Amphibian chytrid fungus (Batrachochytrium dendrobatitis) prevalence surveys June til July 2011 at La Suerte, Costa Rica

Metadata also available as

Metadata:


Identification_Information:
Citation:
Citation_Information:
Originator: Spangler, M., Huettmann, F.
Publication_Date: 20120914
Title:
Amphibian chytrid fungus (Batrachochytrium dendrobatitis) prevalence surveys June til July 2011 at La Suerte, Costa Rica
Edition: 1
Geospatial_Data_Presentation_Form: database
Publication_Information:
Publication_Place: Omaha's Henry Doorly Zoo
Publisher: Mark Spangler
Other_Citation_Details: This dataset is collected opportunistically.
Online_Linkage: <http://biofinity.unl.edu/HDZ/amphibian/>
Online_Linkage: (Requires access permission)
Description:
Abstract:
Batrachochytrium dendrobatidis (Bd) is the pathogenic, virulent, and transmissible chytrid fungus responsible for chytridiomycosis, an emerging invasive disease that infects amphibians and is the cause of widespread global declines and extinctions. Latin America represents a region where amphibian diversity is high and declines due to chytridiomycosis have been well documented. Although there are no well documented population collapses in northeastern Costa Rica (they are more typical of the central montane ecosystems), fragments of this lowland rainforest area are thought to show moderate to high probability of Bd occurrence. This dataset consists of chytrid surveys done for La Suerte, Costa Rica, Central America (latitude 10.43827, longitude -83.78617). The following time period was covered by the surveys: 4th June thru 15th June 2011. The following 16 species were sampled (usually 10 samples per species were taken) and referenced in time and space: Agalychnis callidryas, Agalychnis saltator, Cochranella pulverata, Craugastor fitzingeri, Craugastor polyptychus, Dendrobates auratus, Dendropsophus ebraccatus, Dendropsophus phlebodes, Hypsiboas rufitelus, Leptodactylus pentadactylus, Lithobates vaillanti, Oophaga pumilio, Pristimantis ridens, Rhinella marina, Scinax elaeochrous, and Smilisca puma. The data are organized in an MS Excel sheet and provide all relevant details as columns following the basic DarwinCore format. Results of the lab analysis are available upon request by the senior author and all details can be found online with the Omaha zoo data website (<http://biofinity.unl.edu/HDZ/amphibian/>). The reported species data provide 'presence only' (and can provide derived absence) information. These data were not obtained from any research design, do not indicate survey effort, and do not directly represent abundances or population trends. Findings do, however, provide important information in regards to prevalence levels, species infected, and spatial distributions, provided in a digital format.
Purpose:
The purpose of this study was to provide a first documentation of chytrid fungus Batrachocytrium dendrobatitis (Bd) prevalence at a site that otherwise had no preexisting data, is widely underpublished, and is of conservation relevance. Findings from the results will provide important information in regards to Bd prevalence levels, amphibian species infected, and spatial distributions, provided in a digital format.
Supplemental_Information: See details with Maderas Rainforest Conservancy website
Time_Period_of_Content:
Time_Period_Information:
Range_of_Dates/Times:
Beginning_Date: 20110604
Ending_Date: 20110615
Currentness_Reference: ground condition
Status:
Progress: Complete
Maintenance_and_Update_Frequency: None planned
Spatial_Domain:
Description_of_Geographic_Extent: La Suerte Biological Field Station, Costa Rica
Bounding_Coordinates:
West_Bounding_Coordinate: -83.78871
East_Bounding_Coordinate: -83.77977
North_Bounding_Coordinate: 10.45024
South_Bounding_Coordinate: 10.43391
Bounding_Altitudes:
Altitude_Minimum: 60
Altitude_Maximum: 70
Altitude_Distance_Units: meters
Keywords:
Theme:
Theme_Keyword_Thesaurus: None
Theme_Keyword: opportunistic survey
Theme_Keyword: presence-only data
Theme_Keyword: amphibian
Theme_Keyword: frog
Theme_Keyword: disease
Theme_Keyword: prevalence
Theme_Keyword: chytrid
Theme_Keyword: chytridiomycosis
Theme_Keyword: Bd
Theme_Keyword: Batrachochytrium dendrobatidis
Theme_Keyword: fungus
Theme_Keyword: Costa Rica
Theme_Keyword: Central America
Theme_Keyword: low elevation rainforest
Theme_Keyword: Agalychnis callidryas red-eyed tree frog
Theme_Keyword: Agalychnis saltator parachuting leaf frog
Theme_Keyword: Cochranella pulverata powdered glass frog
Theme_Keyword: Craugastor fitzingeri common rain frog
Theme_Keyword: Craugastor polyptychus Bransford's litter frog
Theme_Keyword: Dendrobates auratus green and black poison dart frog
