http://lod.bco-dmo.org/id/dataset/712803
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
2017-08-14
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Halomethane concentrations in cell culture
2017-08-14
publication
2017-08-14
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-06-12
publication
https://doi.org/10.1575/1912/bco-dmo.712803.1
Sergio A. Sanudo-Wilhelmy
University of Southern California
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: Sanudo-Wilhelmy, S. (2017) Halomethane concentrations in cell culture. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2017-08-14 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.712803.1 [access date]
Concentrations of CH3Br, CH3I, CH3Cl, and CH3Br3 in cell culture Dataset Description: <p>Six taxonomically diverse strains of marine bacteria: <em>Alphaproteobacteria </em>(DFL12 and MED193), <em>Gammaproteobacteria </em>(AND4) and <em>Bacteroidetes </em>(MED134, MED152 and MED217) were grown in culture. Cultures were grown in 120 mL ZoBell marine broth medium in 250 mL glass vials (ca. 120mL headspace) at 22°C on a shaker at 10rpm and full light conditions using an artificial light source maintained at approximately 125 μmol photons m-2 s-1 until they reached stationary phase, which ranged from ca. 8 to 100 hours. Cultures reached high cell densities, typically on the order of 107 - 108 cells mL-1 during late log growth phase, and one final “late” time-point was taken 24 hours after the last experimental replicates to assess behavior in stationary phase. Duplicate culture vials were killed by acidification to ca. pH 2.0 with HCl (0.5mL 3mol L-1 solution for 125mL culture volume) HCl and refrigerated prior to analysis where they are stable for up to two weeks (EPA 1986). Samples were analyzed for dissolved halocarbon concentrations using a gas chromatography (GC) method adapted from Schall and Heumann (1993) and quantified relative to an internal standard. For cell abundance and volume determination, duplicate samples were fixed with 10% formalin (4% formaldehyde), stained with acridine orange (Hobbie et al. 1977), filtered onto pre-blackened filters and counted with epifluorescence microscopy. Purge-and-trap capillary column gas chromatography with electron capture detection (GC-ECD) was employed for dissolved halocarbon analysis (Schall and Heumann 1993). 25mL media samples were purged with ultra-high purity He for 45min at a flow rate of 60mL min-1 through an in-line K2CO3 drying tube and onto a liquid nitrogen trap. The purge vessel is rinsed with methanol and the drying trap replaced with 0.75g fresh K2CO3 between individual analyses. Cryo-concentrated samples were introduced into an Agilent 7890A GC by means of a splitless&nbsp;injection with sweep pressure at 50psi for 1.5min returning to analytical column pressure of 18psi 2.5min after injection. Inlet temperature was set to 60°C to facilitate cryo-focusing on the column. Initial oven temperature was 40°C for 10min increasing to 120°C by 4°C min-1 and held there for another 2min. Temperature was then ramped to a final 240°C at a rate of 5°C min-1 and held for 20min Calibration was carried out using 20µL of 0.5µg/L of tribromochloromethane as an internal standard (Gonzalez-Gago et al. 2007).&nbsp;</p> Methods and Sampling: <p>Peak Simple model 302 Integration using Peak 393 software<br />
Excel 2016</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1559276 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1559276
completed
Sergio A. Sanudo-Wilhelmy
University of Southern California
213-821-1302
3616 Trousdale Pkwy Dept. of Biological Sciences, AHF 206, Mail Code: 0371
Los Angeles
CA
90089
USA
sanudo@usc.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Strain
Species
Clade
Time_elapsed_hours
cells_per_ml
CH3Br
CH3I
CH3Cl
CHBr3
Agilent 7890A Gas Chromatograph with electron capture detector
theme
None, User defined
No BCO-DMO term
time_elapsed
cell_concentration
featureType
BCO-DMO Standard Parameters
Gas Chromatograph
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.
