for measuring bacterioplankton abundance Instrument Name: Fluorescence Microscope Instrument Short Name: Instrument Description: Instruments that generate enlarged images of samples using the phenomena of fluorescence and phosphorescence instead of, or in addition to, reflection and absorption of visible light. Includes conventional and inverted instruments. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB06/
Shimadzu TOC-V
Shimadzu TOC-V
PI Supplied Instrument Name: Shimadzu TOC-V PI Supplied Instrument Description:Shimadzu TOC-V, used to measure DOC Instrument Name: Shimadzu TOC-V Analyzer Instrument Short Name:Shimadzu TOC-V Instrument Description: A Shimadzu TOC-V Analyzer measures DOC by high temperature combustion method. Community Standard Description: http://onto.nerc.ac.uk/CAST/124
Cruise: AE0912
AE0912
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE0912
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE0914
AE0914
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE0914
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE0923
AE0923
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE0923
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE1004
AE1004
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1004
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE1103
AE1103
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1103
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE1114
AE1114
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1114
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE1126
AE1126
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1126
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE1215
AE1215
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1215
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE1224
AE1224
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1224
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE1015
AE1015
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1015
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE1017
AE1017
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1017
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE1030
AE1030
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1030
Craig A. Carlson
University of California-Santa Barbara
Cruise: AE1314
AE1314
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1314
Samuel Monk
Bermuda Institute of Ocean Sciences
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel