Metadata: Identification_Information: Citation: Citation_Information: Originator: Gallery, Dominique N. Originator: Kuffner, Ilsa B. Originator: Toth, Lauren T. Publication_Date: 20210430 Title: DNA microsatellite markers for Mustard Hill Coral (Porites astreoides) from the Florida Keys Reef Tract Geospatial_Data_Presentation_Form: tabular digital data Larger_Work_Citation: Citation_Information: Originator: Gallery, Dominique N. Originator: Kuffner, Ilsa B. Originator: Toth, Lauren T. Publication_Date: 20210430 Title: DNA microsatellite markers for Mustard Hill Coral (Porites astreoides) from the Florida Keys Reef Tract Series_Information: Series_Name: U.S. Geological Survey data release Issue_Identification: doi:10.5066/P9R8NZ2J Publication_Information: Publication_Place: St. Petersburg, Florida Publisher: U.S. Geological Survey - St. Petersburg Coastal and Marine Science Center Online_Linkage: https://doi.org/10.5066/P9R8NZ2J Description: Abstract: This data set includes: (1) allele sizes of 11 previously published microsatellites (Kenkel and others, 2013; Shearer and Coffroth, 2004) for 39 individuals of mustard hill coral, Porites astreoides (mustard hill coralP. astreoides) collected in the Spring of 2017 from four locations in the Florida Keys Reef Tract (FKRT): Fowey Rocks, Crocker Reef, Sombrero Reef and Pulaski Shoal and (2) the deoxyribonucleic acid (DNA) concentration of the extracted DNA prior to polymerase chain reaction (PCR) reactions for the samples. These data were used in Gallery and others (2021) to evaluate the genetic diversity and connectivity of individuals among and between sites. Purpose: Microsatellites were used to determine the genetic relatedness of the sampled Porites astreoides in the Florida Keys. Time_Period_of_Content: Time_Period_Information: Multiple_Dates/Times: Single_Date/Time: Calendar_Date: 201705 Single_Date/Time: Calendar_Date: 201909 Single_Date/Time: Calendar_Date: 201908 Single_Date/Time: Calendar_Date: 201911 Currentness_Reference: Date of process steps Status: Progress: Complete Maintenance_and_Update_Frequency: None planned Spatial_Domain: Bounding_Coordinates: West_Bounding_Coordinate: -82.77280 East_Bounding_Coordinate: -80.09560 North_Bounding_Coordinate: 25.59047 South_Bounding_Coordinate: 24.62687 Keywords: Theme: Theme_Keyword_Thesaurus: USGS Metadata Identifier Theme_Keyword: USGS:99036c02-ead0-4f81-aa00-cc32f825f223 Theme: Theme_Keyword_Thesaurus: USGS Thesaurus Theme_Keyword: marine biology Theme_Keyword: genetic diversity Theme_Keyword: genotype Theme_Keyword: population and community ecology Theme_Keyword: population dynamics Theme_Keyword: molecular biology Theme_Keyword: coelenterates Place: Place_Keyword_Thesaurus: None Place_Keyword: Florida Keys Place_Keyword: Pulaski Shoal Place_Keyword: Sombrero Reef Place_Keyword: Crocker Reef Place_Keyword: Fowey Rocks Access_Constraints: none Use_Constraints: none Point_of_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Lauren T. Toth Contact_Organization: U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center Contact_Position: Physical Scientist Contact_Address: Address_Type: mailing and physical Address: 600 4Th Street South City: St. Petersburg State_or_Province: Florida Postal_Code: 33701 Country: United States Contact_Voice_Telephone: 727-502-8029 Contact_Electronic_Mail_Address: ltoth@usgs.gov Cross_Reference: Citation_Information: Originator: D.N. Gallery Originator: M.L. Green Originator: I.B. Kuffner Originator: E.A. Lenz Originator: L.T. Toth Publication_Date: 20210709 Title: Genetic structure and diversity of the mustard hill coral Porites astreoides along the Florida Keys reef tract Publication_Information: Publication_Place: Berlin, Germany Publisher: Marine Biodiversity, Springer Nature Online_Linkage: https://doi.org/10.1007/s12526-021-01196-7 Cross_Reference: Citation_Information: Originator: C.D. Kenkel Originator: G. Goodbody-Gringley Originator: D. Caillaud Originator: S.W. Davies Originator: E. Bartels Originator: M.V. Matz Publication_Date: 20130730 Title: Evidence for a host role in thermotolerance divergence between populations of the mustard hill coral (Porites astreoides) from different reef environments Publication_Information: Publication_Place: Hoboken, New Jersey Publisher: Molecular Ecology, Wiley Online_Linkage: https://doi.org/10.1111/mec.12391 Cross_Reference: Citation_Information: Originator: T.L. Shearer Originator: M.A. Coffroth Publication_Date: 20040608 Title: Isolation