Sequence Information from the Mitogenome and Ten Nuclear Genes from Martes Species (Martes americana, M. caurina) of North America, 1972-2010

Identification_Information:

Citation:

Citation_Information:

Originator: Colella, J.P. (ORCID: 0000-0003-2463-1029)
Originator: Pierson, B.J. (ORCID: 0000-0001-8233-874X)
Originator: Wilson, R.E. (ORCID: 0000-0003-1800-0183)
Originator: Talbot, S.L. (ORCID: 0000-0002-3312-7214)
Publication_Date: 20190422
Title:

Geospatial_Data_Presentation_Form: tabular digital data
Other_Citation_Details:

Suggested citation: Colella, J.P., Pierson, B.J., Wilson, R.A., and Talbot, S.L., 2019, Sequence information from the mitogenome and ten nuclear genes from Martes species (Martes americana, M. caurina) of North America, 1972-2010: U.S. Geological Survey data release, https://doi.org/10.5066/P9V1L0SI

Online_Linkage: https://doi.org/10.5066/P9V1L0SI
Larger_Work_Citation:

Citation_Information:

Originator: U.S. Geological Survey, Alaska Science Center
Publication_Date: 2000
Title:

Developing and Applying Molecular Tools to Natural Resource Problems in Alaska

Geospatial_Data_Presentation_Form: website
Series_Information:

Series_Name: Alaska Science Portal
Issue_Identification: 378

Publication_Information:

Publication_Place: Anchorage, AK
Publisher: U.S. Geological Survey, Alaska Science Center

Other_Citation_Details:

This is a link to the broader USGS Alaska Science Center research project supported by these data. Users will find a description of the research project and links to associated reports, publications, and data products.

Online_Linkage: https://alaska.usgs.gov/portal/project.php?project_id=378

Description:

Abstract:

This data set contains individual museum catalog numbers, associated Genbank accession numbers, and species designations based on the mitochondrial genome and ten nuclear loci for 55 Martes americana, 28 Martes caurina, 2 Martes of uncertain taxonomic designation based on genetic data alone, and one each of Martes zibellina, M. pennanti, Gulo gulo, Neovison vison, and Mustela frenata.

Purpose:

Data were collected to evaluate gene flow among North American marten.

Time_Period_of_Content:

Time_Period_Information:

Single_Date/Time:

Calendar_Date: 201507

Currentness_Reference: observed

Status:

Progress: Complete
Maintenance_and_Update_Frequency: None planned

Spatial_Domain:

Description_of_Geographic_Extent:

Genetic samples were from museum collections of the University of Alaska Museum and the Museum of Southwestern Biology. Original sampling locations include interior and southeast Alaska, the Pacific northwest, northern California, Rocky Mountains spanning from British Columbia south into Montana and Colorado, and the northeastern United States and eastern Canada (Labrador).

Bounding_Coordinates:

West_Bounding_Coordinate: -156.52
East_Bounding_Coordinate: -61.02
North_Bounding_Coordinate: 65.00
South_Bounding_Coordinate: 36.58

Keywords:

Theme:

Theme_Keyword_Thesaurus: USGS Metadata Identifier
Theme_Keyword: USGS:ASC209

Theme:

Theme_Keyword_Thesaurus: ISO 19115 Topic Category
Theme_Keyword: biota

Theme:

Theme_Keyword_Thesaurus: NASA GCMD Earth Science Keywords Thesaurus
Theme_Keyword: Biological Classification
Theme_Keyword: Animals/Vertebrates
Theme_Keyword: Mammals
Theme_Keyword: Carnivores
Theme_Keyword: Martens/Weasels/Wolverines

Theme:

Theme_Keyword_Thesaurus: U.S. Geological Survey CSA Biocomplexity Thesaurus
Theme_Keyword: Gene Flow
Theme_Keyword: Population Genetics
Theme_Keyword: Genetic Structure
Theme_Keyword: Hybrid Zones
Theme_Keyword: Speciation (Biological)
Theme_Keyword: Species

