http://lod.bco-dmo.org/id/dataset/763725
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
2019-03-27
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
CTD profiles from six cruises to the Eastern Mediterranean from 2014-2016
2022-02-03
publication
2022-02-03
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2022-02-03
publication
https://doi.org/10.26008/1912/bco-dmo.763725.1
Daniel Sher
University of Haifa
principalInvestigator
Daniel Segre
Boston University
principalInvestigator
Laura Steindler
University of Haifa
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: Sher, D., Segre, D., Steindler, L. (2022) CTD profiles from six cruises to the Eastern Mediterranean from 2014-2016. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2022-02-03 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.763725.1 [access date]
CTD profiles from six cruises to the Eastern Mediterranean Dataset Description: Methods and Sampling: <p>CTD casts were conducted&nbsp;using a Seabird CTD. The data underwent QC including smoothing and binning using SeaBird software.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1635070 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1635070
completed
Daniel Sher
University of Haifa
+972(4)8249349
199 Aba Koushy Ave.
Mount Carmel
Haifa
3498838
Israel
dsher@univ.haifa.ac.il
pointOfContact
Daniel Segre
Boston University
617-358-2301
Boston
MA
USA
dsegre@bu.edu
pointOfContact
Laura Steindler
University of Haifa
lsteindler@univ.haifa.ac.il
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Sheet_Name
ISO_Date_Time_UTC
lat
lon
Binned_depth
Mean_Tv290C
Mean_Sal
Mean_FISP
Mean_turb
Mean_PAR
Density
Seabird CTD
theme
None, User defined
No BCO-DMO term
ISO_DateTime_UTC
latitude
longitude
depth
water temperature at measurement depth
salinity
fluorescence
turbidity
PAR
density
featureType
BCO-DMO Standard Parameters
CTD Sea-Bird
instrument
BCO-DMO Standard Instruments
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.
Microbial ecosystems in silico, in the lab and in the field: understanding interactions between abundant marine bacterial taxa
https://osprey.bco-dmo.org/project/650767
Microbial ecosystems in silico, in the lab and in the field: understanding interactions between abundant marine bacterial taxa
<p>Every drop of seawater contains around one million microorganisms (bacteria, small algae and other organisms such as ciliates and diatoms). These marine microbes feed the entire marine ecosystem, modulate global cycles of carbon and other elements, and impact climate. With the advances in genome-sequencing technology, we can now identify the microbes and assess their genetic and metabolic capacities, yet we still cannot deduce from the genomes of these organisms how they will grow - and interact - in nature. The proposed project will tackle this challenge through a tightly integrated combination of mathematical modeling, laboratory experiments and field work in the Eastern Mediterranean, to identify genes and pathways dictating how environmentally-relevant microbes grow and interact in the sea. We will produce genome-scale mathematical models of the metabolism of <em>Prochlorococus</em>, the numerically-dominant photosynthetic bacteria in large swaths of the ocean, and of <em>Alteromonas</em>, abundant marine bacteria which make their living by consuming and respiring organic molecules produced by <em>Prochlorococcus</em> and other photosynthetic microbes. We will test these models using laboratory cultures of these organisms grown alone and together, and determine to what extent the models and laboratory cultures represent the growth and death of these organisms in the Eastern Mediterranean. This study will be useful for scientists of many disciplines, including not only marine biology, oceanography and ecology but also genetics, medicine and agriculture. Our results will shed light on the dynamics of some of the most common organisms in the world, responsible for the production of up to 20% of the oxygen we breathe. Our collaborative study will foster the development and training of the next generation of marine scientists, and will be used in outreach activities designed to share with high-school students and the general public the excitement of marine research and the need to responsibly utilize and sustain the oceans for the sake of future generations.</p>
