http://lod.bco-dmo.org/id/dataset/931936
eng; USA
utf8
dataset
Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
2024-07-09
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Metagenomic Time Series of Winam Gulf, Lake Victoria from 2022-2023 (ASI Lake Victoria project)
2024-07-09
publication
2024-07-09
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2024-07-18
publication
https://doi.org/10.26008/1912/bco-dmo.931936.1
George S. Bullerjahn
Bowling Green State University
principalInvestigator
Robert Michael McKay
University of Windsor
principalInvestigator
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
publisher
Cite this dataset as: Bullerjahn, G. S. (2024) Metagenomic Time Series of Winam Gulf, Lake Victoria from 2022-2023 (ASI Lake Victoria project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2024-07-09 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.931936.1 [access date]
Metagenomic Time Series of Winam Gulf, Lake Victoria from 2022-2023 Dataset Description: Methods and Sampling: <p>Water samples were collected from Lake Victoria were depth discrete (1.0 meters) collections performed using a Van Dorn sampler. Samples were collected on 0.22 micron sterivex filters for subsequent DNA extraction and stored at room temperature in DNA/RNA Shield (Zymo). Concurrently, a multiparameter sonde was deployed to record temperature, pH, dissolved oxygen, conductivity, turbidity etc. In addition, sterivex filtrate was collected and stored at -20 degrees Celsius for subsequent dissolved nutrient analysis at the Ohio State Stone Laboratory.</p>
<p>In turn, samples were collected for chlorophyll a and processed using a 24 hour&nbsp;90% acetone extraction performed at -20 degrees Celsius followed by quantification using a fluorometer. Samples for toxin analysis (microcystin) were collected and stored at -20C until processing using standard ELISA kits.&nbsp;</p>
<p>In situ analysis was performed with a field Algae Torch (bbe Moldaenke) fluorometer, which was equipped with chlorophyll a and phycocyanin probes. We collected data in the form of cells per liter by lowering the fluorometer into the water column at the same depths where water samples were collected. We then converted the data to percentages to determine the relative abundance of cyanobacteria in the context of the full phytoplankton community (Brown, et al. 2024).</p>
<p>The toxin data was collected and processed as follows: whole water samples were collected at the designated sample depth (refer to the “Sampling_depth” column within the primary data file of this dataset) and lysed using three freeze / thaw cycles. The lysate was investigated for the presence of the cyanobacterial toxin / secondary metabolite “microcystin” using the Microcystins/Nodularins (ADDA) ELISA kit (Gold Standard Diagnostics, Warminster, PA) (Brown, et al. 2024). Absorbance was read at 450 nm on a Multiskan FC Microplate Photometer (Thermo Fisher Scientific Inc).</p>
Funding provided by NSF Office of International Science and Engineering (NSF OISE) Award Number: IRES-1953468 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1953468
completed
George S. Bullerjahn
Bowling Green State University
419-372-8527
Department of Biological Sciences Bowling Green State University
Bowling Green
OH
43403
USA
bullerj@bgsu.edu
pointOfContact
Robert Michael McKay
University of Windsor
419-378-1276
Great Lakes Institute for Environmental Research University of Windsor
Windsor
ON
N9B 3P4
Canada
robert.mckay@uwindsor.ca
pointOfContact
asNeeded
Dataset Version: 2
Unknown
Library_ID
Site_Name
Replicate_id
SampleID
StudyID
Sample_type
Lake_or_river
Lat
Lon
Collection_date
Env_broad_scale
Site_depth
Sampling_depth
Preservation
Filter_size
pH
Temp
Nitrate
Diss_oxygen
Conductivity
Secchi
Turbidity
Microcystin
TN_TP_ratio
Chlorophyll_a
Total_phosphorus
Dissolved_phosphorus
Soluble_reactive_phosphorus
Ammonia
Nitrate_Nitrite
Nitrite
Silicate
Total_nitrogen
Total_dissolved_nitrogen
Weather
Wave_height
Wind_speed
Salinity
Atmospheric_temperature
Particulate_cylindrospermopsin
ORP
Algal_Torch_cyano_sonde
Algal_Torch_sonde_total_cells
Algal_Torch_percentage_cells_cyano
Site_Description
Station_observations
Site_Classification
Notes
theme
None, User defined
sequence
site
replicate
sample identification
NCBI SRA study accession (SRP)
sample type
latitude
longitude
date
sample description
depth_bottom
depth
treatment
filter_size
pH
water temperature at measurement depth
Nitrate
dissolved Oxygen
conductivity
depth_secchi
turbidity
No BCO-DMO term
Nitrogen to phosphorus ratio (N:P)
chlorophyll a
Phosphorus
Dissolved Organic Phosphorus
Ammonia
nitrate plus nitrite
Silicate, Si(OH)4, silicic acid
Nitrogen
weather
wave_height
salinity
air temperature
Oxidation_Reduction_Potential
site description
comments
featureType
BCO-DMO Standard Parameters
otherRestrictions
otherRestrictions
Access Constraints: none. Use Constraints: Please follow guidelines at: http://www.bco-dmo.org/terms-use Distribution liability: Under no circumstances shall BCO-DMO be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use of, or the inability to use, the materials in this data submission. If you are dissatisfied with any materials in this data submission your sole and exclusive remedy is to discontinue use.
IRES Track II: Advanced studies institute on water quality and harmful algal blooms in Lake Victoria
https://www.agl-acare.org/bgsu-habs
IRES Track II: Advanced studies institute on water quality and harmful algal blooms in Lake Victoria
<p><em>NSF Award Abstract:</em><br />
The North American and African Great Lakes are vital global freshwater resources. These lakes contain nearly half of the world’s available surface fresh water and therefore the security and health of these lakes is critically important especially as freshwater supplies continue to dwindle globally. One of the most prevalent concerns is human-influenced nutrient (nitrogen and phosphorus) pollution that causes a phenomenon known as a harmful algal bloom. Harmful algal blooms are overgrowths of algae that can have negative impacts to the environment and/or the health of humans, pets or cattle due to the toxic compounds that can be produced. Freshwater harmful algal blooms have become more prevalent worldwide over the past few decades. They occur in lakes, ponds, rivers and reservoirs across all 50 states and in many of the world’s most socioeconomically-important waterbodies. Lakes Victoria (African Great Lake) and Erie (North American Great Lake) are the 3rd and 11th largest lakes by surface area and both have regions that are plagued by toxic harmful algal blooms. Western Lake Erie and Kisumu Bay, Nyanza Gulf, Lake Victoria are similar in that they are both shallow systems that experience heavy nutrient pollution, which results in annual Microcystis-dominated toxic harmful algal blooms. However, they are different in that Lake Erie is a temperate system dominated by agricultural nutrient pollution, whereas Kisumu Bay is a tropical system that receives a mixture urban and agricultural nutrient pollution. While much is known about the ecology of the Microcystis-dominated blooms in western Lake Erie, little is known about the ecology, spatial distribution and toxicity patterns of the Microcystis-dominated harmful algal blooms in Kisumu Bay. The Advanced Studies Institutes will provide US graduate students the opportunity to expand their research on water quality and harmful algal blooms in Lake Erie to Lake Victoria. Their research will help fill critical knowledge gaps on the similarities and differences between the blooms that occur in each lake to help us better understand the ecological strategies that Microcystis uses to be able to form blooms in fresh waters across the globe. Furthermore, the graduate students will have the opportunity to learn about Kenyan culture and begin to develop their international collaborations by conducting joint research projects with their Kenyan peers and mentors.</p>
<p>Earth’s surface fresh waters, including the Laurentian and African Great Lakes, are under assault from multiple stressors. One of the most prevalent concerns is increased anthropogenic nutrient pollution into these waters leading to many negative effects including harmful algal blooms. Under these conditions, cyanobacteria, commonly referred to as blue-green algae, can grow to dense concentrations in fresh waters across the globe forming what are known as cyanobacterial harmful algal blooms (cyanoHABs). Many cyanoHABs can produce toxins that can sicken or kill humans, cattle and other domestic animals. Indeed, in the last decade major cities in China, the United States, Africa and other parts of the globe have suffered from impaired drinking water due to cyanoHABs. Notably, many of these events are dominated by a single cyanoHAB-forming genus, Microcystis spp. This is important since Microcystis–dominated cyanoHABs form in lakes in temperate to tropical latitudes. Therefore, Microcystis must be able to adjust its ecological strategies to maintain dominance in lakes transcending major latitudinal boundaries. Lake Victoria (Africian Great Lake) and Lake Erie (Laurentian Great Lake) are two socioeconomically-important systems that have regions (Nyanza Gulf, Kenya and western Lake Erie, respectively) that experience annual toxic cyanoHABs dominated by Microcystis. As such, they are ideal comparative sites to study the differences in ecological strategies employed by Microcystis in a tropical and temperate system. The proposed Advanced Study Institutes (ASIs) will provide the opportunity for 10 US graduate students per year (30 US graduate students total) to participate; each ASI will have the duration of three weeks. Each ASI will include lectures by US and Kenyan scientists, two 5-day research cruises, followed by laboratory analysis of samples. Every US student will be teamed with a Kenyan graduate student who has a mutual research interest. The student teams will collaborate with their US and Kenyan mentors to develop experimental plans and the teams will give joint presentations during the ASI. Each team will co-author a scientific presentation that will be given by the US student at an international conference post-ASI. The impact of the ASIs will be broadened by developing innovative contributions to STEM education including training STEM educators. Students participating in the ASIs will help develop a case study that explores the top-down and bottom-up controls of cyanoHABs in Nyanza Gulf. This will include discussing culturally-relevant topics such as the influence of point- and non-point nutrient sources, while incorporating all results from the ASI projects.</p>
<p>This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.</p>
ASI Lake Victoria
largerWorkCitation
project
eng; USA
oceans
34.03812
36.425
-0.7586
-0.0623
2022-06-24
2023-06-03
African Great Lakes (Lake Victoria, Kenya)
0
BCO-DMO catalogue of parameters from Metagenomic Time Series of Winam Gulf, Lake Victoria from 2022-2023 (ASI Lake Victoria project)
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
http://lod.bco-dmo.org/id/dataset-parameter/933090.rdf
Name: Library_ID
Units: unitless
Description: <p>Label the raw sequence library is listed as on the NCBI Sequence Read Archive.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933091.rdf
Name: Site_Name
Units: unitless
Description: <p>The site number and name assigned to the sample site by the captain during that survey.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933092.rdf
Name: Replicate_id
Units: unitless
Description: <p>The biological replication ID.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933093.rdf
Name: SampleID
Units: unitless
Description: <p>Raw sequence sample ID assigned by sequencing core.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933094.rdf
Name: StudyID
Units: unitless
Description: <p>Raw study ID assigned by the sequencing core.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933095.rdf
Name: Sample_type
Units: unitless
Description: <p>Type of bioinformatic analysis sample was sequenced for.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933096.rdf
Name: Lake_or_river
Units: unitless
Description: <p>The name of the lake or river the sample was collected from.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933097.rdf
Name: Lat
Units: decimal degrees
Description: <p>Latitude coordinates of sample site in decimal degrees; a positive value indicates a Northern coordinate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933098.rdf
Name: Lon
Units: decimal degrees
Description: <p>Longitude coordinates of sample site in decimal degrees; a negative value indicates a Western coordinate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933099.rdf
Name: Collection_date
Units: unitless
Description: <p>The date the sample was collected.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933100.rdf
Name: Env_broad_scale
Units: unitless
Description: <p>Environment sample corresponds to broadly and corresponding ID.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933101.rdf
Name: Site_depth
Units: meters (m)
Description: <p>The maximum depth of the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933102.rdf
Name: Sampling_depth
Units: meters (m)
Description: <p>The depth at which the sample was collected in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933103.rdf
Name: Preservation
Units: unitless
Description: <p>Type of preservation sample was subjected to for later DNA extraction.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933104.rdf
Name: Filter_size
Units: um
Description: <p>The size of the sterivex filter that was used to collect the water sample.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933105.rdf
Name: pH
Units: unitless
Description: <p>The pH (in negative log of hydrogen ions).</p>
http://lod.bco-dmo.org/id/dataset-parameter/933106.rdf
Name: Temp
Units: degrees C
Description: <p>Temperature of the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933107.rdf
Name: Nitrate
Units: ug / L
Description: <p>Dissolved nitrate concentration in water sample.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933108.rdf
Name: Diss_oxygen
Units: mg / L
Description: <p>Dissolved oxygen concentration in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933109.rdf
Name: Conductivity
Units: uS / cm
Description: <p>Conductivity of the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933110.rdf
Name: Secchi
Units: meters
Description: <p>Measure of water transparency.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933111.rdf
Name: Turbidity
Units: NTU
Description: <p>Measure of water transparency / cloudiness.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933112.rdf
Name: Microcystin
Units: ug / L
Description: <p>Concentration of cyanobacterial toxin - particulate microcystin - in water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933113.rdf
Name: TN_TP_ratio
Units: unitless
Description: <p>Ratio of total particulate nitrogen to total particulate phosphorus in the water column .</p>
http://lod.bco-dmo.org/id/dataset-parameter/933114.rdf
Name: Chlorophyll_a
Units: ug / L
Description: <p>Measurement of total chlorophyll a concentration in the water column (greater than 0.22 __m size).</p>
http://lod.bco-dmo.org/id/dataset-parameter/933115.rdf
Name: Total_phosphorus
Units: ug / L
Description: <p>Total particulate phosphorus concentration in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933116.rdf
Name: Dissolved_phosphorus
Units: ug / L
Description: <p>Dissolved phosphorus concentration in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933117.rdf
Name: Soluble_reactive_phosphorus
Units: ug / L
Description: <p>Dissolved soluble reactive phosphorus concentration in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933118.rdf
Name: Ammonia
Units: ug / L
Description: <p>Dissolved ammonia concentration in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933119.rdf
Name: Nitrate_Nitrite
Units: umol / L
Description: <p>Dissolved nitrate + nitrite concentration in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933120.rdf
Name: Nitrite
Units: umol / L
Description: <p>Dissolved nitrite concentration in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933121.rdf
Name: Silicate
Units: umol / L
Description: <p>Dissolved silicate concentration in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933122.rdf
Name: Total_nitrogen
Units: umol / L
Description: <p>Total particulate nitrogen concentration in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933123.rdf
Name: Total_dissolved_nitrogen
Units: ug / L
Description: <p>Total dissolved nitrogen concentration in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933124.rdf
Name: Weather
Units: unitless
Description: <p>Weather observations during sample collection.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933125.rdf
Name: Wave_height
Units: meters
Description: <p>Wave height in body of water.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933126.rdf
Name: Wind_speed
Units: knots
Description: <p>Wind speed at time of sample colelction.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933127.rdf
Name: Salinity
Units: g / kg
Description: <p>Salinity of the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933128.rdf
Name: Atmospheric_temperature
Units: degrees C
Description: <p>Temperature of the air.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933129.rdf
Name: Particulate_cylindrospermopsin
Units: ng / mL
Description: <p>Concentration of cyanobacterial toxin - particulate cylindrospermopsin - in water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933130.rdf
Name: ORP
Units: mV
Description: <p>Oxidation-Reduction Potential of water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933131.rdf
Name: Algal_Torch_cyano_sonde
Units: cells / L
Description: <p>Concentration of cyanobacterial cells (those possessing phycocyanin pigment) in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933132.rdf
Name: Algal_Torch_sonde_total_cells
Units: cells / L
Description: <p>Concentration of all photosynthetic cells (those possessing chlorophyll a) in the water column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933133.rdf
Name: Algal_Torch_percentage_cells_cyano
Units: unitless
Description: <p>Percentage of cyanobacteria cells compared to the entire photosynthetic community.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933134.rdf
Name: Site_Description
Units: unitless
Description: <p>Additional sample site descriptors that have regional or ecological context.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933135.rdf
Name: Station_observations
Units: unitless
Description: <p>Additional sample site descriptors that have regional or ecological context.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933136.rdf
Name: Site_Classification
Units: unitless
Description: <p>Additional sample site descriptors that have regional or ecological context.</p>
http://lod.bco-dmo.org/id/dataset-parameter/933137.rdf
Name: Notes
Units: unitless
Description: <p>Further observations made that correspond to data interpretation or would be of use to researchers (including those who collaborated on this project).</p>
GB/NERC/BODC > British Oceanographic Data Centre, Natural Environment Research Council, United Kingdom
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
19524
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/05750386-c037-48ef-a3a3-cbcfcb255a5e/content
download
https://doi.org/10.26008/1912/bco-dmo.931936.1
download
onLine
dataset
<p>Water samples were collected from Lake Victoria were depth discrete (1.0 meters) collections performed using a Van Dorn sampler. Samples were collected on 0.22 micron sterivex filters for subsequent DNA extraction and stored at room temperature in DNA/RNA Shield (Zymo). Concurrently, a multiparameter sonde was deployed to record temperature, pH, dissolved oxygen, conductivity, turbidity etc. In addition, sterivex filtrate was collected and stored at -20 degrees Celsius for subsequent dissolved nutrient analysis at the Ohio State Stone Laboratory.</p>
<p>In turn, samples were collected for chlorophyll a and processed using a 24 hour&nbsp;90% acetone extraction performed at -20 degrees Celsius followed by quantification using a fluorometer. Samples for toxin analysis (microcystin) were collected and stored at -20C until processing using standard ELISA kits.&nbsp;</p>
<p>In situ analysis was performed with a field Algae Torch (bbe Moldaenke) fluorometer, which was equipped with chlorophyll a and phycocyanin probes. We collected data in the form of cells per liter by lowering the fluorometer into the water column at the same depths where water samples were collected. We then converted the data to percentages to determine the relative abundance of cyanobacteria in the context of the full phytoplankton community (Brown, et al. 2024).</p>
<p>The toxin data was collected and processed as follows: whole water samples were collected at the designated sample depth (refer to the “Sampling_depth” column within the primary data file of this dataset) and lysed using three freeze / thaw cycles. The lysate was investigated for the presence of the cyanobacterial toxin / secondary metabolite “microcystin” using the Microcystins/Nodularins (ADDA) ELISA kit (Gold Standard Diagnostics, Warminster, PA) (Brown, et al. 2024). Absorbance was read at 450 nm on a Multiskan FC Microplate Photometer (Thermo Fisher Scientific Inc).</p>
Specified by the Principal Investigator(s)
<p>In the data file, "NA" values are&nbsp;not applicable because that type of data was not collected for that site. The same equipment was not readily available at each site or each year.</p>
<p>If the analysis was run for a sample but no "data" could be detected (meaning it read "too low to detect" or some on-numerical output indicating a negative result), this is indicated by&nbsp;"ND" values in the primary data file&nbsp;(meaning not detected).</p>
Specified by the Principal Investigator(s)
- Changed date format from %M/%D/%Y to %Y-%M-%D
- Removed units from parameter names
- Replaced special characters in parameter names with underscores ("_") (e.g. "TN:TP" renamed "TN_TP_ratio"; "Algal_Torch_%_cells_cyano" renamed "Algal_Torch_percentage_cells_cyano"
Specified by BCO-DMO Data Managers
asNeeded
7.x-1.1
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact