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