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Coastal communities are uniquely vulnerable to sea-level rise (SLR) and severe storms such as hurricanes. These events enhance the dispersion and concentration of natural and anthropogenic chemicals and pathogenic microorganisms that could adversely affect the health and resilience of coastal communities and ecosystems in coming years. The U.S. Geo­logical Survey has developed the Sediment-Bound Contaminant Resiliency and Response (SCoRR) strategy to define baseline and post-event sediment-bound environmental health (EH) stressors. These data document toxicity measured by reduction of the light emission of Aliivibrio (formerly Photobacterium) fischeri and the inhibition of polymerase chain reactions caused by environmental...
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It is unclear whether DNA lysis buffers used for preservation of whole blood samples from Hawaiian forest birds cause denaturation and loss of antigen binding capability of antibody molecules. If their antigen binding capability is not affected, then the samples can be used in serological assays to provide an independent assessment of the accuracy of PCR (polymerase chain reaction) diagnostic tests for avian malaria. This data set reports raw absorbance measurements that were collected with a BioRad Model 3550 ELISA plate reader at a wavelength setting of 405 nm for different dilutions of blood from an infected Hawaii Amakihi that were preserved in PBS (phosphate buffered saline), TEN (Tris-Ethylenediaminetetraacetic...
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It is unclear whether DNA lysis buffers used for preservation of whole blood samples from Hawaiian forest birds cause denaturation and loss of antigen binding capability of antibody molecules. If their antigen binding capability is not affected, then the samples can be used in serological assays to provide an independent assessment of the accuracy of PCR (polymerase chain reaction) diagnostic tests for avian malaria. This data set provides derived Percent ELISA (Enzyme linked Immunosorbant Assay) Values calculated from adjusted absorbance measurements that were collected with a BioRad Model 3550 ELISA plate reader at a wavelength setting of 405 nm.
This data set was collected to provide examples and aid in developing a standardized way of determining LOD and LOQ for eDNA assays and has 3 data files. GEDWG_LOD_DATA3.csv is raw qPCR data from multiple labs running multiple standards of known concentration for eDNA assays they regularly use. Comparison-Data.csv is the merged data output from running a generic LOD/LOQ calculator script multiple times with different LOD model settings. The generic LOD/LOQ calculator script is available at: https://github.com/cmerkes/qPCR_LOD_Calc, and details about the multiple settings used are commented in the analysis script available at: https://github.com/cmerkes/LOD_Analysis
Groundwater nitrification is a poorly characterized process affecting the speciation and transport of nitrogen. Cores from two sites in a plume of contamination were examined using culture-based and molecular techniques targeting nitrification processes. The first site, located beneath a sewage effluent infiltration bed, received treated effluent containing O2 (> 300 µM) and NH4+ (51–800 µM). The second site was 2.5 km down-gradient near the leading edge of the ammonium zone within the contaminant plume and featured vertical gradients of O2, NH4+, and NO3− (0–300, 0–500, and 100–200 µM with depth, respectively). Ammonia- and nitrite-oxidizers enumerated by the culture-based MPN method were low in abundance at both...
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We developed and validated conventional and quantitative real-time PCR assays for the detection of DNA from the myxozoan parasite Tetracapsuloides bryosalmonae, the causative agent of proliferative kidney disease in fish. Assays were tested on fish tissue and on field-collected water samples to assess diagnostic and environmental DNA capabilities. The specificity, sensitivity, and broad applicability of the present assays surpass previous methods for detecting T. bryosalmonae DNA from fish tissue and water samples.
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It is unclear whether DNA lysis buffers used for preservation of whole blood samples from Hawaiian forest birds cause denaturation and loss of antigen binding capability of antibody molecules. If their antigen binding capability is not affected, then the samples can be used in serological assays to provide an independent assessment of the accuracy of PCR (polymerase chain reaction) diagnostic tests for avian malaria. This data set provides raw absorbance measurements that were collected with a BioRad Model 3550 ELISA plate reader at a wavelength setting of 405 nm for different dilutions of blood from an uninfected Hawaii Amakihi. The blood was preserved in different lysis buffers or placed in phosphate buffered...
