http://lod.bco-dmo.org/id/dataset/753267
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
2019-01-22
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Environmental data collected during a deployment of the Environmental Sample Processor (ESP) in Fall, 2014 in Monterey Bay, CA
2019-01-22
publication
2019-01-22
revision
BCO-DMO Linked Data URI
2019-01-22
creation
http://lod.bco-dmo.org/id/dataset/753267
Mary Ann Moran
University of Georgia
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: Moran, M. (2019) Environmental data collected during a deployment of the Environmental Sample Processor (ESP) in Fall, 2014 in Monterey Bay, CA. Biological and Chemical Oceanography Data Management Office (BCO-DMO). Version Date 2019-01-22 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/753267 [access date]
Environmental data collected during a deployment of the Environmental Sample Processor (ESP) in Fall, 2014 in Monterey Bay, CA Dataset Description: Methods and Sampling: <p>The Environmental Sample Processor (ESP) filtered seawater sequentially through 0.2 um pore size polyethersulfone filters. Seawater was evacuated from filters and followed twice with a 2 minute incubation with 1 ml of RNAlater™. RNAlater was evacuated, and filters were stored in the ESP until they were transferred to -80 C upon instrument recovery.&nbsp;</p>
<p>Filters were processed for DNA using the phenol-chloroform extraction method of Crump et al. (2003) after placing the filters into 1 ml of DNA extraction buffer. Extracted DNA was sheared ultrasonically to ~350 bp fragments, and library preparation was performed at the Georgia Genomics and Bioinformatics Core (GGBC) facility. Single-end 250 bp sequencing was performed using an Illumina HiSeq Rapid Run at Hudson Alpha Genomic Services Laboratory (Huntsville, AL, USA).</p>
<p>Single-cell sequencing: Seawater was transferred directly from the Niskin bottle to a 50 ml Falcon tube and placed on ice until brought back to lab. Each sampling day, 3 x 1 ml of seawater was preserved in cryovials using 100 ul of glyTe (5 ml glycerol, 3 ml Milli-Q H2O, 1 ml 100 x TE pH 8.0, 0.2 um filter sterilized after mixing the above, and stored in -20 C freezer). Preserved samples were then placed in a -80 C freezer. Samples were processed and sequenced at Bigelow Single Cell Genomics Center (Stepanauskas and Sieracki, 2007).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1342694 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1342694
onGoing
Mary Ann Moran
University of Georgia
706-542-6481
Department of Marine Sciences
Athens
GA
30602
USA
mmoran@uga.edu
pointOfContact
asNeeded
Unknown
date
DMSPt
DMSPd_consumption_rate
DMSPd
chl_a
theme
None, User defined
date
dimethylsulphoniopropionate concentration
No BCO-DMO term
chlorophyll a
featureType
BCO-DMO Standard Parameters
Moran_Monterey_2014
service
Deployment Activity
Monterey Bay, CA
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.
Dimensions of Biodiversity
http://www.nsf.gov/funding/pgm_summ.jsp?pims_id=503446
Dimensions of Biodiversity
(adapted from the NSF Synopsis of Program)
Dimensions of Biodiversity is a program solicitation from the NSF Directorate for Biological Sciences. FY 2010 was year one of the program. [MORE from NSF]
The NSF Dimensions of Biodiversity program seeks to characterize biodiversity on Earth by using integrative, innovative approaches to fill rapidly the most substantial gaps in our understanding. The program will take a broad view of biodiversity, and in its initial phase will focus on the integration of genetic, taxonomic, and functional dimensions of biodiversity. Project investigators are encouraged to integrate these three dimensions to understand the interactions and feedbacks among them. While this focus complements several core NSF programs, it differs by requiring that multiple dimensions of biodiversity be addressed simultaneously, to understand the roles of biodiversity in critical ecological and evolutionary processes.
