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Dataset Title:  Biodiversity experiments: Effects of diversity in feeding trials, conducted at
Bodgea Marine Laboratory, using detritus from eelgrass (Zostera marina)
genotypes (clones) as a food source and either one or a combination of
invertebrate grazers
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Institution:  BCO-DMO   (Dataset ID: bcodmo_dataset_715422)
Information:  Summary ? | License ? | ISO 19115 | Metadata | Background (external link) | Data Access Form | Files
 
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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 {
  Consumer {
    String bcodmo_name "treatment";
    String description "Which grazers were present";
    String long_name "Consumer";
    String units "unitless";
  }
  Number_of_genotypes {
    Byte _FillValue 127;
    Byte actual_range 1, 7;
    String bcodmo_name "treatment";
    Float64 colorBarMaximum 100.0;
    Float64 colorBarMinimum 0.0;
    String description "Number of detrital genotypes present as a food source";
    String long_name "Number Of Genotypes";
    String units "unitless";
  }
  Feeding_rate_mg_day {
    Float32 _FillValue NaN;
    Float32 actual_range -3.05, 23.45;
    String bcodmo_name "unknown";
    String description "Feeding rate";
    String long_name "Feeding Rate Mg Day";
    String units "milligrams per day";
  }
  experiment {
    Byte _FillValue 127;
    Byte actual_range 1, 5;
    String bcodmo_name "exp_id";
    String description "Identifier used to distinguish between the different experimental setups";
    String long_name "Experiment";
    String units "unitless";
  }
 }
  NC_GLOBAL {
    String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
    String acquisition_description 
"We conducted a series of food choice experiments using detritus from cultured
eelgrass (Zostera marina) genotypes (clones) as a food source and either one
or a combination of the following invertebrate grazers: the tube dwelling
amphipod Ampithoe lacertosa, the free swimming isopod Idotea resecata, and/or
the tube building polychaete Platynereis bicanaliculata.
 
All feeding trials were conducted by placing pre-weighed fragments of each
choice (approximately 4 cm in length) in 140 mL cups (7 cm tall, 6 cm
diameter) covered with a 250 um mesh cloth and submerged in a flowing seawater
bath in an indoor tank. Food choices were marked using colored zip ties, and
trials were terminated before any food item was reduced in size by one half.
Consumption was calculated as ([Hi X Cf/Ci] - Hf ), where Hi and Hf were
initial and final wet masses of tissue exposed to consumers, and Ci and Cf
were initial and final masses in controls.
 
In addition to feeding trials, we grew invertebrates for one month (in similar
containers and feeding trial conditions) with food sources that varied in
number of seagrass clones present. Animal survival was assessed weekly, and
food was replaced.
 
