Blood Parasite Infection Data from Blue-winged Teal, Canada (Alberta, Saskatchewan) and USA (Texas, Louisiana), 2012-2013

Metadata:

Identification_Information:
Citation:
Citation_Information:
Originator: Reed, J.A. (ORCID: 0000-0002-3239-6909)
Publication_Date: 2017
Title:
Blood Parasite Infection Data from Blue-winged Teal, Canada (Alberta, Saskatchewan) and USA (Texas, Louisiana), 2012-2013
Geospatial_Data_Presentation_Form: spreadsheet
Series_Information:
Series_Name: none
Issue_Identification: none
Publication_Information:
Publication_Place: Anchorage, AK
Publisher: U.S. Geological Survey, Alaska Science Center
Other_Citation_Details:
Please cite this dataset as: Reed, J.A. 2017. Blood Parasite Infection Data from Blue-winged Teal, Canada (Alberta, Saskatchewan) and USA (Texas, Louisiana), 2012-2013: U.S. Geological Survey data release, DOI: 10.5066/F79C6VMW
Online_Linkage: https://dx.doi.org/10.5066/F79C6VMW
Larger_Work_Citation:
Citation_Information:
Originator: Meixell, B.W.
Originator: Ramey, A.M.
Publication_Date: 201606
Title:
Examining the role of migratory birds in the movement of avian pathogens between and within continents
Geospatial_Data_Presentation_Form: web site
Series_Information:
Series_Name: none
Issue_Identification: none
Publication_Information:
Publication_Place: Anchorage, AK
Publisher: U.S. Geological Survey, Alaska Science Center
Online_Linkage: https://alaska.usgs.gov/portal/project.php?project_id=321
Description:
Abstract:
This data set includes age, sex, location, and blood parasite infection data from Blue-winged teal (Anas discors) captured in Canada (Alberta, Saskatchewan) and the USA (Texas, Louisiana) in 2012-2013. Infection data for three different genera of blood parasites are given as are GenBank accession numbers for genetic sequences obtained from positive infections.
Purpose:
These data provided a basis for a study to understand the detection, prevalence and transmission of avian hematozoa between North America and the neotropics.
Time_Period_of_Content:
Time_Period_Information:
Range_of_Dates/Times:
Beginning_Date: 201203
Ending_Date: 201308
Currentness_Reference: ground condition
Status:
Progress: Complete
Maintenance_and_Update_Frequency: None planned
Spatial_Domain:
Description_of_Geographic_Extent:
Collections were made in Canada in southern Alberta, southern Saskatchewan, and in the USA in the Gulf Coasts of Texas and Louisiana.
Bounding_Coordinates:
West_Bounding_Coordinate: -112.12
East_Bounding_Coordinate: -91.91
North_Bounding_Coordinate: 52.07
South_Bounding_Coordinate: 29.61
Keywords:
Theme:
Theme_Keyword_Thesaurus: USGS Metadata Identifier
Theme_Keyword: USGS:ASC77
Theme:
Theme_Keyword_Thesaurus: NASA GCMD Earth Science
Theme_Keyword: Biological Classification
Theme_Keyword: Animals/Vertebrates
Theme_Keyword: Birds
Theme_Keyword: Ducks/Geese/Swans
Theme:
Theme_Keyword_Thesaurus: ISO 19115 Topic Category
Theme_Keyword: Biota
Theme:
Theme_Keyword_Thesaurus: USGS CSA Biocomplexity Thesaurus
Theme_Keyword: Aquatic birds
Theme_Keyword: Waterfowl
Theme_Keyword: Genetic Diversity
Theme_Keyword: Phylogeny
Theme:
Theme_Keyword_Thesaurus: NIH MeSH Thesaurus
Theme_Keyword: Natural Science Disciplines
Theme_Keyword: Biological Science Disciplines
Theme_Keyword: Biology
Theme_Keyword: Genetics
Theme_Keyword: Disease
Place:
Place_Keyword_Thesaurus: USGS Geographic Names Information System
Place_Keyword: United States
Place_Keyword: Texas
Place_Keyword: Louisiana
Place:
Place_Keyword_Thesaurus: NGA GEOnet Names Server
Place_Keyword: Canada
Place_Keyword: Alberta
Place_Keyword: Saskatchewan
Taxonomy:
Keywords/Taxon:
Taxonomic_Keyword_Thesaurus: None
Taxonomic_Keywords: vertebrates
Taxonomic_System:
Classification_System/Authority:
Classification_System_Citation:
Citation_Information:
Originator: Integrated Taxonomic Information System
Publication_Date: Unknown
Title: Integrated Taxonomic Information System
Geospatial_Data_Presentation_Form: database
Series_Information:
Series_Name: Integrated Taxonomic Information System
Issue_Identification: TSN 39074
Publication_Information:
Publication_Place: online
Publisher: ITIS-North America
Other_Citation_Details:
Retrieved May 11, 2016, from the Integrated Taxonomic Information System on-line database https://www.itis.gov
Classification_System_Modifications: None
Identifier:
Contact_Information:
Contact_Organization_Primary:
Contact_Organization: U.S. Geological Survey Alaska Science Center
Contact_Address:
Address_Type: mailing and physical
Address: 4210 University Dr.
