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
attribute NC_GLOBAL acquisition_description String Sample collection:\n \nEach lake was sampled using the point intercept transect method at no less\nthan 10 randomly chosen sites around its perimeter (unless the small size of a\nlake precluded this number of non-overlapping sites).\\u00a0 At each site,\nthree parallel transects approximately were run 5 m apart from the intertidal\n(0 m) to the deepest depth accessible to SCUBA divers (i.e. the bottom of the\nlake, or bottom of the epilimnion, or the divers\\u2019 maximum certified\ndepth).\\u00a0 In lakes 8m or deeper, a line (\\u2018the horizontal\\u2019) was\nplaced, at eight evenly spaced target depths (1\\u20134 m depth intervals,\ndepending on lake), orthogonal to each of the transect lines so that small\n(2.0 cm diameter) cells fell over four points A\\u2013D each at 15 cm\nincrements to the right of the transect line at the same depth.\\u00a0 At each\ndepth, from deepest to shallowest, the actual depth was measured in feet with\na dive computer, the \\u2018horizontal\\u2019 was photographed from ~0.5 m\ndistance, the substrate type was recorded, and then each cell photographed in\nclose-up.\\u00a0 A tissue sample of the \\u2018primary\\u2019 organism within\neach cell, i.e. the organism at the center of the cell, or if no organism in\nthe centre then the first organisms at the periphery going clockwise from\nnoon, or if only sediment visible, the organism within the sediment directly\nunder the Cell was then biopsied for DNA analyses and placed in a container\nlabeled with site, depth, and cell code A\\u2013D.\\u00a0 Because the benthos\nmay be three dimensional a \\u2018primary\\u2019 organism might also have many\n\\u2018secondary\\u2019 epibionts and/or epiphytes attached.\\u00a0 Any organisms\nin the photographs but not sampled were classified as\n\\u2018tertiary\\u2019.\\u00a0 After all four cells were sampled at a depth, the\ndiver ascended to the next shallowest depth on his/her transect and repeated\nthe procedure.\\u00a0 Thus, at each randomly chosen site, we surveyed a total\nof 96 points from the deepest to shallowest depths of the lake habitable by\nmacro-invertebrates and macrophytes, with two categories of exception. (1) If\na lake was <8 m deep, the number of depths sampled was equivalent to the\nmaximum depth in meters. (2) Lakes with gently sloping sides could lead to\nadjacent target depths being >10 m apart leading to undersampling of\nhorizontal patchiness; in which case the transect distance between adjacent\ntarget depths was estimated and divided in half or in thirds so that no two\nsamples were more than 10 transect meters apart.\\u00a0 At the surface, at the\nend of each dive, samples were transferred to individual tubes of 95% ethanol\nlabeled with a field number composed of lake, site, collector, depth, and cell\nIDs.\\u00a0 Each evening, new samples were stored in a freezer, dive profiles\nwere downloaded, and fieldnotes were transcribed to a standardized electronic\ndata sheet.\n \nError-checking biodiversity transect files\n \nEach evening, or as soon thereafter as possible, divers compared specimens to\nstandardize field-identifications and all tissue samples were reconciled to\nthe electronic data sheet for each lake using tube labels, original field\nnotes, photographs of specimens in the field, and visual inspection of tube\ncontents.\\u00a0 If necessary, primary and secondary specimens were placed in\nindividually labelled tubes of ethanol.\\u00a0 In cases of discrepancy between\nelectronic notes and original field notes, we edited the electronic data sheet\nto be consistent with original notes and corroborated this by double-checking\nthe original photographs and inspecting tube contents.\\u00a0 Significant\nchanges\\u2014i.e. samples that could not be reconciled after accounting for\ntube transpositions, mislabeling, or mis-identification in the field\\u2014were\nlogged in a separate file highlighting the specific change and\njustification.\\u00a0 If a specimen was unable to be reconciled with notes it\nwas discarded (this was necessary for only one specimen).\\u00a0 Subsequently,\nevery tissue sample was assigned an unique identifying number (M0D#) for\ncuration; during this process, every tenth sample was double-checked for\nagreement between the original field number and new M0D#.
