ABCD Schema - Task Group on
Access to Biological Collection Data

A joint CODATA and TDWG initiative supported by GBIF


First Workshop, Santa Barbara, June 11 - 13, 2001

List of data items compiled during the workshop

A rough hierarchical list of data items which should be considered in the XML schema to be developed. 

These are notes from the discussion, this is NOT EVEN A DRAFT standard document yet!

Conventions | Hierarchy | Full dataset | Component dataset | Unit | Gathering event | Site | Identification | Notes

1. Conventions

Items marked [e*] can occur 0 to many times, [e+] marks 1 to many, [e] exactly 1, [e?] 0 or 1.

2. General hierarchy

One to several "Unit dataset" (specimens, observation records, samples, etc.) are nested within "Component Datasets", one to several of which can be nested into a "Full returned dataset":

3. Data items of the "Full returned dataset"

Full returned dataset [e]			
	Version of Standard		
	Supplier [e]		
		Supplier text [e?]
		Supplier code [e?]	
		Name	
		URL	
		Address [e]	
			Line1
			Line2
			Line3
			Line4
			Town
			Country
	Dataset annotation		
	Component dataset [e*]		

4. Data items of the "Component dataset"

Component dataset [e*]			
	Dataset or Collection or subcollection name [e]		
	Originator [e?]		
		Originator text	
		Originator code [e?]	
		Name 	
		URL	
		Address [e]	
			Line1
			Line2
			Line3
			Line4
			Town
			Country
		Contact [e*]	
			Name
			Tel
			Fax
			Email
	Owner/Custodian [e]		
		Owner text	
		Owner code [e?]	
		Name 	
		URL	
		Address [e]	
			Line1
			Line2
			Line3
			Line4
			Town
			Country
	IPR etc. [e?]		
		Dataset acknowledgements	
		Disclaimer	
		Usage restrictions	
		Purpose	
		Logo	
	No of unit records in the result set [e?]		
	No of unit records in the queried database [e?]		
	Date of extraction [e?]		
	Database version [e?] 		
	Unit dataset [e+]

5. Data items of the "Unit dataset"

Unit dataset			
	Unit record unique ID		
	Unit physical location / custodian institution		
	Unit text [?]		
	Unit identifier or code [*]		
	Date/time of last modification of Unit record [?]		
	Originator (depositor, other bot. garden source, Originating Institution)		
	IPR		
	?? Surrogate		
	?? Unit association/assemblage/ ..		
	Substrate/host		
	Owner		
	Named collection		
	Unit further descriptive information (morphology, etc.)		
	No. of ind. in the collection 		
		exact / at least / approx.	
	Abundance / Density at collection site		
		Qualifier , Method	
	Unit availability		
	Unit condition (broken etc.)		
	Unit "nature" or preservation mode		
		virtual vs. object	
		preservation mode	
		part	
		creation process	
	Domain-specific unit data		
		Zoology	
			Age
			Phase
			Sex
			ZOOPOSS
		Botany	
			POSS (introduction or naturalization status)
		Mycology	
		Botanical gardens	
			hardiness
		Culture collections	
			growth conditions
			culture medium
			anaerobic/aerobic
			temperature
			applications
			literature references
			hazard
	?? Process		
	Type		
		Type status	
		Type qualifier	
		Basionym	
	Gathering Event [e?]		
	Collection site [e?]		
	Identification [n]		

5a. Gathering event data

Gathering Event [e?]
	Project name [e*]
		see BioCISE model p. 521
	Gathering Agent (Person, etc.) [e?]
		Main collector(s) [e?]
		Additional collector(s) [e*]
	Gathering code (referring to [main] agent) [e?]
	Date/Time [e?]
		NOTE: What if unknown??
		Calendar (Gregorian, Julian, Muslim, Hebrew etc.)
		Date text [e?]
		Modifier [e?]
		Begin [e?]
			Year [e?]
			Month [e?]
			Day [e?]
		End [e?]
			Year [e?]
			Month [e?]
			Day [e?]
	Gathering Site (Geography group HISPID) [e+]

5b. Gathering site data

Gathering Site (Geography group HISPID) [e?]
	Country [e?]
		Country name (ISO) [e?]
		Language [e*]
		ISO 2-letter [e?]
		ISO 3-letter [e?]
	Named area [e?]
		Named area [e*]
			area class (dept., Prov. ) [e?]
			area name [e+]
		Area detail [e?]
		Nearest named place [e?]
		Language [e*]
	Shape
		Shape coordinate system
		Shape coordinates
	Footprint URL
	Coordinates (Lat/Long) [e?]
		Decimal degrees [e?]
			Long [e?]
			Lat [e?]
		DMS
			Longitude
				Degrees
				Min
				Sec
				N/S
			Latitude
				Degrees
				Min
				Sec
				N/S
		Method [see HISPID] 
		Datum
		ISOAccuracy
		Accuracy statement 
	Grid-coordinates
		Grid cell system
		Grid cell code
		Qualifier
		Method
	UTM
		UTM Zone
		UTMEW
		UTMNS
		Method
	Altitude
		Value
		Units
		Accuracy
		Method
	Depth/Height (see BioCISE p. 533, tbl. 7)
		Value
		Unit
		Accuracy
		Method
	Habitat/Ecology
		Geo-ecological classification (see BioCISE p.527)????
			Category 
			Value
			Bibliographical reference 
		Geomorphology
		Substrate 
		Synecology
		Stratigraphy
			Classification system
			Stratum
	Notes

5c. Identification data

Identification [e+]			
	Preferred [e]		
	Identification event [e?]		
		Identifier (agent)	
		Identification according to (LitRef)	
		Taxon identification qualifier	
		Verification level (HISPID vlev)	
		Date	
			vdate	
		Notes	
		Identification found in (LitRef)	
		Identification type [see BioCISE p 556]	
		Name addendum	
	Taxon identified [e]		
		Code	
		Taxon text	
		Higher taxon [e*]	
			With recommendation what to use for different groups.	
		Genus or monomial	
		first epithet	
		second epithet	
		Rank	
		Nomenclatural authority citation	
			Basionym author
			Botanical (new) combination author
			ex author
			Year (zool. & bact.)
			Page number (bact.)
		Plants or animals	
			Hybrid/Graft marker
			Hybrid/Graft marker rank
			Parent 1
			Parent 2
			Common name
				Name
				Language
		Animals	
			Breed or race
		Higher plants 	
			Cultivar group
			Cultivar
			Aggr. marker
			Unnamed taxon phrase name part
		Fungi	
			Life stage [e?] added from comment by Paul Kirk
			Sexual stage added from comment by Paul Kirk
			? Anamorph / Teleomorph
			? Lichen algal symbiont
			Lichen - marker
			Lichen morphotype symbiont name, added from comment by Paul Kirk
		Bacteriological epithets	
			strain
			pathovar
			phagovar
			biovar
			ecovar
			Virus names
			Viral name phrase
			Synonym (e.g. abbreviation)

Notes

Shape and UTM were added following comments from John Wieczorek. 

We should consider if age, stage, and sex are really data belonging to the unit, or if these should go under identification.


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This page last edited on 06.03.2005