City: Anchorage
State_or_Province: AK
Postal_Code: 99508
Country: USA
Contact_Voice_Telephone: 907-786-7000
Taxonomic_Procedures:
Bird species were identified by collector in the field based on general appearance of feathers and plumage. No vouchers were collected.
Taxonomic_Classification:
Taxon_Rank_Name: Kingdom
Taxon_Rank_Value: Animalia
Applicable_Common_Name: Animal
Applicable_Common_Name: animaux
Applicable_Common_Name: animals
Taxonomic_Classification:
Taxon_Rank_Name: Subkingdom
Taxon_Rank_Value: Bilateria
Taxonomic_Classification:
Taxon_Rank_Name: Infrakingdom
Taxon_Rank_Value: Deuterostomia
Taxonomic_Classification:
Taxon_Rank_Name: Phylum
Taxon_Rank_Value: Chordata
Applicable_Common_Name: cordés
Applicable_Common_Name: cordado
Applicable_Common_Name: chordates
Taxonomic_Classification:
Taxon_Rank_Name: Subphylum
Taxon_Rank_Value: Vertebrata
Applicable_Common_Name: vertebrado
Applicable_Common_Name: vertébrés
Applicable_Common_Name: vertebrates
Taxonomic_Classification:
Taxon_Rank_Name: Infraphylum
Taxon_Rank_Value: Gnathostomata
Taxonomic_Classification:
Taxon_Rank_Name: Superclass
Taxon_Rank_Value: Tetrapoda
Taxonomic_Classification:
Taxon_Rank_Name: Class
Taxon_Rank_Value: Aves
Applicable_Common_Name: Birds
Applicable_Common_Name: oiseaux
Taxonomic_Classification:
Taxon_Rank_Name: Order
Taxon_Rank_Value: Anseriformes
Applicable_Common_Name: Ducks
Applicable_Common_Name: Geese
Applicable_Common_Name: Screamers
Applicable_Common_Name: Swans
Applicable_Common_Name: Waterfowl
Applicable_Common_Name: canards
Applicable_Common_Name: cygnes
Applicable_Common_Name: oies
Applicable_Common_Name: sauvagine
Taxonomic_Classification:
Taxon_Rank_Name: Family
Taxon_Rank_Value: Anatidae
Applicable_Common_Name: Ducks
Applicable_Common_Name: Geese
Applicable_Common_Name: Swans
Applicable_Common_Name: canards
Applicable_Common_Name: cygnes
Applicable_Common_Name: oies
Taxonomic_Classification:
Taxon_Rank_Name: Subfamily
Taxon_Rank_Value: Anatinae
Taxonomic_Classification:
Taxon_Rank_Name: Genus
Taxon_Rank_Value: Anas
Applicable_Common_Name: Dabbling Ducks
Taxonomic_Classification:
Taxon_Rank_Name: Species
Taxon_Rank_Value: Anas discors
Applicable_Common_Name: Cerceta ala azul
Applicable_Common_Name: Blue-winged Teal
Applicable_Common_Name: sarcelle à ailes bleues
Access_Constraints: None
Use_Constraints:
It is requested that the authors and the USGS Alaska Science Center be cited for any subsequent publications referenced to this dataset. It is strongly recommended that careful attention be paid to the contents of the metadata file associated with these data to evaluate data set limitations, restrictions or intended use. If you use these data in a publication, presentation, or other product please cite the authors for their contribution to your work.
Point_of_Contact:
Contact_Information:
Contact_Organization_Primary:
Contact_Organization: U.S. Geological Survey, Alaska Science Center
Contact_Address:
Address_Type: mailing and physical
Address: 4210 University Drive
City: Anchorage
State_or_Province: Alaska
Postal_Code: 99508
Country: USA
Contact_Voice_Telephone: 907-786-7000
Contact_Electronic_Mail_Address: ascweb@usgs.gov
Cross_Reference:
Citation_Information:
Originator: Ramey, A.M.
