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,.esriCsv,.geoJson
attribute NC_GLOBAL acquisition_description String Breviolum antillogorgium cultures were initially isolated from Antillogorgia\nbipinnata colonies collected at in the upper Florida Reef tract at Elbow Reef\n(N 25 07.956 W 80 15.810) in September 2016. Culture isolations and cell\ngrowth experimentation occurred in the Coffroth lab, University at Buffalo.\n \nDNA was extracted from symbiont cells following Coffroth et al. (1992) and re-\nsuspended in TE buffer (5-15\\u00b5l, diluted to a concentration of\n5ng/\\u00b5l). Symbionts were characterized using six polymorphic\nmicrosatellite loci, B7SYM4, B7SYM8, B7Sym34, B7Sym36, CA6.38 and GV-1C\nfollowing the protocols of Pettay and LaJeunesse (2007), Andras et al (2009)\nand Santos et al (2003b).
attribute NC_GLOBAL awards_0_award_nid String 658940
attribute NC_GLOBAL awards_0_award_number String OCE-1559286
attribute NC_GLOBAL awards_0_data_url String https://www.nsf.gov/awardsearch/showAward?AWD_ID=1559286 (external link)
attribute NC_GLOBAL awards_0_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_0_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_0_funding_source_nid String 355
attribute NC_GLOBAL awards_0_program_manager String David L. Garrison
attribute NC_GLOBAL awards_0_program_manager_nid String 50534
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String Microsatellite loci for B. antillogorgium cultures \n   PIs: C. terHorst (CSU),  M.A. Coffroth (UBuffalo) \n   version: 2019-03-04
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 2019-02-20T20:43:26Z
attribute NC_GLOBAL date_modified String 2019-03-04T20:41:41Z
attribute NC_GLOBAL defaultDataQuery String &time<now
attribute NC_GLOBAL doi String 10.1575/1912/bco-dmo.756404.1
attribute NC_GLOBAL Easternmost_Easting double -80.2635
attribute NC_GLOBAL geospatial_lat_max double 25.1326
attribute NC_GLOBAL geospatial_lat_min double 25.1326
attribute NC_GLOBAL geospatial_lat_units String degrees_north
attribute NC_GLOBAL geospatial_lon_max double -80.2635
attribute NC_GLOBAL geospatial_lon_min double -80.2635
attribute NC_GLOBAL geospatial_lon_units String degrees_east
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/756404 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String Automated Sequencer
attribute NC_GLOBAL instruments_0_dataset_instrument_description String Fragment analysis of the PCR product of the microsatellite loci were run a on a 25 cm long, 0.25 mm thick, 6.5% non-denaturing polyacrylamide gel on an automated LI-COR 4200 NEN Global IR2 DNA sequencing system (LI-COR Biosciences).
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 756412
attribute NC_GLOBAL instruments_0_description String General term for a laboratory instrument used for deciphering the order of bases in a strand of DNA. Sanger sequencers detect fluorescence from different dyes that are used to identify the A, C, G, and T extension reactions. Contemporary or Pyrosequencer methods are based on detecting the activity of DNA polymerase (a DNA synthesizing enzyme) with another chemoluminescent enzyme. Essentially, the method allows sequencing of a single strand of DNA by synthesizing the complementary strand along it, one base pair at a time, and detecting which base was actually added at each step.
attribute NC_GLOBAL instruments_0_instrument_name String Automated DNA Sequencer
attribute NC_GLOBAL instruments_0_instrument_nid String 649
attribute NC_GLOBAL instruments_0_supplied_name String I-COR 4200 NEN® Global IR2 DNA sequencing system (LI-COR Biosciences)
attribute NC_GLOBAL instruments_1_acronym String Thermal Cycler
attribute NC_GLOBAL instruments_1_dataset_instrument_description String Used to amplify microsatellite loci.
