BCO-DMO ERDDAP
Accessing BCO-DMO data
log in    
Brought to you by BCO-DMO    

ERDDAP > tabledap > Make A Graph ?

Dataset Title:  Amino acid compound specific isotope values for micronekton from R/V Kilo
Moana KM1109, KM1123, KM1407, KM1418, and other cruises in the Central North
Pacific, Station ALOHA, Tropical Pacific, 2007-2014
  RSS
Institution:  BCO-DMO   (Dataset ID: bcodmo_dataset_750972)
Information:  Summary ? | License ? | ISO 19115 | Metadata | Background (external link) | Data Access Form | Files
 
Graph Type:  ?
X Axis: 
Y Axis: 
Color: 
-1 +1
 
Constraints ? Optional
Constraint #1 ?
Optional
Constraint #2 ?
       
       
       
       
       
 
Server-side Functions ?
 distinct() ?
? (" ")
 
Graph Settings
Marker Type:   Size: 
Color: 
Color Bar:   Continuity:   Scale: 
   Minimum:   Maximum:   N Sections: 
Y Axis Minimum:   Maximum:   Ascending: 
 
(Please be patient. It may take a while to get the data.)
 
Optional:
Then set the File Type: (File Type information)
and
or view the URL:
(Documentation / Bypass this form ? )
    [The graph you specified. Please be patient.]

 

Things You Can Do With Your Graphs

Well, you can do anything you want with your graphs, of course. But some things you might not have considered are:

The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  SpeciesID {
    String description "Genus and species name of micronekton specimen";
    String ioos_category "Identifier";
    String long_name "Species ID";
    String units "unitless";
  }
  FamilyID {
    String description "Taxonomic family of  micronekton specimen";
    String ioos_category "Identifier";
    String long_name "Family ID";
    String units "unitless";
  }
  SpecimenID {
    String description "specimen identifier";
    String ioos_category "Identifier";
    String long_name "Specimen ID";
    String units "unitless";
  }
  Sample_site {
    String description "specimen collection site";
    String ioos_category "Unknown";
    String long_name "Sample Site";
    String units "unitless";
  }
  Year {
    Int16 _FillValue 32767;
    Int16 actual_range 2007, 2014;
    String description "year of collection";
    String ioos_category "Time";
    String long_name "Year";
    String units "unitless";
  }
  Month {
    String description "month of collection";
    String ioos_category "Time";
    String long_name "Month";
    String units "unitless";
  }
  CruiseID {
    String description "cruise identifier";
    String ioos_category "Identifier";
    String long_name "Cruise ID";
    String units "unitless";
  }
  n {
    String description "number of specimens in sample";
    String ioos_category "Statistics";
    String long_name "N";
    String units "individuals";
  }
  Length_mm {
    String description "length of specimen";
    String ioos_category "Unknown";
    String long_name "Length Mm";
    String units "millimeters";
  }
  Length_Type {
    String description "Length type is standard length (SL); total length (TL); carapace length (CL); fork length (FL); mantle length (ML)";
    String ioos_category "Unknown";
    String long_name "Length Type";
    String units "length";
  }
  Tissue_Type {
    String description "Type of tissue samples taken: WMT = white muscle tissue; Whole = the whole specimen;";
    String ioos_category "Unknown";
    String long_name "Tissue Type";
    String units "sample_type";
  }
  delta15N_ppt_v_AIR {
    Float32 _FillValue NaN;
    Float32 actual_range 1.3, 15.1;
    String description "ratio of tissue 15N:14N isotopes relative to atmospheric N2";
    String ioos_category "Statistics";
    String long_name "Delta15 N Ppt V AIR";
    String units "permil";
  }
  delta13C_ppt_v_VPDB {
    Float32 _FillValue NaN;
    Float32 actual_range -22.4, 17.3;
    String description "ratio of tissue 13C:12C isotope relative to VPDB (Vienna Pee Dee Belemnite)";
    String ioos_category "Unknown";
    String long_name "Delta13 C Ppt V VPDB";
    String units "permil";
  }
  C_N_mol_mol {
    Float32 _FillValue NaN;
    Float32 actual_range 2.05, 7.42;
