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   set  data   graph     files  public Bacterial production in microcosm experiments from samples collected by R/V E.O. Wilson in
the Gulf of Mexico, Alabama (En-Gen DMSP Cycling project)
   ?     I   M   background (external link) RSS Subscribe BCO-DMO bcodmo_dataset_3872

The Dataset's Variables and Attributes

Row Type Variable Name Attribute Name Data Type Value
attribute NC_GLOBAL access_formats String .htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson
attribute NC_GLOBAL acquisition_description String See Howard et al. (2010), Rinta-Kanto et al. (2011), and Vila-Coast et al.
(2010) for detailed methods, summarized below:

\"In October 2006, seawater was collected from surface waters (<1 m deep) in
the Gulf of Mexico off the coast of Dauphin Island, AL (lat: 30 03.041N; lon:
87 59.708W). Water was filtered through a 200-um mesh into six 20-liter
polyethylene Cubitainers with minimal headspace.

Three microcosms were amended with 10 um sodium nitrate (NaNO3) and 0.6 um
potassium phosphate (K2HPO4) to serve as the experimental microcosms. Three
microcosms were left untreated to serve as the control. The Cubitainers were
maintained at 27 degrees C on a 12-hour light/dark cycle for the duration of
the experiment.

Chemical and activity measurements were collected from the microcosms at the
beginning of the experiment (Day 0) and every day for the duration of the
experiment at the same time. Bacterial production was measured by 3H-leucine
incorporation into trichloroacetic acid (TCA) -insoluble material. Incubations
were carried out in triplicate in the dark at in situ temperature with
additions of 20 nM of 3H-leucine for 4 hours, starting immediately after water
collection. One TCA-killed sample was used as a control. Samples were
processed by the microcentrifugation method. Bacterial sulfur requirements
were estimated through conversion of bacterial heterotrophic production
assuming a bacterial C/S molar ratio of 248.\"
attribute NC_GLOBAL awards_0_award_nid String 55114
attribute NC_GLOBAL awards_0_award_number String OCE-0724017
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=0724017 (external link)
attribute NC_GLOBAL awards_0_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_0_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_0_funding_source_nid String 355
attribute NC_GLOBAL awards_0_program_manager String David L. Garrison
attribute NC_GLOBAL awards_0_program_manager_nid String 50534
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String Bacterial production in microcosm experiments
PI: Mary Ann Moran (UGA); Co-PIs: Ronald Kiene (DISL) and William Whitman (UGA)
Version: 19 Nov 2012
Notes: Volume (l) = 0.0015; Final Leucine Conc = 20 nM; C:S ratio = 248;
Specific activity = 117 Ci/mmol; bacterial growth efficiency = 15%.
dpm = disintegrations per minute
Started using diluted stock at start of exp_day = T3 (specific activity = 29.25)
attribute NC_GLOBAL Conventions String COARDS, CF-1.6, ACDD-1.3
attribute NC_GLOBAL creator_email String info at bco-dmo.org
attribute NC_GLOBAL creator_name String BCO-DMO
attribute NC_GLOBAL creator_type String institution
attribute NC_GLOBAL creator_url String https://www.bco-dmo.org/ (external link)
attribute NC_GLOBAL data_source String extract_data_as_tsv version 2.3 19 Dec 2019
attribute NC_GLOBAL date_created String 2013-02-04T18:45:39Z
attribute NC_GLOBAL date_modified String 2019-11-01T15:22:29Z
attribute NC_GLOBAL defaultDataQuery String &amp;time&lt;now
attribute NC_GLOBAL doi String 10.1575/1912/bco-dmo.3872.1
attribute NC_GLOBAL Easternmost_Easting double -87.99513
attribute NC_GLOBAL geospatial_lat_max double 30.05068
attribute NC_GLOBAL geospatial_lat_min double 30.05068
attribute NC_GLOBAL geospatial_lat_units String degrees_north
attribute NC_GLOBAL geospatial_lon_max double -87.99513
attribute NC_GLOBAL geospatial_lon_min double -87.99513
attribute NC_GLOBAL geospatial_lon_units String degrees_east
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/3872 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String bucket
attribute NC_GLOBAL instruments_0_dataset_instrument_description String Water was collected in the field using a clean bucket.
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 6088
attribute NC_GLOBAL instruments_0_description String A bucket used to collect surface sea water samples.
attribute NC_GLOBAL instruments_0_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L22/current/TOOL0536/ (external link)
attribute NC_GLOBAL instruments_0_instrument_name String bucket
attribute NC_GLOBAL instruments_0_instrument_nid String 569
attribute NC_GLOBAL instruments_0_supplied_name String bucket