attribute NC_GLOBAL instruments_1_dataset_instrument_nid String 756422
attribute NC_GLOBAL instruments_1_description String General term for a laboratory apparatus commonly used for performing polymerase chain reaction (PCR). The device has a thermal block with holes where tubes with the PCR reaction mixtures can be inserted. The cycler then raises and lowers the temperature of the block in discrete, pre-programmed steps.\n\n(adapted from http://serc.carleton.edu/microbelife/research_methods/genomics/pcr.html)
attribute NC_GLOBAL instruments_1_instrument_name String PCR Thermal Cycler
attribute NC_GLOBAL instruments_1_instrument_nid String 471582
attribute NC_GLOBAL instruments_1_supplied_name String a PTC-100 MJ Research Inc. thermal cycler or a BioRad T100-Thermal Cycler
attribute NC_GLOBAL keywords String axenic, B7SYM34, B7SYM4, B7SYM8, bco, bco-dmo, biological, bysym36, ca6, CA6_38, chemical, country, cp_type, culture, Culture_ID, data, dataset, dmo, erddap, GV_1C, host, Host_stage, incubation, Incubation_Temperature, isolated, Isolated_by, its2, ITS2_type, latitude, Location, longitude, management, ocean, oceanography, office, preliminary, putative, Putative_Species, species, stage, state, State_Country, sym34, sym4, sym8, temperature, type, year, Year_isolated
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/756404/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/756404 (external link)
attribute NC_GLOBAL Northernmost_Northing double 25.1326
attribute NC_GLOBAL param_mapping String {'756404': {'Latitude': 'flag - latitude', 'Longitude': 'flag - longitude'}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/756404/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String State University of New York at Buffalo
attribute NC_GLOBAL people_0_affiliation_acronym String SUNY Buffalo
attribute NC_GLOBAL people_0_person_name String Mary Alice Coffroth
attribute NC_GLOBAL people_0_person_nid String 472488
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 California State University Northridge
attribute NC_GLOBAL people_1_affiliation_acronym String CSU-Northridge
attribute NC_GLOBAL people_1_person_name String Casey terHorst
attribute NC_GLOBAL people_1_person_nid String 632541
attribute NC_GLOBAL people_1_role String Co-Principal Investigator
attribute NC_GLOBAL people_1_role_type String originator
attribute NC_GLOBAL people_2_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_2_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_2_person_name String Nancy Copley
attribute NC_GLOBAL people_2_person_nid String 50396
attribute NC_GLOBAL people_2_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_2_role_type String related
attribute NC_GLOBAL project String Host Symbiont Temp Response
attribute NC_GLOBAL projects_0_acronym String Host Symbiont Temp Response
attribute NC_GLOBAL projects_0_description String Description from NSF award abstract:\nOn coral reefs, mutualisms with single celled algae (Symbiodinium) and reef species literally and figuratively form the foundation of reef ecosystems. Coral reefs are among the most threatened ecosystems under a changing climate and are rapidly declining due to increasing levels of environmental stress, namely increased temperatures. Climate change is resulting in even warmer ocean temperatures that threaten associations between Symbiodinium and their hosts. In this project the investigators examine the genetic diversity of Symbiodinium and the potential for this important species to evolve in response to temperature. The project will also address whether the ecological and evolutionary dynamics of the Symbiodinium population affect the performance of their host. If so, this suggests that the evolution of microscopic organisms with short generation times could confer adaptation to longer-lived host species on ecologically and economically vital coral reefs. Given that diversity is already being lost on many reefs, considering how evolutionary changes in Symbiodinium will affect reef species is crucial for predicting the responses of reefs to future climate change. This project provides training for two graduate students and several undergraduates at a Hispanic-serving institution. This work includes outreach to the students and the general public through the Aquarium of Niagara, local K-12 schools, and web-based education modules.\nThe effects of evolution on contemporary ecological processes are at the forefront of research in evolutionary ecology. This project will answer the call for experiments elucidating the effects of genetic variation in Symbiodinium performance and the effect on the response of the holobiont (host and symbiont) to increased temperature. These experiments examine the effects of temperature through both ecological and evolutionary mechanisms and will determine the relative importance of adaptation and acclimatization in replicated experimental populations. The investigators will examine how genetic variation within a species (Symbiodinium antillogorgium) affects symbiont performance in culture and in the host and how this affects the response of the holobiont to increased temperature. Further, the project examines whether holobiont response to increased temperature associated with climate change depends on particular GxG host-symbiont combinations. Moreover, the investigators will examine the effects of symbiont history on mutualist hosts, which have been largely ignored in eco-evolutionary studies. These experiments provide a first step in predicting whether invertebrate hosts on coral reefs will respond to global change via adaptation of their symbionts.