    String description "Carbon to Nitrogen ratio";
    String ioos_category "Statistics";
    String long_name "C N Mol Mol";
    String units "unitless";
  }
  Alanine {
    String description "ratio of tissue Alanine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Alanine";
    String units "unitless";
  }
  Glycine {
    String description "ratio of tissue Glycine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Glycine";
    String units "unitless";
  }
  Threonine {
    String description "ratio of tissue Threonine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Threonine";
    String units "unitless";
  }
  Serine {
    String description "ratio of tissue Serine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Serine";
    String units "unitless";
  }
  Valine {
    String description "ratio of tissue Valine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Valine";
    String units "unitless";
  }
  Leucine {
    String description "ratio of tissue Leucine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Leucine";
    String units "unitless";
  }
  Isoleucine {
    String description "ratio of tissue Isoleucine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Isoleucine";
    String units "unitless";
  }
  Proline {
    String description "ratio of tissue Proline isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Proline";
    String units "unitless";
  }
  Aspartic_acid {
    String description "ratio of tissue Aspartic_acid isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Aspartic Acid";
    String units "unitless";
  }
  Methionine {
    String description "ratio of tissue Methionine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Methionine";
    String units "unitless";
  }
  Glutamic_acid {
    String description "ratio of tissue Glutamic_acid isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Glutamic Acid";
    String units "unitless";
  }
  Phenylalanine {
    String description "ratio of tissue Phenylalanine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Phenylalanine";
    String units "unitless";
  }
  Tyrosine {
    String description "ratio of tissue Tyrosine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Tyrosine";
    String units "unitless";
  }
  Lysine {
    String description "ratio of tissue Lysine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Lysine";
    String units "unitless";
  }
  Arginine {
    String description "ratio of tissue Arginine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Arginine";
    String units "unitless";
  }
  Histidine {
    String description "ratio of tissue Histidine isotopes relative to atmospheric N2";
    String ioos_category "Unknown";
    String long_name "Histidine";
    String units "unitless";
  }
 }
  NC_GLOBAL {
    String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
    String acquisition_description 
"Micronekton were collected using a 10 m2 multiple opening-closing net and
environmental sensing system (MOCNESS) at Station ALOHA (22.75\\u02daN,
158\\u02daW) in March and August of 2011 and in February and September of 2014
with a few samples from other locations around Oahu in 2011 (Choy et al 2015).
Micronekton were collected over five depth zones between the surface and 1500
m: 0 \\u2013 100 m, 100 \\u2013 500 m, 500 \\u2013 700 m, 700 \\u2013 1000 m and
1000 \\u2013 1500 m. At sea, micronekton were sorted and identified to the most
specific taxonomic level, then measured and photographed. Standard length
measurements were taken for fish, carapace length and total length were taken
for crustaceans and both mantle length and total length were taken for
cephalopods. For most fishes, white muscle tissue was removed and frozen in a
cryovial in liquid nitrogen. Small fishes, crustaceans and gelatinous
organisms were frozen whole or individuals were pooled for sufficient tissue
required for stable isotope analysis. Specimens were transferred to a
\\u201180\\u02daC freezer until the samples could be prepared for stable isotope
analysis.
 