Theme:

Theme_Keyword_Thesaurus: MeSH-National Library of Medicine
Theme_Keyword: Mustelidae
Theme_Keyword: Genome, Mitochondrial
Theme_Keyword: Phylogeography
Theme_Keyword: Genetic Variation
Theme_Keyword: Biological Evolution
Theme_Keyword: Retrospective Studies

Theme:

Theme_Keyword_Thesaurus: USGS Thesaurus
Theme_Keyword: Genetics
Theme_Keyword: DNA Sequencing
Theme_Keyword: Systematics and Taxonomy

Place:

Place_Keyword_Thesaurus: USGS Geographic Names Information System
Place_Keyword: State of Alaska
Place_Keyword: Rocky Mountains
Place_Keyword: State of California
Place_Keyword: State of Montana
Place_Keyword: State of Colorado

Place:

Place_Keyword_Thesaurus: NGA GEOnet Names Server
Place_Keyword: Canada
Place_Keyword: British Columbia
Place_Keyword: Labrador

Place:

Place_Keyword_Thesaurus: none
Place_Keyword: Pacific northwest
Place_Keyword: southeast Alaska
Place_Keyword: northeastern United States

Taxonomy:

Keywords/Taxon:

Taxonomic_Keyword_Thesaurus: None
Taxonomic_Keywords: Martes americana
Taxonomic_Keywords: Martes caurina
Taxonomic_Keywords: Martes zibellina
Taxonomic_Keywords: Gulo gulo
Taxonomic_Keywords: Martes pennanti
Taxonomic_Keywords: Neovison vison
Taxonomic_Keywords: Mustela frenata
Taxonomic_Keywords: Multiple species
Taxonomic_Keywords: Mammals

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
Publication_Information:

Publication_Place: Online
Publisher: ITIS-North America

Other_Citation_Details:

Retrieved April 16, 2019, from the Integrated Taxonomic Information System on-line database http://www.itis.gov

Online_Linkage: http://www.itis.gov/

Taxonomic_Procedures:

Species designations were assigned based on 11 sites that were discrete between Martes americana and Martes caurina within a 688 base pair portion of Cytochrome c oxidase I (mtDNA) using primers from Folmer et al 1994. For individuals lacking Cytochrome c oxidase I sequence data from this study, we followed the original species designation that accompanied the sample (from archived information available in the Arctos collaborative collection management database: http://arctos.database.museum/SpecimenSearch.cfm )

Taxonomic_Classification:

Taxon_Rank_Name: Kingdom
Taxon_Rank_Value: Animalia
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: chordates
Taxonomic_Classification:

Taxon_Rank_Name: Subphylum
Taxon_Rank_Value: Vertebrata
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: Mammalia
Applicable_Common_Name: mammals
Taxonomic_Classification:

Taxon_Rank_Name: Subclass
Taxon_Rank_Value: Theria
Taxonomic_Classification:

Taxon_Rank_Name: Infraclass
Taxon_Rank_Value: Eutheria
Taxonomic_Classification:

Taxon_Rank_Name: Order
Taxon_Rank_Value: Carnivora
Applicable_Common_Name: carnivores
Taxonomic_Classification:

Taxon_Rank_Name: Suborder
Taxon_Rank_Value: Caniformia
Taxonomic_Classification:

Taxon_Rank_Name: Family
Taxon_Rank_Value: Mustelidae
Applicable_Common_Name: mustelids
Taxonomic_Classification:

Taxon_Rank_Name: Subfamily
Taxon_Rank_Value: Mustelinae
Taxonomic_Classification:

Taxon_Rank_Name: Genus
Taxon_Rank_Value: Martes
Taxonomic_Classification:

Taxon_Rank_Name: Species
Taxon_Rank_Value: Martes americana
Applicable_Common_Name: American Marten
Applicable_Common_Name: marten
Applicable_Common_Name: TSN: 180559