attribute NC_GLOBAL awards_0_award_nid String 55103
attribute NC_GLOBAL awards_0_award_number String OCE-1241255
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1241255 (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 PaPaPro Tissue Archive \n     Transect survey barcoded specimens with both lab identification number (M0D#) and original tube number. \n   M. Dawson (UC-Merced) \n   version date: 2019-05-13
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 2019-05-16T19:27:54Z
attribute NC_GLOBAL date_modified String 2019-07-08T13:00:52Z
attribute NC_GLOBAL defaultDataQuery String &amp;time&lt;now
attribute NC_GLOBAL doi String 10.1575/1912/bco-dmo.768180.1
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/768180 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL keywords String assigned, bco, bco-dmo, biological, chemical, code, data, dataset, dmo, erddap, field, Field_assigned_phylum, instant, Instant_Field_ID, lake, lake_code, M0D, management, number, oceanography, office, phylum, preliminary, tube, Tube_Number
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/768180/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/768180 (external link)
attribute NC_GLOBAL param_mapping String {'768180': {}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/768180/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String University of California-Merced
attribute NC_GLOBAL people_0_affiliation_acronym String UC Merced
attribute NC_GLOBAL people_0_person_name String Michael N Dawson
attribute NC_GLOBAL people_0_person_nid String 51577
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 Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_1_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_1_person_name String Nancy Copley
attribute NC_GLOBAL people_1_person_nid String 50396
attribute NC_GLOBAL people_1_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_1_role_type String related
attribute NC_GLOBAL project String PaPaPro
attribute NC_GLOBAL projects_0_acronym String PaPaPro
attribute NC_GLOBAL projects_0_description String This project will survey the taxonomic, genetic, and functional diversity of the organisms found in marine lakes, and investigate the processes that cause gains and losses in this biodiversity. Marine lakes formed as melting ice sheets raised sea level after the last glacial maximum and flooded hundreds of inland valleys around the world. Inoculated with marine life from the surrounding sea and then isolated to varying degrees for the next 6,000 to 15,000 years, these marine lakes provide multiple, independent examples of how environments and interactions between species can drive extinction and speciation. Researchers will survey the microbes, algae, invertebrates, and fishes present in 40 marine lakes in Palau and Papua, and study how diversity has changed over time by retrieving the remains of organisms preserved in sediments on the lake bottoms. The project will test whether the number of species, the diversity of functional roles played by organisms, and the genetic diversity within species increase and decrease in parallel; whether certain species can greatly curtail diversity by changing the environment; whether the size of a lake determines its biodiversity; and whether the processes that control diversity in marine organisms are similar to those that operate on land.\nBecause biodiversity underlies the ecosystem services on which society depends, society has a great interest in understanding the processes that generate and retain biodiversity in nature. This project will also help conserve areas of economic importance. Marine lakes in the study region are important for tourism, and researchers will work closely with governmental and non-governmental conservation and education groups and with diving and tourism businesses to raise awareness of the value and threats to marine lakes in Indonesia and Palau.
attribute NC_GLOBAL projects_0_end_date String 2017-12
attribute NC_GLOBAL projects_0_geolocation String Western Pacific; Palau; Indonesia (West Papua)
attribute NC_GLOBAL projects_0_name String Do Parallel Patterns Arise from Parallel Processes?
attribute NC_GLOBAL projects_0_project_nid String 2238
attribute NC_GLOBAL projects_0_project_website String http://marinelakes.ucmerced.edu/ (external link)
attribute NC_GLOBAL projects_0_start_date String 2013-01
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 standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL summary String Marine lakes of Palau barcoded specimens from transect survey with both lab identification number (M0D#) and original tube number. The purpose of this dataset is (1) to link unique identification numbers used in different circumstances and files, specifically tube ID used in the field and the M0D# identifier for the lab\\u2019s permanent collection, and (2) to summarize the tissue samples collected during biodiversity surveys under this project.
attribute NC_GLOBAL title String [Palau lakes: tissue archive] - Marine lakes of Palau barcoded specimens from transect survey with both lab identification number (M0D#) and original tube number (Do Parallel Patterns Arise from Parallel Processes?)
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.3
variable M0D String
attribute M0D bcodmo_name String sample
attribute M0D description String Unique lab number assigned to curate specimens and sequences.
attribute M0D long_name String M0 D
attribute M0D nerc_identifier String https://vocab.nerc.ac.uk/collection/P02/current/ACYC/ (external link)
attribute M0D units String unitless
variable Tube_Number String
attribute Tube_Number bcodmo_name String sample
attribute Tube_Number description String The tube number assigned in the field and comprised of the location code; transect/site number; the collector's initials; the target depth in meters; and the cell (i.e. A; B; C; or D).
attribute Tube_Number long_name String Tube Number
attribute Tube_Number nerc_identifier String https://vocab.nerc.ac.uk/collection/P02/current/ACYC/ (external link)
attribute Tube_Number units String unitless
variable Field_assigned_phylum String
attribute Field_assigned_phylum bcodmo_name String phylum
attribute Field_assigned_phylum description String The phylum of the specimen or high level categorization assigned in the field.
attribute Field_assigned_phylum long_name String Field Assigned Phylum
attribute Field_assigned_phylum units String unitless
variable Instant_Field_ID String
attribute Instant_Field_ID bcodmo_name String sample_descrip
attribute Instant_Field_ID description String Identification assigned in the field; In some cases a single tube can contain multiple species but assigned phylum will only reflect one for specimens that were not separated (i.e. multiple taxa in a single logged tube)
attribute Instant_Field_ID long_name String Instant Field ID
attribute Instant_Field_ID units String unitless
variable lake_code String
attribute lake_code bcodmo_name String site
attribute lake_code description String 3-letter code for sampled lake name
attribute lake_code long_name String Lake Code
attribute lake_code units String unitless

 
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