Metadata: Identification_Information: Citation: Citation_Information: Originator: Dale W. Griffin Originator: William M. Benzel Originator: Shawn C. Fisher Originator: Michael J. Focazio Originator: Luke R. Iwanowicz Originator: Daniel K. Jones Originator: Keith A. Loftin Originator: Timothy J. Reilly Publication_Date: 20190425 Title: Presence/absence Quantitative Polymerase Chain Reaction (qPCR) Data from the Sediment-Bound Contaminant Resiliency and Response Strategy Pilot Study, Northeastern United States, 2015 Geospatial_Data_Presentation_Form: Tabular Digital Data Series_Information: Series_Name: U.S. Geological Survey Data Release Issue_Identification: doi:10.5066/F7XS5SH2 Publication_Information: Publication_Place: Reston, VA Publisher: U.S. Geological Survey Online_Linkage: https://doi.org/10.5066/F7XS5SH2 Larger_Work_Citation: Citation_Information: Originator: Timothy J. Reilly Originator: Daniel K. Jones Originator: Michael J. Focazio Originator: Kimberly C. Aquino Originator: Chelsea L. Carbo Originator: Erika E. Kaufhold Originator: Elizabeth K. Zinecker Originator: William M. Benzel Originator: Shawn C. Fisher Originator: Dale W. Griffin Originator: Luke R. Iwanowicz Originator: Keith A. Loftin Originator: William B. Schill Publication_Date: 20150101 Title: Strategy to evaluate Persistent Contaminant Hazards Resulting from Sea-Level Rise and Storm-Derived Disturbances: Study Design and Methodology for Station Prioritization Geospatial_Data_Presentation_Form: Publication (Other) Publication_Information: Publication_Place: Reston, VA Publisher: U.S. Geological Survey Online_Linkage: https://pubs.usgs.gov/of/2015/1188/A/ofr20151188a.pdf Description: Abstract: Due to the recognized proliferation and spread of antibiotic resistance genes by anthropogenic use of antibiotics for human, agriculture and aquaculture purposes, antibiotic resistance genes have been defined as an emerging contaminant (Laxminarayan and others, 2013; Rodriguez-Rojas and others, 2013; Niu and others, 2016). The presence and spread of these genes in non-clinical and non-agricultural environments has created the need for background investigations to enhance our understanding of the magnitude and risks associated with this emerging field (Allen and others, 2010). The current global economic costs of antibiotic resistant microorganisms is about 5.8 trillion USD, which is approximately equivalent to the combined GDP of Germany and the United Kingdom (Taylor and others, 2014). In this study researchers screened soil and sediment samples for the presence of 15 antibiotic resistance gene targets and 5 species of Vibrio (a marker of marine inundation) to determine natural background concentrations. These data provide a foundation to address background prevalence of these genetic targets in the northeastern United States (U.S.) to address regional influences (sources of pollutants) and to contrast future influences due to sea-level rise and large scale storms. Purpose: The purpose of these datasets was to define which samples contained antibiotic resistance genes (screened antibiotic resistance gene targets) and Vibrio species, the number of detectable targets per sample and the quantity of those respective gene targets per gram of soil. These data were determined from samples collected in the northeastern U.S. in support of Sediment-bound Contaminant Resiliency and Response (SCoRR) study. Time_Period_of_Content: Time_Period_Information: Range_of_Dates/Times: Beginning_Date: 20150803 Ending_Date: 20151112 Currentness_Reference: ground condition Status: Progress: Complete Maintenance_and_Update_Frequency: Not planned Spatial_Domain: Bounding_Coordinates: West_Bounding_Coordinate: -79.303957 East_Bounding_Coordinate: -66.983372 North_Bounding_Coordinate: 44.972041 South_Bounding_Coordinate: 33.352132 Keywords: Theme: Theme_Keyword_Thesaurus: USGS Metadata Identifier Theme_Keyword: USGS:d59832e4-49e1-4ca5-a131-a3160c45fe51 Theme: Theme_Keyword_Thesaurus: ISO 19115 Topic Category Theme_Keyword: environment Theme_Keyword: biota Theme_Keyword: health Theme: Theme_Keyword_Thesaurus: USGS