Dataset Identification:
Resource Abstract:
- description: 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
community through time using T-RFLP and HTS in comparison with traditional light microscopy; (2) to determine relative abundances
and changes in abundance over time of toxigenic Microcystis using qPCR; and (3) to determine relative abundances and changes
in abundance over time of Aphanizomenon, Microcystis, and total cyanobacteria using qPCR. T-RFLP analysis of total cyanobacteria
showed a dominance of only one or two distinct genotypes in samples from 2013, but results of HTS in 2013 and 2014 showed
more variations in the bloom cycle that fit with the previous understanding of bloom dynamics in Upper Klamath Lake and indicated
that potentially toxigenic Microcystis was more prevalent in 2014 than in years prior. The qPCR-estimated copy numbers of
all target genes were higher in 2014 than in 2013, when microcystin concentrations also were higher. Total Microcystis density
was shown with qPCR to be a better predictor of late-season increases in microcystin concentrations than the relative proportions
of potentially toxigenic cells. In addition, qPCR targeting Aphanizomenon at one site in Upper Klamath Lake indicated a moderate
bloom of this species (corresponding to chlorophyll a concentrations between approximately 75 and 200 micrograms per liter)
from mid-June to mid-August, 2014. After August 18, the Aphanizomenon bloom was overtaken by Microcystis late in the season
as microcystin concentrations peaked. Overall, results of this study showed how DNA-based, genetic methods may provide rapid
and sensitive diagnoses for the presence of toxigenic cyanobacteria and that they are useful for general monitoring or ecological
studies and identification of cyanobacterial community members in complex aquatic habitats. These same methods can also be
used to simultaneously address spatial (horizontal and vertical) and temporal variation under different conditions. Additionally,
with some modifications, the same techniques can be applied to different sample types, including water, sediment, and tissue.;
abstract: 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
community through time using T-RFLP and HTS in comparison with traditional light microscopy; (2) to determine relative abundances
and changes in abundance over time of toxigenic Microcystis using qPCR; and (3) to determine relative abundances and changes
in abundance over time of Aphanizomenon, Microcystis, and total cyanobacteria using qPCR. T-RFLP analysis of total cyanobacteria
showed a dominance of only one or two distinct genotypes in samples from 2013, but results of HTS in 2013 and 2014 showed
more variations in the bloom cycle that fit with the previous understanding of bloom dynamics in Upper Klamath Lake and indicated
that potentially toxigenic Microcystis was more prevalent in 2014 than in years prior. The qPCR-estimated copy numbers of
all target genes were higher in 2014 than in 2013, when microcystin concentrations also were higher. Total Microcystis density
was shown with qPCR to be a better predictor of late-season increases in microcystin concentrations than the relative proportions
of potentially toxigenic cells. In addition, qPCR targeting Aphanizomenon at one site in Upper Klamath Lake indicated a moderate
bloom of this species (corresponding to chlorophyll a concentrations between approximately 75 and 200 micrograms per liter)
from mid-June to mid-August, 2014. After August 18, the Aphanizomenon bloom was overtaken by Microcystis late in the season
as microcystin concentrations peaked. Overall, results of this study showed how DNA-based, genetic methods may provide rapid
and sensitive diagnoses for the presence of toxigenic cyanobacteria and that they are useful for general monitoring or ecological
studies and identification of cyanobacterial community members in complex aquatic habitats. These same methods can also be
used to simultaneously address spatial (horizontal and vertical) and temporal variation under different conditions. Additionally,
with some modifications, the same techniques can be applied to different sample types, including water, sediment, and tissue.
Citation
- Title Datasets of High-throughput DNA Sequencing, Genetic Fingerprinting, and Quantitative PCR from Upper Klamath Lake, Oregon,
2013-14.
-
- creation Date
2018-06-08T20:26:54.672154
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- name Dublin Core references URL
- URL: https://doi.org/10.5066/F7C53J3V
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- Description URL provided in Dublin Core references element.
Metadata data stamp:
2018-08-07T00:14:42Z
Resource Maintenance Information
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- notes: This metadata record was generated by an xslt transformation from a dc metadata record; Transform by Stephen M. Richard, based
on a transform by Damian Ulbricht. Run on 2018-08-07T00:14:42Z
Metadata contact
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pointOfContact
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CINERGI Metadata catalog
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- electronic Mail Address cinergi@sdsc.edu
Metadata language
eng
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Metadata standard for this record:
ISO 19139 Geographic Information - Metadata - Implementation Specification
standard version:
2007
Metadata record identifier:
urn:dciso:metadataabout:f111c5ed-87cc-45a1-8879-2a3c073853e4
Metadata record format is ISO19139 XML (MD_Metadata)