http://lod.bco-dmo.org/id/dataset/616269
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
2015-10-22
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Experimental results and survey of biogeochemical and microbial data collected on the R/V Atlantic Explorer (AE1516) at the Bermuda Atlantic Time-series study site during 2015 (Bacterial DOC cycling project)
2015-10-23
publication
2015-10-23
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-09-30
publication
https://doi.org/10.1575/1912/bco-dmo.616269.1
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: Giovannoni, S. (2015) Experimental results and survey of biogeochemical and microbial data collected on the R/V Atlantic Explorer (AE1516) at the Bermuda Atlantic Time-series study site during 2015 (Bacterial DOC cycling project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2015-10-23 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.616269.1 [access date]
Experimental and Survey of Biogeochemical and Microbial Data; SAR11 DOM Oxidation Dataset Description: <p>This dataset is a log of samples collected on AE1516 at the Bermuda Atlantic Time-series study site (BAT) Hydrostation S. The samples were analyzed for microbial diversity, dissolved organic carbon (DOC), total DOC, single celled genomics, and an osmolyte inculation experiment.</p> Methods and Sampling: <p><strong>Methodology References:</strong></p>
<p>Tangential flow filtration methods are described in Giovannoni, et al (1990).<br />
Methods for DOM oxidation measurements are described in Sun, et al (2011).<br />
Methods for rRNA gene diversity analysis are described in Vergin, et al (2013).<br />
Methods for DOM analysis are described in Carini, et al (2014).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1436865 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1436865
completed
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
sample_descrip
date
time
person
depth
sample_id
filtrand_id
TOC_id
sample_volume
filter_size
preservation
incubation
temp_stored
theme
None, User defined
Cruise identfier
sample description
date
time of day
person name
depth
sample identification
sample_volume
filter_size
No BCO-DMO term
incubation time or duration
water temperature at measurement depth
featureType
BCO-DMO Standard Parameters
AE1516
service
Deployment Activity
Bermuda Atlantic Time-series study Site
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.
Dissolved Organic Carbon Cycling by SAR11 Marine Bacteria
https://osprey.bco-dmo.org/project/615543
Dissolved Organic Carbon Cycling by SAR11 Marine Bacteria
<p>SAR11 (Pelagibacterales) are the most abundant group of bacterioplankton in the oceans. Globally, they are estimated to oxidize to carbon dioxide (CO2) between 5 and 22% of all the organic carbon produced by photosynthesis each day. The activities of bacterioplankton such as SAR11 determine the residence times of different forms of organic carbon, and ultimately shape the composition of dissolved organic pools in the oceans, which rival atmospheric CO2 in mass. Accurate and detailed information about the oceanic carbon cycle is used in models that are valued for their potential to predict and understand future changes in ocean ecosystems. This grant supports analyses of genomic data that predict the carbon oxidation functions of SAR11 cells, and supports experiments with cells in culture, where high-resolution mass spectrometry technology is applied to discover new organic carbon oxidation biochemistry. To assess the importance of SAR11 carbon oxidation functions in ocean ecosystems, this project includes four short oceanographic cruises to the Bermuda Atlantic Time-series Study (BATS) site, in the western Sargasso Sea. On these cruises the concentrations and oxidation rates of organic compounds will be measured, and linked to variation in planktonic SAR11 populations. </p>
<p>