Dimensions of Biodiversity
largerWorkCitation
program
Bacterial Taxa that Control Sulfur Flux from the Ocean to the Atmosphere
https://osprey.bco-dmo.org/project/541255
Bacterial Taxa that Control Sulfur Flux from the Ocean to the Atmosphere
<p>Surface ocean bacterioplankton preside over a divergence point in the marine sulfur cycle where the fate of dimethylsulfoniopropionate (DMSP) is determined. While it is well recognized that this juncture influences the fate of sulfur in the ocean and atmosphere, its regulation by bacterioplankton is not yet understood. Based on recent findings in biogeochemistry, bacterial physiology, bacterial genetics, and ocean instrumentation, the microbial oceanography community is poised to make major advances in knowledge of this control point. This research project is ascertaining how the major taxa of bacterial DMSP degraders in seawater regulate DMSP transformations, and addresses the implications of bacterial functional, genetic, and taxonomic diversity for global sulfur cycling.</p>
<p>The project is founded on the globally important function of bacterial transformation of the ubiquitous organic sulfur compound DMSP in ocean surface waters. Recent genetic discoveries have identified key genes in the two major DMSP degradation pathways, and the stage is now set to identify the factors that regulate gene expression to favor one or the other pathway during DMSP processing. The taxonomy of the bacteria mediating DMSP cycling has been deduced from genomic and metagenomic sequencing surveys to include four major groups of surface ocean bacterioplankton. How regulation of DMSP degradation differs among these groups and maps to phylogeny in co-occurring members is key information for understanding the marine sulfur cycle and predicting its function in a changing ocean. Using model organism studies, microcosm experiments (at Dauphin Island Sea Lab, AL), and time-series field studies with an autonomous sample collection instrument (at Monterey Bay, CA), this project is taking a taxon-specific approach to decipher the regulation of bacterial DMSP degradation.</p>
<p>This research addresses fundamental questions of how the diversity of microbial life influences the geochemical environment of the oceans and atmosphere, linking the genetic basis of metabolic potential to taxonomic diversity. The project is training graduate students and post-doctoral scholars in microbial biodiversity and providing research opportunities and mentoring for undergraduate students. An outreach program is enhance understanding of the role and diversity of marine microorganisms in global elemental cycles among high school students. Advanced Placement Biology students are participating in marine microbial research that covers key learning goals in the AP Biology curriculum. Two high school students are selected each year for summer research internships in PI laboratories.</p>
OceanSulfurFluxBact
largerWorkCitation
project
eng; USA
oceans
Monterey Bay, CA
2014-09-22
2014-10-13
0
BCO-DMO catalogue of parameters from Environmental data collected during a deployment of the Environmental Sample Processor (ESP) in Fall, 2014 in Monterey Bay, CA
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/753291.rdf
Name: date
Units: unitless
Description: <p>date samples were collected</p>
http://lod.bco-dmo.org/id/dataset-parameter/753292.rdf
Name: DMSPt
Units: nanoMoles (nM)
Description: <p>total DMSP concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/753293.rdf
Name: DMSPd_consumption_rate
Units: nanoMole per day (nM/day)
Description: <p>dissolved DMSP consumption rate</p>
http://lod.bco-dmo.org/id/dataset-parameter/753294.rdf
Name: DMSPd
Units: nanoMole (nM)
Description: <p>dissolved DMSP concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/753295.rdf
Name: chl_a
Units: microgram per liter (ug/L)
Description: <p>chlorophyll a concentration</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
https://osprey.bco-dmo.org/dataset/753267/data/download
download
onLine
dataset
<p>The Environmental Sample Processor (ESP) filtered seawater sequentially through 0.2 um pore size polyethersulfone filters. Seawater was evacuated from filters and followed twice with a 2 minute incubation with 1 ml of RNAlater™. RNAlater was evacuated, and filters were stored in the ESP until they were transferred to -80 C upon instrument recovery.&nbsp;</p>
<p>Filters were processed for DNA using the phenol-chloroform extraction method of Crump et al. (2003) after placing the filters into 1 ml of DNA extraction buffer. Extracted DNA was sheared ultrasonically to ~350 bp fragments, and library preparation was performed at the Georgia Genomics and Bioinformatics Core (GGBC) facility. Single-end 250 bp sequencing was performed using an Illumina HiSeq Rapid Run at Hudson Alpha Genomic Services Laboratory (Huntsville, AL, USA).</p>
<p>Single-cell sequencing: Seawater was transferred directly from the Niskin bottle to a 50 ml Falcon tube and placed on ice until brought back to lab. Each sampling day, 3 x 1 ml of seawater was preserved in cryovials using 100 ul of glyTe (5 ml glycerol, 3 ml Milli-Q H2O, 1 ml 100 x TE pH 8.0, 0.2 um filter sterilized after mixing the above, and stored in -20 C freezer). Preserved samples were then placed in a -80 C freezer. Samples were processed and sequenced at Bigelow Single Cell Genomics Center (Stepanauskas and Sieracki, 2007).</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing notes:</strong><br />
- added conventional header with dataset name, PI name, version date<br />
- modified parameter names to conform with BCO-DMO naming conventions<br />
- reformatted date from Mon-DD (Oct-04) to YYYYMMDD (20141004)<br />
- transposed the table to have field labels as columns headers</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
Deployment: Moran_Monterey_2014
Moran_Monterey_2014
Univ_Georgia
laboratory
Moran_Monterey_2014
Mary Ann Moran
University of Georgia
Univ_Georgia
laboratory