Originator: Reed, J.A.
Originator: Walther, P.
Originator: Link,P.
Originator: Schmutz, J.A.
Originator: Douglas, D.C.
Originator: Stallknecht, D.E.
Originator: Soos, C.
Publication_Date: 201606
Title:
Evidence for the exchange of blood parasites between North America and the Neotropics in blue-winged teal (Anas discors)
Geospatial_Data_Presentation_Form: journal article
Series_Information:
Series_Name: Parasitology Research
Issue_Identification: 115: 10
Publication_Information:
Publication_Place: online
Publisher: Springer-Verlag
Other_Citation_Details:
Ramey, A.M., Reed, J.A., Walther, P., Link,P., Schmutz, J.A., Douglas, D.C., Stallknecht, D.E., Soos, C., 2016, Evidence for the exchange of blood parasites between North America and the Neotropics in blue-winged teal (Anas discors), Parasitology Research 115:3923-39. doi:10.1007/s00436-016-5159-2
Online_Linkage: https://dx.doi.org/10.1007/s00436-016-5159-2
Data_Quality_Information:
Attribute_Accuracy:
Attribute_Accuracy_Report:
All data were sorted in Microsoft Excel and outliers were checked for accuracy. All data contained herein is considered adequate for its originally intended use. All dates are accurate to the reported level of precision. Positional accuracies are described in the positional accuracy section. Infection data uncertainty is related to the detection limitation of the nested-PCR procedure (see Ramey et al. 2016 for details).
Logical_Consistency_Report:
Data were spot checked during a formal peer review of the data and metadata files. Blank values indicate that no parasite haplotype was identified; "unresolved" indicates that a parasite was present but ambiguities in the DNA sequence prohibited the assignment of a specific haplotype.
Completeness_Report:
Data set is considered complete for the information presented, as described in the abstract. Users are advised to read the rest of the metadata record carefully for additional details, particularly the Entity and Attribute definitions for specifics on each entity and data within those entities.
Positional_Accuracy:
Horizontal_Positional_Accuracy:
Horizontal_Positional_Accuracy_Report:
Positions collected with Garmin hand held GPS with average accuracy to within 3 m.
Lineage:
Methodology:
Methodology_Type: Field
Methodology_Description:
Blue-winged teal were live-captured during March 2012–2013 in Texas and Louisiana and during August 2012–2013 in Alberta and Saskatchewan. Captures were conducted using rocket nets in Texas and Louisiana and standard swim-in bait traps in Alberta and Saskatchewan. Birds were aged and sexed via plumage. All birds sampled in March were considered adults as they had molted into nuptial plumage by the time of capture. A small blood sample (<1 % of body weight) was collected from each bird via jugular venipuncture and a subsample (<0.25 ml) stored in Longmire (Texas and Louisiana) or Queen’s (Alberta and Saskatchewan) buffer for use in this project. Blood samples were held at ambient temperature during sample collection periods and then frozen prior to analysis.
Methodology:
Methodology_Type: Lab
Methodology_Description:
Blood parasites were detected using molecular methods. DNA was extracted from samples using the DNeasy Blood and Tissue Kit (Qiagen, Valencia, CA) and screened for hematozoa using nested PCR protocol. A minimum of one negative control was incorporated into PCR reactions for every 24 wells. Reactions were conducted in eight-well strip tubes with individual caps that remained closed, except while loading template and reagents, to prevent cross contamination. Amplicons were visualized on 0.8% agarose gels stained with Gel Red Nucleic Acid Gel Stain 10,000× in DMSO (Biotium, Hayward, CA). All samples were screened twice for hematozoa by nested PCR. A 479-base pair (bp) cytochrome b (cyt b) mitochondrial DNA (mtDNA) target fragment was sequenced for all samples that had amplicons present on agarose gels. PCR products were treated with ExoSap-IT (USB Inc., Cleveland, OH) per the manufacturer’s instructions and not otherwise purified prior to sequencing. Sequencing was performed with identical primers used for PCR and with BigDye Terminator version 3.1 mix (Applied Biosystems, Foster City, CA) on an Applied Biosystems 3730xl automated DNA sequencer (Applied Biosystems, Foster City, CA). Sequence data were cleaned and edited using Sequencher version 5.1 (Gene Codes Corp., Ann Arbor, MI). Infections were assigned to genera (Leucocytozoon, Haemoproteus, or Plasmodium) using the nucleotide BLAST (Basic Local Alignment Search Tool) function available through the National Center for Biotechnology Information (NCBI). Assignment was based on the top NCBI BLAST result with a minimum identity score of at least 90%. A sample was considered as positive for blood parasite infection in any given PCR run if it resulted in double-stranded, target mtDNA that was verified through genetic sequencing and successfully assigned to one of three parasite genera using BLAST. Genetic characterization of resultant sequences were previously summarized. Single-stranded sequences or products that could not be assigned via BLAST were considered as negative to reduce the possible occurrence of false positives.
Process_Step:
Process_Description:
DNA was extracted from all samples using the DNeasy Blood and Tissue Kit (Qiagen, Valencia, CA) according to the manufacturer’s protocol. Extracted DNA was screened for presence of hematozoa using a nested PCR as described by Hellgren et al. (2004). A minimum of one negative control every 24 wells was incorporated into each set of PCR reactions. Reactions were conducted in eight well strip tubes with individual caps which remained closed, except while loading template and reagents, to prevent cross contamination. Amplicons were visualized on 0.8% agarose gels stained with Gel Red Nucleic Acid Gel Stain 10,000 in DMSO (Biotium, Hayward, CA). All samples were screened twice for hematozoa by nested PCR. A sample was considered as positive for blood parasite infection in a given PCR run if it resulted in double-stranded, target mtDNA that was verified through genetic sequencing and successfully assigned to one of three parasite genera using BLAST. Single-stranded sequences or products that could not be assigned via BLAST were considered as negative to reduce the possible occurrence of false positives.
Process_Date: Unknown
Spatial_Data_Organization_Information:
Direct_Spatial_Reference_Method: Point
Spatial_Reference_Information:
Horizontal_Coordinate_System_Definition:
Geographic:
Latitude_Resolution: 0.01
Longitude_Resolution: 0.01
Geographic_Coordinate_Units: Decimal degrees
Geodetic_Model:
Horizontal_Datum_Name: North American Datum of 1983
Ellipsoid_Name: World Geodetic System of 1984
Semi-major_Axis: 6378137
Denominator_of_Flattening_Ratio: 298.257223563
Entity_and_Attribute_Information:
Detailed_Description:
Entity_Type:
Entity_Type_Label:
Blood Parasite infection data from Blue-winged teal, Alberta, Saskatchewan, Texas, Louisiana 2012-13
Entity_Type_Definition: Data set
Entity_Type_Definition_Source: Author defined
Attribute:
Attribute_Label: Sample_ID
Attribute_Definition:
Individual identifier of each blood sample included in the analysis. Sample_ID includes species (BWTE for Blue-winged teal), a code for location (AB = Alberta, SK = Saskatchewan, TX = Texas, and LA = Louisiana), followed by a two digit code for year (12 or 13) and then a unique number for the blood sample (001-201).
Attribute_Definition_Source: Author defined.
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: BWTE AB12 001
Range_Domain_Maximum: BWTE SK12 201
Attribute_Units_of_Measure: Individual bird
Attribute:
Attribute_Label: Age
Attribute_Definition:
Definition: Age (year Class) Codes specified by the USGS, Bird Banding Laboratory, Patuxent Wildlife Research Center. Age codes and definitions: UNK = Unknown age AHY = After hatching year; A bird known to have hatched before the calendar year of banding; year of hatch otherwise unknown. HY = Hatching year; A bird capable of sustained flight and known to have hatched during the calendar year in which it was banded.
Attribute_Definition_Source:
USGS Bird Banding Laboratory, Patuxent Wildlife Research Center, Patuxent, Maryland (https://www.pwrc.usgs.gov/bbl/)
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: AHY
Enumerated_Domain_Value_Definition: After hatch year
Enumerated_Domain_Value_Definition_Source:
USGS Bird Banding Laboratory, Patuxent Wildlife Research Center, Patuxent, Maryland (https://www.pwrc.usgs.gov/bbl/)
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: HY
Enumerated_Domain_Value_Definition: Hatch year
Enumerated_Domain_Value_Definition_Source:
USGS Bird Banding Laboratory, Patuxent Wildlife Research Center, Patuxent, Maryland (https://www.pwrc.usgs.gov/bbl/)
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: UNK
Enumerated_Domain_Value_Definition: Unknown age.
Enumerated_Domain_Value_Definition_Source: Author defined.
Attribute:
Attribute_Label: Sex
Attribute_Definition:
Sex of the sampled duck as determined by cloacal exam and plumage characteristics; M = Male, F = Female, UNK = Unknown
Attribute_Definition_Source:
Hochbaum HA. Sex and age determination of waterfowl by cloacal examination. Trans N A Wildlife Conf. 1942;7:299-307.
