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Dataset Title:  Data describing interactions between colonies on St. John, Virgin Islands in
2014.
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Institution:  BCO-DMO   (Dataset ID: bcodmo_dataset_662664)
Range: longitude = -64.72988 to -64.72415°E, latitude = 18.3166 to 18.31685°N
Information:  Summary ? | License ? | ISO 19115 | Metadata | Background (external link) | Subset | 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 {
  year {
    Int16 _FillValue 32767;
    Int16 actual_range 2014, 2014;
    String description "Year sampling occurred; YYYY";
    String ioos_category "Time";
    String long_name "Year";
    String units "unitless";
  }
  season {
    String description "Season sampling occurred";
    String ioos_category "Unknown";
    String long_name "Season";
    String units "unitless";
  }
  site {
    String description "Site where sampling occurred";
    String ioos_category "Unknown";
    String long_name "Site";
    String units "unitless";
  }
  latitude {
    String _CoordinateAxisType "Lat";
    Float64 _FillValue NaN;
    Float64 actual_range 18.3166, 18.31685;
    String axis "Y";
    Float64 colorBarMaximum 90.0;
    Float64 colorBarMinimum -90.0;
    String description "Latitude; N is positive";
    String ioos_category "Location";
    String long_name "Latitude";
    String standard_name "latitude";
    String units "degrees_north";
  }
  longitude {
    String _CoordinateAxisType "Lon";
    Float64 _FillValue NaN;
    Float64 actual_range -64.72988, -64.72415;
    String axis "X";
    Float64 colorBarMaximum 180.0;
    Float64 colorBarMinimum -180.0;
    String description "Longitude; W is positve";
    String ioos_category "Location";
    String long_name "Longitude";
    String standard_name "longitude";
    String units "degrees_east";
  }
  transect {
    String description "Transect where sampling occurred";
    String ioos_category "Unknown";
    String long_name "Transect";
    String units "unitless";
  }
  meter {
    Byte _FillValue 127;
    Byte actual_range 0, 10;
    String description "Meter on transect where sampling occurred";
    String ioos_category "Unknown";
    String long_name "Meter";
    String units "meters";
  }
  species {
    String description "Species of coral that was sampled";
    String ioos_category "Taxonomy";
    String long_name "Species";
    String units "unitless";
  }
  interaction_type {
    Byte _FillValue 127;
    Byte actual_range 0, 2;
    String description "Colonies were divided into interaction types. Those in close proximity to a neighbor (=cases in which a colon's branches were within 5 cm of another octocoral colony (1) or had based within 5 cm of another colony (2) and those more distantly spaced (0).";
    String ioos_category "Unknown";
    String long_name "Interaction Type";
    String units "unitless";
  }
  damage {
    Byte _FillValue 127;
    Byte actual_range 0, 1;
    String description "Abrasion from the interaction (1); no damage from the interaction (2)";
    String ioos_category "Unknown";
    String long_name "Damage";
    String units "unitless";
  }
  growth_asym {
    Byte _FillValue 127;
    Byte actual_range 0, 1;
    String description "Only the octocorals with an asymmetric colony form attributable to the presence of another octocoral were scored as asymmetric (1) in this study. All other colonies including those that were asymmetric as a result of growing adjacent to a physical obstruction were scored (0)";
    String ioos_category "Unknown";
    String long_name "Growth Asym";
    String units "unitless";
  }
  height {
    Byte _FillValue 127;
    Byte actual_range 0, 118;
    String description "Height of each colony was measured to the nearest centimeter.";
    String ioos_category "Unknown";
    String long_name "Height";
    String units "centimeters";
  }
 }
  NC_GLOBAL {
    String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson";
    String acquisition_description 
"Methodology\\u00a0from\\u00a0Gambrel, B.\\u00a0and\\u00a0Lasker, H.R., 2016
 
Octocoral colonies at East Cabritte and Europa Bay were surveyed to assess the
spatial distribution and,in particular, the incidence of colonies in close
proximity to each other. At each site, five 10 m \\u00d7 1 m parallel belt
transects were set up perpendicular to shore at10 m intervals starting at an
arbitrarily selected point. Erythropodium caribaeorum and the encrusting form
of Briareum asbestinum were not included in the surveys because they are not
branching and, therefore,do not compete for space in the canopy. Each
octocoral \\u22655 cm in height was identified to species level in the field
when possible; otherwise a small, 3 cm long sample was collected from colonies
\\u226515 cm tall for sclerite examination under a microscope. Images of the
colony and a close-up image of the collected branch were also obtained.
Identifications were based on Bayer (1961) and S\\u00e1nchez (2009).
 
Colonies were divided into 2 classes, those in close proximity to a neighbor,
cases in which a colony\\u2019s branches or base were within 5 cm of another
octocoral colony, and those more distantly spaced. When the branches of 2
colonies are <5 cm apart, branch movement driven by currents and wave action
often leads to contacts between the branches. Large colonies whose bases are
within 5 cm of each other almost always have branches within 5 cm of each
other, and small colonies with bases <5 cm apart at the time of settlement
will almost inevitably come into contact with each other as they grow in the
canopy. We recorded all instances of interactions. We did not distinguish
between interspecific and intraspecific interactions since our goal was to
first determine the overall incidence of competition among branching
octocorals at the 2 sites.
 
At East Cabritte, which had a greater density of octocorals than Europa Bay, 4
randomly selected 1\\u00d71 m2 quadrats on each transect were surveyed while
all 10 quadrats on each transect were surveyed atEuropa Bay. The height of
each colony was measured to the nearest centimeter. Each colony was assessed
for proximity to adjacent colonies and for effects of proximity, tissue damage
to branches in close proximity to an adjacent colony and/or an asymmetric
colony form. Only the octocorals with an asymmetric colony form attributable
to the presence of another octocoral were scored as asymmetric in this
study.Colonies that were asymmetric as a result of growing adjacent to a
physical obstruction were not included as our focus was on the incidence of
competition among octocorals. Examples of the different effects are shown in
Fig. 1.";
    String awards_0_award_nid "562090";
    String awards_0_award_number "OCE-1334052";
    String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1334052";
    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 David  L. Garrison";
    String awards_0_program_manager_nid "50534";
    String cdm_data_type "Other";
    String comment 
"Transect Interaction Survey 
  Howard Lasker, PI 
  Version 14 October 2016";
    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.pl v1.0";
    String date_created "2016-10-25T18:54:51Z";
    String date_modified "2019-04-18T17:43:31Z";
    String defaultDataQuery "&time";
    String doi "10.1575/1912/bco-dmo.662664.1";
    Float64 Easternmost_Easting -64.72415;
    Float64 geospatial_lat_max 18.31685;
    Float64 geospatial_lat_min 18.3166;
    String geospatial_lat_units "degrees_north";
    Float64 geospatial_lon_max -64.72415;
    Float64 geospatial_lon_min -64.72988;
    String geospatial_lon_units "degrees_east";
    String history 
"2019-06-16T03:46:36Z (local files)
2019-06-16T03:46:36Z https://erddap.bco-dmo.org/tabledap/bcodmo_dataset_662664.das";
    String infoUrl "https://www.bco-dmo.org/dataset/662664";
    String institution "BCO-DMO";
    String keywords "asym, bco, bco-dmo, biological, chemical, damage, data, dataset, dmo, erddap, growth, growth_asym, height, interaction, interaction_type, latitude, longitude, management, meter, oceanography, office, preliminary, season, site, species, taxonomy, time, transect, type, 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/662664";
    Float64 Northernmost_Northing 18.31685;
    String param_mapping "{'662664': {'lat': 'master - latitude', 'lon': 'master - longitude'}}";
    String parameter_source "https://www.bco-dmo.org/mapserver/dataset/662664/parameters";
    String people_0_affiliation "State University of New York at Buffalo";
    String people_0_affiliation_acronym "SUNY Buffalo";
    String people_0_person_name "Howard Lasker";
    String people_0_person_nid "562092";
    String people_0_role "Principal Investigator";
    String people_0_role_type "originator";
    String people_1_affiliation "Woods Hole Oceanographic Institution";
    String people_1_affiliation_acronym "WHOI BCO-DMO";
    String people_1_person_name "Hannah Ake";
    String people_1_person_nid "650173";
    String people_1_role "BCO-DMO Data Manager";
    String people_1_role_type "related";
    String project "LTREB Long-term coral reef community dynamics in St. John, USVI: 1987-2019, Ecology and functional biology of octocoral communities";
    String projects_0_acronym "St. John LTREB";
    String projects_0_description 
"Long Term Research in Environmental Biology (LTREB) in US Virgin Islands:
From the NSF award abstract:
In an era of growing human pressures on natural resources, there is a critical need to understand how major ecosystems will respond, the extent to which resource management can lessen the implications of these responses, and the likely state of these ecosystems in the future. Time-series analyses of community structure provide a vital tool in meeting these needs and promise a profound understanding of community change. This study focuses on coral reef ecosystems; an existing time-series analysis of the coral community structure on the reefs of St. John, US Virgin Islands, will be expanded to 27 years of continuous data in annual increments. Expansion of the core time-series data will be used to address five questions: (1) To what extent is the ecology at a small spatial scale (1-2 km) representative of regional scale events (10's of km)? (2) What are the effects of declining coral cover in modifying the genetic population structure of the coral host and its algal symbionts? (3) What are the roles of pre- versus post-settlement events in determining the population dynamics of small corals? (4) What role do physical forcing agents (other than temperature) play in driving the population dynamics of juvenile corals? and (5) How are populations of other, non-coral invertebrates responding to decadal-scale declines in coral cover? Ecological methods identical to those used over the last two decades will be supplemented by molecular genetic tools to understand the extent to which declining coral cover is affecting the genetic diversity of the corals remaining. An information management program will be implemented to create broad access by the scientific community to the entire data set.