Taxonomic_Classification:

Taxon_Rank_Name: Species
Taxon_Rank_Value: Martes caurina
Applicable_Common_Name: Pacific Marten
Applicable_Common_Name: marten
Applicable_Common_Name: TSN: 1086128

Taxonomic_Classification:

Taxon_Rank_Name: Species
Taxon_Rank_Value: Martes zibellina
Applicable_Common_Name: Sable
Applicable_Common_Name: TSN: 621945

Taxonomic_Classification:

Taxon_Rank_Name: Species
Taxon_Rank_Value: Martes pennanti
Applicable_Common_Name: Fisher
Applicable_Common_Name: TSN: 180560

Taxonomic_Classification:

Taxon_Rank_Name: Genus
Taxon_Rank_Value: Gulo
Applicable_Common_Name: wolverines
Taxonomic_Classification:

Taxon_Rank_Name: Species
Taxon_Rank_Value: Gulo gulo
Applicable_Common_Name: Wolverine
Applicable_Common_Name: TSN: 180551

Taxonomic_Classification:

Taxon_Rank_Name: Genus
Taxon_Rank_Value: Neovison
Taxonomic_Classification:

Taxon_Rank_Name: Species
Taxon_Rank_Value: Neovison vison
Applicable_Common_Name: American Mink
Applicable_Common_Name: TSN: 726284

Taxonomic_Classification:

Taxon_Rank_Name: Genus
Taxon_Rank_Value: Mustela
Taxonomic_Classification:

Taxon_Rank_Name: Species
Taxon_Rank_Value: Mustela frenata
Applicable_Common_Name: Long-tailed Weasel
Applicable_Common_Name: TSN: 180556

Access_Constraints: None.
Use_Constraints:

If you use these data in a publication, presentation, or other product, it is requested that you credit USGS and the authors of this data 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: AK
Postal_Code: 99508
Country: USA

Contact_Voice_Telephone: 907-786-7000
Contact_Electronic_Mail_Address: ascweb@usgs.gov

Cross_Reference:

Citation_Information:

Originator: Colella, J.P. (ORCID: 0000-0003-2463-1029)
Originator: Wilson, R.E. (ORCID: 0000-0003-1800-0183)
Originator: Talbot, S.L. (ORCID: 0000-0002-3312-7214)
Originator: Cook, J.A. (ORCID: 0000-0003-3985-0670)
Publication_Date: 2019
Title:

Implications of introgression for wildlife translocations: the case of North American martens

Geospatial_Data_Presentation_Form: journal article
Series_Information:

Series_Name: Conservation Genetics
Issue_Identification: 20(2):152-166

Publication_Information:

Publication_Place: online
Publisher: Springer Netherlands

Other_Citation_Details:

Colella, J.P., Wilson, R.E., Talbot, S.L., Cook, J.A. 2019. Implications of introgression for wildlife translocations: the case of North American martens. Conservation Genetics 20(2):152-166 doi:10.1007/s10592-018-1120-5

Online_Linkage: https://doi.org/10.1007/s10592-018-1120-5

Data_Quality_Information:

Attribute_Accuracy:

Attribute_Accuracy_Report:

Original individual catalog numbers, other identifiers, species provided and Genbank accession numbers for each gene/locus were cross-checked and verified to match the accompanying worksheet. We observed sterile techniques in the handling of all DNA. All procedures were performed with positive and negative controls to provide evidence of replication without contamination. For nuclear loci, ambiguities were called when two alleles were present at a 0.3 frequency threshold. All sequences with >50% ambiguities were eliminated from analyses. Reported sequences are from parallel-tagged amplicon sequencing with ≥ 20 coverage for each locus.

Logical_Consistency_Report:

Repetitive regions of the D-loop (base pairs: 15449-16521) in the complete mitochondrial genomes varied in quality across individuals, therefore variable numbers of tandem repeats (VNTRs) were removed for all individuals prior to conducting the analyses in Colella et al (2018). Two individuals (UAM:Mamm 54568 and MSB:Mamm 268541) were assigned the 'Species' attribute "NA", because available genetic data precluded species assignment to Martes americana or M. caurina, but did exclude assignment to other Martes species.

Completeness_Report:

Empty cells indicate loci for which poor quality (>50% ambiguous) or no sequence was obtained for the associated individual.

Positional_Accuracy:

Horizontal_Positional_Accuracy:

Horizontal_Positional_Accuracy_Report:

No geospatial data were acquired from the contributing data sources.

Lineage:

Methodology:

Methodology_Type: Lab
Methodology_Description:

DNA was extracted from liver samples using a modified salt extraction technique (Medrano et al. 1990; Sonsthagen et al. 2004) or E.Z.N.A. Tissue DNA kits (samples without mitogenomes sequenced; Omega bio-tek Inc., Norcross, Georgia, USA).

Methodology_Citation:

Citation_Information:

Originator: Medrano, J.F.
Originator: Aasen, E.
Originator: Sharrow, L.
Publication_Date: 1990
Title: DNA extraction from nucleated red blood cells
Geospatial_Data_Presentation_Form: journal article
Series_Information:

Series_Name: Biotechniques
Issue_Identification: 8(1):43

Publication_Information:

Publication_Place: online
Publisher: Future Science, Ltd.

Other_Citation_Details:

Medrano, J.F., Aasen, E., Sharrow, L. 1990. DNA extraction from nucleated red blood cells. Biotechniques 8(1):43

Methodology_Citation:

Citation_Information:

Originator: Sonsthagen, S.A. (ORCID 0000-0001-6215-5874)
Originator: Talbot, S.L. (ORCID 0000-0002-3312-7214)
Originator: White, C.M.
Publication_Date: 2004
Title:

Gene flow and genetic characterization of Northern Goshawks breeding in Utah

Geospatial_Data_Presentation_Form: journal article
Series_Information:

Series_Name: The Condor
Issue_Identification: 106(4):826-836

Publication_Information:

Publication_Place: online
Publisher: American Ornithological Society

Other_Citation_Details:

Sonsthagen, S.A., Talbot, S.L., White, C.M. 2004. Gene flow and genetic characterization of Northern Goshawks breeding in Utah. Condor 106(4):826-836 doi:0.1650/7448

Online_Linkage: https://doi.org//10.1650/7448

Methodology:

Methodology_Type: Lab
Methodology_Description:

Polymerase chain reaction (PCR) amplification conditions of loci and sequencing techniques are provided in Colella et al 2018. Primer pairs used for all reactions are provided in the "Source" section below (see Folmer et al 1994, Talbot, S.L., unpubl., Venta et al 1996, and Lyons et al 1997).

Methodology_Citation:

Citation_Information:

Implications of introgression for wildlife translocations: the case of North American martens

Geospatial_Data_Presentation_Form: journal article
Series_Information:

Series_Name: Conservation Genetics
Issue_Identification: 20(2):152-166

Publication_Information:

Publication_Place: online
Publisher: Springer Netherlands

Other_Citation_Details:

Online_Linkage: https://doi.org/10.1007/s10592-018-1120-5

Source_Information:

Source_Citation:

Citation_Information:

Originator: University of Alaska Museum Mammals catalog
Originator:

The Museum of Southwestern Biology, Albuquerque, New Mexico Mammal Collection

Publication_Date: Unpublished material
Title: Individual Contributors of Samples
Geospatial_Data_Presentation_Form: samples

Type_of_Source_Media: tissue for genetic analyses
Source_Time_Period_of_Content:

Time_Period_Information:

Range_of_Dates/Times:

Beginning_Date: 1972
Ending_Date: 2010

Source_Currentness_Reference: observed

Source_Citation_Abbreviation: sample_sources
Source_Contribution:

All samples with "Collection" values of "UAM:Mamm" were obtained from the University of Alaska Museum Mammals catalog. All samples with "Collection" values of "MSB:Mamm" were obtained from the Museum of Southwestern Biology, Albuquerque, New Mexico Mammal Collection.

