Snowy Plover Mitochondrial Control Region Sequence Data

Metadata:

Identification_Information:
Citation:
Citation_Information:
Originator: Leah R. Gorman and Susan M. Haig
Publication_Date: 2001
Title: Snowy Plover Mitochondrial Control Region Sequence Data
Geospatial_Data_Presentation_Form: Database
Larger_Work_Citation:
Citation_Information:
Originator: Gorman, L. R.
Publication_Date: 2001
Title:
Population differentiation among Snowy Plovers (Charadrius alexandrinus) across North America
Geospatial_Data_Presentation_Form: M.S. Thesis
Publication_Information:
Publication_Place: Corvallis, OR
Publisher: Oregon State University
Description:
Abstract:
Mitochondrial control region (d-loop) sequences from Snowy Plovers (Charadrius alexandrinus) in North America, Caribbean, and Peru
Purpose:
Data were collected to describe population structure for Snowy Plovers in North America and the Caribbean.
Supplemental_Information: Science Information System Project #: 70-40
Time_Period_of_Content:
Time_Period_Information:
Single_Date/Time:
Calendar_Date: 1999
Currentness_Reference: date of laboratory analysis
Status:
Progress: Complete
Maintenance_and_Update_Frequency: None planned
Spatial_Domain:
Description_of_Geographic_Extent:
The geographic range of samples collected included continental North America, Puerto Rico, and Peru.
Bounding_Coordinates:
West_Bounding_Coordinate: -124
East_Bounding_Coordinate: -60
North_Bounding_Coordinate: 50
South_Bounding_Coordinate: -18
Keywords:
Theme:
Theme_Keyword_Thesaurus: none
Theme_Keyword: Snowy Plover
Theme_Keyword: mitochondrial DNA
Theme_Keyword: mtDNA
Theme_Keyword: population differentiation
Theme:
Theme_Keyword_Thesaurus: ISO19115 Topic Categories
Theme_Keyword: biota
Theme_Keyword: 002
Place:
Place_Keyword_Thesaurus: none
Place_Keyword: North America
Place_Keyword: Caribbean Basin
Place_Keyword: Peru
Taxonomy:
Keywords/Taxon:
Taxonomic_Keyword_Thesaurus: none
Taxonomic_Keywords: Charadrius alexandrinus
Taxonomic_System:
Classification_System/Authority:
Classification_System_Citation:
Citation_Information:
Originator:
National Oceanic and Atmospheric Administration (NOAA) , United States Geological Survey (USGS), Environmental Protection Agency (EPA) , Agriculture Research Service (ARS), Natural Resources Conservation Service (NRCS), National Museum of Natural History (NMNH)
Publication_Date: 1997
Title: ITIS (Integrated Taxonomic Identification System)
Geospatial_Data_Presentation_Form: Database
Other_Citation_Details:
ITIS Taxonomic Serial Numbers (TSN) may be included under applicable common name.
Online_Linkage: <http://www.itis.usda.gov/plantproj/itis/index.html>
Taxonomic_Procedures: Refer to methodology
General_Taxonomic_Coverage: ITIS Taxonomic Serial Number 176510
Taxonomic_Classification:
Taxon_Rank_Name: Kingdom
Taxon_Rank_Value: Animalia
Taxonomic_Classification:
Taxon_Rank_Name: Phylum
Taxon_Rank_Value: Chordata
Taxonomic_Classification:
Taxon_Rank_Name: Sub Phylum
Taxon_Rank_Value: Vertebrata
Taxonomic_Classification:
Taxon_Rank_Name: Class
Taxon_Rank_Value: Aves
Taxonomic_Classification:
Taxon_Rank_Name: Order
Taxon_Rank_Value: Ciconiiformes
Taxonomic_Classification:
Taxon_Rank_Name: Family
Taxon_Rank_Value: Charadriidae
Taxonomic_Classification:
Taxon_Rank_Name: Genus
Taxon_Rank_Value: Charadrius
Taxonomic_Classification:
Taxon_Rank_Name: Species
Taxon_Rank_Value: alexandrinus
Applicable_Common_Name: Snowy Plover
Access_Constraints:
Data are available only after research results have been published.
Use_Constraints: None
Point_of_Contact:
Contact_Information:
Contact_Person_Primary:
Contact_Person: Haig, Susan M.
Contact_Organization:
US Geological Survey Forest and Rangeland Ecosystem Science Center
Contact_Address:
Address_Type: mailing and physical address
Address: 3200 SW Jefferson Way
City: Corvallis
State_or_Province: OR
Postal_Code: 97331
Contact_Voice_Telephone: (541) 750-7482
Contact_Facsimile_Telephone: (541) 758-7761
Contact_Electronic_Mail_Address: susan_haig@usgs.gov
Data_Set_Credit:
Funding was provided by USGS Forest and Rangeland Ecosytem Science Center, USGS Species at Risk Program, and US Fish and Wildlife Service.
Cross_Reference:
Citation_Information:
Originator: Haig, S.M., C.L. Gratto-Trevor, T.D. Mullins, and M.A. Colwell
Publication_Date: 1997
Title:
Population identification of western hemisphere shorebirds throughout the annual cycle
Geospatial_Data_Presentation_Form: Journal article
Series_Information:
Series_Name: Molecular Ecology
Issue_Identification: 6: 413-427
Cross_Reference:
Citation_Information:
Originator: Wenink, P.W., A. J. Baker, and M.G.J. Tilanus
Publication_Date: 1994
Title:
Mitochondrial control-region sequences in two shorebird species, the Turnstone and the Dunlin, and their utility in population genetic studies
Geospatial_Data_Presentation_Form: Journal article
Series_Information:
Series_Name: Molecular Biology and Evolution
Issue_Identification: 11: 22-31
Data_Quality_Information:
Attribute_Accuracy:
Attribute_Accuracy_Report:
Sequences were bidirectionally sequenced to insure sequences of high quality.
Logical_Consistency_Report: Does not apply
Completeness_Report: Refer to methods
Lineage:
Methodology:
Methodology_Type: Lab
Methodology_Description:
Genomic DNA was extracted from Snowy Plover blood and tissue samples as described in Haig et al. (1997). The polymerase chain reaction (PCR) was used to amplify a 322 bp fragment of the mitochondrial control region, or d-loop, using the primer pair TS437L and TS778H (Wenink et al. 1994). Each reaction was carried out using 100 ng of genomic DNA in a 50 µL volume. Fragments were amplified using a PTC 100 thermal cycler (MJ Research). An initial denaturation of 10 min at 93°C was followed by 44 cycles of 1 min denaturation at 92°C, 1 min annealing at 45°C, and 2 min extension at 72°C, with a single final extension at 72°C for 10 min. The reactions were purified electrophoretically; bands of approximately 350 bp were extracted from a 1% agarose gel using an ultra-free-mc 0.45 filter (Millipore) and purified over a micron-50 filter (Millipore). Sequence data were generated with an automated sequencer (Applied Biosystems model 373A) located in the Central Services Laboratory at Oregon State University.
Methodology_Citation:
Citation_Information:
Originator: Gorman, L. R.
Publication_Date: 2001
Title:
Population differentiation among Snowy Plovers (Charadrius alexandrinus) across North America
Geospatial_Data_Presentation_Form: M.S. Thesis
Publication_Information:
Publication_Place: Corvallis, OR
Publisher: Oregon State University
Process_Step:
Process_Description: Refer to methods
Process_Date: Unknown
Entity_and_Attribute_Information:
Detailed_Description:
Entity_Type:
Entity_Type_Label: mtDNA
Entity_Type_Definition:
ASCII data file describing amino acid sequence and haplotype data
Entity_Type_Definition_Source: dataset developer
Attribute:
Attribute_Label: Haplotype
Attribute_Definition: code designating a unique haplotype
Attribute_Domain_Values:
Unrepresentable_Domain: Unique code comprised of nucleotide base pairs (ATCGU)
Attribute:
Attribute_Label: Sequence
Attribute_Definition: sequence of DNA base pairs
Attribute_Domain_Values:
Enumerated_Domain:
Enumerated_Domain_Value: A
Enumerated_Domain_Value_Definition: adenine
Enumerated_Domain_Value: C
Enumerated_Domain_Value_Definition: cytosine
Enumerated_Domain_Value: G
Enumerated_Domain_Value_Definition: guanine
Enumerated_Domain_Value: T
Enumerated_Domain_Value_Definition: thymine
Metadata_Reference_Information:
Metadata_Date: 20050818
Metadata_Review_Date: 20001006
Metadata_Contact:
Contact_Information:
Contact_Organization_Primary:
Contact_Organization: USGS Forest & Rangeland Ecosystem Science Center (FRESC)
Contact_Address:
Address_Type: Mailing and Physical Address
Address:
777 NW 9th St. Ste. 400
City: Corvallis
State_or_Province: Oregon
Postal_Code: 97330
Country: USA
Contact_Voice_Telephone: (541) 750-1030
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 2.8.10 on Thu Aug 18 07:48:42 2005