The importance of this study lies in the extreme longevity of the data describing coral reefs in a unique ecological context, and the immense potential that these data possess for understanding both the patterns of comprehensive community change (i.e., involving corals, other invertebrates, and genetic diversity), and the processes driving them. Importantly, as this project is closely integrated with resource management within the VI National Park, as well as larger efforts to study coral reefs in the US through the NSF Moorea Coral Reef LTER, it has a strong potential to have scientific and management implications that extend further than the location of the study.
The following publications and data resulted from this project:
2015 � �Edmunds PJ, Tsounis G, Lasker HR (2015) Differential distribution of octocorals and scleractinians around St. John and St. Thomas, US Virgin Islands. Hydrobiologia. doi: 10.1007/s10750-015-2555-zoctocoral - sp. abundance and distributionDownload complete data for this publication (Excel file)
2015 � �Lenz�EA, Bramanti�L, Lasker�HR, Edmunds�PJ. Long-term variation of octocoral populations in St. John, US Virgin Islands. Coral Reefs DOI 10.1007/s00338-015-1315-xoctocoral survey - densitiesoctocoral counts - photoquadrats vs. insitu surveyoctocoral literature reviewDownload complete data for this publication (Excel file)
2015 � Privitera-Johnson, K., et al., Density-associated recruitment in octocoral communities in St. John, US Virgin Islands, J.Exp. Mar. Biol. Ecol. DOI�10.1016/j.jembe.2015.08.006octocoral recruitmentDownload complete data for this publication (Excel file)
2014��� Edmunds PJ. Landscape-scale variation in coral reef community structure in the United States Virgin Islands. Marine Ecology Progress Series 509: 137–152. DOI 10.3354/meps10891.
Data at MCR-VINP.
Download complete data for this publication (Excel file)
2014��� Edmunds PJ, Nozawa Y, Villanueva RD.� Refuges modulate coral recruitment in the Caribbean and Pacific.� Journal of Experimental Marine Biology and Ecology 454: 78-84. DOI: 10.1016/j.jembe.2014.02.00
Data at MCR-VINP.Download complete data for this publication (Excel file)
2014��� Edmunds PJ, Gray SC.� The effects of storms, heavy rain, and sedimentation on the shallow coral reefs of St. John, US Virgin Islands.� Hydrobiologia 734(1):143-148.
Data at MCR-VINP.Download complete data for this publication (Excel file)
2014��� Levitan, D, Edmunds PJ, Levitan K. What makes a species common? No evidence of density-dependent recruitment or mortality of the sea urchin Diadema antillarum after the 1983-1984 mass mortality.� Oecologia. DOI 10.1007/s00442-013-2871-9.
Data at MCR-VINP.Download complete data for this publication (Excel file)
2014��� Lenz EA, Brown D, Didden C, Arnold A, Edmunds PJ.� The distribution of hermit crabs and their gastropod shells on shallow reefs in St. John, US Virgin Islands.� Bulletin of Marine Science 90(2):681-692.�https://dx.doi.org/10.5343/bms.2013.1049
Data at MCR-VINP.Download complete data for this publication (Excel file)
2013��� Edmunds PJ.� Decadal-scale changes in the community structure of coral reefs in St. John, US Virgin Islands.� Marine Ecology Progress Series 489: 107-123.
Data at MCR-VINP.Download complete data for this publication (zipped Excel files)
2013��� Brown D, Edmunds PJ.� Long-term changes in the population dynamics of the Caribbean hydrocoral Millepora spp.� J. Exp Mar Biol Ecol 441: 62-70. doi:�10.1016/j.jembe.2013.01.013Millepora colony sizeMillepora cover - temps - storms 1992-2008Millepora cover 1992-2008seawater temperature USVI 1992-2008storms USVI 1992-2008Download complete data for this publication (Excel file)
2012��� Brown D, Edmunds PJ. The hermit crab Calcinus tibicen lives commensally on Millepora spp. in St. John, United States Virgin Islands.� Coral Reefs 32: 127-135. doi:�10.1007/s00338-012-0948-2crab abundance and coral sizecrab displacement behaviorcrab nocturnal surveyscrab predator avoidanceDownload complete data for this publication (Excel file)
2011��� Green DH, Edmunds PJ.� Spatio-temporal variability of coral recruitment on shallow reefs in St. John, US Virgin Islands.� Journal of Experimenal Marine Biology and Ecology 397: 220-229.
