Data Access Form

Dataset Title:	[Bleaching scores of introduced seaweed] - Data describing bleaching in algae collected from Antarctica, Fiji, and California when stressed by heat, cold, or low salinity. (Detecting genetic adaptation during marine invasions)
Institution:	BCO-DMO (Dataset ID: bcodmo_dataset_743763)
Information:	Summary \| License \| ISO 19115 \| Metadata \| Background \| Files \| Make a graph

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Variable	Minimum	Maximum
ind_type (unitless)	"cold"	"salinity"
pop (unitless)	"common.garden"	"field"
assay (unitless)	1	74223
ind (unitless)	"AKA"	"WWF"
trt (unitless)	"AKA_101"	"WWF_95"
day (days)	"0"	"control"
bleach_score (unitless)	1	3

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The Dataset Attribute Structure (.das) for this Dataset

Attributes {
 s {
  ind_type {
    String bcodmo_name "sample_descrip";
    String description "Common garden vs field collected samples";
    String long_name "Ind Type";
    String units "unitless";
  }
  pop {
    String bcodmo_name "sample_descrip";
    String description "Three letter abbreviation; see Sotka et al. 2018 Evolutionary Applications";
    String long_name "Pop";
    String units "unitless";
  }
  assay {
    Int32 _FillValue 2147483647;
    Int32 actual_range 1, 74223;
    String bcodmo_name "sample_descrip";
    String description "Type of assay; heat, cold, or salinity assay.";
    String long_name "Assay";
    String units "unitless";
  }
  ind {
    String bcodmo_name "sample";
    String description "Individual ID";
    String long_name "Ind";
    String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
    String units "unitless";
  }
  trt {
    String bcodmo_name "treatment";
    String description "Levels of treatment";
    String long_name "TRT";
    String units "unitless";
  }
  day {
    String bcodmo_name "day";
    String description "Day 0, 2, 4, 6, 8 after treatment started";
    String long_name "Day";
    String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/DAYXXXXX/";
    String units "days";
  }
  bleach_score {
    Byte _FillValue 127;
    String _Unsigned "false";
    Byte actual_range 1, 3;
    String bcodmo_name "sample_descrip";
    String description "1=healthy; 2=partially healthy; 3=bleached";
    String long_name "Bleach Score";
    String units "unitless";
  }
 }
  NC_GLOBAL {
    String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
    String acquisition_description 
"These data are described in detail in Sotka et al., 2018. From May until
October 2015, we collected live thalli at each of 40 populations: 15 Japanese
(six source and nine nonsource), five western North American, 10 eastern North
American, and 10 European populations. We exposed a haphazardly chosen set of
approximately 20 thalli per population to extreme heat (1, 2, and 4 hr in
40\\u00b0C), extreme cold (45, 75, and 105 min at \\u221220\\u00b0C), and low
salinities (8 days at 0, 5, and 10 ppt). For the heat tolerance assay, four
apices per thallus were individually placed into unsealed 2- ml
microcentrifuge tubes containing 175 \\u03bcl of seawater. A control apex was
kept in a 15\\u00b0C growth chamber, while three apices were placed in a
40\\u00b0C water bath for 1, 2, and 4 hr. For the cold tolerance assay, four
apices were independently placed into sealed 250 \\u03bcl PCR tubes containing
200 \\u03bcl seawater. A control apex was kept in a 15\\u00b0C incubator, while
three apices were placed in a \\u221220\\u00b0 C freezer for 45, 75, and 105
min. Apices were then placed into randomly assigned wells of 12- well tissue
culture plates (2.21- cm- diameter wells) filled with 4 ml of seawater and
incubated at 15\\u00b0C for 8 days with a 12- hr light/dark cycle. For the
salinity tolerance assay, four apices were independently placed directly into
the 12- well tissue culture plates filled with 4 ml of seawater at a titration
of salinities diluted to 0, 5, and 10 ppt, with 30 ppt serving as a control.
Every 2 days for 8 days, we changed water and assessed thallus bleaching
(i.e., loss of photosynthetic pigments; Figure S2) as a proxy of mortality,
itself an important component of fitness. We generated a Bleaching Score (BS),
where \\u201c1\\u201d indicated no bleaching, \\u201c2\\u201d indicated partial
bleaching or color change to pink or white, and \\u201c3\\u201d indicated full
bleaching.";
    String awards_0_award_nid "505521";
    String awards_0_award_number "OCE-1357386";
    String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward?AWD_ID=1357386";
    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 "Michael E. Sieracki";
    String awards_0_program_manager_nid "50446";
    String cdm_data_type "Other";
    String comment 
"Bleaching scores for non-native seaweed 
  E. Sotka & C. Murren, PIs 
  Version 20 August 2018";
    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 "2018-08-20T18:52:07Z";
    String date_modified "2019-06-10T16:00:52Z";
    String defaultDataQuery "&amp;time&lt;now";
    String doi "10.1575/1912/bco-dmo.743763.1";
    String history 
"2024-11-23T17:22:19Z (local files)
2024-11-23T17:22:19Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_743763.html";
    String infoUrl "https://www.bco-dmo.org/dataset/743763";
    String institution "BCO-DMO";
    String keywords "assay, bco, bco-dmo, biological, bleach, bleach_score, chemical, data, dataset, day, dmo, erddap, ind, ind_type, management, oceanography, office, pop, preliminary, score, trt, type";
    String license "https://www.bco-dmo.org/dataset/743763/license";
    String metadata_source "https://www.bco-dmo.org/api/dataset/743763";
    String param_mapping "{'743763': {}}";
    String parameter_source "https://www.bco-dmo.org/mapserver/dataset/743763/parameters";
    String people_0_affiliation "Grice Marine Laboratory - College of Charleston";
    String people_0_affiliation_acronym "GML-CoC";
    String people_0_person_name "Erik Sotka";
    String people_0_person_nid "472705";
    String people_0_role "Principal Investigator";
    String people_0_role_type "originator";
    String people_1_affiliation "College of Charleston";
    String people_1_affiliation_acronym "CofC";
    String people_1_person_name "Dr Courtney Murren";
    String people_1_person_nid "472706";
    String people_1_role "Co-Principal Investigator";
    String people_1_role_type "originator";
    String people_2_affiliation "Grice Marine Laboratory - College of Charleston";
    String people_2_affiliation_acronym "GML-CoC";
    String people_2_person_name "Dr Allan Strand";
    String people_2_person_nid "472707";
    String people_2_role "Co-Principal Investigator";
    String people_2_role_type "originator";
    String people_3_affiliation "Grice Marine Laboratory - College of Charleston";
    String people_3_affiliation_acronym "GML-CoC";
    String people_3_person_name "Erik Sotka";
    String people_3_person_nid "472705";
    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 "Hannah Ake";
    String people_4_person_nid "650173";
    String people_4_role "BCO-DMO Data Manager";
    String people_4_role_type "related";
    String project "Genetic Adaptation Marine Inv";
    String projects_0_acronym "Genetic Adaptation Marine Inv";
    String projects_0_description 
"Description from NSF award abstract:
Biological introductions, defined as the establishment of species in geographic regions outside the reach of their natural dispersal mechanisms, have dramatically increased in frequency during the 20th century and are now altering community structure and ecosystem function of virtually all marine habitats. To date, studies on marine invasions focus principally on demographic and ecological processes, and the importance of evolutionary processes has been rarely tested. This knowledge gap has implications for management policies, which attempt to prevent biological introductions and mitigate their impacts. The Asian seaweed Gracilaria vermiculophylla has been introduced to every continental margin in the Northern Hemisphere, and preliminary data indicate that non-native populations are both more resistant to heat stress and resistant to snail herbivory. The project will integrate population genetics, field survey and common-garden laboratory experiments to comprehensively address the role of rapid evolutionary adaptation in the invasion success of this seaweed. Specifically, the PIs will answer the following. What is the consequence of introductions on seaweed demography and mating systems? How many successful introductions have occurred in North America and Europe? Where did introduced propagules originate? Do native, native-source and non-native locations differ in environmental conditions? Do native, native-source and non-native populations differ in phenotype?
The intellectual merit of this project is based on three gaps in the literature. First, while biological invasions are widely recognized as a major component of global change, there are surprisingly few studies that compare native and non-native populations in their biology or ecology. Native and non-native populations will be surveyed in a similar manner, allowing assessment of differences in population dynamics, mating system, epifaunal and epiphytic communities, and the surrounding abiotic and biotic environment. Second, G. vermiculophylla exhibits a life cycle typical of other invasive species (including some benthic invertebrates), yet we still lack data on the effects of decoupling the haploid and diploid stages on genetic structure, and in turn, on the evolvability of their populations. Finally, this project will provide unequivocal evidence of an adaptive shift in a marine invasive. To our knowledge, such evolutionary change has been described previously for only a complex of marine copepod species. G. vermiculophylla will serve as a model for understanding evolution in other nuisance invasions, and perhaps lead to novel methods to counter future invasions or their spread.";
    String projects_0_end_date "2017-02";
    String projects_0_geolocation "Estuaries of NW and NE Pacific; estuaries of NW and NE Atlantic";
    String projects_0_name "Detecting genetic adaptation during marine invasions";
    String projects_0_project_nid "472708";
    String projects_0_start_date "2014-03";
    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 "Data describing bleaching in algae collected from Antarctica, Fiji, and California when stressed by heat, cold, or low salinity.";
    String title "[Bleaching scores of introduced seaweed] - Data describing bleaching in algae collected from Antarctica, Fiji, and California when stressed by heat, cold, or low salinity. (Detecting genetic adaptation during marine invasions)";
    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.

(easy) You can get data by using the dataset's Data Access Form or Subset form. They make the URL for you.
(easy) You can make a graph or map by using the dataset's Make A Graph form. It makes the URL for you.
(not hard) You can bypass the forms and get the data or make a graph or map by generating the URL by hand or with a computer program or script.

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.