Carney SM. Species, age and sex identification of ducks using wing plumage. Washington DC: US Fish and Wildlife Service; 1992.
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: M
Enumerated_Domain_Value_Definition: Male
Enumerated_Domain_Value_Definition_Source: Author defined.
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: F
Enumerated_Domain_Value_Definition: Female
Enumerated_Domain_Value_Definition_Source: Author defined.
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: UNK
Enumerated_Domain_Value_Definition: Unknown sex.
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Date
Attribute_Definition:
Date that a captured duck was sampled (day-month-year). Note that for 49 samples from Saskatchewan in 2013 (BWTE SK13 137 through 186) the exact sampling date is unknown and presented as a range of 3 dates 20 through 22 Aug 2013
Attribute_Definition_Source: Author defined
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: 1 Mar 2012
Range_Domain_Maximum: 22 Aug 2013
Attribute:
Attribute_Label: Lat
Attribute_Definition:
Degrees N latitude in decimal degrees of nest or sample location as determined by hand held GPS.
Attribute_Definition_Source: Author defined
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: 29.61
Range_Domain_Maximum: 52.07
Attribute_Units_of_Measure: Decimal Degrees
Attribute:
Attribute_Label: Long
Attribute_Definition:
Degrees W longitude in decimal degrees of nest or sample location as determined by hand held GPS.
Attribute_Definition_Source: Author defined.
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: -112.12
Range_Domain_Maximum: -91.91
Attribute_Units_of_Measure: Decimal Degrees
Attribute:
Attribute_Label: Leuc_1
Attribute_Definition:
Result from first PCR run for Leucocytozoon parasites. A sample was considered as positive ("1") for blood parasite infection in a given polymerase chain reaction (PCR) if it resulted in double-stranded, target mtDNA that was verified through genetic sequencing and successfully assigned to one of three parasite genera (Leucocytozoon, Haemoproteus, or Plasmodium) using BLAST. Single-stranded sequences or products that could not be assigned via BLAST were considered negative ("0").
Attribute_Definition_Source:
Ramey, A. M., J. P. Fleskes, J. A. Schmutz, and M. J. Yabsley. 2013. Evaluation of blood and muscle tissues for molecular detection and characterization of haematozoa infections in Northern Pintails (Anas acuta) wintering in California. . International Journal of Parasitology: Parasites and Wildlife 2:102-109. doi:10.1016/j.ijppaw.2013.02.001
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. (1990) "Basic local alignment search tool." J. Mol. Biol. 215:403-410. PubMed
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 0
Enumerated_Domain_Value_Definition: Negative result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 1
Enumerated_Domain_Value_Definition: Positive result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Leuc_2
Attribute_Definition:
Result from second PCR run for Leucocytozoon parasites. A sample was considered as positive ("1") for blood parasite infection in a given polymerase chain reaction (PCR) if it resulted in double-stranded, target mtDNA that was verified through genetic sequencing and successfully assigned to one of three parasite genera (Leucocytozoon, Haemoproteus, or Plasmodium) using BLAST. Single-stranded sequences or products that could not be assigned via BLAST were considered negative ("0").
Attribute_Definition_Source:
Ramey, A. M., J. P. Fleskes, J. A. Schmutz, and M. J. Yabsley. 2013. Evaluation of blood and muscle tissues for molecular detection and characterization of haematozoa infections in Northern Pintails (Anas acuta) wintering in California. . International Journal of Parasitology: Parasites and Wildlife 2:102-109. doi:10.1016/j.ijppaw.2013.02.001
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. (1990) "Basic local alignment search tool." J. Mol. Biol. 215:403-410. PubMed
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 0
Enumerated_Domain_Value_Definition: Negative result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 1
Enumerated_Domain_Value_Definition: Positive result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Haem_1
Attribute_Definition:
Result from first PCR run for Haemoproteus parasites. A sample was considered as positive ("1") for blood parasite infection in a given polymerase chain reaction (PCR) if it resulted in double-stranded, target mtDNA that was verified through genetic sequencing and successfully assigned to one of three parasite genera (Leucocytozoon, Haemoproteus, or Plasmodium) using BLAST. Single-stranded sequences or products that could not be assigned via BLAST were considered negative ("0").