It is a paradox that SAR11 cells are the most abundant in the oceans, but also have among the smallest genomes known. The central goal of this proposal is to understand what types of dissolved organic matter (DOM) are oxidized to CO2 by SAR11. Implicit to this approach is the perspective that some abundant chemoheterotrophic bacterioplankton taxa, particularly those with small genomes, have evolved specialist strategies for oxidizing organic matter. Understanding these strategies can lead to a more detailed and accurate understanding of the biological processes that recycle biological production to CO2. Major project aims are: 1) investigate SAR11 genomes and assay cells in culture with high-resolution mass spectrometry approaches and isotopic labeling to identify the range of compounds these cells can oxidize to CO2; 2) at BATS, measure biological oxidation rates of DOM compounds used by SAR11; 3) link spatiotemporal SAR11 genome variation to patterns of DOM oxidation in the ocean surface layer (0-300 m). This projects includes four short cruises to BATS that target the four microbial plankton community types at this site: upper euphotic zone, deep chlorophyll maximum, spring bloom and upper mesopelagic. Products of this activity will include new information about variation in labile DOM oxidation across the surface layer, and specific links to genome features that will improve the accuracy of interpretation of global ocean metagenomic data.</p>
Bacterial DOC cycling
largerWorkCitation
project
eng; USA
biota
oceans
Bermuda Atlantic Time-series study Site
-64.719
-64.48
32.078
32.4011
2015-07-01
2015-07-03
Western Sargasso Sea, Bermuda Atlantic Time Series Site: Hydrostation S
0
BCO-DMO catalogue of parameters from Experimental results and survey of biogeochemical and microbial data collected on the R/V Atlantic Explorer (AE1516) at the Bermuda Atlantic Time-series study site during 2015 (Bacterial DOC cycling 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/616310.rdf
Name: cruise_id
Units: unitless
Description: <p>cruise identification</p>
http://lod.bco-dmo.org/id/dataset-parameter/616311.rdf
Name: sample_descrip
Units: unitless
Description: <p>samples taken for this purpose</p>
http://lod.bco-dmo.org/id/dataset-parameter/616312.rdf
Name: date
Units: unitless
Description: <p>date in yyyy-mm-dd format.</p>
http://lod.bco-dmo.org/id/dataset-parameter/616313.rdf
Name: time
Units: hh:mm
Description: <p>time; UTC or local?</p>
http://lod.bco-dmo.org/id/dataset-parameter/616314.rdf
Name: person
Units: unitless
Description: <p>person who handles the sample</p>
http://lod.bco-dmo.org/id/dataset-parameter/616315.rdf
Name: depth
Units: meters
Description: <p>sample collection depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/616316.rdf
Name: sample_id
Units: unitless
Description: <p>sample identification (date and depth); taken with PPL cartridge</p>
http://lod.bco-dmo.org/id/dataset-parameter/616317.rdf
Name: filtrand_id
Units: unitless
Description: <p>filtrand identification (date and depth); from Sterivex filter</p>
http://lod.bco-dmo.org/id/dataset-parameter/616318.rdf
Name: TOC_id
Units: unitless
Description: <p>total organic carbon sample id (date_time_depth); given to Craig Carlson for analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/616319.rdf
Name: sample_volume
Units: milliliters
Description: <p>sample volume filtered</p>
http://lod.bco-dmo.org/id/dataset-parameter/616320.rdf
Name: filter_size
Units: unitless
Description: <p>filter pore size and membrane type</p>
http://lod.bco-dmo.org/id/dataset-parameter/616321.rdf
Name: preservation
Units: unitless
Description: <p>preservative/buffer used</p>
http://lod.bco-dmo.org/id/dataset-parameter/616322.rdf
Name: incubation
Units: hours
Description: <p>incubation period</p>
http://lod.bco-dmo.org/id/dataset-parameter/616323.rdf
Name: temp_stored
Units: degrees Celsius
Description: <p>temperature at which samples were stored</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
4600
https://darchive.mblwhoilibrary.org/bitstream/1912/24633/1/dataset-616269_sar11domgio15-ae1516-sample-log__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.616269.1
download
onLine
dataset
<p><strong>Methodology References:</strong></p>
<p>Tangential flow filtration methods are described in Giovannoni, et al (1990).<br />
Methods for DOM oxidation measurements are described in Sun, et al (2011).<br />
Methods for rRNA gene diversity analysis are described in Vergin, et al (2013).<br />
Methods for DOM analysis are described in Carini, et al (2014).</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
Cruise: AE1516
AE1516
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel
AE1516
Stephen Giovannoni
http://dmoserv3.bco-dmo.org/data_docs/Bacterial_DOC_cycling/Cruise_Report_Giov_AE15.pdf
Report describing AE1516
R/V Atlantic Explorer
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantic Explorer
vessel