BCO-DMO ERDDAP
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Row Type Variable Name Attribute Name Data Type Value
attribute NC_GLOBAL access_formats String .htmlTable,.csv,.json,.mat,.nc,.tsv
attribute NC_GLOBAL acquisition_description String Location: Northeast Pacific Line P Transect 48.8167 N 128.667 W\n \nMedia and culturing techniques  \n Northwest Atlantic Thalassiosira pseudonana CCMP1335 cultures were\nmaintained in a 24\\u00b0C incubator under constant fluorescent lighting (65\n\\u00b5mol quanta m-2 s-1 PAR). Northeast Atlantic Phaeodactylum tricornutum\nCCMP632 cultures were maintained in an 18\\u00b0C incubator under constant\nfluorescent lighting (90 \\u00b5mol quanta m-2 s-1 PAR). Both Pacific Pseudo-\nnitzschia delicatissima UNC1205 and Pacific Thalassiosira sp. UNC1203 were\ngrown in an 18\\u00b0C incubator under constant fluorescent lighting (85\n\\u00b5mol quanta m-2 s-1 PAR). All cultures were randomly repositioned each\nday to avoid any effect of subtle variation in light intensity on growth. T.\npseudonana CCMP1335 and P. tricornutum CCMP632 (Bigelow Laboratory, East\nBoothbay, ME) were obtained from the Mincer and Saito laboratory culture\ncollections at the Woods Hole Oceanographic Institution, respectively. Pacific\nP. delicatissima UNC1205 and Thalassiosira sp. UNC1203 were obtained from the\nMarchetti laboratory at the University of North Carolina. Both Pacific\nisolates were collected at station P8 of Line P, a Northeast Pacific ocean\ntransect located off of Vancouver Island comprising 26 sampling stations and\nending at Ocean Station Papa at 50\\u00b0N 145\\u00b0W (Fig. 1a). All cultures\nwere axenic and maintained by sterile technique until needed.  \n Polycarbonate and plastic bottles were cleaned to remove trace metal\ncontaminants before use. This procedure involved, at minimum, a 72h soak in\n<1% Citranox detergent, five rinses in mili-Q water, a 7d soak in 10% HCl, and\nfive rinses with dilute acid (HCl, pH 2). Cultures were grown in microwave\nsterilized 28 mL polycarbonate centrifuge tubes, and all solutions were\npipetted only after a tip rinse procedure consisting of three rinses with 10%\nHCl followed by three rinses with sterile dilute HCl (pH 2). All culture work\nwas conducted in a Class 100 clean room.  \n Culture media was prepared after that used by Sunda and Huntsman for trace\nmetal experimentation (Sunda and Huntsman 1992, 1995b). Microwave sterilized,\n0.2\\u00b5m-filtered Pacific seawater from the North Pacific station\n\\u201cAloha\\u201d (22\\u00b0 45'N, 158\\u00b0 00'W) was used as the media base.\nMacronutrients were added to this sterile base to a final concentration of\n88.2\\u00b5M NaNO3, 41.5\\u00b5M NaH2PO4, and 106\\u00b5M Na2SiO3 and were\nchelexed before use. Added vitamins included 2 nM biotin, 0.37 nM B12 as\ncyanocobalamin, and 300 nM thiamine and were also chelexed before use. Trace\nmetals were added to final media concentrations of 10-7 M FeCl3, 4.8 x 10-8 M\nMnCl2, 4.0 x 10-8 M CuSO4, 10-7 M NiCl2, and 10-8 M Na2O3Se within a 10-4 M\nethylenediamine tetraacetic acid disodium salt (EDTA, Acros Organics,\nC10H14N2Na2O8) metal ion buffer system. All media amendments were sterile\nfiltered through acid rinsed 0.2\\u00b5m filters before addition to final\nmedia, and final media equilibrated for at least 12h before inoculation.  \n Established cultures of each diatom were first acclimated in low-metal media\ncontaining 1 nM total Zn or less for at least three transfers. These\nacclimated cultures were used to initially inoculate transfer 1 (T1) cultures\nat 1% volume. For all diatoms, Zn or Co limitation experiments were first\nperformed using a range of Zn concentrations with Co omitted and vice versa.\nWe refer to experiments using media amended with Zn or Co (while omitting the\nother) as \\u201csimple limitation\\u201d experiments. Experiments varying\nconcentrations of both Zn and Co were also conducted, allowing for three-\ndimensional visualizations of growth rates as used previously (Saito et al.\n2002; Saito and Goepfert 2008). We refer to experiments using media amended\nwith both Zn and Co as \\u201cmatrix\\u201d experiments. In vivo fluorescence\n(Turner Instruments TD-700) of simple and matrix experiment cultures was\nmeasured on a near-daily basis as a proxy for chlorophyll a and is reported as\nrelative fluorescence units (RFU). Growth rates were calculated from the\nexponential portion of each culture\\u2019s growth curve. Computed ratios of\n[Zn2+] and [Co2+] to total concentrations, whose values are 10-3.99 and\n10-3.63 respectively, were used to convert added metal concentrations to free\nion concentrations and are the same as those used by Sunda and Huntsman (Sunda\nand Huntsman 1995).\n \nIsolation sources and locations:  \n * Pseudonitzschia delicatissima UNC1205 and Thalassiosira UNC1203 were\nisolated from  \n station P8 of the Line P transect, 48.817\\u00b0N 128.666\\u00b0W  \n * Phaeodactylum tricornutum CCMP632 was ordered from Bigelow, the strains\noriginal  \n location of isolation was 54\\u00b0N 4\\u00b0W  \n * Thalassiosira pseudonana CCMP1335 was also from Bigelow, original location\nof  \n isolation was 40.756\\u00b0 N 72.82\\u00b0 W