Attribute_Definition_Source:
Ramey, A. M., J. P. Fleskes, J. A. Schmutz, and M. J. Yabsley. 2013. Evaluation of blood and muscle tissues for molecular detection and characterization of haematozoa infections in Northern Pintails (Anas acuta) wintering in California. . International Journal of Parasitology: Parasites and Wildlife 2:102-109. doi:10.1016/j.ijppaw.2013.02.001
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. (1990) "Basic local alignment search tool." J. Mol. Biol. 215:403-410. PubMed
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 0
Enumerated_Domain_Value_Definition: Negative result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 1
Enumerated_Domain_Value_Definition: Positive result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Haem_2
Attribute_Definition:
Result from second PCR run for Haemoproteus parasites. A sample was considered as positive ("1") for blood parasite infection in a given polymerase chain reaction (PCR) if it resulted in double-stranded, target mtDNA that was verified through genetic sequencing and successfully assigned to one of three parasite genera (Leucocytozoon, Haemoproteus, or Plasmodium) using BLAST. Single-stranded sequences or products that could not be assigned via BLAST were considered negative ("0").
Attribute_Definition_Source:
Ramey, A. M., J. P. Fleskes, J. A. Schmutz, and M. J. Yabsley. 2013. Evaluation of blood and muscle tissues for molecular detection and characterization of haematozoa infections in Northern Pintails (Anas acuta) wintering in California. . International Journal of Parasitology: Parasites and Wildlife 2:102-109. doi:10.1016/j.ijppaw.2013.02.001
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. (1990) "Basic local alignment search tool." J. Mol. Biol. 215:403-410. PubMed
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 0
Enumerated_Domain_Value_Definition: Negative result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 1
Enumerated_Domain_Value_Definition: Positive result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Plas_1
Attribute_Definition:
Result from first PCR run for Plasmodium parasites. A sample was considered as positive ("1") for blood parasite infection in a given polymerase chain reaction (PCR) if it resulted in double-stranded, target mtDNA that was verified through genetic sequencing and successfully assigned to one of three parasite genera (Leucocytozoon, Haemoproteus, or Plasmodium) using BLAST. Single-stranded sequences or products that could not be assigned via BLAST were considered negative ("0").
Attribute_Definition_Source:
Ramey, A. M., J. P. Fleskes, J. A. Schmutz, and M. J. Yabsley. 2013. Evaluation of blood and muscle tissues for molecular detection and characterization of haematozoa infections in Northern Pintails (Anas acuta) wintering in California. . International Journal of Parasitology: Parasites and Wildlife 2:102-109. doi:10.1016/j.ijppaw.2013.02.001
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. (1990) "Basic local alignment search tool." J. Mol. Biol. 215:403-410. PubMed
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 0
Enumerated_Domain_Value_Definition: Negative result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 1
Enumerated_Domain_Value_Definition: Positive result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Plas_2
Attribute_Definition:
Result from second PCR run for Plasmodium parasites. A sample was considered as positive ("1") for blood parasite infection in a given polymerase chain reaction (PCR) if it resulted in double-stranded, target mtDNA that was verified through genetic sequencing and successfully assigned to one of three parasite genera (Leucocytozoon, Haemoproteus, or Plasmodium) using BLAST. Single-stranded sequences or products that could not be assigned via BLAST were considered negative ("0").
Attribute_Definition_Source:
Ramey, A. M., J. P. Fleskes, J. A. Schmutz, and M. J. Yabsley. 2013. Evaluation of blood and muscle tissues for molecular detection and characterization of haematozoa infections in Northern Pintails (Anas acuta) wintering in California. . International Journal of Parasitology: Parasites and Wildlife 2:102-109. doi:10.1016/j.ijppaw.2013.02.001
Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. (1990) "Basic local alignment search tool." J. Mol. Biol. 215:403-410. PubMed
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 1
Enumerated_Domain_Value_Definition: Positive result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: 0
Enumerated_Domain_Value_Definition: Negative result
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Genbank_Leuc_1
Attribute_Definition:
GenBank accession number for Leucocytozoon cytochrome b (cyt b) mitochondrial DNA (mtDNA) target fragment. Accession numbers are given by GenBank and were only assigned to Leuc_1 positive samples with sequences that exactly aligned with the 301 homologous nucleotide positions used in this study (Ramey et al. 2016) to define haplotypes for phylogenetic analysis. Due to coinfections, the sequences from some of the Leuc_1 positive samples included ambiguities at certain base pair locations. These sequences were not submitted to GenBank and are coded as "unresolved" in this column.
Attribute_Definition_Source:
Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Research. 2016;44(Database issue):D67-D72. doi:10.1093/nar/gkv1276.
