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Datasets of High-throughput DNA Sequencing, Genetic Fingerprinting, and Quantitative PCR from Upper Klamath Lake, Oregon, 2013-14

Dates

Publication Date
Start Date
2013-07-09
End Date
2014-09-15

Citation

Eldridge, S.L., Driscoll, Connor, and Dreher, T.W., 2017, Datasets of high-throughput DNA sequencing, genetic fingerprinting, and quantitative PCR from Upper Klamath Lake, Oregon, 2013-14: U.S. Geological Survey data release, https://doi.org/10.5066/F7C53J3V.

Summary

Monitoring the community structure and metabolic activities of cyanobacterial blooms in Upper Klamath Lake, Oregon, is critical to lake management because these blooms degrade water quality and produce toxic microcystins that are harmful to humans, domestic animals, and wildlife. Genetic tools, such as DNA fingerprinting by terminal restriction fragment length polymorphism (T-RFLP) analysis, high-throughput DNA sequencing (HTS), and real-time, quantitative polymerase chain reaction (qPCR) provide more sensitive and rapid assessments of bloom ecology than traditional techniques. The objectives of this study were (1) to characterize the microbial community at one site in Upper Klamath Lake and determine changes in the cyanobacterial [...]

Contacts

Point of Contact :
Sara Eldridge
Originator :
Sara Eldridge, Connor Driscoll, Theo Dreher
Metadata Contact :
Sara Eldridge
Publisher :
U.S. Geological Survey
Distributor :
U.S. Geological Survey - ScienceBase
USGS Mission Area :
Water Resources
SDC Data Owner :
Oregon Water Science Center

Attached Files

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Metadata.xml
“Metadata”
Original FGDC Metadata
View 		12.54 KB
High-throughput DNA sequencing results.csv
“HTS Data” 		574 KB
Microscopy data_2013.csv
“Microscopy Data” 		8.76 KB
qPCR Results.csv
“qPCR Data” 		2 KB
QC Data.xlsx
“QC Data” 		134.95 KB

Purpose

Data were collected to (1) characterize the microbial community at one site in Upper Klamath Lake and determine changes in the community through time using high-throughput DNA sequencing of the total bacterial community based on a single gene target in comparison with traditional light microscopy; (2) to determine the abundances of potentially toxigenic and non-toxigenic strains of Microcystis and the changes through time of these abundances using qPCR; and (3) to determine the abundances of Aphanizomenon, Microcystis, and total cyanobacteria and the changes through time of these abundances using qPCR.

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Type Scheme Key
DOI https://www.sciencebase.gov/vocab/category/item/identifier doi:10.5066/F7C53J3V

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