attribute NC_GLOBAL awards_0_award_nid String 646122
attribute NC_GLOBAL awards_0_award_number String GBMF3782
attribute NC_GLOBAL awards_0_data_url String https://www.moore.org/grant-detail?grantId=GBMF3782 (external link)
attribute NC_GLOBAL awards_0_funder_name String Gordon and Betty Moore Foundation: Marine Microbiology Initiative
attribute NC_GLOBAL awards_0_funding_acronym String MMI
attribute NC_GLOBAL awards_0_funding_source_nid String 385
attribute NC_GLOBAL awards_1_award_nid String 785825
attribute NC_GLOBAL awards_1_award_number String OCE-1736599
attribute NC_GLOBAL awards_1_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1736599 (external link)
attribute NC_GLOBAL awards_1_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_1_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_1_funding_source_nid String 355
attribute NC_GLOBAL awards_1_program_manager String Henrietta N Edmonds
attribute NC_GLOBAL awards_1_program_manager_nid String 51517
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String Growth rates of Line P diatoms in added Zn and Co incubation studies \n  PI: Mak A. Saito \n  Data Version 1: 2020-03-31
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 2020-03-31T21:27:30Z
attribute NC_GLOBAL date_modified String 2020-04-10T14:55:30Z
attribute NC_GLOBAL defaultDataQuery String &amp;time&lt;now
attribute NC_GLOBAL doi String 10.26008/1912/bco-dmo.807316.1
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/807316 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String TD-700
attribute NC_GLOBAL instruments_0_dataset_instrument_description String Turner Instruments TD-700 Fluorometer calibrated to a solid standard.
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 807326
attribute NC_GLOBAL instruments_0_description String The TD-700 Laboratory Fluorometer is a benchtop fluorometer designed to detect fluorescence over the UV to red range. The instrument can measure concentrations of a variety of compounds, including chlorophyll-a and fluorescent dyes, and is thus suitable for a range of applications, including chlorophyll, water quality monitoring and fluorescent tracer studies. Data can be output as concentrations or raw fluorescence measurements.
attribute NC_GLOBAL instruments_0_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L22/current/TOOL0510/ (external link)
attribute NC_GLOBAL instruments_0_instrument_name String Turner Designs 700 Laboratory Fluorometer
attribute NC_GLOBAL instruments_0_instrument_nid String 694
attribute NC_GLOBAL instruments_0_supplied_name String Turner Instruments TD-700 Fluorometer
attribute NC_GLOBAL keywords String added, Added_Co, Added_Zn, average, bco, bco-dmo, biological, chemical, co2plus, culture, data, dataset, dmo, erddap, experiment, Experiment_Type, growth, Growth_rate_average, Growth_rate_replicate_A, Growth_rate_replicate_B, log, log_Co2plus, log_Zn2plus, management, maximum, Maximum_RFU, oceanography, office, preliminary, rate, replicate, rfu, total, Total_Co, Total_Zn, type, zn2plus
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/807316/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/807316 (external link)
attribute NC_GLOBAL param_mapping String {'807316': {}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/807316/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_0_affiliation_acronym String WHOI
attribute NC_GLOBAL people_0_person_name String Mak A. Saito
attribute NC_GLOBAL people_0_person_nid String 50985
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 Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_1_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_1_person_name String Amber York
attribute NC_GLOBAL people_1_person_nid String 643627
attribute NC_GLOBAL people_1_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_1_role_type String related
attribute NC_GLOBAL project String PMT Cobalt and Metalloenzymes,MM Saito
attribute NC_GLOBAL projects_0_acronym String PMT Cobalt and Metalloenzymes