Ramey, A.M., Reed, J.A., Walther, P., Link,P., Schmutz, J.A., Douglas, D.C., Stallknecht, D.E., Soos, C., 2016, Evidence for the exchange of blood parasites between North America and the Neotropics in blue-winged teal (Anas discors), Parasitology Research 115:3923-39. doi:10.1007/s00436-016-5159-2
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: KU0363691
Range_Domain_Maximum: KU0363727
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: unresolved
Enumerated_Domain_Value_Definition:
DNA sequence with at least one ambiguity, not submitted to GenBank
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Genbank_Leuc_2
Attribute_Definition:
GenBank accession number for Leucocytozoon cytochrome b (cyt b) mitochondrial DNA (mtDNA) target fragment. Accession numbers are given by GenBank and were only assigned to Leuc_2 positive samples with sequences that exactly aligned with the 301 homologous nucleotide positions used in this study (Ramey et al. 2016) to define haplotypes for phylogenetic analysis. Due to coinfections, the sequences from some of the Leuc_2 positive samples included ambiguities at certain base pair locations. These sequences were not submitted to GenBank and are coded as "unresolved" in this column.
Attribute_Definition_Source:
Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Research. 2016;44(Database issue):D67-D72. doi:10.1093/nar/gkv1276.
Ramey, A.M., Reed, J.A., Walther, P., Link,P., Schmutz, J.A., Douglas, D.C., Stallknecht, D.E., Soos, C., 2016, Evidence for the exchange of blood parasites between North America and the Neotropics in blue-winged teal (Anas discors), Parasitology Research 115:3923-39. doi:10.1007/s00436-016-5159-2
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: KU0363691
Range_Domain_Maximum: KU0363727
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: unresolved
Enumerated_Domain_Value_Definition:
DNA sequence with at least one ambiguity, not submitted to GenBank
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Genbank_Haem_1
Attribute_Definition:
GenBank accession number for Haemoproteus cytochrome b (cyt b) mitochondrial DNA (mtDNA) target fragment. Accession numbers are given by GenBank and were only assigned to Haem_1 positive samples with sequences that exactly aligned with the 301 homologous nucleotide positions used in this study (Ramey et al. 2016) to define haplotypes for phylogenetic analysis. Due to coinfections, the sequences from some of the Haem_1 positive samples included ambiguities at certain base pair locations. These sequences were not submitted to GenBank and are coded as "unresolved" in this column.
Attribute_Definition_Source:
Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Research. 2016;44(Database issue):D67-D72. doi:10.1093/nar/gkv1276.
Ramey, A.M., Reed, J.A., Walther, P., Link,P., Schmutz, J.A., Douglas, D.C., Stallknecht, D.E., Soos, C., 2016, Evidence for the exchange of blood parasites between North America and the Neotropics in blue-winged teal (Anas discors), Parasitology Research 115:3923-39. doi:10.1007/s00436-016-5159-2
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: KU0363691
Range_Domain_Maximum: KU0363727
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: unresolved
Enumerated_Domain_Value_Definition:
DNA sequence with at least one ambiguity, not submitted to GenBank
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Genbank_Haem_2
Attribute_Definition:
GenBank accession number for Haemoproteus cytochrome b (cyt b) mitochondrial DNA (mtDNA) target fragment. Accession numbers are given by GenBank and were only assigned to Haem_2 positive samples with sequences that exactly aligned with the 301 homologous nucleotide positions used in this study (Ramey et al. 2016) to define haplotypes for phylogenetic analysis. Due to coinfections, the sequences from some of the Haem_2 positive samples included ambiguities at certain base pair locations. These sequences were not submitted to GenBank and are coded as "unresolved" in this column.
Attribute_Definition_Source:
Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Research. 2016;44(Database issue):D67-D72. doi:10.1093/nar/gkv1276.
Ramey, A.M., Reed, J.A., Walther, P., Link,P., Schmutz, J.A., Douglas, D.C., Stallknecht, D.E., Soos, C., 2016, Evidence for the exchange of blood parasites between North America and the Neotropics in blue-winged teal (Anas discors), Parasitology Research 115:3923-39. doi:10.1007/s00436-016-5159-2
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: KU0363691
Range_Domain_Maximum: KU0363727
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: unresolved
Enumerated_Domain_Value_Definition:
DNA sequence with at least one ambiguity, not submitted to GenBank
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Genbank_Plas_1
Attribute_Definition:
GenBank accession number for Plasmodium cytochrome b (cyt b) mitochondrial DNA (mtDNA) target fragment. Accession numbers are given by GenBank and were only assigned to Plas_1 positive samples with sequences that exactly aligned with the 301 homologous nucleotide positions used in this study (Ramey et al. 2016) to define haplotypes for phylogenetic analysis. Due to coinfections, the sequences from some of the Plas_1 positive samples included ambiguities at certain base pair locations. These sequences were not submitted to GenBank and are coded as "unresolved" in this column.