Eighty-three samples (individual specimens or small groups of conspecifics)
were selected for stable isotope analysis. Samples selected for stable isotope
analysis represented different combinations of trophic strategies (suspension
feeding, zooplanktivores, micronektonivores), depth guilds (epipelagic,
mesopelagic, bathypelagic) and migrating behaviors based on available
ecological information (e.g., Clarke 1973, Maynard 1982). Each sample was
freeze-dried and ground using a ceramic mortar and pestle. For bulk tissue
carbon and nitrogen isotope analysis approximately 0.5 mg of each sample was
weighed and placed into a tin boat. Carbon and nitrogen isotopic compositions
were determined using an isotope ratio mass spectrometer (DeltaPlusXP) coupled
to an elemental analyzer (Costech Model 4010). Isotopic ratios are given in
\\u03b4-notation relative to the international standards VPDB and atmospheric
N2. Accuracy and precision were 0.2\\u2030 based on glycine and homogenized
fish tissue reference materials analyzed every ten samples. The isotopic
compositions of the reference materials have been extensively characterized
using NIST certified reference materials in the UH laboratory and verified
independently in other isotope laboratories.
 
Amino acid-specific stable N isotope composition was determined on
approximately 15 mg (dry weight) of each sample underwent acid hydrolysis and
derivatization yielding trifluoroacetic (TFA) amino acid esters following the
methods of Popp et al. (2007) and Hannides et al. (2009b).; The nitrogen
isotope composition of the trifluoroacetic amino acid esters were determined
using an isotope ratio mass spectrometer (Thermo Scientific Delta V Plus or
Thermo Scientific MAT 253 IRMS) interfaced with a Thermo Finnigan GC-C III.
Samples were injected onto a BPx5 forte capillary column (60m x 0.32 mm x 1.0
\\u00b5m film thickness) at an injector temperature of 180\\u02daC with a
constant helium flow rate of 1.4 mL/min. The column was initially held at
50\\u02daC for two minutes and then increased at a rate of 15\\u02daC/min to
120\\u02daC. Temperature was then increased at a rate of 4\\u02daC/min to
195\\u02daC, then to 255\\u02daC at a rate of 5\\u02daC/min and finally to
300\\u02daC at a rate of 15\\u02daC/min, holding at the final temperature for
eight minutes. Each sample was analyzed in triplicate and co-injected with the
reference compounds norleucine (Nor) and aminoadipic acid (AAA) of known
isotopic composition. A suite of pure amino acids of known nitrogen isotopic
composition (Ala, Thr, Ile, Pro, Glu, and Phe) was also injected every three
runs as an extra measure of accuracy for the instrument. Reference compounds
Nor and AAA, as well as the suite of amino acids, were used to normalize the
measured isotope values. Standard deviation for all amino acids averaged
\\u00b10.4\\u2030 (range 0.0-3.1\\u2030).";
    String awards_0_award_nid "560590";
    String awards_0_award_number "OCE-1433846";
    String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1433846";
    String awards_0_funder_name "NSF Division of Ocean Sciences";
    String awards_0_funding_acronym "NSF OCE";
    String awards_0_funding_source_nid "355";
    String awards_0_program_manager "Dr Donald  L. Rice";
    String awards_0_program_manager_nid "51467";
    String cdm_data_type "Other";
    String comment 
"Amino acid specific isotope values for micronekton 
    from the Pacific Subtropical Gyre, Station ALOHA approximately 100 km north of Oahu (22.75N, 158W) 
    Published as Table S1 in Gloeckler et al (2018) L&O, doi: 10.1002/lno.10762 
    PI: B. Popp (UH) 
    version: 2018-12-05";
    String Conventions "COARDS, CF-1.6, ACDD-1.3";
    String creator_email "info@bco-dmo.org";
    String creator_name "BCO-DMO";
    String creator_type "institution";
    String creator_url "https://www.bco-dmo.org/";
    String data_source "extract_data_as_tsv version 2.2d  13 Jun 2019";
    String date_created "2018-12-06T14:23:59Z";
    String date_modified "2019-03-18T13:40:35Z";
    String defaultDataQuery "&time";
    String doi "10.1575/1912/bco-dmo.750972.1";
    String history 
"2019-08-24T15:32:34Z (local files)
2019-08-24T15:32:34Z https://erddap.bco-dmo.org/tabledap/bcodmo_dataset_750972.das";
    String infoUrl "https://www.bco-dmo.org/dataset/750972";
    String institution "BCO-DMO";
    String instruments_0_acronym "IR Mass Spec";
    String instruments_0_dataset_instrument_description "Used to measure�carbon and nitrogen isotopic compositions.";
    String instruments_0_dataset_instrument_nid "751347";
    String instruments_0_description "The Isotope-ratio Mass Spectrometer is a particular type of mass spectrometer used to measure the relative abundance of isotopes in a given sample (e.g. VG Prism II Isotope Ratio Mass-Spectrometer).";
    String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB16/";
    String instruments_0_instrument_name "Isotope-ratio Mass Spectrometer";
    String instruments_0_instrument_nid "469";
    String instruments_0_supplied_name "Thermo Scientific Delta V Plus or Thermo Scientific MAT 253 IRMS";
    String instruments_1_acronym "MOCNESS";
    String instruments_1_dataset_instrument_description "Used to collect micronekton at specific depth strata.";
    String instruments_1_dataset_instrument_nid "750994";