Thesaurus Theme_Keyword: field sampling Theme_Keyword: field monitoring stations Theme_Keyword: contamination and pollution Theme_Keyword: environmental health (human) Theme_Keyword: microbiology Theme_Keyword: genetic diversity Theme_Keyword: soil resources Theme_Keyword: unconsolidated deposits Place: Place_Keyword_Thesaurus: Geographic Names Information System Place_Keyword: Connecticut Place_Keyword: District of Columbia Place_Keyword: Delaware Place_Keyword: Massachusetts Place_Keyword: Maryland Place_Keyword: Maine Place_Keyword: New Hampshire Place_Keyword: New Jersey Place_Keyword: New York Place_Keyword: Pennsylvania Place_Keyword: Rhode Island Place_Keyword: South Carolina Place_Keyword: Virginia Stratum: Stratum_Keyword_Thesaurus: Oregon GEO Stratum Keywords Stratum_Keyword: Intertidal Stratum_Keyword: Estuarine Stratum_Keyword: Soil Stratum_Keyword: Surface Stratum_Keyword: Sediment Temporal: Temporal_Keyword_Thesaurus: Oregon GEO temporal Keywords Temporal_Keyword: Modern Access_Constraints: none Use_Constraints: Public domain data from the U.S. Government are freely redistributable with proper metadata and source attribution. The U.S. Geological Survey requests to be acknowledged as originator of these data in future products or derivative research. Point_of_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Dale W Griffin Contact_Organization: U.S. Geological Survey, Southeast Region Contact_Position: Environmental and Public Health Microbiologist Contact_Address: Address_Type: mailing address Address: 600 4Th Street South City: St. Petersburg State_or_Province: FL Postal_Code: 33701 Country: USA Contact_Voice_Telephone: 727-502-8075 Contact_Facsimile_Telephone: 727-502-8182 Contact_Electronic_Mail_Address: dgriffin@usgs.gov Native_Data_Set_Environment: Environment as of Metadata Creation: Microsoft Windows 7 Version 6.1 (Build 7601) Service Pack 1; Esri ArcGIS 10.3.1 (Build 4959) Service Pack N/A (Build N/A) Cross_Reference: Citation_Information: Originator: Griffin, D.W., Benzel, W.M., Fisher, S.C., Focazio, M.J., Iwanowicz, L.R., Loftin, K.A., Reilly, T.J., Jones, D.K. Publication_Date: 2019 Title: The presence of antibiotic resistance genes in coastal soil and sediment samples from the eastern seaboard of the USA Geospatial_Data_Presentation_Form: publication Series_Information: Series_Name: Environmental Monitoring and Assessment Issue_Identification: v.191, Issue 2, p.1573-2959 Online_Linkage: https://doi.org/10.1007/s10661-019-7426-z Cross_Reference: Citation_Information: Originator: Laxminarayan, R., Duse, A., Wattal, C., Zaidi, A.K.M., Wertheim, H.F.L., Sumpradit, N., Vlieghe, E., Hara, G.L., Gould, I.M., Goossens, H., Greko, C., So, A.D., Bigdeli, M., Tomson, G., Woodhouse, W., Ombaka, E., Peralta, A.Q., Qamar, F.N., Mir, F., Kariuki, S., Bhutta, Z.A., Coates, A., Bergstrom, R., Wright, G.D., Brown, E.D., Cars, O. Publication_Date: 2013 Title: Antibiotic resistance-the need for global solutions Geospatial_Data_Presentation_Form: report Series_Information: Series_Name: Lancet Infectious Diseases Issue_Identification: v.13, no. 12, p.1057-1098 Cross_Reference: Citation_Information: Originator: Rodriguez-Rojas, A., Rodriguez-Beltran, J., Couce, A., Blazquez, J. Publication_Date: 2013 Title: Antibiotics and antibiotic resistance: A bitter fight against evolution Geospatial_Data_Presentation_Form: report Series_Information: Series_Name: International Journal of Medical Microbiology Issue_Identification: v.303, Issues 6-7, p.293-297 Cross_Reference: Citation_Information: Originator: Niu, Z-G., Zhang, K., Zhang, Y. Publication_Date: 2016 Title: Occurrence and distribution of antibiotic resistance genes in the coastal area of the Bohai Bay, China Geospatial_Data_Presentation_Form: report Series_Information: Series_Name: Marine Pollution Bulletin Issue_Identification: v.107, Issue 1, p.245–250 Online_Linkage: https://doi.org/10.1016/j.marpolbul.2016.03.064 Cross_Reference: Citation_Information: Originator: Allen, H.K., Donato, J., Wang, H.H., Cloud-Hansen, K.A., Davies, J., Handelsman, J. Publication_Date: 2010 Title: Call of the