of microsatellite loci from the scleractinian corals, Montastraea cavernosa and Porites astreoides Publication_Information: Publication_Place: Hoboken, New Jersey Publisher: Molecular Ecology Notes, Wiley Online_Linkage: https://doi.org/10.1111/j.1471-8286.2004.00653.x Cross_Reference: Citation_Information: Originator: C. van Oosterhout Originator: W.F. Hutchinson Originator: D.P.M. Wills Originator: P. Shipley Publication_Date: 20040608 Title: Micro-Checker: software for identifying and correcting genotyping errors in microsatellite data Publication_Information: Publication_Place: Hoboken, New Jersey Publisher: Molecular Ecology Notes, Wiley Online_Linkage: https://doi.org/10.1111/j.1471-8286.2004.00684.x Cross_Reference: Citation_Information: Originator: S.W. Davies Originator: M. Rahman Originator: E. Meyer Originator: E.A. Green Originator: E. Buschiazzo Originator: M. Medina Originator: M.V. Matz Publication_Date: 20121031 Title: Novel polymorphic microsatellite markers for population genetics of the endangered Caribbean star coral, Montastraea faveolata Publication_Information: Publication_Place: Berlin, Germany Publisher: Marine Biodiversity, Springer Online_Linkage: https://doi.org/10.1007/s12526-012-0133-4 Cross_Reference: Citation_Information: Originator: A. Baker Originator: R. Cunning Publication_Date: 20160304 Title: Bulk gDNA extraction from coral samples Publication_Information: Publication_Place: Online Publisher: protocols.io Online_Linkage: https://doi.org/10.17504/protocols.io.dyq7vv Cross_Reference: Citation_Information: Originator: I.B. Kuffner Originator: T.D. Hickey Originator: J.M. Morrison Publication_Date: 20130608 Title: Calcification rates of the massive coral Siderastrea siderea and crustose coralline algae along the Florida Keys (USA) outer-reef tract Publication_Information: Publication_Place: Berlin, Germany Publisher: Coral Reefs, Springer Online_Linkage: https://doi.org/10.1007/s00338-013-1047-8 Cross_Reference: Citation_Information: Originator: J.M. Morrison Originator: I.B. Kuffner Originator: T.D. Hickey Publication_Date: 20130730 Title: Methods for monitoring corals and crustose coralline algae to quantify in-situ calcification rates Publication_Information: Publication_Place: Reston, VA Publisher: U.S. Geological Survey Online_Linkage: http://pubs.usgs.gov/of/2013/1159/ Cross_Reference: Citation_Information: Originator: E.A. Lenz Originator: L.A. Bartlett Originator: A. Stathakopoulos Originator: I.B. Kuffner Publication_Date: 20210622 Title: Physiological differences in bleaching response of the coral Porites astreoides along the Florida Keys reef tract during high-temperature stress Publication_Information: Publication_Place: Lausanne, Switzerland Publisher: Frontiers in Marine Science, Frontiers Online_Linkage: https://doi.org/10.3389/fmars.2021.615795 Data_Quality_Information: Attribute_Accuracy: Attribute_Accuracy_Report: Individual sample ID's were cross-checked and verified in Microsoft Excel Version 2002 worksheets for extraction, PCR, and placement into plates sent for data analysis. For quality control, all samples were run on an agarose gel to ensure DNA extraction was successful prior to running PCR. Microsatellite marker calls were processed through Micro-Checker V. 2.2.3 (van Oosterhout and others 2004) to detect errors in data interpretation. Logical_Consistency_Report: Reported allele sizes were reviewed to confirm they conform to expected distributions using Micro-Checker V. 2.2.3 (van Oosterhout and others 2004). Completeness_Report: Any data omissions for entities are explained in the Entity and Attribute definition section below. Blank data indicates data was homozygous for that allele. Attribute data equaling “NP” in a cell of the data set refers to a sample that did not amplify or show any product (“no product”). Attribute data equaling "?" refers to a sample with product not sufficient (DNA concentration too low) to call the allele. Positional_Accuracy: Horizontal_Positional_Accuracy: Horizontal_Positional_Accuracy_Report: No formal positional accuracy tests were conducted Vertical_Positional_Accuracy: Vertical_Positional_Accuracy_Report: No formal positional accuracy tests were conducted Lineage: Process_Step: Process_Description: Porites astreoides samples were obtained from four locations along the FKRT using a Global Positioning System (GPS): Fowey Rocks in Biscayne National Park (25.59047, -80.09560), Crocker Reef in the Upper Florida Keys (24.90908, -80.52665), Sombrero Reef in the Middle Florida Keys (24.62687, -81.10893), and Pulaski Shoal in the Dry Tortugas National Park (24.69355, -82.77280). The corals were collected within a 100 to 200 square meter area at each site, and colonies selected for sampling were no closer than approximately 20 meters (Lenz and others, 2021; compare with Kuffner and others, 2013). After collection, the corals were grown for two years (from 2015 to 2017) on cinderblocks installed on the reef as part of the U.S. Geological Survey calcification assessment project (Kuffner and others 2013; Morrison and others 2013). Coral colony condition was assessed, and growth rates were monitored every six months during the study using the methods outlined in Kuffner and others (2013; data presented in Lenz and others, 2021). At the end of the two-year period, several 4 millimeter thick slabs were cut from the center of the colonies. One slab was used for host tissue sampling in this study as well as symbiont sampling and histological examination in an associated study (Lenz and others, 2021). The rest of the colonies were outplanted onto the reefs. Process_Date: 201705 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Ilsa B.Kuffner Contact_Organization: U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center Contact_Address: Address_Type: mailing and physical Address: 600 4th Street South City: St. Petersburg State_or_Province: Florida Postal_Code: 33701 Country: United States Contact_Voice_Telephone: 727-502-8048 Contact_Electronic_Mail_Address: ikuffner@usgs.gov Process_Step: Process_Description: DNA Extraction: Preparation of cetyltrimethylammonium bromide (CTAB) mixture (Baker and Cunning 2016). Process_Date: 201905 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Dominique N. Gallery Contact_Organization: University of South Florida, U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center Contact_Address: Address_Type: mailing and physical Address: 600 4th Street South City: St. Petersburg State_or_Province: Florida Postal_Code: 33701 Country: United States Contact_Voice_Telephone: 727-502-8000 Contact_Electronic_Mail_Address: dgallery@mail.usf.edu Process_Step: Process_Description: Quibit 3.0 analysis to quantify DNA extracted. Process_Date: 201905 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Dominique N. Gallery Contact_Organization: University of South Florida, U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center Contact_Address: Address_Type: mailing and physical Address: 600 4th Street South City: St. Petersburg State_or_Province: Florida Postal_Code: 33701 Country: United States Contact_Voice_Telephone: 727-502-8000 Contact_Electronic_Mail_Address: dgallery@mail.usf.edu Process_Step: Process_Description: Run electrophoresis gel using a 1.5% agarose gel suspension to visualize DNA extraction. Process_Date: 201905 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Dominique N. Gallery Contact_Organization: University of South Florida, U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center Contact_Address: Address_Type: mailing and physical Address: 600 4th Street South City: St. Petersburg State_or_Province: Florida Postal_Code: 33701 Country: United States Contact_Voice_Telephone: 727-502-8000 Contact_Electronic_Mail_Address: dgallery@mail.usf.edu Process_Step: Process_Description: Amplified DNA using PCR in 10 microliter (μL) reactions with 10 nanograms (ng) DNA, 1 micromole (μM) fluorescently-labeled forward primer, 1 μM reverse primer, 0.2 millimole (mM) deoxynucleoside triphosphate (dNTP) (Promega), 2μL 5 times (5x) PCR GoTaq Flexi buffer (Promega), 0.25 units (0.05 μL) GoTaq Flexi polymerase (Promega), 2 mM MgCl2 (Promega). The PCR procedure was based on the protocols of Davies and others (2013), but was modified as follows: (1) increased to 1 μM fluorescently-labeled forward primer and 1 μM reverse primer, (2) modified to 2 μL 5X PCR GoTaq Flexi buffer (Promega). Increased 0.25 U GoTaq Flexi polymerase (Promega), (3) added 2 mM magnesium chloride (MgCl2) (Promega), and (4) thermocycler protocol modifications: Increased initial denaturing temperature 95 degrees Celsius (˚C). Increased number of cycles to 40 at (95˚C for 40 seconds, 58–60˚C for 60 seconds, 72˚C for 60 seconds). Process_Date: 201908 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Dominique N. Gallery Contact_Organization: University of South Florida, U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center