    String instruments_1_description "The Multiple Opening/Closing Net and Environmental Sensing System or MOCNESS is a family of net systems based on the Tucker Trawl principle. There are currently 8 different sizes of MOCNESS in existence which are designed for capture of different size ranges of zooplankton and micro-nekton  Each system is designated according to the size of the net mouth opening and in two cases, the number of nets it carries. The original MOCNESS (Wiebe et al, 1976) was a redesigned and improved version of a system described by Frost and McCrone (1974).(from MOCNESS manual)  This designation is used when the specific type of MOCNESS (number and size of nets) was not specified by the contributing investigator.";
    String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L22/current/NETT0097/";
    String instruments_1_instrument_name "MOCNESS";
    String instruments_1_instrument_nid "511";
    String instruments_2_acronym "Gas Chromatograph";
    String instruments_2_dataset_instrument_nid "751350";
    String instruments_2_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)";
    String instruments_2_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB02/";
    String instruments_2_instrument_name "Gas Chromatograph";
    String instruments_2_instrument_nid "661";
    String instruments_2_supplied_name "Thermo Finnigan GC-C III";
    String instruments_3_dataset_instrument_description "Used to measure�carbon and nitrogen isotopic compositions.";
    String instruments_3_dataset_instrument_nid "751348";
    String instruments_3_description "Instruments that quantify carbon, nitrogen and sometimes other elements by combusting the sample at very high temperature and assaying the resulting gaseous oxides. Usually used for samples including organic material.";
    String instruments_3_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB01/";
    String instruments_3_instrument_name "Elemental Analyzer";
    String instruments_3_instrument_nid "546339";
    String instruments_3_supplied_name "Costech Model 4010";
    String keywords "acid, air, alanine, arginine, aspartic, Aspartic_acid, bco, bco-dmo, biological, C_N_mol_mol, chemical, cruise, CruiseID, data, dataset, delta13, delta13C_ppt_v_VPDB, delta15, delta15N_ppt_v_AIR, dmo, erddap, family, FamilyID, glutamic, Glutamic_acid, glycine, histidine, identifier, isoleucine, length, Length_mm, Length_Type, leucine, lysine, management, methionine, mol, month, oceanography, office, phenylalanine, ppt, preliminary, proline, sample, Sample_site, serine, site, species, SpeciesID, specimen, SpecimenID, statistics, threonine, time, tissue, Tissue_Type, type, tyrosine, v, valine, vpdb, year";
    String license 
"The data may be used and redistributed for free but is not intended
for legal use, since it may contain inaccuracies. Neither the data
Contributor, ERD, NOAA, nor the United States Government, nor any
of their employees or contractors, makes any warranty, express or
implied, including warranties of merchantability and fitness for a
particular purpose, or assumes any legal liability for the accuracy,
completeness, or usefulness, of this information.";
    String metadata_source "https://www.bco-dmo.org/api/dataset/750972";
    String param_mapping "{'750972': {}}";
    String parameter_source "https://www.bco-dmo.org/mapserver/dataset/750972/parameters";
    String people_0_affiliation "University of Hawaii at Manoa";
    String people_0_affiliation_acronym "SOEST";
    String people_0_person_name "Dr Brian N. Popp";
    String people_0_person_nid "51093";
    String people_0_role "Principal Investigator";
    String people_0_role_type "originator";
    String people_1_affiliation "University of South Carolina at Columbia";
    String people_1_person_name "Dr Claudia Benitez-Nelson";
    String people_1_person_nid "51092";
    String people_1_role "Co-Principal Investigator";
    String people_1_role_type "originator";
    String people_2_affiliation "University of Michigan Ann Arbor";
    String people_2_person_name "Dr Joel Blum";
    String people_2_person_nid "560587";
    String people_2_role "Co-Principal Investigator";
    String people_2_role_type "originator";
    String people_3_affiliation "University of Hawaii at Manoa";
    String people_3_affiliation_acronym "SOEST";
    String people_3_person_name "Dr Jeffrey C. Drazen";
    String people_3_person_nid "491313";
    String people_3_role "Co-Principal Investigator";
    String people_3_role_type "originator";
    String people_4_affiliation "University of Hawaii at Manoa";
    String people_4_affiliation_acronym "SOEST";
    String people_4_person_name "Dr Cecelia Hannides";
    String people_4_person_nid "537126";
    String people_4_role "Co-Principal Investigator";
    String people_4_role_type "originator";
    String people_5_affiliation "University of Hawaii at Manoa";
    String people_5_affiliation_acronym "SOEST";
    String people_5_person_name "Dr Kanesa Seraphin";
    String people_5_person_nid "537131";
    String people_5_role "Co-Principal Investigator";
    String people_5_role_type "originator";
    String people_6_affiliation "Woods Hole Oceanographic Institution";
    String people_6_affiliation_acronym "WHOI BCO-DMO";
    String people_6_person_name "Nancy Copley";
    String people_6_person_nid "50396";