attribute NC_GLOBAL keywords String bact, bact_C_demand, bact_C_demand_err, bact_prod, bact_prod_err, bact_S_prod, bco, bco-dmo, biological, blank, calc, chemical, coeff, coeff_var, data, dataset, day, demand, desc, deviation, dmo, dpm, erddap, error, exp, exp_day, exp_id, inc, inc_time, latitude, leu, leu_inc_per_d, leu_inc_per_h, longitude, management, mean, mean_minus_blank, microcosm, microcosm_type, minus, oceanography, office, per, preliminary, prod, replicate, site, site_desc, standard, standard deviation, stdev, stdev_calc, time, type
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/3872/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/3872 (external link)
attribute NC_GLOBAL Northernmost_Northing double 30.05068
attribute NC_GLOBAL param_mapping String {'3872': {'lat': 'master - latitude', 'lon': 'master - longitude'}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/3872/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String University of Georgia
attribute NC_GLOBAL people_0_affiliation_acronym String UGA
attribute NC_GLOBAL people_0_person_name String Mary Ann Moran
attribute NC_GLOBAL people_0_person_nid String 51592
attribute NC_GLOBAL people_0_role String Principal Investigator
attribute NC_GLOBAL people_0_role_type String originator
attribute NC_GLOBAL people_1_affiliation String Dauphin Island Sea Lab
attribute NC_GLOBAL people_1_affiliation_acronym String DISL
attribute NC_GLOBAL people_1_person_name String Ronald Kiene
attribute NC_GLOBAL people_1_person_nid String 51594
attribute NC_GLOBAL people_1_role String Co-Principal Investigator
attribute NC_GLOBAL people_1_role_type String originator
attribute NC_GLOBAL people_2_affiliation String University of Georgia
attribute NC_GLOBAL people_2_affiliation_acronym String UGA
attribute NC_GLOBAL people_2_person_name String William Whitman
attribute NC_GLOBAL people_2_person_nid String 51593
attribute NC_GLOBAL people_2_role String Co-Principal Investigator
attribute NC_GLOBAL people_2_role_type String originator
attribute NC_GLOBAL people_3_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_3_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_3_person_name String Shannon Rauch
attribute NC_GLOBAL people_3_person_nid String 51498
attribute NC_GLOBAL people_3_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_3_role_type String related
attribute NC_GLOBAL project String En-Gen DMSP Cycling
attribute NC_GLOBAL projects_0_acronym String En-Gen DMSP Cycling
attribute NC_GLOBAL projects_0_description String The recent discovery of key genes that mediate competing pathways at a critical juncture in the marine sulfur cycle has allowed biogeochemists to make rapid advances in understanding where and when sulfur transformations occur in the ocean, and most importantly, what factors regulate them. This project describes an environmental functional genomics project that will rapidly increase our knowledge of the role that bacterioplankton play in dimethylsulfoniopropionate (DMSP) cycling in ocean surface waters, focusing particularly on biological controls of volatile sulfur exchange across the ocean/atmosphere boundary.
The investigators have asked three critical hypotheses to explain the regulation of bacterial DMSP degradation: that involve investigations on the energy constraints of DMSP cycling, the role that DMSP concentration in the oceans plays, and the sulfur requirements for bacterial growth. These research areas serve as the focus for hypothesis-driven laboratory and field studies using functional genomics approaches that will track patterns in gene expression in relation to sulfur metabolism. The hypotheses will be tested with:
1) chemostat systems with a model marine bacterium Silicibacter pomeroyi;
2) microcosm experiments with Gulf of Mexico seawater; and
3) field studies at various sites in the Gulf of Mexico. Marine bacterioplankton play a key role in regulating the flux of DMSP-derived sulfur to the atmosphere, a process of great importance for global climate regulation and marine productivity.
The investigators will also be involved in graduate and undergraduate student education, and two post-doctoral associates will be trained to address multidisciplinary challenges in environmental microbiology. High school biology students in Athens, GA will participate in marine microbial biology research that includes bacterial diversity and discovery studies in coastal Georgia, follow-up training in molecular tools and bioinformatics in their own classroom, and summer internships at the University of Georgia and Dauphin Island Sea Laboratory.
(The description above is from the NSF Award Abstract).
attribute NC_GLOBAL projects_0_end_date String 2012-09
attribute NC_GLOBAL projects_0_geolocation String Sapelo Island, GA, USA, 31.4� N Lat, 81.3� W Lon / Dauphin Island, AL, USA, 30.3 � N Lat, 88.1� W Lon
attribute NC_GLOBAL projects_0_name String En-Gen: A Functional Genomics Approach to Organic Sulfur Cycling in the Ocean
attribute NC_GLOBAL projects_0_project_nid String 2244
attribute NC_GLOBAL projects_0_start_date String 2007-10
attribute NC_GLOBAL publisher_name String Biological and Chemical Oceanographic Data Management Office (BCO-DMO)