<p>The proposed project will tackle the challenge of understanding microbial interactions from the underlying genetic data through a tightly integrated combination of genome scale modeling, laboratory experiments and field work in the Eastern Mediterranean. We aim to identify genomic traits dictating how environmentally-relevant primary producers and heterotrophic bacteria interact. Genome-scale (dynamic flux balance analysis, dFBA) models of <em>Prochlorococus</em> MED4 and of <em>Alteromonas</em> HOT1A3 will be produced and calibrated using high-throughput measurements of growth and physiological parameters in laboratory batch cultures, combined with detailed analysis of specific metabolites; The dFBA models will be combined <em>in-silico</em> and the results compared to laboratory co-cultures. Model-data discrepancies will provide opportunities to revisit the models, suggesting the mediation of alternative processes such as allelopathy or other types of chemical signaling. Finally, time-series data on the community composition and function during the summer/fall <em>Prochlorococcus</em> bloom in the hyper-oligotrophic Eastern Mediterranean, combined with field experiments (microcosms), will provide a test of hypotheses generated in the lab. This study will provide the first detailed "roadmap" linking genomic traits (genes and metabolic pathways) and rate measurements with species interactions in environmentally-relevant marine microbes. Genome-scale models will likely be embedded in a not-so-distant future in global-scale models of the Earth System, and the proposed study will provide a critical stepping-stone towards predicting how marine microbial systems will evolve in a changing world. The strong human impact on marine ecosystems, and the need for quantitative and predictive understanding of how they will respond to a changing environment, calls for interdisciplinary research and training for the next generation of scientists and decision makers. Models and data generated by our work will be integrated into a novel educational exploration-focused, web- and field-based educational module. This module will introduce key concepts in microbiology, environmental sciences and oceanography to intermediate- and high-school students.</p>
<p>(Note: acronym HADFBA = Heterotroph-Autotroph Dynamic Flux Balance Analysis)</p>
HADFBA
largerWorkCitation
project
eng; USA
oceans
34.3675
34.3745
32.43567
32.456
2014-12-01
2016-07-24
Eastern Mediterranean Sea
0
BCO-DMO catalogue of parameters from CTD profiles from six cruises to the Eastern Mediterranean from 2014-2016
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/763800.rdf
Name: Sheet_Name
Units: unitless
Description: <p>Name of the Sheet in the Excel workbook</p>
http://lod.bco-dmo.org/id/dataset-parameter/763801.rdf
Name: ISO_Date_Time_UTC
Units: unitless
Description: <p>Date and time of first data scan</p>
http://lod.bco-dmo.org/id/dataset-parameter/763802.rdf
Name: lat
Units: decimal degrees
Description: <p>latitude in degrees north</p>
http://lod.bco-dmo.org/id/dataset-parameter/763803.rdf
Name: lon
Units: decimal degrees
Description: <p>longitude in degrees east</p>
http://lod.bco-dmo.org/id/dataset-parameter/763804.rdf
Name: Binned_depth
Units: meter
Description: <p>Depth (1m bins)</p>
http://lod.bco-dmo.org/id/dataset-parameter/763805.rdf
Name: Mean_Tv290C
Units: degrees Celsius
Description: <p>Mean temperature over 1m bin</p>
http://lod.bco-dmo.org/id/dataset-parameter/763806.rdf
Name: Mean_Sal
Units: PSU
Description: <p>Mean salinity over 1m depth bin</p>
http://lod.bco-dmo.org/id/dataset-parameter/763807.rdf
Name: Mean_FISP
Units: AU (seapoint)
Description: <p>In-situ chlorophyll autofluorescence; mean over 1m bin</p>
http://lod.bco-dmo.org/id/dataset-parameter/763808.rdf
Name: Mean_turb
Units: FTU (seapoint)
Description: <p>IN-situ turbidity mean over 1m bin</p>
http://lod.bco-dmo.org/id/dataset-parameter/763809.rdf
Name: Mean_PAR
Units: microEinsteins
Description: <p>PAR/irradiance; Biospherical/LiCor; mean over 1m bin</p>
http://lod.bco-dmo.org/id/dataset-parameter/763810.rdf
Name: Density
Units: kilograms per meter cubed (kg/m3)
Description: <p>Calculated density; mean over 1m bin</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
448694
https://darchive.mblwhoilibrary.org/bitstream/1912/27976/1/dataset-763725_seasonal-cruises-n-1200__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.763725.1
download
onLine
dataset
<p>CTD casts were conducted&nbsp;using a Seabird CTD. The data underwent QC including smoothing and binning using SeaBird software.</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing Notes:</strong><br />
-&nbsp;added conventional header with dataset name, PI name, version date<br />
-&nbsp;modified parameter names to conform with BCO-DMO naming conventions<br />
-&nbsp;added&nbsp;lat, lon, time, and sheet name columns<br />
- combined all data sheets together on&nbsp;column names.</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
Seabird CTD
Seabird CTD
PI Supplied Instrument Name: Seabird CTD PI Supplied Instrument Description:CTD casts using Seabird CTD. Instrument Name: CTD Sea-Bird Instrument Short Name:CTD Sea-Bird Instrument Description: A Conductivity, Temperature, Depth (CTD) sensor package from SeaBird Electronics. This instrument designation is used when specific make and model are not known or when a more specific term is not available in the BCO-DMO vocabulary. Refer to the dataset-specific metadata for more information about the specific CTD used. More information from: http://www.seabird.com/ Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/130/