The chemical traits for individual eelgrass clones were also assessed. We
measured the pressure required to penetrate and tear each genotype. We clamped
in place below a needle (17G / 19mm length), which was held in place with a
metal sleeve and which supported a cup to which dry sand was added a few
milligrams at a time until the pin pierced completely through the plant
tissue. The mass of the dry sand and the apparatus were then weighed to
determine the mass needed to pierce the leaf (Duffy & Hay 1991). Tensile
strength was measured using a tensiometer. Leaf segments were clamped to a
hanging balance equipped with a maximum mass indicator and pulled by hand
until the leaf failed. Phenolic content was determined on an approximately 4
mg subsample using a modified Folin-Ciocalteu method (see Bolser et al. 1998).
An approximately 3 mg subsample was analyzed for carbon and nitrogen
concentration on a Thermo Flash EA 1112 Soil elemental analyzer.";
    String awards_0_award_nid "564446";
    String awards_0_award_number "OCE-1234345";
    String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1234345";
    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 "David L. Garrison";
    String awards_0_program_manager_nid "50534";
    String cdm_data_type "Other";
    String comment 
"Biodiversity experiments 
   described in Oikos manuscipt DOI 10.1111/oik.04471 
 PI: John J. Stachowicz (UC Davis) 
 Co-PIs: Richard K. Grosberg & Susan L. Williams (UC Davis) 
 Contact: Laura K. Reynolds (UFL) 
 Version: 15 September 2017";
    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 2.3  19 Dec 2019";
    String date_created "2017-09-20T16:55:53Z";
    String date_modified "2019-08-02T14:33:37Z";
    String defaultDataQuery "&time<now";
    String doi "10.1575/1912/bco-dmo.715422.1";
    String history 
"2020-07-14T08:41:50Z (local files)
2020-07-14T08:41:50Z https://erddap.bco-dmo.org/tabledap/bcodmo_dataset_715422.das";
    String infoUrl "https://www.bco-dmo.org/dataset/715422";
    String institution "BCO-DMO";
    String instruments_0_acronym "Aquarium";
    String instruments_0_dataset_instrument_description "Pre-weighed fragments of eelgrass were�covered with a 250 um mesh cloth and submerged in a flowing seawater bath in an indoor tank.�";
    String instruments_0_dataset_instrument_nid "715432";
    String instruments_0_description "Aquarium - a vivarium consisting of at least one transparent side in which water-dwelling plants or animals are kept";
    String instruments_0_instrument_name "Aquarium";
    String instruments_0_instrument_nid "711";
    String instruments_0_supplied_name "indoor tank";
    String instruments_1_dataset_instrument_description "Carbon and nitrogen concentrations were measured�on a Thermo Flash EA 1112 Soil elemental analyzer.";
    String instruments_1_dataset_instrument_nid "715431";
    String instruments_1_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_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB01/";
    String instruments_1_instrument_name "Elemental Analyzer";
    String instruments_1_instrument_nid "546339";
    String instruments_1_supplied_name "Thermo Flash EA 1112 Soil elemental analyzer";
    String keywords "bco, bco-dmo, biological, chemical, consumer, data, dataset, day, dmo, erddap, experiment, feeding, Feeding_rate_mg_day, genotypes, management, number, Number_of_genotypes, oceanography, office, preliminary, rate";
    String license "https://www.bco-dmo.org/dataset/715422/license";
    String metadata_source "https://www.bco-dmo.org/api/dataset/715422";
    String param_mapping "{'715422': {}}";
    String parameter_source "https://www.bco-dmo.org/mapserver/dataset/715422/parameters";
    String people_0_affiliation "University of California-Davis";
    String people_0_affiliation_acronym "UC Davis";
    String people_0_person_name "John J. Stachowicz";
    String people_0_person_nid "518660";
    String people_0_role "Principal Investigator";
    String people_0_role_type "originator";
    String people_1_affiliation "University of California-Davis";
    String people_1_affiliation_acronym "UC Davis";
    String people_1_person_name "Richard K. Grosberg";
    String people_1_person_nid "521151";
    String people_1_role "Co-Principal Investigator";
    String people_1_role_type "originator";
    String people_2_affiliation "University of California-Davis";
    String people_2_affiliation_acronym "UC Davis-BML";
    String people_2_person_name "Susan L. Williams";
    String people_2_person_nid "564451";
    String people_2_role "Co-Principal Investigator";
    String people_2_role_type "originator";
    String people_3_affiliation "University of Florida";
    String people_3_affiliation_acronym "UF";
    String people_3_person_name "Laura K. Reynolds";
    String people_3_person_nid "645531";
    String people_3_role "Contact";
    String people_3_role_type "related";
    String people_4_affiliation "Woods Hole Oceanographic Institution";
    String people_4_affiliation_acronym "WHOI BCO-DMO";
    String people_4_person_name "Shannon Rauch";
    String people_4_person_nid "51498";
    String people_4_role "BCO-DMO Data Manager";
    String people_4_role_type "related";
    String project "Genetic Div to Ecosys Functioning";
    String projects_0_acronym "Genetic Div to Ecosys Functioning";