Contact_Address: Address_Type: mailing and physical Address: 600 4th Street South City: St. Petersburg State_or_Province: Florida Postal_Code: 33701 Country: United States Contact_Voice_Telephone: 727-502-8000 Contact_Electronic_Mail_Address: dgallery@mail.usf.edu Process_Step: Process_Description: Sent select samples to the University of Illinois Urbana-Champagne (UIUC) Core Sequencing Facility for fragment analysis of dilution sets to determine optimum dilution for each primer set. Process_Date: 201908 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Unknown Contact_Organization: University of Illinois Urbana-Champagne Core Sequencing Facility Contact_Address: Address_Type: mailing and physical Address: 334 Edward R. Madigan Laboratory, 1201 W. Gregory Drive City: Urbana State_or_Province: Illinois Postal_Code: 61801 Country: United States Contact_Voice_Telephone: 217-333-9520 Contact_Electronic_Mail_Address: dna-seq@illinois.edu Process_Step: Process_Description: Sent samples to the UIUC Core Sequencing Facility for fragment analysis using Applied Biosystems 3730x1 DNA Analyzer and ROX1000 standards. Process_Date: 201909 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Unknown Contact_Organization: University of Illinois Urbana-Champagne Core Sequencing Facility Contact_Address: Address_Type: mailing and physical Address: 334 Edward R. Madigan Laboratory, 1201 W. Gregory Drive City: Urbana State_or_Province: Illinois Postal_Code: 61801 Country: United States Contact_Voice_Telephone: 217-333-9520 Contact_Electronic_Mail_Address: dna-seq@illinois.edu Process_Step: Process_Description: USGS researchers worked with collaborators at University of South Florida (USF), Saint Petersburg to analyze microsatellites using GeneMapper 5.0 to determine microsatellite calls. Micro-Checker (version 2.2.3) was used to confirm that calls were accurate (for example, correct number of bases between calls). Allele bins were assigned by rounding observed size to the closest integer, except when Micro-Checker indicated that the bins should be adjusted due to errors with nucleotide repeats (for example, only 2 base pairs [bp] difference for trinucleotide repeats). In those cases, alleles were marked as unknown "?" instead of called. Process_Date: 201910 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Dominique N. Gallery Contact_Organization: University of South Florida, U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center Contact_Address: Address_Type: mailing and physical Address: 600 4th Street South City: St. Petersburg State_or_Province: Florida Postal_Code: 33701 Country: United States Contact_Voice_Telephone: 727-502-8000 Contact_Electronic_Mail_Address: dgallery@mail.usf.edu Process_Step: Process_Description: Reran PCR for samples that failed to amplify well or indicated potential null alleles. Process_Date: 201911 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Dominique N. Gallery Contact_Organization: University of South Florida, U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center Contact_Address: Address_Type: mailing and physical Address: 600 4th Street South City: St. Petersburg State_or_Province: Florida Postal_Code: 33701 Country: United States Contact_Voice_Telephone: 727-502-8000 Contact_Electronic_Mail_Address: dgallery@mail.usf.edu Process_Step: Process_Description: Sent rerun samples to the UIUC Core Sequencing Facility for fragment analysis using Applied Biosystems 3730x1 DNA Analyzer and ROX1000 standards. "GeneScan™ 1000 ROX™ Size Standard is an internal lane size standard developed for use with Applied Biosystems® fluorescence-based DNA electrophoresis systems. The use of an internal lane size standard during electrophoresis enables automated data analysis and precise DNA fragment size comparisons between electrophoresis runs. GeneScan™ 1000 ROX™ Size Standard is designed for sizing DNA fragments in the 47–946 bp range and provides labeled fragments of 47, 51, 55, 82, 85 93 99, 126, 136, 262, 293, 317, 439, 557, 692, 695 and 946 bases. Each of the DNA fragments is labeled with ROX™ fluorophore, which results in a single peak when run under non-denaturing conditions." Quotation is from the ThermoFisher Catalog # 401098 Process_Date: 201911 Process_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Unknown Contact_Organization: University of Illinois Urbana-Champagne Core Sequencing Facility Contact_Address: Address_Type: mailing and physical Address: 334 Edward R. Madigan Laboratory, 1201 W. Gregory Drive City: Urbana State_or_Province: Illinois Postal_Code: 61801 Country: United States Contact_Voice_Telephone: 217-333-9520 Contact_Electronic_Mail_Address: dna-seq@illinois.edu Spatial_Data_Organization_Information: Indirect_Spatial_Reference: GPS coordinates collected at the four study sites, Fowey Rocks, Crocker Reef, Sombrero Reef, Pulaski Shoal Light Direct_Spatial_Reference_Method: Point Spatial_Reference_Information: Horizontal_Coordinate_System_Definition: Geographic: Latitude_Resolution: 0.0197864699 Longitude_Resolution: 0.0228595953 Geographic_Coordinate_Units: Decimal degrees Geodetic_Model: Horizontal_Datum_Name: D_WGS_1984 Ellipsoid_Name: WGS_1984 Semi-major_Axis: 6378137.0 Denominator_of_Flattening_Ratio: 298.257223563 Entity_and_Attribute_Information: Detailed_Description: Entity_Type: Entity_Type_Label: Porites astreoides Microsatellite Data.csv, Porites astreoides Microsatellite Data.xlsx Entity_Type_Definition: Microsoft Excel comma-separated values (.csv) and worksheet (.xlsx) files containing data for the Microsatellite markers for Porites astreoides Entity_Type_Definition_Source: Authors Attribute: Attribute_Label: Sample Name Attribute_Definition: This is a U.S. Geological Survey, Coastal and Marine Science Center numeric or alphanumeric label that uniquely identifies each sample. Three numbers identify the sample. Negative controls use the identifier "NEG". Attribute_Definition_Source: USGS Attribute_Domain_Values: Unrepresentable_Domain: A unique identifier given tofor each sample. A three-digit number was given to a tested sample. Negative controls were given the alphanumeric identifier "NEGP#". Attribute: Attribute_Label: Sample Type Attribute_Definition: Identification of sample or negative control. Attribute_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Sample Enumerated_Domain_Value_Definition: Sample of P. astreoides Enumerated_Domain_Value_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Negative Control Enumerated_Domain_Value_Definition: Negative controls were utilized to ensure there was no cross-contamination during PCR. Enumerated_Domain_Value_Definition_Source: USGS Attribute: Attribute_Label: Sample Location Attribute_Definition: The study site at which the sample was collected. Attribute_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: PLS Enumerated_Domain_Value_Definition: Pulaski Shoal Enumerated_Domain_Value_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: SMK Enumerated_Domain_Value_Definition: Sombrero Reef Enumerated_Domain_Value_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: FWY Enumerated_Domain_Value_Definition: Fowey Rocks Enumerated_Domain_Value_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: CRK Enumerated_Domain_Value_Definition: Crocker Reef Enumerated_Domain_Value_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Negative Enumerated_Domain_Value_Definition: Negative control has no location of origin. Enumerated_Domain_Value_Definition_Source: USGS Attribute: Attribute_Label: Panel Attribute_Definition: Microsatellite loci used for PCR amplification. Primers that begin with "Past_" are published in Kenkel and others (2013). Primers that begin with "PaGA" are published in Shearer and Coffroth (2004). Attribute_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Past_2 Enumerated_Domain_Value_Definition: Primer "Past_2" as published in Kenkel and others (2013) Enumerated_Domain_Value_Definition_Source: Kenkel and others (2013) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Past_3 Enumerated_Domain_Value_Definition: Primer "Past_3" as published in Kenkel and others (2013) Enumerated_Domain_Value_Definition_Source: Kenkel and others (2013) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: PaGA7 Enumerated_Domain_Value_Definition: Primer "PaGA7" as published in Shearer and Coffroth (2004) Enumerated_Domain_Value_Definition_Source: Kenkel and others (2013) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Past_8 Enumerated_Domain_Value_Definition: Primer "Past_8" as published in Kenkel and others (2013) Enumerated_Domain_Value_Definition_Source: Kenkel and others (2013) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Past_10 Enumerated_Domain_Value_Definition: Primer "Past_10" as published in Kenkel and others (2013) Enumerated_Domain_Value_Definition_Source: Kenkel and others (2013) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Past_13 Enumerated_Domain_Value_Definition: Primer "Past_13" as