Source_Information:

Source_Citation:

Citation_Information:

Originator: Folmer, O.
Originator: Black, M.
Originator: Hoeh, W.
Originator: Lutz, R.
Originator: Vrijenhoek, R.
Publication_Date: 1994
Title:

DNA primers for amplification of mitochondrial cytochrome c oxidase subunit 1 from diverse metazoan invertebrates

Geospatial_Data_Presentation_Form: journal article
Series_Information:

Series_Name: Molecular Marine Biology and Biotechnology
Issue_Identification: 3(5):294-299

Publication_Information:

Publication_Place: Germany
Publisher: Blackwell Science, Inc.

Other_Citation_Details:

Folmer, O., Black, M., Hoeh, W., Lutz, R., Vrijenhoek, R. 1994. DNA primers for amplification of mitochondrial cytochrome c oxidase subunit 1 from diverse metazoan invertebrates. Molecular Marine Biology and Biotechnology 3(5):294-299

Type_of_Source_Media: publication
Source_Time_Period_of_Content:

Time_Period_Information:

Single_Date/Time:

Calendar_Date: 1994

Source_Currentness_Reference: publication date

Source_Citation_Abbreviation: Folmer et al 1994
Source_Contribution:

Primer sequences used to collect COX1 data in this study: HCO2198(TAAACTTCAGGGTGACCAAAAAATCA)/LCO1490(GGTCAACAAATCATAAAGATATTGG).

Source_Information:

Source_Citation:

Citation_Information:

Originator: Talbot, S.L. (ORCID: 0000-0002-3312-7214)
Publication_Date: Unpublished material
Title:

Alaska Science Center, Molecular Ecology Laboratory Unpublished Marker Research

Geospatial_Data_Presentation_Form: designed primer sequences
Other_Citation_Details:

Species/study specific primer design is often required to optimize results on a case by case basis using either publicly available DNA sequences from Genbank or the literature and experimental DNA sequences obtained during testing phases within the lab.

Type_of_Source_Media: digital database file
Source_Time_Period_of_Content:

Time_Period_Information:

Single_Date/Time:

Calendar_Date: 2015

Source_Currentness_Reference: observed

Source_Citation_Abbreviation: Talbot, S.L., unpubl.
Source_Contribution:

Primer sequences used to collect whole mitogenomes (mtG), AdipoQ, ASIP, HTR1B, IRBP, MC4R, Fox2P, and TBG: mitogenome in five reactions: Rxn1 (mtG_Marten_27L: CACACATAACTGTGGTGTCATGC/mtG_Marten_3179H:GTCTGAACTCAGATCACGTAGG); Rxn2 (mtG_Marten_1909L:GGAGCTATAGAGAAAGTACCGC/mtG_Muer_MTH_11H:ACTTAGGGCTTTGAAGGCCCTTGGTC); Rxn3 (mtG_Marten_7615L:GAAAGGAAGGAATCGAACCC/mtG_Marten_11154H:GGAAGTCATAAGTGAAGACCG); Rxn4 (mtG_Marten 11135L:CCCTAATACTCATAGCAAGCC/mtG_Marten _14969H:GAGGGAGCCGAAATTTCATCATGC); Rxn5 (mtG_Marten_14495L: CAACCTCAACATCATCACCC/mtG_Marten_782H: GTGGAGGCTTGCATGTGTAATTCTG); AdipoQ (AdipoQ-F1:TGT TGC CAC GAG CTG TTC TAC /AdipoQ-R1:GTCATGGTAGAGAAGGAAGC); ASIP (AG393-F:CCTACTCCTGRCCACCCTGC/AG1113-R:CTGAAAGGACTAGTTCAT); HTR1B (HT1B1153-F:AACTCATGGCCGCTAGGGAGC/5HT1B5409-R:GGTTTGAAGCACCAAATCC); IRBP (IRBP35-F:GGATGCAGGAAGCCATCG/IRBP785-R:TGGTGTCCCCACACAGGGTA); MC4R (MC4R-R:TTTGAAGGTTTTCCTCAG /Muer_MC4R:TACTCTGATGGAGGGTGCTATGAGC); Fox2p (Fox2P_2428-F:GATTGCAGAGGATGAAGACTG/Fox2P_3206-R:TAATGTTAGCTTAGGATTGC); TBG (TBG24F:CATCAATGCTGACTTTGC/TBG360R:TGCAGAAACATTGGAGAAG).