attribute NC_GLOBAL projects_0_description String NSF abstract:\nCobalt is important for many forms of marine life, yet it is one of the scarcest nutrients in the sea. Cobalt's oceanic abundance and distribution, along with other scarce nutrients, can influence the growth of microscopic plants (phytoplankton). This in turn can influence carbon cycles in the ocean and atmosphere. Therefore, knowledge of the controls on cobalt's abundance and chemical forms in seawater is a valuable component of our ability to understand the ocean's influence on global carbon cycling. Within phytoplankton and other marine microbes, metals such as cobalt, iron, nickel, and copper are used as critical components of enzymes responsible for key cellular reactions. Since these enzymes require metals to work, they are named metalloenzymes. Participating in a Pacific Ocean cruise from Alaska to Tahiti, this project will study the oceanic distributions of dissolved cobalt and the cellular content of a group of metalloenzymes known to influence biogeochemical cycles. The project will provide scientific impact by creating new knowledge about oceanic micronutrients in regions of economic interest with regard to fisheries and deep-sea mining. Measurement of proteins in the North Pacific will provide data of broad biological and chemical interest and will be made available through a new NSF-funded \"EarthCube Ocean Protein Portal\" data base. Educational impact will stem from participation of a graduate student and two young technicians, as well as the PI's development of a high school chemistry curriculum for use in two local high schools, thus allowing teachers to include real oceanic and environmental data at their first introduction to chemistry.\nCobalt has a complex biogeochemical cycle. Both its inorganic and organic forms are used by biology in the upper ocean and it is removed from solution by being scavenged in the intermediate and deep ocean. This scavenging removal results in cobalt having the smallest oceanic inventory of any biologically utilized element. Recent studies, however, have found that large dissolved cobalt plumes occur in major oxygen minimum zones due to a combination of less scavenging and additions from sedimentary and remineralization fluxes. The GP15 US GEOTRACES Pacific Meridional Transect (PMT) provides an opportunity to examine the influence of oxygen depletion on cobalt chemistry. Moreover, the study of the protein component of microbial communities using new proteomic techniques will provide evidence of how different major microorganisms respond to the chemical environment (e.g. through transporter production for specific nutrients and micronutrients) as well as the biochemical basis for metal requirements related to the use of specific metalloenzymes. Specifically, the PMT provides an opportunity to confirm that the Pacific oxygen minimum zones contain a large amount of cobalt and to test the hypotheses that simultaneous zinc scarcity could induce wide-scale biochemical substitution of cobalt for zinc in the North Pacific Ocean.
attribute NC_GLOBAL projects_0_end_date String 2019-10
attribute NC_GLOBAL projects_0_geolocation String Laboratory Study and Cultures from Northeast Pacific Line P Transect 48.8167 N 128.667 W
attribute NC_GLOBAL projects_0_name String US GEOTRACES PMT: Cobalt Biogeochemical Cycling and Connections to Metalloenzymes in the Pacific Ocean
attribute NC_GLOBAL projects_0_project_nid String 785826
attribute NC_GLOBAL projects_0_start_date String 2017-11
attribute NC_GLOBAL projects_1_acronym String MM Saito
attribute NC_GLOBAL projects_1_description String In support of obtaining deeper knowledge of major biogeochemically relevant proteins to inform a mechanistic understanding of global marine biogeochemical cycles.
attribute NC_GLOBAL projects_1_end_date String 2019-12
attribute NC_GLOBAL projects_1_name String Marine Microbial Investigator Award: Investigator Mak Saito
attribute NC_GLOBAL projects_1_project_nid String 786672
attribute NC_GLOBAL projects_1_start_date String 2013-05
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 standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL summary String Growth rates of two NE Pacific Line P diatom isolates and two Atlantic diatom isolates under various Zn and Co additions. Cultures were collected from the GeoMICS expedition on the R/V Thomas G. Thompson (cruise TN280), along Line P in the NE Pacific, in May of 2012.
attribute NC_GLOBAL title String [Growth rates of Line P diatoms in added Zn and Co incubation studies] - Growth rates NE Pacific and Atlantic diatom isolates under various Zn and Co additions in experiments with cultures collected from R/V Thomas G. Thompson cruise TN280, along Line P in the NE Pacific, in May of 2012. (US GEOTRACES PMT: Cobalt Biogeochemical Cycling and Connections to Metalloenzymes in the Pacific Ocean)
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.3
variable Culture String
attribute Culture bcodmo_name String sample_descrip
attribute Culture description String Culture name (e.g. Line P Thalassiosira sp. UNC1203)
attribute Culture long_name String Culture
attribute Culture units String unitless
variable Experiment_Type String
attribute Experiment_Type bcodmo_name String exp_type
attribute Experiment_Type description String Experiment Type. One (simple) or both (matrix) metals added.