attribute NC_GLOBAL publisher_type String institution
attribute NC_GLOBAL sourceUrl String (local files)
attribute NC_GLOBAL Southernmost_Northing double 30.05068
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL subsetVariables String exp_id,latitude,longitude,site_desc
attribute NC_GLOBAL summary String Bacterial production measurements from control and experimental microcosms from the Dauphin Island Cubitainer Experiment (DICE).
attribute NC_GLOBAL title String Bacterial production in microcosm experiments from samples collected by R/V E.O. Wilson in the Gulf of Mexico, Alabama (En-Gen DMSP Cycling project)
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL Westernmost_Easting double -87.99513
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.3
variable exp_id   String  
attribute exp_id bcodmo_name String exp_id
attribute exp_id description String Name of the experiment. DICE = Dauphin Island Cubitainer Experiment.
attribute exp_id long_name String Exp Id
attribute exp_id units String text
variable latitude   double  
attribute latitude _CoordinateAxisType String Lat
attribute latitude _FillValue double NaN
attribute latitude actual_range double 30.05068, 30.05068
attribute latitude axis String Y
attribute latitude bcodmo_name String latitude
attribute latitude colorBarMaximum double 90.0
attribute latitude colorBarMinimum double -90.0
attribute latitude description String Latitude of the sample collection site. North = Positive.
attribute latitude ioos_category String Location
attribute latitude long_name String Latitude
attribute latitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LATX/ (external link)
attribute latitude standard_name String latitude
attribute latitude units String degrees_north
variable longitude   double  
attribute longitude _CoordinateAxisType String Lon
attribute longitude _FillValue double NaN
attribute longitude actual_range double -87.99513, -87.99513
attribute longitude axis String X
attribute longitude bcodmo_name String longitude
attribute longitude colorBarMaximum double 180.0
attribute longitude colorBarMinimum double -180.0
attribute longitude description String Longitude of the sample collection. West = Negative.
attribute longitude ioos_category String Location
attribute longitude long_name String Longitude
attribute longitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LONX/ (external link)
attribute longitude standard_name String longitude
attribute longitude units String degrees_east
variable site_desc   String  
attribute site_desc bcodmo_name String site_descrip
attribute site_desc description String Description of the sample collection site.
attribute site_desc long_name String Site Desc
attribute site_desc units String text
variable microcosm   String  
attribute microcosm bcodmo_name String sample
attribute microcosm description String Identifier for the microcosm experiment.
C1 and C2 were control microcosms containing Gulf of Mexico seawater.
E1 and E2 were experimental microcosms containing Gulf of Mexico seawater amended with inorganic N and P.
attribute microcosm long_name String Microcosm
attribute microcosm nerc_identifier String https://vocab.nerc.ac.uk/collection/P02/current/ACYC/ (external link)
attribute microcosm units String text
variable microcosm_type   String  
attribute microcosm_type bcodmo_name String sample_descrip
attribute microcosm_type description String Type of microcosm. Experimental or Control.
attribute microcosm_type long_name String Microcosm Type
attribute microcosm_type units String text
variable exp_day   byte  
attribute exp_day _FillValue byte 127
attribute exp_day actual_range byte 0, 6
attribute exp_day bcodmo_name String unknown
attribute exp_day description String Sequential day of the experiment. Day 0 = start of the experiment.
attribute exp_day long_name String Exp Day
attribute exp_day units String integer
variable mean   int  
attribute mean _FillValue int 2147483647
attribute mean actual_range int 12761, 286110
attribute mean bcodmo_name String unknown
attribute mean description String Calculated average of triplicates (including the blank).
attribute mean long_name String Mean
attribute mean units String dpm
variable mean_minus_blank   int  
attribute mean_minus_blank _FillValue int 2147483647
attribute mean_minus_blank actual_range int 10457, 284639
attribute mean_minus_blank bcodmo_name String unknown
attribute mean_minus_blank description String Average corrected for the blank.
attribute mean_minus_blank long_name String Mean Minus Blank
attribute mean_minus_blank units String dpm
variable stdev   short  
attribute stdev _FillValue short 32767
attribute stdev actual_range short 59, 11389
attribute stdev bcodmo_name String unknown
attribute stdev description String Standard deviation of the mean.
attribute stdev long_name String Stdev
attribute stdev units String dpm
variable coeff_var   float  
attribute coeff_var _FillValue float NaN
attribute coeff_var actual_range float 0.0, 0.13