Source_Information:

Source_Citation:

Citation_Information:

Originator: Venta, P.J.
Originator: Brouillette, J.A.
Originator: Yuzbasiyan-Gurkan, V.
Originator: Brewer, G.J.
Publication_Date: 1996
Title:

Gene-specific universal mammalian sequence-tagged sites: application to the canine genome

Geospatial_Data_Presentation_Form: journal article
Series_Information:

Series_Name: Biochemical Genetics
Issue_Identification: 34(7-8):321-341

Publication_Information:

Publication_Place: online
Publisher: Springer Nature Switzerland AG

Other_Citation_Details:

Venta, P.J., Brouillette, J.A., Yuzbasiyan-Gurkan, V., Brewer, G.J. 1996. Gene-specific universal mammalian sequence-tagged sites: application to the canine genome. Biochemical Genetics 34(7-8):321-341 doi:10.1007/BF02399951

Online_Linkage: https://doi.org/10.1007/BF02399951

Type_of_Source_Media: publication
Source_Time_Period_of_Content:

Time_Period_Information:

Single_Date/Time:

Calendar_Date: 1996

Source_Currentness_Reference: publication date

Source_Citation_Abbreviation: Venta et al 1996
Source_Contribution:

Primer sequences used to collect FES, GHR, RHO and WT data in this study: FES (HFESEX14D:GGGGAACTTTGGCGAAGTGTT/HFESEX15U:TCCATGACGATGTAGATGGG); GHR (HGHREX9D:CCAGTTCCAGTTCCAAAGAT/HGHREX10U:TGATTCTTCTGGTCAAGGCA); RHO (RHO1 primer 1:TACATGTTCGTGGTCCACTT/RHO1 primer 2:TGGTGGGTGAAGATGTAGAA); WT (WT1 primer 1:GAGAAACCATACCAGTGTGA/WT1 primer 2 :GTTTTACCTGTATGAGTCCT).

Source_Information:

Source_Citation:

Citation_Information:

Originator: Lyons, L.A.
Originator: Laughlin, T.F.
Originator: Copeland, N.G.
Originator: Jenkins, N.A.
Originator: Womack, J.E.
Originator: O'Brien, S.J.
Publication_Date: 1997
Title:

Comparative anchor tagged sequences (CATS) for integrative mapping of mammalian genomes

Geospatial_Data_Presentation_Form: journal article
Series_Information:

Series_Name: Nature Genetics
Issue_Identification: 15(1):47-56

Publication_Information:

Publication_Place: online
Publisher: Springer Nature Limited

Other_Citation_Details:

Lyons, L.A., Laughlin, T.F., Copeland, N.G., Jenkins, N.A., Womack, J.E., O'Brien, S.J. 1997. Comparative anchor tagged sequences (CATS) for integrative mapping of mammalian genomes. Nature Genetics 15(1):47-56 doi:10.1038/ng0197-47

Online_Linkage: https://doi.org/10.1038/ng0197-47

Type_of_Source_Media: publication
Source_Time_Period_of_Content:

Time_Period_Information:

Single_Date/Time:

Calendar_Date: 1997

Source_Currentness_Reference: observed

Source_Citation_Abbreviation: Lyons et al 1997
Source_Contribution:

Primer sequences used to collect CHRNA data in this study: (CHRNA1F:GACCATGAAGTCAGACCAGGAG/CHRNA1R:GGAGTATGTGGTCCATCACCAT).