    String projects_0_description 
"There is growing evidence that genetic variation within and among populations of key species plays an important role in marine ecosystem processes. Several experiments provide compelling evidence that the number of genotypes in an assemblage (genotypic richness) can influence critical ecosystem functions including productivity, resistance to disturbance and invasion or colonization success. However, these studies use only the number of genotypes as a measure of genetic diversity. Recent analyses of species diversity experiments show that phylogenetic diversity may be a more reliable predictor of ecosystem functioning than simply the number of species. However, such approaches have not yet been applied to understanding the effects of genetics on ecosystem functioning. While genetic relatedness within a species holds the potential to predict the outcome of intraspecific interactions, and the functioning of ecosystems that depend on those species, we currently have few data to assess the shape or strength of this relationship. The investigators will build on their own previous work, and that of others, in eelgrass (Zostera marina) ecosystems showing strong effects of genotypic richness on a spectrum of critical ecosystem processes. The investigators will ask whether genotypic richness, or - as in studies at the level of species diversity - genetic relatedness/distance better predicts ecosystem functioning? If genetic relatedness measures are better predictors, then what mechanisms underlie this relationship? Can genetic relatedness predict ecological relatedness?
Although the current focus is on eelgrass, the research should be applicable to many systems. The project will assess the relationship between genetic relatedness and phenotypic distinctiveness of a key marine foundation species and use manipulative experiments to test the relative importance of the number of genotypes in an assemblage vs. their genetic relatedness and trait diversity for ecosystem functioning. Specifically, experiments will:
(1) characterize the relationship between genetic relatedness and trait similarity among individual genotypes of eelgrass, including responses to experimental warming;
(2) compare the effects of genetic relatedness and trait similarity among genotypes on the outcome of intraspecific competitive interactions; and
(3) test the relative effect of genetic relatedness vs. number of genotypes of eelgrass on the growth of eelgrass, its associated ecosystem functions it (e.g., primary production, nutrient dynamics, trophic transfer, habitat provision, and detrital production and decomposition).
Seagrass ecosystems provide important services to coastal regions including primary production, nutrient cycling, habitat for fisheries species, and erosion control. Previous studies have shown these services can be compromised by reduction in the numbers of species of grazers or genotypes, but this study will allow a more predictive approach to diversity loss by integrating the effects of multiple components of diversity and clarifying the extent to which diversity effects can be predicted by the genetic or ecological uniqueness of component genotypes.";
    String projects_0_end_date "2016-08";
    String projects_0_name "Connecting genetic diversity to ecosystem functioning: links between genetic diversity, relatedness and trait variation in a seagrass community";
    String projects_0_project_nid "564447";
    String projects_0_start_date "2012-09";
    String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
    String publisher_type "institution";
    String sourceUrl "(local files)";
    String standard_name_vocabulary "CF Standard Name Table v55";
    String summary "Seagrass meadows are among the world's most productive ecosystems, and as in many other systems, genetic diversity is correlated with increased production. However, only a small fraction of seagrass production is directly consumed, and instead much of the secondary production is fueled by the detrital food web. Here, we study the roles of plant genetic diversity and grazer species diversity on detrital consumption in California eelgrass Zostera marina meadows. We used three common mesograzers\\u2014an amphipod, Ampithoe lacertosa, an isopod, Idotea resecata, and a polychaete, Platynereis bicanaliculata. In a series of five independent experiments, we manipulated grazer species diversity and number of eelgrass clones and measured the resulting detrital consumption. Under monospecific grazer assemblages, plant genetic identity but not diversity influenced detritus consumption. However, more realistic, diverse mesoconsumer communities combined with high plant-detrital genotypic diversity resulted in greater consumption and grazer survival. These data are illustrated in figures 4 and 5 Reynolds et al., 2017 (DOI:10.1111/oik.04471).";
    String title "Biodiversity experiments: Effects of diversity in feeding trials, conducted at Bodgea Marine Laboratory, using detritus from eelgrass (Zostera marina) genotypes (clones) as a food source and either one or a combination of invertebrate grazers";
    String version "1";
    String xml_source "osprey2erddap.update_xml() v1.3";
  }
}

 

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.


 
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