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It is unclear whether DNA (Deoxyribonucleic Acid) lysis buffers used for preservation of whole blood samples from Hawaiian forest birds cause denaturation and loss of antigen binding capability of antibody molecules. If their antigen binding capability is not affected, then the samples can be used in serological assays to provide an independent assessment of the accuracy of PCR (polymerase chain reaction) diagnostic tests for avian malaria. This data release consists of three tabular datasets of raw absorbance measurements that were collected with a BioRad Model 3550 ELISA (Enzyme linked Immunosorbant Assay) plate reader at a wavelength setting of 405 nm from serial dilutions of whole blood that were preserved with...
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It is unclear whether DNA lysis buffers used for preservation of whole blood samples from Hawaiian forest birds cause denaturation and loss of antigen binding capability of antibody molecules. If their antigen binding capability is not affected, then the samples can be used in serological assays to provide an independent assessment of the accuracy of PCR (polymerase chain reaction) diagnostic tests for avian malaria. This data set provides raw absorbance measurements that were collected with a BioRad Model 3550 ELISA plate reader at a wavelength setting of 405 nm for different dilutions of blood from infected Hawaii Amakihi. The blood was preserved in different lysis buffers or placed in phosphate buffered saline...
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There is an increasing emphasis on effects-based monitoring to document responses associated with exposure to complex mixtures of chemicals, climate change, pathogens, parasites and other environmental stressors in fish populations. For decades aquatic monitoring programs have included the collection of tissues preserved for microscopic pathology. Consequently, formalin-fixed, paraffin-embedded (FFPE) tissue can be an important reservoir of nucleic acids as technologies emerge that utilize molecular endpoints. Despite the cross-linking effects of formalin, its impact on nucleic acid quality and concentration, amplification, and sequencing are not well described. While fresh-frozen tissue is optimal for working with...


    map background search result map search result map Matrix inhibition PCR and Microtox® 81.9% screening assay analytical results for samples collected for the Sediment-Bound Contaminant Resiliency and Response Strategy pilot study, northeastern United States, 2015 Conventional PCR results for detecting Tetracapsuloides bryosalmonae in fish tissue and environmental DNA water samples Hawaii Island forest bird avian malaria detection using whole blood preserved in lysis buffer, 2005-2006 Effect of SDS and Proteinase K on whole blood preserved in lysis buffer for Hawaiian Island avian malaria detection, 2005-2006 Derived ELISA Values for Hawaiian Island forest bird avian malaria detection using whole blood preserved in lysis buffer Raw absorbance values for serially diluted whole blood preserved in different lysis buffers for Hawaiian Island forest bird avian malaria detection, 2005-2006 Raw absorbance values from serially diluted uninfected whole blood in different lysis buffers for Hawaiian Island forest bird avian malaria detection, 2005-2006 Abundance of 50 transcripts from microdissected liver samples of smallmouth bass Abundance of 50 transcripts from microdissected liver samples of smallmouth bass Hawaii Island forest bird avian malaria detection using whole blood preserved in lysis buffer, 2005-2006 Effect of SDS and Proteinase K on whole blood preserved in lysis buffer for Hawaiian Island avian malaria detection, 2005-2006 Derived ELISA Values for Hawaiian Island forest bird avian malaria detection using whole blood preserved in lysis buffer Raw absorbance values for serially diluted whole blood preserved in different lysis buffers for Hawaiian Island forest bird avian malaria detection, 2005-2006 Raw absorbance values from serially diluted uninfected whole blood in different lysis buffers for Hawaiian Island forest bird avian malaria detection, 2005-2006 Matrix inhibition PCR and Microtox® 81.9% screening assay analytical results for samples collected for the Sediment-Bound Contaminant Resiliency and Response Strategy pilot study, northeastern United States, 2015 Conventional PCR results for detecting Tetracapsuloides bryosalmonae in fish tissue and environmental DNA water samples