Process_Step:

Process_Description:

Individual samples were recovered by identifying individual barcodes and adaptors and quality score trimming was performed with MiSeq Reporter software (Illumina, San Diego CA, USA). Paired-end reads were assembled and mapped to their respective reference sequences in CLC Genomics v7.5 https://www.qiagenbioinformatics.com/ M. americana references included the mitogenome (HM106324.1), AdipoQ (FJ157362), CHRNA (AF498141), and FES (AF498172). Martes pennanti (fisher) references included GHR (AF498197), RHO (AF498221), and WT (EF988072). Mustela erminea (short-tailed weasel) references included HTR1B (JX130716.1), Mustela frenata (long-tailed weasel) references included TGB (AY50660.1), Mustela putorius (domestic ferret) references included Fox2p (XM_013051015.1) and MC4R (XM_004745584.2), and Neovison vison references included ASIP (KP981640).

Process_Date: Unknown

Entity_and_Attribute_Information:

Detailed_Description:

Entity_Type:

Entity_Type_Label: martes_dnaSequence_northAmerica_colella_2019
Entity_Type_Definition:

Comma Separated Value (CSV) file containing individual sample identification and associated Genbank accession numbers for each gene.

Entity_Type_Definition_Source: Author defined

Attribute:

Attribute_Label: Collection
Attribute_Definition: Indicates the source of a sample.
Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: MSB:Mamm
Enumerated_Domain_Value_Definition:

Samples designated by MSB:Mamm were obtained from the Museum of Southwestern Biology, Albuquerque, New Mexico Mammal Collection.

Enumerated_Domain_Value_Definition_Source: Author defined

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: UAM:Mamm
Enumerated_Domain_Value_Definition:

Samples designated by UAM:Mamm were obtained from the University of Alaska Museum Mammals catalog.

Enumerated_Domain_Value_Definition_Source: Author defined

Attribute:

Attribute_Label: Arctos_Catalog_Number
Attribute_Definition: Arctos catalog number of individual.
Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

This number in conjunction with the associated collection can be used at https://arctos.database.museum/SpecimenSearch.cfm to obtain detailed sample information.

Attribute:

Attribute_Label: Other_Identifier
Attribute_Definition:

Alternative sample identifier oftentimes associated with a temporary number prior to accession within Arctos, a collection unique identifier, or otherwise. Provided here as an additional cross-reference to the Arctos Catalog Number to confirm correct identification. Researchers with other organizations may use this as their primary identification.

Attribute_Definition_Source:

Arctos documentation http://handbook.arctosdb.org/documentation/other-identifying-numbers.html

Attribute_Domain_Values:

Unrepresentable_Domain:

This number appears in the “Identifiers” portion of the Arctos sample entry, e.g. https://arctos.database.museum/guid/UAM:Mamm:34701, and serves as a cross-check to confirm identity of the individual analyzed.

Attribute:

Attribute_Label: Type_of_Other_Identifier
Attribute_Definition:

Lists values from Arctos http://arctos.database.museum/SpecimenSearch.cfm controlled vocabulary indicating the origin of the other identifier.

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: AF
Enumerated_Domain_Value_Definition:

Alaska Frozen Tissue Collection, University of Alaska Museum of the North, Fairbanks, Alaska.

Enumerated_Domain_Value_Definition_Source: Author defined

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: NK
Enumerated_Domain_Value_Definition:

"New Mexico Karytoype Number," a frozen tissue collection number for the Museum of Southwestern Biology.

