Digital Polymerase Chain Reaction (dPCR) Data from the Sediment-Bound Contaminant Resiliency and Response Strategy Pilot Study, Northeastern United States, 2015

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Metadata:

Identification_Information
Data_Quality_Information
Entity_and_Attribute_Information
Distribution_Information
Metadata_Reference_Information

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:

Digital Polymerase Chain Reaction (dPCR) 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 we 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:356648ef-627a-40c0-8e13-d71276879f5b

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 (10mM Tris-HCL, 0. 5mM 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:

Digital PCR was run for all presence/absence qPCR positive samples using a QuantStudio 3D Digital PCR System and the following master mix recipe and amplification profile. Data was normalized and reported as gene copies per gram of soil. Master mix recipe (volumes per reaction): 2x digital master mix – 7.25ul, primer/probe mix – 1 ul, H2O – 4.25 ul, template - 2 ul. Amplification profile: 96 degrees C for 10 min – 1X, 60 degrees C for 2min and 98 degrees C for 0.5 min – 39X, 60 degrees C for 2min – 1X and hold at 10 degrees C.

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: dPCRdata_SCoRR2015.csv
Entity_Type_Definition:

Table containing attribute information associated with the dataset. Digital polymerase chain reaction (dPCR) 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: Tetracycline resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 313.2
Range_Domain_Maximum: 2305.5
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: tetL
Attribute_Definition: Tetracycline resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 3023.3
Range_Domain_Maximum: 10122.5
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: tetM
Attribute_Definition: Tetracycline resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 1518.2
Range_Domain_Maximum: 4990320
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: tetO
Attribute_Definition: Tetracycline resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 308.9
Range_Domain_Maximum: 15636945
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: tetW
Attribute_Definition: Tetracycline resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 278.4
Range_Domain_Maximum: 458707.5
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: ampC
Attribute_Definition: Cephalosporin (ampicillin, pcn, etc.) resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 4393.8
Range_Domain_Maximum: 5387475
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: vanA
Attribute_Definition: Vancomyucin resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 41116.2
Range_Domain_Maximum: 41116.2
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: ermB
Attribute_Definition: Erythromycin resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 269.7
Range_Domain_Maximum: 9428614
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: mecA
Attribute_Definition: 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 analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: blaSHV
Attribute_Definition: Cephalosporin (ampicillin, pcn, etc.) resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 295.8
Range_Domain_Maximum: 9572175
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: blaPSE
Attribute_Definition: Cephalosporin (ampicillin, pcn, etc.) resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 295.8
Range_Domain_Maximum: 195119.3
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: floR
Attribute_Definition: Chloramphenenicol resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 2818.8
Range_Domain_Maximum: 126063
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: aadA2
Attribute_Definition: Streptomycin resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 261
Range_Domain_Maximum: 169815.3
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: tetG
Attribute_Definition: Tetracycline resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 561.2
Range_Domain_Maximum: 193562
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: tetQ
Attribute_Definition: Tetracycline resistance genetic target
Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 304.5
Range_Domain_Maximum: 169989.3
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

Enumerated_Domain_Value_Definition_Source: U.S. Geological Survey

Attribute:

Attribute_Label: Vibrio_cholerae
Attribute_Definition:

Bacterial pathogen and marine inundation marker for Vibrio cholerae

Attribute_Definition_Source: U.S. Geological Survey
Attribute_Domain_Values:

Range_Domain:

Range_Domain_Minimum: 8151.9
Range_Domain_Maximum: 8151.9
Attribute_Units_of_Measure: Number of copies of genetic target per gram of soil

Attribute_Domain_Values:

Enumerated_Domain:

Enumerated_Domain_Value: {Null Value / Empty Field Entry}
Enumerated_Domain_Value_Definition:

Not analyzed as the presence/absence PCR reactions were both negative

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:

Bacterial pathogen and marine inundation marker for 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 analyzed as the presence/absence PCR reactions were both negative

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:

Bacterial pathogen and marine inundation marker for 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 analyzed as the presence/absence PCR reactions were both negative

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:

Bacterial pathogen and marine inundation marker for 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 analyzed as the presence/absence PCR reactions were both negative

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:

Bacterial pathogen and marine inundation marker for 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 analyzed as the presence/absence PCR reactions were both negative

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/dPCRdata_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

This page is <https://cmgds.marine.usgs.gov/catalog/spcmsc/dPCRdata_SCoRR2015_metadata.html>