Attribute_Definition_Source:
Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Research. 2016;44(Database issue):D67-D72. doi:10.1093/nar/gkv1276.
Ramey, A.M., Reed, J.A., Walther, P., Link,P., Schmutz, J.A., Douglas, D.C., Stallknecht, D.E., Soos, C., 2016, Evidence for the exchange of blood parasites between North America and the Neotropics in blue-winged teal (Anas discors), Parasitology Research 115:3923-39. doi:10.1007/s00436-016-5159-2
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: KU0363691
Range_Domain_Maximum: KU0363727
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: unresolved
Enumerated_Domain_Value_Definition:
DNA sequence with at least one ambiguity, not submitted to GenBank
Enumerated_Domain_Value_Definition_Source: Author defined
Attribute:
Attribute_Label: Genbank_Plas_2
Attribute_Definition:
GenBank accession number for Plasmodium cytochrome b (cyt b) mitochondrial DNA (mtDNA) target fragment. Accession numbers are given by GenBank and were only assigned to Plas_2 positive samples with sequences that exactly aligned with the 301 homologous nucleotide positions used in this study (Ramey et al. 2016) to define haplotypes for phylogenetic analysis. Due to coinfections, the sequences from some of the Plas_2 positive samples included ambiguities at certain base pair locations. These sequences were not submitted to GenBank and are coded as "unresolved" in this column.
Attribute_Definition_Source:
Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Research. 2016;44(Database issue):D67-D72. doi:10.1093/nar/gkv1276.
Ramey, A.M., Reed, J.A., Walther, P., Link,P., Schmutz, J.A., Douglas, D.C., Stallknecht, D.E., Soos, C., 2016, Evidence for the exchange of blood parasites between North America and the Neotropics in blue-winged teal (Anas discors), Parasitology Research 115:3923-39. doi:10.1007/s00436-016-5159-2
Attribute_Domain_Values:
Range_Domain:
Range_Domain_Minimum: KU0363691
Range_Domain_Maximum: KU0363727
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: unresolved
Enumerated_Domain_Value_Definition:
DNA sequence with at least one ambiguity, not submitted to GenBank
Enumerated_Domain_Value_Definition_Source: Author defined
Distribution_Information:
Distributor:
Contact_Information:
Contact_Organization_Primary:
Contact_Organization: U.S. Geological Survey, Alaska Science Center
Contact_Address:
Address_Type: mailing and physical
Address: 4210 University Dr.
City: Anchorage
State_or_Province: Alaska
Postal_Code: 99508
Country: USA
Contact_Voice_Telephone: 907-786-7000
Contact_Electronic_Mail_Address: ascweb@usgs.gov
Resource_Description: Authoritative source for access to data.
Distribution_Liability:
Unless otherwise stated, all data, metadata and related materials are considered to satisfy the quality standards relative to the purpose for which the data were collected. Although these data and associated metadata have been reviewed for accuracy and completeness and approved for release by the U.S. Geological Survey (USGS), no warranty expressed or implied is made regarding the display or utility of the data on any other system or for general or scientific purposes, nor shall the act of distribution constitute any such warranty
Standard_Order_Process:
Digital_Form:
Digital_Transfer_Information:
Format_Name: Zip
Format_Version_Number: 19.0
Format_Information_Content:
Zip file containing the data in CSV file format and FGDC metadata in XML and HTML formats.
File_Decompression_Technique: Winzip legacy compression applied
Transfer_Size: 0.11
Digital_Transfer_Option:
Online_Option:
Computer_Contact_Information:
Network_Address:
Network_Resource_Name: https://dx.doi.org/10.5066/F79C6VMW
Fees: No fees.
Metadata_Reference_Information:
Metadata_Date: 20201125
Metadata_Contact:
Contact_Information:
Contact_Organization_Primary:
Contact_Organization: U.S. Geological Survey, Alaska Science Center
Contact_Address:
Address_Type: mailing and physical
Address: 4210 University Drive
City: Anchorage
State_or_Province: AK
Postal_Code: 99508
Contact_Voice_Telephone: 907-786-7000
Contact_Electronic_Mail_Address: ascweb@usgs.gov
Metadata_Standard_Name:
FGDC Biological Data Profile of the Content Standard for Digital Geospatial Metadata
Metadata_Standard_Version: FGDC-STD-001.1-1999

Generated by mp version 2.9.39 on Thu Feb 9 15:36:27 2017