published in Kenkel and others (2013) Enumerated_Domain_Value_Definition_Source: Kenkel and others (2013) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Past_16 Enumerated_Domain_Value_Definition: Primer "Past_16" as published in Kenkel and others (2013) Enumerated_Domain_Value_Definition_Source: Kenkel and others (2013) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Past_17 Enumerated_Domain_Value_Definition: Primer "Past_17" as published in Kenkel and others (2013) Enumerated_Domain_Value_Definition_Source: Kenkel and others (2013) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: Past_21 Enumerated_Domain_Value_Definition: Primer "Past_21" as published in Kenkel and others (2013) Enumerated_Domain_Value_Definition_Source: Kenkel and others (2013) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: PaGA24 Enumerated_Domain_Value_Definition: Primer "PaGA24" as published in Shearer and Coffroth (2004) Enumerated_Domain_Value_Definition_Source: Shearer and Coffroth (2004) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: PaGA63 Enumerated_Domain_Value_Definition: Primer "PaGA63" as published in Shearer and Coffroth (2004) Enumerated_Domain_Value_Definition_Source: Shearer and Coffroth (2004) Attribute: Attribute_Label: Run Date Attribute_Definition: The date the run was processed by UIUC Core Sequencing Facility. Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 08/15/2019 Range_Domain_Maximum: 11/13/2019 Attribute_Units_of_Measure: Dates in MM/DD/YYYY format Attribute: Attribute_Label: Allele 1 Attribute_Definition: The first allele called from Gene-Mapper program. An integer value for called alleles. "NP" indicates there was no product visible in Gene-Mapper to call. "?" indicates there was product visible, but the result was not strong enough to definitively call the allele. Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 139 Range_Domain_Maximum: 463 Attribute_Units_of_Measure: Base pairs Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NP Enumerated_Domain_Value_Definition: NP indicates there was no product visible in Gene-Mapper to call. Enumerated_Domain_Value_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: ? Enumerated_Domain_Value_Definition: "?" indicates there was product visible, but the result was not strong enough to definitively call the allele. Enumerated_Domain_Value_Definition_Source: USGS Attribute: Attribute_Label: Allele 2 Attribute_Definition: The second allele called from Gene-Mapper program. An integer value for called alleles. "NP" indicates there was no product visible in Gene-Mapper to call. "?" indicates there was product visible, but the result was not strong enough to definitively call the allele. Homozygous alleles have the same value from Allele 1 repeated in Allele 2. Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 141 Range_Domain_Maximum: 463 Attribute_Units_of_Measure: Base pairs Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NP Enumerated_Domain_Value_Definition: Indicates there was no product visible in Gene-Mapper to call. Enumerated_Domain_Value_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: ? Enumerated_Domain_Value_Definition: ? indicates there was product visible, but the result was not strong enough to definitively call the allele. Enumerated_Domain_Value_Definition_Source: USGS Attribute: Attribute_Label: Size 1 Attribute_Definition: A non-integer number that is the exact number of base pairs determined by Gene-Mapper based on Rox1000 dye size standard. NP indicates there was no product visible in Gene-Mapper. Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 139.02 Range_Domain_Maximum: 462.80 Attribute_Units_of_Measure: Base pairs Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NP Enumerated_Domain_Value_Definition: Indicates there was no product visible in Gene-Mapper to call. Enumerated_Domain_Value_Definition_Source: USGS Attribute: Attribute_Label: Size 2 Attribute_Definition: A non-integer number that is the exact number of base pairs determined by Gene-Mapper based on Rox1000 dye size standard. NP indicates there was no product visible in Gene-Mapper. Homozygous alleles have the same value from Size 1 repeated in Size 2 Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 141.18 Range_Domain_Maximum: 463.80 Attribute_Units_of_Measure: Base pairs Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NP Enumerated_Domain_Value_Definition: NP indicates there was no product visible in Gene-Mapper. Enumerated_Domain_Value_Definition_Source: USGS Detailed_Description: Entity_Type: Entity_Type_Label: Porites_astreoides_DNA_concentration.csv, Porites_astreoides_DNA_concentration.xlsx Entity_Type_Definition: Microsoft Excel comma-separated values (.csv) and worksheet (.xlsx) files containing data for the concentration of DNA from Porites astreoides samples as determined by Qubit 3.0. These values were used to determine the volume of DNA added to PCR. Entity_Type_Definition_Source: USGS Attribute: Attribute_Label: Run Date Attribute_Definition: The date the run was processed by USGS researchers. Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 05/5/2019 Range_Domain_Maximum: 05/15/2019 Attribute_Units_of_Measure: Dates in MM/DD/YYYY format Attribute: Attribute_Label: Test Name Attribute_Definition: Unique alpha-numeric identifier assigned to each sample by Qubit 3.0 Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: Sample_#190505-174736 Range_Domain_Maximum: Sample_#190515-170555 Attribute_Units_of_Measure: N/A Attribute: Attribute_Label: Sample Number Attribute_Definition: This is a U.S. Geological Survey, Coastal and Marine Science Center alphanumeric label that uniquely identifies each sample. Three numbers identify the sample. Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 207 Range_Domain_Maximum: 497 Attribute_Units_of_Measure: N/A Attribute: Attribute_Label: Sample Location Attribute_Definition: The is the study site at which the sample was collected. Attribute_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: CRK Enumerated_Domain_Value_Definition: Crocker Reef Enumerated_Domain_Value_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: FWY Enumerated_Domain_Value_Definition: Fowey Rocks Enumerated_Domain_Value_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: SMK Enumerated_Domain_Value_Definition: Sombrero Reef Enumerated_Domain_Value_Definition_Source: USGS Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: PLS Enumerated_Domain_Value_Definition: Pulaski Shoal Enumerated_Domain_Value_Definition_Source: USGS Attribute: Attribute_Label: Qubit tube concentration (ng/mL) Attribute_Definition: The concentration of double-stranded DNA in the assay tube in nanograms per milliliter (ng/mL). Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 0.93 Range_Domain_Maximum: 495 Attribute_Units_of_Measure: ng/mL Attribute: Attribute_Label: Original sample concentration (ng/mL) Attribute_Definition: The concentration of the original sample DNA as calculated by Qubit 3.0 in nanograms per milliliter (ng/mL). Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 186 Range_Domain_Maximum: 99000 Attribute_Units_of_Measure: ng/mL Attribute: Attribute_Label: Sample volume (μL) Attribute_Definition: The volume of original sample used in the assay in microliters (μL). Attribute_Definition_Source: USGS Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 1 Range_Domain_Maximum: 1 Attribute_Units_of_Measure: μL Distribution_Information: Distributor: Contact_Information: Contact_Person_Primary: Contact_Person: Lauren T. Toth Contact_Organization: U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center Contact_Position: Research Physical Scientist Contact_Address: Address_Type: mailing and physical Address: 600 4Th Street South City: St. Petersburg State_or_Province: FL Postal_Code: 33701 Country: US Contact_Voice_Telephone: 727-502-8029 Contact_Electronic_Mail_Address: ltoth@usgs.gov 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: CSV, XLSX Digital_Transfer_Option: Online_Option: Computer_Contact_Information: Network_Address: Network_Resource_Name: https://coastal.er.usgs.gov/data-release/doi-P9R8NZ2J/data/Porites_astreoides_Microsatellite_Data.zip Network_Resource_Name: https://coastal.er.usgs.gov/data-release/doi-P9R8NZ2J/data/Porites_astreoides_DNA_Concentration.zip Fees: None Metadata_Reference_Information: Metadata_Date: 20210713 Metadata_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Lauren T. Toth Contact_Organization: U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center Contact_Position: Research Physical Scientist Contact_Address: Address_Type: mailing and physical Address: 600 4Th Street South City: St. Petersburg State_or_Province: Florida Postal_Code: 33701 Country: United States Contact_Voice_Telephone: 727-502-8029 Contact_Electronic_Mail_Address: ltoth@usgs.gov Metadata_Standard_Name: Content Standard for Digital Geospatial Metadata Metadata_Standard_Version: FGDC-STD-001-1998