wild: antibiotic resistance genes in natural environments Geospatial_Data_Presentation_Form: report Series_Information: Series_Name: Nature Reviews Microbiology Issue_Identification: v.8, p.251-259 Cross_Reference: Citation_Information: Originator: Taylor, J., Hafner, M., Yerushalmi, E., Smith, R., Bellasio, J., Vardavas, R., Bienkowska-Gibbs, T., Rubin, J. Publication_Date: 2014 Title: Estimating the economic cost of antimicrobial resistance: Model and Results Geospatial_Data_Presentation_Form: report Publication_Information: Publication_Place: Santa Monica, CA Publisher: RAND Corporation Online_Linkage: http://www.rand.org/pubs/research_reports/RR911.html Cross_Reference: Citation_Information: Originator: Knapp C.W., Dolfing J., Ehlert P.A.I., Graham D.W. Publication_Date: 2010 Title: Evidence of Increasing Antibiotic Resistance Gene Abundances in Archived Soils since 1940 Series_Information: Series_Name: Environmental Science & Technology Issue_Identification: v.44, Issue 2, p.580-587 Cross_Reference: Citation_Information: Originator: Bockelmann U., Dorries H.H., Ayuso-Gabella M.N., de Marcay M.S., Tandoi V., Levantesi C., Masciopinto C., Van Houtte E., Szewzyk U., Wintgens T., Grohmann E. Publication_Date: 2009 Title: Quantitative PCR Monitoring of Antibiotic Resistance Genes and Bacterial Pathogens in Three European Artificial Groundwater Recharge Systems Series_Information: Series_Name: Applied and Environmental Microbiology Issue_Identification: v.75, no.1, p.154-163 Cross_Reference: Citation_Information: Originator: Singh P., Mustapha A. Publication_Date: 2013 Title: Multiplex TaqMan (R) detection of pathogenic and multi-drug resistant Salmonella Series_Information: Series_Name: International Journal of Food Microbiology Issue_Identification: v.166, Issue 2, p.213-218 Cross_Reference: Citation_Information: Originator: Panicker G., Bej A.K. Publication_Date: 2005 Title: Real-time PCR detection of Vibrio vulnificus in oysters: Comparison of oligonucleotide primers and probes targeting vvhA Series_Information: Series_Name: Applied and Environmental Microbiology Issue_Identification: v.71, no.10, p.5702-5709 Cross_Reference: Citation_Information: Originator: Plaon S., Longyant S., Sithigorngul P., Chaivisuthangkura P. Publication_Date: 2015 Title: Rapid and Sensitive Detection of Vibrio alginolyticus by Loop-Mediated Isothermal Amplification Combined with a Lateral Flow Dipstick Targeted to the rpoX Gene Series_Information: Series_Name: Journal of Aquatic Animal Health Issue_Identification: v.27, Issue 3, p.156-163 Cross_Reference: Citation_Information: Originator: Pollock F.J., Morris P.J., Willis B.L., Bourne D.G. Publication_Date: 2010 Title: Detection and quantification of the coral pathogen Vibrio coralliilyticus by real-time PCR with TaqMan fluorescent probes Series_Information: Series_Name: Applied and Environmental Microbiology Issue_Identification: v.76, no.15, p.5282-5286 Cross_Reference: Citation_Information: Originator: Lyon W.J. Publication_Date: 2001 Title: TaqMan PCR for detection of Vibrio cholerae O1, O139, non-O1, and non-O139 in pure cultures, raw oysters, and synthetic seawater Series_Information: Series_Name: Applied and Environmental Microbiology Issue_Identification: v.67, no.10, p.4685-4693 Cross_Reference: Citation_Information: Originator: Rizvi A.V., Panicker G., Myers M.L., Bej A.K. Publication_Date: 2006 Title: Detection of pandemic Vibrio parahaemolyticus O3 : K6 serovar in Gulf of Mexico water and shellfish using real-time PCR with Taqman (R) fluorescent probes Series_Information: Series_Name: Fems Microbiology Letters Issue_Identification: v.262, Issue 2, p.185-192 Data_Quality_Information: Attribute_Accuracy: Attribute_Accuracy_Report: No formal attribute accuracy tests were conducted. Logical_Consistency_Report: No formal logical accuracy tests were conducted. Completeness_Report: Dataset is considered complete for the information presented, as described in the abstract. Users are advised to read the rest of the metadata record carefully for additional details. Positional_Accuracy: Horizontal_Positional_Accuracy: Horizontal_Positional_Accuracy_Report: A formal accuracy assessment of the horizontal positional information in the dataset has not been conducted. Vertical_Positional_Accuracy: Vertical_Positional_Accuracy_Report: A formal accuracy assessment of the vertical positional information in the dataset has either not been conducted, or is not applicable. Lineage: Process_Step: Process_Description: The SCoRR standard operating procedure (SOP) (https://pubs.usgs.gov/of/2015/1188/B/ofr20151188b.pdf) details the sample-collection methods used in this data release. The SOP provides step-by-step instructions for site preparation, sample collection and processing, quality assurance, and shipping of soil and surficial and bed sediment. Process_Date: 20151217 Process_Step: Process_Description: DNA extraction was performed by first calibrating the Mettler scale with a 50 gram certified weight and documented on the Mettler QA/QC sheet. Using sterile-techniques, approximately 0.25 g of soil from each sample weighted out and transferred to a PowerSoil bead beating tube. Sample weight was logged in the project electronic laboratory notebook (ELN). The MoBio PowerSoil kit protocol was used to elute DNA to a volume of 150 ul using Qiagens AE buffer recipe (10 mM Tris-HCL, 0.5 mM EDTA, pH 9.0, filter sterilized and autoclaved). Eluted DNA was stored at -70 degrees C until use. Process_Date: 20160705 Process_Step: Process_Description: The following recipes and plate(s) layouts were used to set up qPCR reactions. All reactions were run in duplicate and positives were those reactions where amplification was noted in both reactions that reached an Rn of 0.1 (with an exponential trend). Reactions that only produced amplification in one of the two reactions were noted in parenthesis in the data spreadsheet. All duplicate positives were screened with digital PCR. Master Mix recipes (volumes per reaction) are as follows: Single probe reactions – 20 ul rxns - row 1 IPC control: 2x TaqMan Fast Universal Master Mix (10 ul); Template (2 ul); Primer/probe (10 um/5 um working stock) (1 ul each); 10x Exo Internal Positive Control (2 ul); 50x EXo IPC DNA (0.4 ul); PCR grade H2O (4.6 ul). IPC control rxns - row 8: 2x TaqMan Fast Universal Master Mix (10 ul); Template (2 ul); 10x Exo Internal Positive Control (2 ul); 50x EXo IPC DNA (0.4 ul); PCR grade H2O (5.6 ul). Multiplex (two primer and probe sets) – rows 2 through 7: 2x TaqMan Fast Universal Master Mix (10 ul); Template (2 ul); primer/probe (10 um/5 um working stock) (1ul each); PCR grade H2O (6.0 ul). PCR amplification profile Master details are as follows: Pre PCR read – 60 degrees C for 0.5min; Holding stage – 50 degrees C for 2min then 95 degrees C for 5min; Cycling stage – 45 cycles of 95 degrees C for 0.25min then 60 degrees C for 1min; Post PCR read – 60 degrees C for 0.5 min. Ninety-six well PCR plate 1 layout - row 1 = tetB/IPC, row 2 = tetL/M, row 3 = tetO/W, row 4 = ampC/vanA, row 5 = ermB/mecA, row 6 = blaSHV/blaPSE, row 7 = floR/aadA2, row 8 = controls (pcr grade water for template – columns 9 and 10) and IPC negative control (2ul of IPC block – columns 11 and 12). Ninety-six well PCR plate 2 layout - row 1 = V.vulnificus/IPC, row 2 = V.cholerae/V.parahaemolyticus, row 3 = V.alginolyticus/V.coralliilyticus, row 4 = tetG/tetQ and the same layout of controls in row 8 as described for plate 1. Two dyes used, FAM and VIC. FAM labeled probes are tetB, tetL, tetO, ampC, ermB, blaSHV, floR, V. vulnificus, V. cholera, V. alginolyticus and tetG. VIC labeled probes are the IPC, TetM, TetW, vanA, mecA, blaPSE, aadA2, V. parahaemolyticus, V. coralliilyticus and tetQ. Process_Date: 20160705 Process_Step: Process_Description: Added keywords section with USGS persistent identifier as theme keyword. Process_Date: 20201013 Process_Contact: Contact_Information: Contact_Organization_Primary: Contact_Organization: U.S. Geological Survey Contact_Person: VeeAnn A. Cross Contact_Position: Marine Geologist Contact_Address: Address_Type: Mailing and Physical Address: 384 Woods Hole Road City: Woods Hole State_or_Province: MA Postal_Code: 02543-1598 