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:
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: AHY
Enumerated_Domain_Value_Definition: After hatch year
Enumerated_Domain_Value_Definition_Source:
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: HY
Enumerated_Domain_Value_Definition: Hatch year
Enumerated_Domain_Value_Definition_Source:
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