attribute coeff_var bcodmo_name String unknown
attribute coeff_var description String Coefficient of variation of the mean.
attribute coeff_var long_name String Coeff Var
attribute coeff_var units String %
variable inc_time   float  
attribute inc_time _FillValue float NaN
attribute inc_time actual_range float 0.97, 1.04
attribute inc_time bcodmo_name String unknown
attribute inc_time description String Incubation time.
attribute inc_time long_name String Inc Time
attribute inc_time units String hours
variable leu_inc_per_h   float  
attribute leu_inc_per_h _FillValue float NaN
attribute leu_inc_per_h actual_range float 0.0278, 1.2127
attribute leu_inc_per_h bcodmo_name String unknown
attribute leu_inc_per_h description String Measure of bacterial production in nanomoles of radiolabeled leucine incorporated per hour of incubation.
attribute leu_inc_per_h long_name String Leu Inc Per H
attribute leu_inc_per_h units String nM Leu per hour
variable leu_inc_per_d   float  
attribute leu_inc_per_d _FillValue float NaN
attribute leu_inc_per_d actual_range float 0.666, 29.104
attribute leu_inc_per_d bcodmo_name String unknown
attribute leu_inc_per_d description String Measure of bacterial production in nanomoles of radiolabeled leucine incorporated per day of incubation.
attribute leu_inc_per_d long_name String Leu Inc Per D
attribute leu_inc_per_d units String nM Leu per day
variable stdev_calc   float  
attribute stdev_calc _FillValue float NaN
attribute stdev_calc actual_range float 0.013, 0.997
attribute stdev_calc bcodmo_name String unknown
attribute stdev_calc description String Estimated variation about the mean based on % CV in specific activity measurements.
attribute stdev_calc long_name String Stdev Calc
attribute stdev_calc units String nM Leu per day
variable bact_prod   float  
attribute bact_prod _FillValue float NaN
attribute bact_prod actual_range float 172.1, 7518.6
attribute bact_prod bcodmo_name String unknown
attribute bact_prod description String Measure of bacterial Carbon production in nanomoles of carbon substrate converted to bacterial biomass each day.
attribute bact_prod long_name String Bact Prod
attribute bact_prod units String nM Carbon per day
variable bact_prod_err   float  
attribute bact_prod_err _FillValue float NaN
attribute bact_prod_err actual_range float 3.46, 257.48
attribute bact_prod_err bcodmo_name String unknown
attribute bact_prod_err description String Estimated variation about the mean of bacterial production based on % CV in specific activity measurements.
attribute bact_prod_err long_name String Bact Prod Err
attribute bact_prod_err units String nM Carbon per day
variable bact_C_demand   float  
attribute bact_C_demand _FillValue float NaN
attribute bact_C_demand actual_range float 1147.6, 50124.0
attribute bact_C_demand bcodmo_name String unknown
attribute bact_C_demand description String Nanomoles of carbon substrate needed by bacteria each day, including bacterial production and bacterial respiration. This assumes a bacterial growth efficiency of 15%.
attribute bact_C_demand long_name String Bact C Demand
attribute bact_C_demand units String nM Carbon per day
variable bact_C_demand_err   float  
attribute bact_C_demand_err _FillValue float NaN
attribute bact_C_demand_err actual_range float 23.05, 1716.56
attribute bact_C_demand_err bcodmo_name String unknown
attribute bact_C_demand_err description String Estimated variation about the mean of bacterial carbon demand based on % CV in specific activity measurements.
attribute bact_C_demand_err long_name String Bact C Demand Err
attribute bact_C_demand_err units String nM Carbon per day
variable bact_S_prod   float  
attribute bact_S_prod _FillValue float NaN
attribute bact_S_prod actual_range float 0.69, 30.32
attribute bact_S_prod bcodmo_name String unknown
attribute bact_S_prod description String Nanomoles of sulfur substrate needed by bacteria each day. This assumes a C:S ratio of 248 in bacterial biomass.
attribute bact_S_prod long_name String Bact S Prod
attribute bact_S_prod units String nM Sulfur per day
variable replicate   String  
attribute replicate bcodmo_name String replicate
attribute replicate description String Replicate identifier.
a, b, and c are replicate samples from the same treatment.
blank is a killed control, with formaldehyde added prior to addition of isotope.
attribute replicate long_name String Replicate
attribute replicate units String unitless
variable dpm   float  
attribute dpm _FillValue float NaN
attribute dpm actual_range float 171.41, 295274.0
attribute dpm bcodmo_name String unknown
attribute dpm description String Disintegrations per minute (dpm) measured per replicate.
attribute dpm long_name String DPM
attribute dpm units String dpm

The information in the table above is also available in other file formats (.csv, .htmlTable, .itx, .json, .jsonlCSV1, .jsonlCSV, .jsonlKVP, .mat, .nc, .nccsv, .tsv, .xhtml) via a RESTful web service.


 
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