attribute NC_GLOBAL projects_0_end_date String 2020-03
attribute NC_GLOBAL projects_0_geolocation String Florida Keys, Caribbean
attribute NC_GLOBAL projects_0_name String RUI: Collaborative Research: Genetic variation as a driver of host and symbiont response to increased temperature on coral reefs
attribute NC_GLOBAL projects_0_project_nid String 632538
attribute NC_GLOBAL projects_0_start_date String 2016-04
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 Southernmost_Northing double 25.1326
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL subsetVariables String Host,Putative_Species,Location,latitude,longitude,State_Country,Ocean,Host_stage,Axenic,Isolated_by,Year_isolated,ITS2_type,B7SYM4
attribute NC_GLOBAL summary String Microsatellite loci for Breviolum antillogorgium cultures isolated from the octocoral Antillogorgia bipinnata and used in 2018 growth experiments to compare growth at 26 and 30 degrees C
attribute NC_GLOBAL title String [Breviolum antillogorgium microsatellite loci] - Microsatellite loci for Breviolum antillogorgium cultures isolated from the octocoral Antillogorgia bipinnata and used in 2018 growth experiments to compare growth at 26 and 30 degrees C (RUI: Collaborative Research: Genetic variation as a driver of host and symbiont response to increased temperature on coral reefs)
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL Westernmost_Easting double -80.2635
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.3
variable Culture_ID String
attribute Culture_ID bcodmo_name String sample
attribute Culture_ID description String Identification of sample given as culture name (16-0587)
attribute Culture_ID long_name String Culture ID
attribute Culture_ID nerc_identifier String https://vocab.nerc.ac.uk/collection/P02/current/ACYC/ (external link)
attribute Culture_ID units String Unitless
variable Incubation_Temperature byte
attribute Incubation_Temperature _FillValue byte 127
attribute Incubation_Temperature actual_range byte 26, 30
attribute Incubation_Temperature bcodmo_name String temp_inc
attribute Incubation_Temperature description String Temperature at which the culture is maintained
attribute Incubation_Temperature long_name String Incubation Temperature
attribute Incubation_Temperature nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/TINCDTNX/ (external link)
attribute Incubation_Temperature units String Degree Celsius
variable Host String
attribute Host bcodmo_name String species
attribute Host description String Octocoral from which the symbiont was isolated. Note - In the vast majority of cases the culture is NOT representative of the host symbiont population (Santos et al 2001)
attribute Host long_name String Host
attribute Host units String Unitless
variable Putative_Species String
attribute Putative_Species bcodmo_name String species
attribute Putative_Species description String Putative species based on sequence analysis of B7 SYM15 flanking region (LaJeunesse et al 2012; Parkinson et al 2015)
attribute Putative_Species long_name String Putative Species
attribute Putative_Species units String Unitless
variable Location String
attribute Location bcodmo_name String region
attribute Location description String collection location
attribute Location long_name String Location
attribute Location units String Unitless
variable latitude double
attribute latitude _CoordinateAxisType String Lat
attribute latitude _FillValue double NaN
attribute latitude actual_range double 25.1326, 25.1326
attribute latitude axis String Y
attribute latitude bcodmo_name String latitude
attribute latitude colorBarMaximum double 90.0
attribute latitude colorBarMinimum double -90.0
attribute latitude description String latitude; north is positive
attribute latitude ioos_category String Location
attribute latitude long_name String Latitude
attribute latitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LATX/ (external link)
attribute latitude standard_name String latitude
attribute latitude units String degrees_north
variable longitude double
attribute longitude _CoordinateAxisType String Lon
attribute longitude _FillValue double NaN
attribute longitude actual_range double -80.2635, -80.2635
attribute longitude axis String X
attribute longitude bcodmo_name String longitude
attribute longitude colorBarMaximum double 180.0
attribute longitude colorBarMinimum double -180.0
attribute longitude description String longitude; east is positive