Data at MCR-VINP.Download complete data for this publication (Excel file)
2011��� Colvard NB, Edmunds PJ. (2011) Decadal-scale changes in invertebrate abundances on a Caribbean coral reef.� Journal of Experimental Marine Biology and Ecology. 397(2): 153-160.�doi: 10.1016/j.jembe.2010.11.015benthic invert codesinverts - Tektite and Yawzi Ptinverts - pooledDownload complete data for this publication (Excel file)";
    String projects_0_end_date "2014-04";
    String projects_0_geolocation "St. John, U.S. Virgin Islands; California State University Northridge";
    String projects_0_name "LTREB Long-term coral reef community dynamics in St. John, USVI: 1987-2019";
    String projects_0_project_nid "2272";
    String projects_0_project_website "http://coralreefs.csun.edu/";
    String projects_0_start_date "2009-05";
    String projects_1_acronym "VI Octocorals";
    String projects_1_description 
"The recent past has not been good for coral reefs, and journals have been filled with examples of declining coral cover, crashing fish populations, rising cover of macroalgae, and a future potentially filled with slime. However, reefs are more than the corals and fishes for which they are known best, and their biodiversity is affected strongly by other groups of organisms. The non-coral fauna of reefs is being neglected in the rush to evaluate the loss of corals and fishes, and this project will add on to an on-going long term ecological study by studying soft corals. This project will be focused on the ecology of soft corals on reefs in St. John, USVI to understand the Past, Present and the Future community structure of soft corals in a changing world. For the Past, the principal investigators will complete a retrospective analysis of octocoral abundance in St. John between 1992 and the present, as well as Caribbean-wide since the 1960's. For the Present, they will: (i) evaluate spatio-temporal changes between soft corals and corals, (ii) test for the role of competition with macroalgae and between soft corals and corals as processes driving the rising abundance of soft corals, and (iii) explore the role of soft corals as \"animal forests\" in modifying physical conditions beneath their canopy, thereby modulating recruitment dynamics. For the Future the project will conduct demographic analyses on key soft corals to evaluate annual variation in population processes and project populations into a future impacted by global climate change.
This project was funded to provide and independent \"overlay\" to the ongoing LTREB award (DEB-1350146, co-funded by OCE, PI Edmunds) focused on the long-term dynamics of coral reefs in St. John.
Note: This project is closely associated with the project \"RAPID: Resilience of Caribbean octocorals following Hurricanes Irma and Maria\". See: https://www.bco-dmo.org/project/749653.
The following publications and data resulted from this project:
2017 Tsounis, G., and P. J. Edmunds. Three decades of coral reef community dynamics in St. John, USVI: a contrast of scleractinians and octocorals. Ecosphere 8(1):e01646. DOI: 10.1002/ecs2.1646Rainfall and temperature dataCoral and macroalgae abundance and distributionDescriptions of hurricanes affecting St. John
2016 Gambrel, B. and Lasker, H.R. Marine Ecology Progress Series 546: 85–95, DOI: 10.3354/meps11670Colony to colony interactionsEunicea flexuosa interactionsGorgonia ventalina asymmetryNearest neighbor surveys
2015 Lenz EA, Bramanti L, Lasker HR, Edmunds PJ. Long-term variation of octocoral populations in St. John, US Virgin Islands. Coral Reefs DOI 10.1007/s00338-015-1315-xoctocoral survey - densitiesoctocoral counts - photoquadrats vs. insitu surveyoctocoral literature reviewDownload complete data for this publication (Excel file)
2015 Privitera-Johnson, K., et al., Density-associated recruitment in octocoral communities in St. John, US Virgin Islands, J.Exp. Mar. Biol. Ecol. DOI: 10.1016/j.jembe.2015.08.006octocoral density dependenceDownload complete data for this publication (Excel file)
Other datasets related to this project:octocoral transects - adult colony height";
    String projects_1_end_date "2016-08";
    String projects_1_geolocation "St. John, US Virgin Islands:  18.3185, 64.7242";
    String projects_1_name "Ecology and functional biology of octocoral communities";
    String projects_1_project_nid "562086";
    String projects_1_project_website "http://coralreefs.csun.edu/";
    String projects_1_start_date "2013-09";
    String publisher_name "Hannah Ake";
    String publisher_role "BCO-DMO Data Manager(s)";
    String sourceUrl "(local files)";
    Float64 Southernmost_Northing 18.3166;
    String standard_name_vocabulary "CF Standard Name Table v29";
    String subsetVariables "year, season";
    String summary "Data describing interactions between colonies on St. John, Virgin Islands in 2014.";
    String title "Data describing interactions between colonies on St. John, Virgin Islands in 2014.";
    String version "1";
    Float64 Westernmost_Easting -64.72988;
    String xml_source "osprey2erddap.update_xml() v1.0-alpha";
  }
}

 

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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