attribute Experiment_Type long_name String Experiment Type
attribute Experiment_Type units String unitless
variable Added_Zn float
attribute Added_Zn _FillValue float NaN
attribute Added_Zn actual_range float 0.0, 100.0
attribute Added_Zn bcodmo_name String trace_metal_conc
attribute Added_Zn description String Total amount of added zinc (Zn) to incubation.
attribute Added_Zn long_name String Added Zn
attribute Added_Zn nerc_identifier String https://vocab.nerc.ac.uk/collection/P03/current/C035/ (external link)
attribute Added_Zn units String nanomoles per liter (nmol/L)
variable Added_Co float
attribute Added_Co _FillValue float NaN
attribute Added_Co actual_range float 0.0, 100.0
attribute Added_Co bcodmo_name String trace_metal_conc
attribute Added_Co description String Total amount of added cobalt (Co) to incubation.
attribute Added_Co long_name String Added Co
attribute Added_Co nerc_identifier String https://vocab.nerc.ac.uk/collection/P03/current/C035/ (external link)
attribute Added_Co units String nanomoles per liter (nmol/L)
variable Total_Zn float
attribute Total_Zn _FillValue float NaN
attribute Total_Zn actual_range float 0.9, 100.9
attribute Total_Zn bcodmo_name String trace_metal_conc
attribute Total_Zn description String Total zinc (Zn).  Added Zn and background media Zn.
attribute Total_Zn long_name String Total Zn
attribute Total_Zn nerc_identifier String https://vocab.nerc.ac.uk/collection/P03/current/C035/ (external link)
attribute Total_Zn units String nanomoles per liter (nmol/L)
variable Total_Co float
attribute Total_Co _FillValue float NaN
attribute Total_Co actual_range float 0.1, 100.1
attribute Total_Co bcodmo_name String trace_metal_conc
attribute Total_Co description String Total cobalt (Co).  Added Co and background media Co.
attribute Total_Co long_name String Total Co
attribute Total_Co nerc_identifier String https://vocab.nerc.ac.uk/collection/P03/current/C035/ (external link)
attribute Total_Co units String nanomoles per liter (nmol/L)
variable log_Zn2plus float
attribute log_Zn2plus _FillValue float NaN
attribute log_Zn2plus actual_range float -13.04, -10.99
attribute log_Zn2plus bcodmo_name String trace_metal_conc
attribute log_Zn2plus description String Log of calculated free Zn2+ ion concentration in media.  [Zn2+]
attribute log_Zn2plus long_name String Log Zn2plus
attribute log_Zn2plus nerc_identifier String https://vocab.nerc.ac.uk/collection/P03/current/C035/ (external link)
attribute log_Zn2plus units String moles per liter (mol/L)
variable log_Co2plus float
attribute log_Co2plus _FillValue float NaN
attribute log_Co2plus actual_range float -13.63, -10.63
attribute log_Co2plus bcodmo_name String growth
attribute log_Co2plus description String Log of calculated free Co2+ ion concentration in media.  [Co2+]
attribute log_Co2plus long_name String Log Co2plus
attribute log_Co2plus units String moles per liter (mol/L)
variable Growth_rate_replicate_A float
attribute Growth_rate_replicate_A _FillValue float NaN
attribute Growth_rate_replicate_A actual_range float 0.0, 0.96
attribute Growth_rate_replicate_A bcodmo_name String growth
attribute Growth_rate_replicate_A description String Growth rate of treatment replicate A
attribute Growth_rate_replicate_A long_name String Growth Rate Replicate A
attribute Growth_rate_replicate_A units String per day (d-1)
variable Growth_rate_replicate_B float
attribute Growth_rate_replicate_B _FillValue float NaN
attribute Growth_rate_replicate_B actual_range float 0.0, 0.97
attribute Growth_rate_replicate_B bcodmo_name String growth
attribute Growth_rate_replicate_B description String Growth rate of treatment replicate B
attribute Growth_rate_replicate_B long_name String Growth Rate Replicate B
attribute Growth_rate_replicate_B units String per day (d-1)
variable Growth_rate_average String
attribute Growth_rate_average bcodmo_name String growth
attribute Growth_rate_average description String Average growth rate of replicates A and B
attribute Growth_rate_average long_name String Growth Rate Average
attribute Growth_rate_average units String per day (d-1)
variable Maximum_RFU float
attribute Maximum_RFU _FillValue float NaN
attribute Maximum_RFU actual_range float 1.8, 306.4
attribute Maximum_RFU bcodmo_name String unknown
attribute Maximum_RFU description String Maximum relative fluorescence
attribute Maximum_RFU long_name String Maximum RFU
attribute Maximum_RFU units String Relative Fluorescence Units (RFU)

 
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