attribute longitude ioos_category String Location
attribute longitude long_name String Longitude
attribute longitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LONX/ (external link)
attribute longitude standard_name String longitude
attribute longitude units String degrees_east
variable State_Country String
attribute State_Country bcodmo_name String region
attribute State_Country description String collection state and country
attribute State_Country long_name String State Country
attribute State_Country units String unitless
variable Ocean String
attribute Ocean bcodmo_name String region
attribute Ocean description String ocean or sea of collection
attribute Ocean long_name String Ocean
attribute Ocean units String unitless
variable Host_stage String
attribute Host_stage bcodmo_name String stage
attribute Host_stage description String growth stage of host
attribute Host_stage long_name String Host Stage
attribute Host_stage units String unitless
variable Axenic String
attribute Axenic bcodmo_name String sample_descrip
attribute Axenic description String culture is free from other living organisms
attribute Axenic long_name String Axenic
attribute Axenic units String unitless
variable Isolated_by String
attribute Isolated_by bcodmo_name String person
attribute Isolated_by description String person who isolated sample
attribute Isolated_by long_name String Isolated By
attribute Isolated_by units String unitless
variable Year_isolated short
attribute Year_isolated _FillValue short 32767
attribute Year_isolated actual_range short 2016, 2016
attribute Year_isolated bcodmo_name String year
attribute Year_isolated description String the year the culture was isolated
attribute Year_isolated long_name String Year Isolated
attribute Year_isolated nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/YEARXXXX/ (external link)
attribute Year_isolated units String unitless
variable ITS2_type String
attribute ITS2_type bcodmo_name String unknown
attribute ITS2_type description String Classification based on sequence of ITS2 following LaJeunesse et al (2012) and Parkinson et al (2015)
attribute ITS2_type long_name String ITS2 Type
attribute ITS2_type units String Unitless
variable cp_type short
attribute cp_type _FillValue short 32767
attribute cp_type actual_range short 184, 185
attribute cp_type bcodmo_name String unknown
attribute cp_type description String Fragment length of the hypervariable region of Domain V of symbiont 23S rDNA (Santos et al 2003a)
attribute cp_type long_name String Cp Type
attribute cp_type units String base pairs (bp)
variable GV_1C short
attribute GV_1C _FillValue short 32767
attribute GV_1C actual_range short 298, 330
attribute GV_1C bcodmo_name String unknown
attribute GV_1C description String Microsatellite locus allele size
attribute GV_1C long_name String GV 1 C
attribute GV_1C units String base pairs (bp)
variable B7SYM34 short
attribute B7SYM34 _FillValue short 32767
attribute B7SYM34 actual_range short 277, 285
attribute B7SYM34 bcodmo_name String unknown
attribute B7SYM34 description String Microsatellite locus allele size
attribute B7SYM34 long_name String B7 SYM34
attribute B7SYM34 units String base pairs (bp)
variable BYSYM36 short
attribute BYSYM36 _FillValue short 32767
attribute BYSYM36 actual_range short 183, 185
attribute BYSYM36 bcodmo_name String unknown
attribute BYSYM36 description String Microsatellite locus allele size
attribute BYSYM36 long_name String BYSYM36
attribute BYSYM36 units String base pairs (bp)
variable CA6_38 byte
attribute CA6_38 _FillValue byte 127
attribute CA6_38 actual_range byte 119, 125
attribute CA6_38 bcodmo_name String unknown
attribute CA6_38 description String Microsatellite locus allele size
attribute CA6_38 long_name String CA6 38
attribute CA6_38 units String base pairs (bp)
variable B7SYM4 short
attribute B7SYM4 _FillValue short 32767
attribute B7SYM4 actual_range short 149, 149
attribute B7SYM4 bcodmo_name String unknown
attribute B7SYM4 description String Microsatellite locus allele size
attribute B7SYM4 long_name String B7 SYM4
attribute B7SYM4 units String base pairs (bp)
variable B7SYM8 short
attribute B7SYM8 _FillValue short 32767
attribute B7SYM8 actual_range short 218, 220
attribute B7SYM8 bcodmo_name String unknown
attribute B7SYM8 description String Microsatellite locus allele size
attribute B7SYM8 long_name String B7 SYM8
attribute B7SYM8 units String base pairs (bp)

 
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