Enumerated_Domain_Value_Definition_Source: Author defined

Attribute:

Attribute_Label: Species
Attribute_Definition:

Attribute_Definition_Source: Author defined.
Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: Martes americana
Enumerated_Domain_Value_Definition: American marten (Martes americana)
Enumerated_Domain_Value_Definition_Source: Author defined

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: Martes caurina
Enumerated_Domain_Value_Definition: Pacific marten (Martes caurina)
Enumerated_Domain_Value_Definition_Source: Author defined

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: NA
Enumerated_Domain_Value_Definition:

Individuals were assigned the 'Species' attribute "NA", when available genetic data precluded species assignment to Martes americana or M. caurina, but did exclude assignment to other Martes species.

Enumerated_Domain_Value_Definition_Source: Author defined

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: Martes zibellina
Enumerated_Domain_Value_Definition: Sable (Martes zibellina)
Enumerated_Domain_Value_Definition_Source: Author defined

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: Gulo gulo
Enumerated_Domain_Value_Definition: Wolverine (Gulo gulo)
Enumerated_Domain_Value_Definition_Source: Author defined

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: Martes pennanti
Enumerated_Domain_Value_Definition: Fisher (Martes pennanti)
Enumerated_Domain_Value_Definition_Source: Author defined

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: Neovison vison
Enumerated_Domain_Value_Definition: American mink (Neovison vison)
Enumerated_Domain_Value_Definition_Source: Author defined

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: Mustela frenata
Enumerated_Domain_Value_Definition: Long-tailed weasel (Mustela frenata)
Enumerated_Domain_Value_Definition_Source: Author defined

Attribute:

Attribute_Label: COX1
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 688 base pair portion of Cytochrome c oxidase I (mtDNA) using primers from Folmer et al 1994. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: mtgeno
Attribute_Definition:

GenBank accession number associated with sequence obtained from the complete mtDNA amplified in 6 reactions using primers from Talbot, S.L., unpubl. Sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: AdipoQ
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 468 base pair portion of adiponectin using primers from Talbot, S.L., unpubl. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/.

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: ASIP
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 482 base pair portion of agouti signaling protein using primers from Talbot, S.L., unpubl. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: CHRNA
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 369 base pair portion of cholinergic receptor, nicotinic alpha polypeptide 1 precursor using primers from Lyons et al 1997. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: FES
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 417 base pair portion of feline sarcoma proto-oncogene using primers from Venta et al 1996. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: Fox2p
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 276 base pair portion of forkhead box protein P2 using primers from Talbot, S.L., unpubl. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: GHR
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 622 base pair portion of growth hormone receptor using primers from Venta et al 1996. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: HTR1B
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 676 base pair portion of 5-HTR1B serotonin (5-hydroxytryptamine) receptor (HTR1B) using primers from Talbot, S.L., unpubl. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: IRBP
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 714 base pair portion of inter-photoreceptor retinoid-binding protein using primers from Talbot, S.L., unpubl. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: MC4R
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 779 base pair portion of melanocortin receptor 4 using primers from Talbot, S.L., unpubl. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: RHO
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 284 base pair portion of rhodopsin using primers from Venta et al 1996. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: TBG
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 382 base pair portion of Thyroxin binding globulin using primers from Talbot, S.L., unpubl. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute:

Attribute_Label: WT
Attribute_Definition:

GenBank accession number associated with sequence obtained from a 704 base pair portion of Wilms Tumor using primers from Venta et al 1996. Complete sequences available online at https://www.ncbi.nlm.nih.gov/GenBank/

Attribute_Definition_Source: Author defined
Attribute_Domain_Values:

Unrepresentable_Domain:

GenBank accession numbers are assigned by GenBank and may be used to review complete sequences at https://www.ncbi.nlm.nih.gov/GenBank/

Sequence Information from the Mitogenome and Ten Nuclear Genes from Martes Species (Martes americana, M. caurina) of North America, 1972-2010

Metadata: