Occurrence record: CLEP:CLEP 00116

LivingSpecimen of Bacteria recorded on 2013-06-19

API

Dataset

Data partner	Fundação Oswaldo Cruz
Data resource	Fiocruz/CLEP - Coleção de Leptospira
institutionCode	Fundação Oswaldo Cruz Supplied institution code "Fundação Oswaldo Cruz (Fiocruz)"
collectionCode	Coleção de Leptospira Supplied collection code "CLEP"
catalogNumber	CLEP 00116
occurrenceID	BR:Fiocruz:CLEP:00116
basisOfRecord	Living specimen
preparations	Criopreservação em nitrogênio líquido e freezer -80oC e preservação em meio semi sólido EMJH.
Identified date	2013-09-06
Collector	Marluce Aparecida Assunção Oliveira
recordNumber	38863
typeStatus	Isolado Clínico
License	CC-BY-NC
Rightsholder	Coleção de Leptospira (CLEP)
samplingProtocol	hemocultura em meio EMJH
associatedTaxa	homem
occurrenceStatus	present
Abcd identification qualifier	Not provided
dateIdentified	2013-09-06

Event

Occurrence date	2013-06-19 Supplied as year:2013 month:06 day:19
samplingProtocol	hemocultura em meio EMJH
Date precision	Day

Taxonomy

scientificName	Bacteria Supplied scientific name "Leptospira interrogans sorogrupo Icterohaemorrhagiae ser. Copenhageni"
taxonRank	kingdom Supplied as "species"
Kingdom	Bacteria Supplied as "Bactéria"
Genus	Leptospira
Species	Leptospira interrogans
associatedTaxa	homem
Taxonomic issue	No issues
Name match metric	Higher taxon match The match is based on the higher level classification.
Name parse type	SCIENTIFIC

Geospatial

Country	Brasil

Additional properties

references	https://portal.fiocruz.br/pt-br/content/cole%C3%A7%C3%B5es-biol%C3%B3gicas

User flagged issues

Data quality tests

Test name	Result
Kingdom not recognised	Failed
Type status not recognised	Failed
Occurrence status assumed to be present	Warning
Name not in national checklists	Warning
Show/Hide 19 passed properties
Basis of record not supplied	Passed
Basis of record badly formed	Passed
Invalid collection date	Passed
Incomplete collection date	Passed
Identification date before occurrence date	Passed
First of the month	Passed
Missing identification date	Passed
Collector name unparseable	Passed
Missing catalogue number	Passed
Data are generalised	Passed
Collection code not recognised	Passed
Institution code not recognised	Passed
Missing taxonomic rank	Passed
Name not supplied	Passed
Name not recognised	Passed
Invalid scientific name	Passed
Country inferred from coordinates	Passed
Supplied coordinates centre of state	Passed
Coordinates centre of country	Passed
Show/Hide 11 missing properties
Missing an identification qualifier	Missing
Missing name of person who identified the specimen/observation	Missing
Missing identification references	Missing
Decimal coordinates not supplied	Missing
Location not supplied	Missing
Missing geodetic datum	Missing
Missing name of person who georeferenced the occurrence	Missing
Missing georeferenced protocol	Missing
Missing georeferenced sources	Missing
Missing georeferenced verification status	Missing
Missing georeference date	Missing
Show/Hide 52 tests that have not been run
Coordinates dont match supplied state	Unchecked (lack of data)
Habitat incorrect for species	Unchecked (lack of data)
Min and max altitude reversed	Unchecked (lack of data)
Coordinate uncertainty not valid	Unchecked (lack of data)
Altitude value non-numeric	Unchecked (lack of data)
Coordinates converted from UTM	Unchecked (lack of data)
unrecognisedOccurrenceStatus	Unchecked (lack of data)
Coordinates derived from verbatim coordinates	Unchecked (lack of data)
Date precision invalid	Unchecked (lack of data)
Min and max depth reversed	Unchecked (lack of data)
No collection date supplied	Unchecked (lack of data)
Georeferenced after occurrence date	Unchecked (lack of data)
Altitude value supplied in feet	Unchecked (lack of data)
First of the year	Unchecked (lack of data)
Missing coordinate precision	Unchecked (lack of data)
Latitude Longitude calculated from grid reference	Unchecked (lack of data)
Longitude is negated	Unchecked (lack of data)
Day and month transposed	Unchecked (lack of data)
Unrecognized geodetic datum	Unchecked (lack of data)
First of the century	Unchecked (lack of data)
Invalid geodetic datum	Unchecked (lack of data)
Coordinates dont match supplied country	Unchecked (lack of data)
Depth value supplied in feet	Unchecked (lack of data)
Homonym issues with supplied name	Unchecked (lack of data)
Supplied coordinates are zero	Unchecked (lack of data)
Media unrepresentative	Unchecked (lack of data)
Cultivated / escapee	Unchecked (lack of data)
Coordinates converted to WGS84	Unchecked (lack of data)
Coordinate precision not valid	Unchecked (lack of data)
Geodetic datum assumed WGS84	Unchecked (lack of data)
Badly formed altitude	Unchecked (lack of data)
Possible duplicate record	Unchecked (lack of data)
Precision / range mismatch	Unchecked (lack of data)
Unable to convert UTM coordinates	Unchecked (lack of data)
Resource taxonomic scope mismatch	Unchecked (lack of data)
Higher taxonomy missing	Unchecked (lack of data)
Coordinate precision and uncertainty transposed	Unchecked (lack of data)
Coordinates are transposed	Unchecked (lack of data)
Supplied country not recognised	Unchecked (lack of data)
Unparseable verbatim coordinates	Unchecked (lack of data)
Coordinates are out of range for species	Unchecked (lack of data)
Coordinate uncertainty not specified	Unchecked (lack of data)
Altitude out of range	Unchecked (lack of data)
Media unrepresentative for taxon	Unchecked (lack of data)
Image URL invalid	Unchecked (lack of data)
Zero longitude	Unchecked (lack of data)
Depth out of range	Unchecked (lack of data)
Decimal latitude/longitude conversion failed	Unchecked (lack of data)
Latitude is negated	Unchecked (lack of data)
Zero latitude	Unchecked (lack of data)
Depth value non-numeric	Unchecked (lack of data)
Outside expert range for species	Unchecked (lack of data)

Group	Field Name	Original Value	Processed Value
Classification	Name parse type		SCIENTIFIC
	Name match metric		higherMatch
	scientificName	Leptospira interrogans sorogrupo Icterohaemorrhagiae ser. Copenhageni	Bacteria
	taxonConceptID		395708
	Kingdom id		395708
	Left		566353
	kingdom	Bactéria	Bacteria
	genus	Leptospira
	taxonRank	species	kingdom
	specificEpithet	interrogans
	Taxonomic issue		["noIssue"]
	Taxon rank id		1000
	Right		568063
Event	Date precision		Day
	eventDate		2013-06-19
	year	2013	2013
	day	19	19
	month	06	06
Identification	Abcd identification qualifier		Not provided
	dateIdentified	2013-09-06	2013-09-06
	identificationQualifier		Not provided
	typeStatus	Isolado Clínico
Occurrence	occurrenceID	BR:Fiocruz:CLEP:00116
	basisOfRecord	LivingSpecimen	LivingSpecimen
	recordedBy	Marluce Aparecida Assunção Oliveira	Marluce Aparecida Assunção Oliveira
	modified	2022-09-23	2022-09-23
	Rightsholder	Coleção de Leptospira (CLEP)
	samplingProtocol	hemocultura em meio EMJH
	associatedTaxa	homem
	recordNumber	38863
	institutionCode	Fundação Oswaldo Cruz (Fiocruz)
	occurrenceStatus		present
	preparations	Criopreservação em nitrogênio líquido e freezer -80oC e preservação em meio semi sólido EMJH.<br />
	catalogNumber	CLEP 00116
	collectionCode	CLEP
Attribution	Collection uid		co43
	Data resource		Fiocruz/CLEP - Coleção de Leptospira
	Institution uid		in4
	Collection name		Coleção de Leptospira
	Data provider uid		dp4
	Institution name		Fundação Oswaldo Cruz
	license		CC-BY-NC
	Provenance		Published dataset
	Data resource uid	dr697
	Data partner		Fundação Oswaldo Cruz
Location	country	Brasil	Brasil

Occurrence record: CLEP:CLEP 00116

Dataset

Event

Taxonomy

Geospatial

Additional properties

User flagged issues

Data quality tests

- flagged by