u.s. department of the interior u.s. geological survey the biological data profile extending the...
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U.S. Department of the InteriorU.S. Geological Survey
The Biological Data Profile
Extending the FGDC Metadata Standard
Kirsten Larsen
The Biological Data Profile
Lesson Goal: To be able to add the Biological Data Profile (BDP) elements within a metadata record Objectives:
1. Add BDP elements in Metavist 2. Retrieve taxonomic information from the
Integrated Taxonomic Information System (ITIS) 3. Find keywords using the Biocomplexity
Thesaurus
Additional biological elements define: Taxonomy Methodology Analytical Tools
Document three types of data sets: Explicitly biological Biological and geospatial Explicitly geospatial
The Biological Data Profile
Where are Biological Elements Added?
Section 1 Identification Information
Section 2 Data Quality Information
Section 6 Distribution Information
Section 9 Time Period Information
Identification Information (Section 1)Identification Information (Section 1)
1.5 Spatial Domain:1.5 Spatial Domain: BDP 1.5.1BDP 1.5.1 Description of Geographic Description of Geographic
Extent:Extent: Short description of the geographic aerial domain of Short description of the geographic aerial domain of
the data set. This is especially important when the the data set. This is especially important when the extent of the data set is not well described by the extent of the data set is not well described by the "Bounding Rectangle Coordinates"."Bounding Rectangle Coordinates".
BDP 5.2BDP 5.2 AltitudeAltitude Altitudinal domain of data setAltitudinal domain of data set
BDP1.7 BDP1.7 Taxonomy(MA)Taxonomy(MA)
BDP1.7.1 BDP1.7.1 Taxon/Keywords (M)Taxon/Keywords (M)
BDP1.7.2BDP1.7.2 Taxonomic System (MA)Taxonomic System (MA)
BDP1.7.3BDP1.7.3 General Taxonomic Coverage (O)General Taxonomic Coverage (O) description of range of taxa…“all vascular plants were
identified to family or species, mosses and lichens were identified as moss or lichen”
BDP1.7.4BDP1.7.4 Taxonomic Classification (M)Taxonomic Classification (M)
BDP.1.7.1 BDP.1.7.1 Keywords/Taxon (M)Keywords/Taxon (M)
Taxonomic Keyword ThesaurusTaxonomic Keyword Thesaurus (M)(M) Consider Biocomplexity ThesaurusConsider Biocomplexity Thesaurus
Taxonomic Keywords (M)Taxonomic Keywords (M) Domain: collection, multiple species, single Domain: collection, multiple species, single
species, amphibians, animals, bacteria, fungi, species, amphibians, animals, bacteria, fungi, invertebrates, lichens, mammals, mosses, plants, invertebrates, lichens, mammals, mosses, plants, protists, reptiles, vegetation, vertebrates, viruses, protists, reptiles, vegetation, vertebrates, viruses, free text.free text.
BDP.1.7.2 BDP.1.7.2 Taxonomic System (MA)Taxonomic System (MA)
Classification System/Authority (M)Classification System/Authority (M)Citation Citation
ModificationsModifications
Identification Reference(MA)Identification Reference(MA)
CitationCitation
Identifier(O)Identifier(O)
ContactContact
BDP.1.7.2 BDP.1.7.2 Taxonomic System (MA)Taxonomic System (MA)
Taxonomic Procedures (M)Taxonomic Procedures (M)
Taxonomic Completeness (MA)Taxonomic Completeness (MA)
Vouchers (MA)Vouchers (MA)
Specimen Type (M)Specimen Type (M)
Domain: herbarium specimens, blood samples, Domain: herbarium specimens, blood samples, photographs, free textphotographs, free text
Repository - Contact (M)Repository - Contact (M)
BDP1.7.4BDP1.7.4 Taxonomic Classification (M)Taxonomic Classification (M)
Taxon Rank NameTaxon Rank Name
Taxon Rank ValueTaxon Rank Value
Applicable Common NameApplicable Common Name
Taxon Rank NameTaxon Rank Name
Taxon Rank ValueTaxon Rank Value
Applicable Common NameApplicable Common Name
Repeat as necessaryRepeat as necessary
Tools Supporting the Biological Data Profile
To View BDPs: NPS Extension
To Create BDPs: TKME and Metavist support the BDP
TKME is available for download at http://geology.usgs.gov/tools/metadata/
Metavist can be ordered online at http://ncrs.fs.fed.us/pubs/viewpub.asp?key=2737
BDP not supported in ArcCatalogBDP not supported in ArcCatalog NPS Metadata ExtensionNPS Metadata Extension
MP includes configuration file for parsingMP includes configuration file for parsing Adds FGDC NBII stylesheet for view BPD metadata Adds FGDC NBII stylesheet for view BPD metadata
recordsrecords
The Biological Data Profile
Display Biological Data Display Biological Data Profile metadata records Profile metadata records using the FGDC NBII using the FGDC NBII stylesheetstylesheet
Integrated Taxonomic Information System (ITIS)
Cooperative effort Standardized reference for scientific names
for plants and animals of North America. http://www.itis.usda.gov/
Controlled Vocabularies – Keyword Controlled Vocabularies – Keyword ThesaurusThesaurusNBII Biocomplexity ThesaurusNBII Biocomplexity Thesaurus
ISO Topic CategoriesISO Topic Categories
Global Change Master Directory Keyword ListGlobal Change Master Directory Keyword List
AFSA Thesaurus – aquatic science and fisheriesAFSA Thesaurus – aquatic science and fisheries
CERES – integrated environmental thesaurusCERES – integrated environmental thesaurus
EnVoc – UN Environmental Information ExchangeEnVoc – UN Environmental Information Exchange
NBII recommends using the Biocomplexity NBII recommends using the Biocomplexity Thesaurus for biological metadata records.Thesaurus for biological metadata records.
ExerciseExercise
1. Using the Web Browser on your 1. Using the Web Browser on your computer, go to:computer, go to: http://www.itis.usda.gov/http://www.itis.usda.gov/
Search for information on your favorite organism:Search for information on your favorite organism:
Scientific or Common NameScientific or Common Name
Appropriate KingdomAppropriate Kingdom
Click on the link under Search Results for details on Click on the link under Search Results for details on the Taxonomic Hierarchythe Taxonomic Hierarchy
2.2. Go to the NBII Biocomplexity Thesaurus site: Go to the NBII Biocomplexity Thesaurus site: http://thesaurus.nbii.gov/SearchNBIIThesaurus/http://thesaurus.nbii.gov/SearchNBIIThesaurus/
Find key words describing your organism or a Find key words describing your organism or a hypothetical biological datasethypothetical biological dataset
Section 1Section 1 Section 1.5Section 1.5
BDP 1.5.1BDP 1.5.1
BDP 1.5.2.1-3BDP 1.5.2.1-3
Now its your turn….
Enter the keywords from you NBII Biocomplexity Thesaurus search into Metavist
Use the information from your ITIS search to add taxonomic information in Metavist
Review Section 1 BDP Elements:
Spatial Extent Keywords Taxonomic Information
Tools supporting the BDP NPS extension TKME Metavist
Web Support ITIS NBII Biocomplexity Thesaurus