The role of organic and metal cofactors on the biogenic synthesis of halogenated volatile hydrocarbons
https://osprey.bco-dmo.org/project/712782
The role of organic and metal cofactors on the biogenic synthesis of halogenated volatile hydrocarbons
<p><em>NSF Award Abstract:</em><br />
Volatile halogenated hydrocarbon gases, in this case halomethanes, are produced naturally by organisms in the ocean; which then serves as a source of these biogenic gases to the atmosphere. Their chemical reactions in the atmosphere are very similar to those of anthropogenic chlorofluorocarbons (CFCs). While CFCs are well-studied because they consume the ozone in the upper atmosphere that shields the earth from harmful ultraviolet radiation, halomethanes have been largely neglected, even though they currently account for 25% of the ozone depletion. As anthropogenic CFC levels steadily decline, however, halomethanes are predicted to account for 50% of ozone depletion by 2050. Based on limited study thus far, marine halomethane production has been ascribed mainly to phytoplankton and macro algae. This project will build on new and compelling data that suggests marine heterotrophic bacteria could also be major producers of halomethanes. The data produced here will provide the critical evaluation required to address discrepancies in global halomethane budgets which currently are out of balance due to an unknown source to the atmosphere, evaluating the hypothesis that marine heterotrophic bacteria can supply this missing source. Concerns over the stability of the earth's stratospheric ozone layer make this valuable and necessary research with added value of providing support for engaged undergraduate, graduate, and postdoctoral education at the University of Southern California.</p>
<p>Past research on the production of marine halomethanes has focused on phytoplankton and macro algae, while potential bacterial contributions to the processe have been neglected. This research proposes to study the role of marine heterotrophic bacteria on the production of halomethanes. It has been noted in past studies that there are discrepancies in the global atmospheric halomethane budget, and it is possible this is due to a large missing bacterial source. Additionally, this research will evaluate the potential importance of vitamin B12, methionine, and vanadium cofactors on the synthesis of halomethanes in bacteria. A large portion of marine bacteria cannot synthesize methylation co-enzymes, and therefore, would require available B12, methionine, and vanadium from external sources to complete the methylation step. This study will also measure concentrations of halomethanes, B12, methionine, and vanadium in upwelling regions as well as at a long-term time series site in order to put constraints on the variability of halomethanes concentrations for use in global linked air-sea models.</p>
Volatile_Hydrocarbons
largerWorkCitation
project
eng; USA
biota
2017-08-14
0
BCO-DMO catalogue of parameters from Halomethane concentrations in cell culture
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/712811.rdf
Name: Strain
Units: unitless
Description: <p>Strain of marine bacteria</p>
http://lod.bco-dmo.org/id/dataset-parameter/712812.rdf
Name: Species
Units: unitless
Description: <p>Species</p>
http://lod.bco-dmo.org/id/dataset-parameter/712813.rdf
Name: Clade
Units: unitless
Description: <p>Clade</p>
http://lod.bco-dmo.org/id/dataset-parameter/712814.rdf
Name: Time_elapsed_hours
Units: hours
Description: <p>Incubation duration; originally Time (hours)</p>
http://lod.bco-dmo.org/id/dataset-parameter/712815.rdf
Name: cells_per_ml
Units: cells per milliliter
Description: <p>Cell concentration; originally cellsmL-1</p>
http://lod.bco-dmo.org/id/dataset-parameter/712816.rdf
Name: CH3Br
Units: picomoles per liter
Description: <p>bromomethane concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/712817.rdf
Name: CH3I
Units: picomoles per liter
Description: <p>iodomethane concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/712818.rdf
Name: CH3Cl
Units: picomoles per liter
Description: <p>chloromethane concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/712819.rdf
Name: CHBr3
Units: picomoles per liter
Description: <p>bromoform, tribromomethane 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
11974
https://darchive.mblwhoilibrary.org/bitstream/1912/24259/1/dataset-712803_halomethane-concentrations-cell-culture__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.712803.1
download
onLine
dataset
<p>Peak Simple model 302 Integration using Peak 393 software<br />
Excel 2016</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing Notes:</strong></p>
<p>- added conventional header with dataset name, PI name, version date<br />
- modified parameter names to conform with BCO-DMO naming conventions<br />
- replaced spaces and -&nbsp;with underscores<br />
- blank values replaced with no data value '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
Agilent 7890A Gas Chromatograph with electron capture detector
Agilent 7890A Gas Chromatograph with electron capture detector
PI Supplied Instrument Name: Agilent 7890A Gas Chromatograph with electron capture detector PI Supplied Instrument Description:Column- Restek Rtx-502.2 (60m, 0.32mm ID, 1.8µm df) Instrument Name: Gas Chromatograph Instrument Short Name:Gas Chromatograph Instrument Description: Instrument separating gases, volatile substances, or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay. (from SeaDataNet, BODC) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB02/