Contact_Voice_Telephone: 508-548-8700 x2251 Contact_Facsimile_Telephone: 508-457-2310 Contact_Electronic_Mail_Address: vatnipp@usgs.gov Entity_and_Attribute_Information: Detailed_Description: Entity_Type: Entity_Type_Label: qPCRdata_SCoRR2015.csv Entity_Type_Definition: Table containing attribute information associated with the dataset. Presence/absence quantitative polymerase chain reaction (qPCR) data are provided in comma separated values format. Entity_Type_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: Sample Attribute_Definition: Sample bottle identifier Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Unrepresentable_Domain: Sample bottle identifier Attribute: Attribute_Label: SCoRR_ID Attribute_Definition: Sediment-bound Contaminant Resiliency and Response (SCoRR) site identifier Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Unrepresentable_Domain: SCoRR site identifier Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NA Enumerated_Domain_Value_Definition: SCoRR ID not applicable. Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: Sample_Date Attribute_Definition: Date sample was collected Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Range_Domain: Range_Domain_Minimum: 20150803 Range_Domain_Maximum: 20151112 Attribute_Units_of_Measure: Date (YYYYMMDD) Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NA Enumerated_Domain_Value_Definition: Sample date not applicable. Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: Sample_Mode Attribute_Definition: Samples collected under Resiliency (baseline) or Response (event) Mode Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NA Enumerated_Domain_Value_Definition: Sampling mode not applicable. Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: resiliency Enumerated_Domain_Value_Definition: Samples collected under Resiliency (baseline) mode Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: response Enumerated_Domain_Value_Definition: Samples collected under Response (event) mode Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: tetB Attribute_Definition: Presence/absence of Tetracycline resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: tetL Attribute_Definition: Presence/absence of Tetracycline resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: tetM Attribute_Definition: Presence/absence of Tetracycline resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: tetO Attribute_Definition: Presence/absence of Tetracycline resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: tetW Attribute_Definition: Presence/absence of Tetracycline resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: ampC Attribute_Definition: Presence/absence of Cephalosporin (ampicillin, pcn, etc.) resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: vanA Attribute_Definition: Presence/absence of Vancomyucin resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: ermB Attribute_Definition: Presence/absence of Erythromycin resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: mecA Attribute_Definition: Presence/absence of Methicillin resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: blaSHV Attribute_Definition: Presence/absence of Cephalosporin (ampicillin, pcn, etc.) resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: blaPSE Attribute_Definition: Presence/absence of Cephalosporin (ampicillin, pcn, etc.) resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: floR Attribute_Definition: Presence/absence of Chloramphenenicol resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: aadA2 Attribute_Definition: Presence/absence of Streptomycin resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: tetG Attribute_Definition: Presence/absence of Tetracycline resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: tetQ Attribute_Definition: Presence/absence of Tetracycline resistance genetic target Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: Vibrio_cholerae Attribute_Definition: Presence/absence of Vibrio cholerae Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: + Enumerated_Domain_Value_Definition: Present in two