Theme_Keyword: Dendropsophus ebraccatus harlequin tree frog
Theme_Keyword: Dendropsophus phlebodes San Carlos tree frog
Theme_Keyword: Hypsiboas rufitelus scarlett-webbed tree frog
Theme_Keyword: Leptodactylus pentadactylus smoky jungle frog
Theme_Keyword: Lithobates vaillanti Vaillant's frog
Theme_Keyword: Oophaga pumilio strawberry poison dart frog
Theme_Keyword: Pristimantis ridens pygmy rainfrog
Theme_Keyword: Rhinella marina cane toad
Theme_Keyword: Scinax elaeochrous olive-snouted tree frog
Theme_Keyword: Smilisca puma tawny tree frog
Place:
Place_Keyword_Thesaurus: None
Place_Keyword: La Suerte Biological Field Station
Place_Keyword: Costa Rica
Place_Keyword: Central America
Place_Keyword: low elevation rainforest
Temporal:
Temporal_Keyword_Thesaurus: None
Temporal_Keyword: wet season
Temporal_Keyword: June
Temporal_Keyword: 2011
Taxonomy:
Keywords/Taxon:
Taxonomic_Keyword_Thesaurus: None
Taxonomic_Keywords: multiple species
Taxonomic_Keywords: single species
Taxonomic_Keywords: amphibians
Taxonomic_Keywords: animals
Taxonomic_Keywords: fungi
Taxonomic_Keywords: vertebrates
Taxonomic_Keywords: Agalychnis callidryas
Taxonomic_Keywords: Agalychnis saltator
Taxonomic_Keywords: Cochranella pulverata
Taxonomic_Keywords: Craugastor fitzingeri
Taxonomic_Keywords: Craugastor polyptychus
Taxonomic_Keywords: Dendrobates auratus
Taxonomic_Keywords: Dendropsophus ebraccatus
Taxonomic_Keywords: Dendropsophus phlebodes
Taxonomic_Keywords: Hypsiboas rufitelus
Taxonomic_Keywords: Leptodactylus pentadactylus
Taxonomic_Keywords: Lithobates vaillanti
Taxonomic_Keywords: Oophaga pumilio
Taxonomic_Keywords: Pristimantis ridens
Taxonomic_Keywords: Rhinella marina
Taxonomic_Keywords: Scinax elaeochrous
Taxonomic_Keywords: Smilisca puma
Taxonomic_Keywords: Batrachochytrium dendrobatidis
Taxonomic_System:
Classification_System/Authority:
Classification_System_Citation:
Citation_Information:
Originator: Integrated Taxonomic Information System
Publication_Date: 2011
Title: Integrated Taxonomic Information System
Geospatial_Data_Presentation_Form: database
Online_Linkage: <http://www.itis.gov/>
Classification_System/Authority:
Classification_System_Citation:
Citation_Information:
Originator: INBio Costa Rica
Publication_Date: 2011
Title: Species of Costa Rica
Geospatial_Data_Presentation_Form: database
Online_Linkage: <http://www.inbio.ac.cr/en/>
Taxonomic_Procedures:
Species were identified in the field using local field guides, confirmed with photos and, when necessary, by experts in the field. If available, species are named according to ITIS. If not available, species are named according to INBio Costa Rica. These are raw data and species IDs are reliable, but a check with genetic and taxonomic experts is always advised for confirmation and for latest updates.
Taxonomic_Classification:
Taxon_Rank_Name: Kingdom
Taxon_Rank_Value: Fungi
Taxonomic_Classification:
Taxon_Rank_Name: Division
Taxon_Rank_Value: Myxomycota
Taxonomic_Classification:
Taxon_Rank_Name: Class
Taxon_Rank_Value: Phycomycota
Taxonomic_Classification:
Taxon_Rank_Name: Order
Taxon_Rank_Value: Chytridiales
Taxonomic_Classification:
Taxon_Rank_Name: Family
Taxon_Rank_Value: Rhizidiaceae
Access_Constraints: None, contact primary author for best access.
Use_Constraints: None, contact primary author for best use.
Point_of_Contact:
Contact_Information:
Contact_Person_Primary:
Contact_Person: Mark Spangler
Contact_Address:
Address_Type:
City:
State_or_Province:
Postal_Code:
Contact_Voice_Telephone: (402) 873-2223
Contact_Electronic_Mail_Address: m_spang07@hotmail.com
Contact_Instructions: Contact via e-mail. Phone if necessary
Browse_Graphic:
Browse_Graphic_File_Name: NA
Browse_Graphic_File_Description:
A map of the study area with geo-referenced sample locations can be obtained from the authors.
Browse_Graphic_File_Type: JPEG
Data_Set_Credit:
La Suerte Biological Field Station R. Molina family
Security_Information:
Security_Classification_System: NA
Security_Classification: Unclassified
Security_Handling_Description: NA
Native_Data_Set_Environment: IBM PC Microsoft Excell
Cross_Reference:
Citation_Information:
Originator: Integrated Taxonomic Information System
Publication_Date: 2012
Title: Integrated Taxonomic Information System
Geospatial_Data_Presentation_Form: database
Online_Linkage: <http://www.itis.gov/>
Cross_Reference:
Citation_Information:
Originator: Mark Spangler
Publication_Date: 2011
Title: Omaha's Henry Doorly Zoo Amphibian Database
Geospatial_Data_Presentation_Form: database
Online_Linkage: <http://biofinity.unl.edu/HDZ/amphibian/>
Analytical_Tool:
Analytical_Tool_Description:
None. Photos and field guides, ITIS classification
Tool_Access_Information:
Tool_Access_Instructions:

Data_Quality_Information:
Attribute_Accuracy:
Attribute_Accuracy_Report:
These data are collected by primary author with help from colleagues. When necessary, species identification verified by local field guide authors.
Logical_Consistency_Report: NA
Completeness_Report: Data are complete for the survey dates compiled.
Positional_Accuracy:
Horizontal_Positional_Accuracy:
Horizontal_Positional_Accuracy_Report:
Data were collected in the vicinity of c. 5 km around the field station. The data include GPS coordinate measurements for the field station using Garmin eTrex Venture HC in latitude longitude WGS 84.
Lineage:
Methodology:
Methodology_Type: Field
Methodology_Description:
Anuran specimens were sampled opportunistically and represent presence-only data. Data was collected according to the protocol set forth by the Omaha Henry Doorly Zoo in their Amphibian Conservation Education Project. Sterile nitrile gloves were worn before handling any specimen. The ventral surface of the amphibian was swabbed with cotton and the sample placed in one milliliter of 70 percent ethanol. Each vial was labeled with a unique identification code. A photograph was taken of each sampled frog for identification purposes. Frogs were identified with the use of local field guides and, in some instances, were verified by the authors of the guides. Additional data collected include date and time of sampling, field site sampled and microhabitat, air and water (where applicable) temperature, and longitude and latitude of sampling.
Methodology_Citation:
Citation_Information:
Originator: Omaha's Henry Doorly Zoo
Publication_Date: 2011
Title: Global Amphibian Crisis
Geospatial_Data_Presentation_Form: document
Online_Linkage:
<http://www.omahazoo.com/conservation/amphibian/global-crisis/html>
Process_Step:
Process_Description:
Data were collected in the field according to protocol and keyed into MS Excel worksheet while in the field.
Process_Date: Unknown
Process_Contact:
Contact_Information:
Contact_Person_Primary:
Contact_Person: Mark Spangler
Contact_Address:
Address_Type:
City:
State_or_Province:
Postal_Code:
Contact_Voice_Telephone:

Spatial_Data_Organization_Information:
Indirect_Spatial_Reference: La Suerte Biological Field Station, Costa Rica, Central America
Direct_Spatial_Reference_Method: Point

Spatial_Reference_Information:
Horizontal_Coordinate_System_Definition:
Geographic:
Latitude_Resolution: 0.00001
Longitude_Resolution: 0.00001
Geographic_Coordinate_Units: Decimal degrees
Geodetic_Model:
Horizontal_Datum_Name: World Geodetic System of 1984
Ellipsoid_Name: World Geodetic System of 1984
Semi-major_Axis: 6378137
Denominator_of_Flattening_Ratio: 298.25722210088
Vertical_Coordinate_System_Definition:
Altitude_System_Definition:
Altitude_Datum_Name: North American Vertical Datum of 1988
Altitude_Distance_Units: meters
Altitude_Encoding_Method: Attribute values

Entity_and_Attribute_Information:
Detailed_Description:
Entity_Type:
Entity_Type_Label: ChytridCostaRicaJune2011
Entity_Type_Definition:
MS Excel worksheet. Chytrid survey data with information on date, time, species, GPS coordinates, air temperature, water temperature, and more. Columns are self-explanatory.
Entity_Type_Definition_Source: Mark Spangler
Attribute:
Attribute_Label: DarwinCore columns
Attribute_Definition:
The following columns are available for each of the sightings and samples. It follows a DarwinCore database format:

SampleID Day Month Year Time SciNameITIS TSN CommonName AirTemp WaterTemp Longitude Latitude ChytridPresAbs

Attribute_Definition_Source:
By authors, and following Darwin Core format for online data delivery.
Attribute_Measurement_Frequency: Unknown

Distribution_Information:
Distributor:
Contact_Information:
Contact_Person_Primary:
Contact_Person: Mark Spangler
Contact_Address:
Address_Type:
City:
State_or_Province:
Postal_Code:
Contact_Voice_Telephone: (402) 873-2223
Contact_Electronic_Mail_Address: m_spang07@hotmail.com
Contact_Instructions: Contact via e-mail. Phone if necessary.
Distribution_Liability: None
Standard_Order_Process:
Digital_Form:
Digital_Transfer_Information:
Format_Name: XLS
Format_Information_Content:
This dataset consists of an IBM PC MS Excel worksheet with data on chytrid prevalence at La Suerte, Costa Rica.
File_Decompression_Technique: No compression applied
Digital_Transfer_Option:
Online_Option:
Computer_Contact_Information:
Network_Address:
Network_Resource_Name: e-mail
Fees: None
Ordering_Instructions: Contact primary author
Custom_Order_Process:
Contact via e-mail. Phone if necessary.
Technical_Prerequisites: Computer IBM PC compatible MS Excel

Metadata_Reference_Information:
Metadata_Date: 20120914
Metadata_Contact:
Contact_Information:
Contact_Person_Primary:
Contact_Person: Falk Huettmann
Contact_Organization: University of Alaska Fairbanks
Contact_Position: -EWHALE lab-
Contact_Address:
Address_Type: mailing and physical
Address: 419 Irving I
Address: EWHALE lab
Address: Institute of Arctic Biology, Biology and Wildlife Department
Address: University of Alaska Fairbanks (UAF)
City: Fairbanks
State_or_Province: Alaska
Postal_Code: 99775
Country: USA
Contact_Voice_Telephone: (907) 474-7882
Contact_Electronic_Mail_Address: fhuettmann@alaska.edu
Contact_Instructions: By email, phone, or regular mail.
Metadata_Standard_Name:
FGDC Biological Data Profile of the Content Standard for Digital Geospatial Metadata
Metadata_Standard_Version: FGDC-STD-001.1-1999
Metadata_Access_Constraints: None
Metadata_Use_Constraints: None
Metadata_Security_Information:
Metadata_Security_Classification_System: None
Metadata_Security_Classification: Unclassified
Metadata_Security_Handling_Description: None

Generated by mp version 2.8.25 on Thu Aug 30 22:02:49 2012