    String people_6_role "BCO-DMO Data Manager";
    String people_6_role_type "related";
    String project "Collaborative Research: Isotopic insights to mercury in marine food webs and how it varies with ocean biogeochemistry";
    String projects_0_acronym "Hg_Biogeochemistry";
    String projects_0_description 
"Extracted from the NSF award abstract:
Mercury is a pervasive trace element that exists in several states in the marine environment, including monomethylmercury (MMHg), a neurotoxin that bioaccumulates in marine organisms and poses a human health threat. Understanding the fate of mercury in the ocean and resulting impacts on ocean food webs requires understanding the mechanisms controlling the depths at which mercury chemical transformations occur. Preliminary mercury analyses on nine species of marine fish from the North Pacific Ocean indicated that intermediate waters are an important entry point for MMHg into open ocean food webs. To elucidate the process controlling this, researchers will examine mercury dynamics in regions with differing vertical dissolved oxygen profiles, which should influence depths of mercury transformation. Results of the study will aid in a better understanding of the pathways by which mercury enters the marine food chain and can ultimately impact humans.�
Mercury isotopic variations can provide insight into a wide variety of environmental processes. Isotopic compositions of mercury display mass-dependent fractionation (MDF) during most biotic and abiotic chemical reactions and mass-independent fractionation (MIF) during photochemical radical pair reactions. The unusual combination of MDF and MIF can provide information on reaction pathways and the biogeochemical history of mercury. Results from preliminary research provide strong evidence that net MMHg formation occurred below the surface mixed layer in the pycnocline and suggested that MMHg in low oxygen intermediate waters is an important entry point for mercury into open ocean food webs. These findings highlight the critical need to understand how MMHg levels in marine biota will respond to changes in atmospheric mercury emissions, deposition of inorganic mercury to the surface ocean, and hypothesized future expansion of oxygen minimum zones. Using field collections across ecosystems with contrasting biogeochemistry and mercury isotope fractionation experiments researchers will fill key knowledge gaps in mercury biogeochemistry. Results of the proposed research will enable scientists to assess the biogeochemical controls on where in the water column mercury methylation and demethylation likely occur.
�
Related background publication with supplemental data section:
Joel D. Blum, Brian N. Popp, Jeffrey C. Drazen, C. Anela Choy & Marcus W. Johnson. 2013. Methylmercury production below the mixed layer in the North Pacific Ocean. �Nature Geoscience 6, 879–884. �doi:10.1038/ngeo1918
�";
    String projects_0_end_date "2017-07";
    String projects_0_geolocation "Pacific Subtropical Gyre, Station ALOHA 22.75N 158W; equatorial Pacific (10N 155W, 5N 155W)";
    String projects_0_name "Collaborative Research: Isotopic insights to mercury in marine food webs and how it varies with ocean biogeochemistry";
    String projects_0_project_nid "560580";
    String projects_0_start_date "2014-08";
    String publisher_name "Nancy Copley";
    String publisher_role "BCO-DMO Data Manager(s)";
    String sourceUrl "(local files)";
    String standard_name_vocabulary "CF Standard Name Table v29";
    String summary "This dataset contains amino acid compound specific concentrations in micronekton collected during R/V Kilo Moana cruises around the ALOHA observatory (KM1407, KM1418, KM2011, and a few other undocumented cruises). For more information about the ALOHA observatory see: http://aco-ssds.soest.hawaii.edu/. These data were published in Gloeckler et al (2018), Supporting Information file lno10762-sup-0001-suppinfo1.xlsx";
    String title "Amino acid compound specific isotope values for micronekton from R/V Kilo Moana KM1109, KM1123, KM1407, KM1418, and other cruises in the Central North Pacific, Station ALOHA, Tropical Pacific, 2007-2014";
    String version "1";
    String xml_source "osprey2erddap.update_xml() v1.5-beta";
  }
}

 

Using tabledap to Request Data and Graphs from Tabular Datasets

tabledap lets you request a data subset, a graph, or a map from a tabular dataset (for example, buoy data), via a specially formed URL. tabledap uses the OPeNDAP (external link) Data Access Protocol (DAP) (external link) and its selection constraints (external link).

The URL specifies what you want: the dataset, a description of the graph or the subset of the data, and the file type for the response.

Tabledap request URLs must be in the form
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/datasetID.fileType{?query}
For example,
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/pmelTaoDySst.htmlTable?longitude,latitude,time,station,wmo_platform_code,T_25&time>=2015-05-23T12:00:00Z&time<=2015-05-31T12:00:00Z
Thus, the query is often a comma-separated list of desired variable names, followed by a collection of constraints (e.g., variable<value), each preceded by '&' (which is interpreted as "AND").

For details, see the tabledap Documentation.


 
ERDDAP, Version 1.82
Disclaimers | Privacy Policy | Contact