of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NA Enumerated_Domain_Value_Definition: Not screened Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: V_parahaemolyticus Attribute_Definition: Presence/absence of V. parahaemolyticus Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NA Enumerated_Domain_Value_Definition: Not screened Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: V_vulnificus Attribute_Definition: Presence/absence of V. vulnificus Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: (+) Enumerated_Domain_Value_Definition: Present in one of two PCR reactions Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NA Enumerated_Domain_Value_Definition: Not screened Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: V_alginolyticus Attribute_Definition: Presence/absence of V. alginolyticus Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NA Enumerated_Domain_Value_Definition: Not screened Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: V_coralliilyticus Attribute_Definition: Presence/absence of V. coralliilyticus Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: Not detected Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: NA Enumerated_Domain_Value_Definition: Not screened Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Attribute: Attribute_Label: Note Attribute_Definition: Sample notes Attribute_Definition_Source: U.S. Geological Survey Attribute_Domain_Values: Unrepresentable_Domain: Samples identified with complete inhibition of the assay as stated for each. IPC normal reaction was set at an Rn (normalized reporter value) of 0.1 with a CT (threshold cycle) of 29 plus or minus 1. Target reactions were judged positive if they breached Rn of 0.1 with an exponential type signal. Attribute_Domain_Values: Enumerated_Domain: Enumerated_Domain_Value: {Null Value / Empty Field Entry} Enumerated_Domain_Value_Definition: No notes recorded Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey Overview_Description: Entity_and_Attribute_Overview: The entity and attribute information provided here describes the tabular data associated with the dataset. Please review the detailed descriptions that are provided (the individual attribute descriptions) for information on the values that appear as fields/table entries of the dataset. Entity_and_Attribute_Detail_Citation: The entity and attribute information was generated by the individual and/or agency identified as the originator of the dataset. Please review the rest of the metadata record for additional details and information. Distribution_Information: Distributor: Contact_Information: Contact_Organization_Primary: Contact_Organization: U.S. Geological Survey Contact_Address: Address_Type: Physical and Mailing Address: 600 4th Street South City: St. Petersburg State_or_Province: FL Postal_Code: 33701 Country: USA Contact_Voice_Telephone: 727-502-8000 Contact_Electronic_Mail_Address: dgriffin@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. Any use of trade, firm, or product names is for descriptive purposes only and does not imply endorsement by the U.S. Government. Standard_Order_Process: Digital_Form: Digital_Transfer_Information: Format_Name: CSV (Comma Separated Values) Format_Version_Number: none Digital_Transfer_Option: Online_Option: Computer_Contact_Information: Network_Address: Network_Resource_Name: https://coastal.er.usgs.gov/data-release/doi-F7XS5SH2/data/qPCRdata_SCoRR2015.zip Fees: None Metadata_Reference_Information: Metadata_Date: 20201013 Metadata_Contact: Contact_Information: Contact_Person_Primary: Contact_Person: Dale W Griffin Contact_Organization: U.S. Geological Survey, Southeast Region Contact_Position: Environmental and Public Health Microbiologist Contact_Address: Address_Type: mailing address Address: 600 4Th Street South City: St. Petersburg State_or_Province: FL Postal_Code: 33701 Country: USA Contact_Voice_Telephone: 727-502-8075 Contact_Facsimile_Telephone: 727-502-8182 Contact_Electronic_Mail_Address: dgriffin@usgs.gov Metadata_Standard_Name: Content Standard for Digital Geospatial Metadata Metadata_Standard_Version: FGDC-STD-001-1998