http://lod.bco-dmo.org/id/dataset/845039
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
2021-03-14
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Coral associated microbes on coral, sediment, and water sampled from coral reefs in Mo'orea, French Polynesia from 2017 to 2020
2023-07-27
publication
2023-07-27
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-04-23
publication
https://doi.org/10.26008/1912/bco-dmo.845039.1
Andrew Thurber
Oregon State University
principalInvestigator
Adrienne M.S. Correa
Rice University
principalInvestigator
Rebecca Vega Thurber
Oregon State University
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: Thurber, A., Vega Thurber, R., Correa, A. M. (2023) Coral associated microbes on coral, sediment, and water sampled from coral reefs in Mo'orea, French Polynesia from 2017 to 2020. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 2) Version Date 2023-07-27 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.845039.2 [access date]
Bacteria and Archaea found on coral, sediment, and water in Mo’orea, French Polynesia Dataset Description: <p>Version 1, which has been archived under DOI number <a href="http://dx.doi.org/10.26008/1912/bco-dmo.845039.1" target="_blank">10.26008/1912/bco-dmo.845039.1</a>, was supported by NSF awards OCE-1635913 and OCE-1635798 as part of the project "Collaborative Research: Viral Reefscapes: The Role of Viruses in Coral Reef Health, Disease, and Biogeochemical Cycling". Version 2 is a continuation or extension of the data in version 1. It was supported by NSF award OCE-1933165 as part of the project "RAPID: Ecosystem impact of a coral bleaching event: The role of coral exudates in shifting oligotrophic biogeochemistry and reef microbiomes."</p> Methods and Sampling: <p><strong>Coral, water and sediment were sampled at 21 sites around the island of Mo'orea, French Polynesia in 2017, 2018, 2019, and 2020.</strong> Locations included Forereef on the oceanic side of the reef crest, Backreef on the lagoonal side of the reef crest, and Fringing Reef adjacent to the shoreline.</p>
<p><strong>Coral:</strong> Individual corals from three species (<em>Acropora hyacinthus</em>, <em>Porites lobata</em>, and <em>Pocillopora</em> <em>sp.</em>) were tagged and repeatedly sampled twice a year in the rainy and dry seasons at depths between 1 and 10 meters water depth. Note that <em>Pocillopora</em> are a species complex on the Island of Mo'orea and while all individuals appeared to be <em>Pocillopora meandrina</em>, different species of this genus are morphologically indistinguishable at the size of these corals. Sampling was done free-diving or on SCUBA, with individual corals sampled using bone cutters (or chisels for <em>P. lobata</em>) that had been flame sterilized prior to each day's collection and were used only for that species to eliminate cross-species contamination. Corals with the same ID are the same individual sampled over time. All collections were done while wearing nitrile gloves. Upon return to the boat, coral fragments were placed in Zymo DNA/RNA shield and kept cold on Techni ice (frozen to -80 degrees Celsius) until processing.<br />
<br />
<strong>Sediment</strong>: 2 milliliters (mL) of sediment were collected by gloved hands in sterile "snap-cap" vials. Upon return to the boat, samples were added to Zymo DNA/RNA shield and kept cold on Techni ice (frozen to -80 degrees Celsius) until processing.</p>
<p><strong>Water:</strong> 500 mL of seawater was collected and kept chilled until it was filtered onto a 0.1 micron filter, then put into Zymo DNA/RNA shield and kept cold on Techni ice (frozen to -80 degrees Celsius) until processing.</p>
<p><strong>Sample processing:</strong><br />
Initial processing included bead beating of all samples prior to them being frozen at -80 degrees Celsius&nbsp;and shipped back to either Rice University or Oregon State University. Coral and sediment were extracted using the ZYMO quick-DNA extraction kit and water samples with Qiagen Powerwater DNA extraction kit. DNA was amplified (at OSU) following the Earth Microbiome Project protocols, using the updated primers of 515f (Parada et al. 2016) and 806r (Apprill et al. 2015). Due to co-amplification of eukaryotic 12S rRNA genes, DNA was size selected using Blue Pippin (Sage Scientific) prior to sequencing to minimize 12S sequence generation. Sequencing was performed on the Illumina MiSeq platform using the V.2 chemistry at the Center for Genome Research and Biocomputing at Oregon State University. While we used forward and reverse barcoding for sequencing, reverse read quality scores were not acceptable and only forward reads were used and uploaded to the SRA. In certain cases, there were repeated sequencing runs for individual samples. That is indicated with different numbers.</p>
<p>Accession numbers of DNA sequences generated as part of this project are archived and available in the National Center for Biotechnology Information (NCBI) Short Read Archive under BioProject Identifier PRJNA684406 (<a href="https://www.ncbi.nlm.nih.gov/bioproject/PRJNA684406" target="_blank">https://www.ncbi.nlm.nih.gov/bioproject/PRJNA684406</a>).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1635798 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1635798
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1635913 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1635913
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1933165 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1933165
completed
Andrew Thurber
Oregon State University
541-737-4500
athurber@ucsb.edu
pointOfContact
Adrienne M.S. Correa
Rice University
amsc@berkeley.edu
pointOfContact
Rebecca Vega Thurber
Oregon State University
rvegathurber@gmail.com
pointOfContact
asNeeded
Dataset Version: 2
Unknown
BioSample_accession
Sample_name
Organism
Collection_date
Depth
Env_Local_Scale
Geo_Loc_Name
Latitude
Longitude
Host
Host_Subject_ID
Sequencing_Replicate
Illumina MiSeq platform
BluePippin
SCUBA
theme
None, User defined
accession number
sample identification
sample type
date
depth
site description
region
latitude
longitude
replicate
featureType
BCO-DMO Standard Parameters
Automated DNA Sequencer
Diving Mask and Snorkel
Sage Science BluePippin DNA size selection device
Self-Contained Underwater Breathing Apparatus
instrument
BCO-DMO Standard Instruments
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.
Collaborative Research: Viral Reefscapes: The Role of Viruses in Coral Reef Health, Disease, and Biogeochemical Cycling
https://osprey.bco-dmo.org/project/713328
Collaborative Research: Viral Reefscapes: The Role of Viruses in Coral Reef Health, Disease, and Biogeochemical Cycling
<p>Ecologically and economically, coral reefs are among the most valuable ecosystems on Earth. These habitats are estimated to harbor up to nine million species, contribute ~30 billion US dollars annually to the global economy, and are tropical epicenters of biogeochemical cycling. Global (climate change) and local (nutrient pollution and overfishing) stressors are drivers of coral reef decline that can disrupt the symbiotic associations among corals and resident microbial communities, including dinoflagellate algae, bacteria, and viruses. Viruses interact with all living cellular organisms, are abundant in oceans, and integral to marine ecosystem functioning. This project will be the first to quantify the variability of viral infection in corals across different reef habitats and across time. This will increase our understanding of the total diversity of coral viruses and illuminate the full suite of factors that trigger viral outbreaks on reefs. At the same time the project will evaluate how carbon and nitrogen cycling are altered on coral reefs as a result of global and local stressors that trigger viral infection. This project will ultimately broaden our understanding of the impacts of viruses on reefs beyond their role as putative disease agents. Results of the project will be communicated broadly in scientific arenas, in K-12, undergraduate, and graduate education and training programs, and to the general public through video and multimedia productions, as well as outreach events. 2-D Reef Replicas from our field sites across Moorea will be constructed, allowing children and adults in the US and French Polynesia to 'become' marine scientists and use quadrats, transect tapes, and identification guides to quantify metrics of reef change. Three graduate students will be involved in all aspects of the research and an effort will be made to recruit and support minority students. All datasets will be made freely available to the public and newly developed methods from this project will serve as an important set of springboard tools and baselines for future lines of inquiry into the processes that influence reef health.</p>
<p>Coral reefs, found in nutrient-poor shallow waters, are biodiversity and productivity hotspots that provide substantial ecological and societal benefits. Corals energetically subsidize these oligotrophic ecosystems by releasing significant amounts of mucus (an organic carbon and nitrogen-rich matrix) into the surrounding seawater. Viral production in reef waters can be a significant portion of total reef carbon cycling, accounting for ~10% of gross benthic carbon fixation in reef ecosystems. Viruses are also ~10 times more abundant on coral surfaces than in the water column meaning that viral infection experienced by corals during stress likely results is an increase in carbon and perhaps nitrogen flux to the water column. Thus phages and eukaryotic viruses may be responsible for shifting reef health and function directly via coral and symbiont infection and by altering biogeochemical cycling in host colonies and the adjacent reef system. The main goal of this project is to experimentally interrogate and then model the links among viral infections, declines in coral and reef health, and associated shifts in biogeochemical cycling in reef ecosystems. Lab and field experiments will be conducted at the Moorea Coral Reef LTER to characterize the spatiotemporal dynamics of viruses within two dominant reef-building coral species that differ in their susceptibility to abiotic stress. A novel viral infection and induction approach will be coupled with stable isotopic pulse-chase experiments to quantify and track carbon and nitrogen flux out of coral holobionts (host and microbial symbionts) and into dissolved and particulate pools. In these experiments, virus, bacteria, and symbiont abundance, diversity, and function will be measured simultaneously with the health and activity of the host. Pulse-chase techniques, as well as flux- and niche-based modeling, will result in a holistic understanding of how corals and associated viruses impact reef energy budgets and the ramifications of carbon and nitrogen flux for reef communities. Ultimately, this project will quantify and describe an integrated mechanism by which environmental stressors alter viral, microbial, and coral diversity and, consequently, ecosystem function.</p>
Moorea Virus Project
largerWorkCitation
project
RAPID: Ecosystem impact of a coral bleaching event: The role of coral exudates in shifting oligotrophic biogeochemistry and reef microbiomes.
https://osprey.bco-dmo.org/project/776864
RAPID: Ecosystem impact of a coral bleaching event: The role of coral exudates in shifting oligotrophic biogeochemistry and reef microbiomes.
<p>NSF Award Abstract:<br />
Shallow tropical reefs are biodiversity hotspots. Their ecosystem services make them key areas of economic, ecological, and cultural importance. Yet coral reefs are under significant threat due to both local and global stressors which can lead to coral bleaching, disease, and eventually coral death. When corals bleach, they release materials such as dead tissue, mucus, bacteria, and viruses that may affect the entire ecosystem. This project uses a wide-spread bleaching event at a Long Term Ecological Research site in French Polynesia to explore how these released materials impact the reef ecosystem The water chemistry and microbes associated with the corals and surrounding water are examined. This research aims to better understand how corals interact with their environment and how this interaction changes when corals are stressed. Throughout this project two female graduate students are being trained and interactive programs are used to communicate results to elementary, high school, and undergraduate students in Oregon. A 20-minute documentary for web release focusing on the reef scale impact of coral bleaching is in preparation together with film students.</p>
<p>Coral exudates include particulate and dissolved material (sloughed tissue, mucus, bacteria, viruses) that together add limiting nutrients and carbon compounds to the reef, fueling auto- and heterotrophic bacterial production. In recent experiments, coral-bleaching derived exudates were observed to themselves cause rapid bleaching, and often mortality, of previously healthy corals. Importantly, these negative impacts of coral exudate exposure were far greater than thermal stress. These experiments provided insight into a novel mechanism in which bleaching corals can adversely affect the health of adjacent corals. This project leverages these data and an extensive and ongoing bleaching event on the island of Mo?orea to quantify the cascading effects of coral exudates on reef ecosystems. It is hypothesized that during widespread bleaching: (1) DOC is significantly elevated across the reefscape; (2) coral holobiont components become enriched in the pelagic microbiome; (3) the water column microbial community shifts in function to increased heterotrophy and pathogenicity; and (4) coral holobionts diverge from their previous stable state leading to coral reef dysbiosis and/or disease and mortality. Sampling throughout the course of an ongoing bleaching event in Mo?orea is used to quantify the effects of this bleaching event on DOM dynamics and reef health. Mo'orea is situated in the MCR Long Term Ecological Research (MCR LTER) site. The rare reef-scale bleaching event at this well-studied location provides the unusual opportunity to quantify the impact of coral exudates on reef health and to better understand the temporal and spatial impacts of an island-wide bleaching event in an oligotrophic ecosystem. Measurement of the amount of organic matter released per unit area of coral on an island where the reef ecosystem is well parameterized over time and space allows development of a model of the impact of bleaching events on the island carbon budget.</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>
Ecosystem Impacts of Coral Bleaching
largerWorkCitation
project
eng; USA
biota
oceans
-149.921
-149.762
-17.58
-17.4721
2017-09-01
2020-03-31
From projects that focused on the following 2 locations: 1. Moorea, French Polynesia, Pacific 17 S 150 W 2. Mo’orea, French Polynesia
0
BCO-DMO catalogue of parameters from Coral associated microbes on coral, sediment, and water sampled from coral reefs in Mo'orea, French Polynesia from 2017 to 2020
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/846926.rdf
Name: BioSample_accession
Units: unitless
Description: <p>NCBI Short Read Archive BioSample accession identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/846927.rdf
Name: Sample_name
Units: unitless
Description: <p>Unique Sample ID</p>
http://lod.bco-dmo.org/id/dataset-parameter/846928.rdf
Name: Organism
Units: unitless
Description: <p>Host organism from which environmental metagenome was made</p>
http://lod.bco-dmo.org/id/dataset-parameter/846929.rdf
Name: Collection_date
Units: unitless
Description: <p>Year and month of sample collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/846931.rdf
Name: Depth
Units: meters (m)
Description: <p>Seawater depth from which the sample was collected</p>
http://lod.bco-dmo.org/id/dataset-parameter/846932.rdf
Name: Env_Local_Scale
Units: unitless
Description: <p>Reef type (forereef= oceanic side of the reef crest, backreef= lagoonal side of the reef crest, fringing reef= adjacent to the shoreline)</p>
http://lod.bco-dmo.org/id/dataset-parameter/846933.rdf
Name: Geo_Loc_Name
Units: unitless
Description: <p>Geographic location</p>
http://lod.bco-dmo.org/id/dataset-parameter/846934.rdf
Name: Latitude
Units: decimal degrees North
Description: <p>Latitude of sample collection; negative values = South.</p>
http://lod.bco-dmo.org/id/dataset-parameter/846935.rdf
Name: Longitude
Units: decimal degrees East
Description: <p>Longitude of sample collection; negative values = West.</p>
http://lod.bco-dmo.org/id/dataset-parameter/846936.rdf
Name: Host
Units: unitless
Description: <p>Sediment, Water, or Coral species</p>
http://lod.bco-dmo.org/id/dataset-parameter/846937.rdf
Name: Host_Subject_ID
Units: unitless
Description: <p>Identification of individual tagged corals that were repeatedly sampled. (Water and sediment have only one sample at each site)</p>
http://lod.bco-dmo.org/id/dataset-parameter/846938.rdf
Name: Sequencing_Replicate
Units: unitless
Description: <p>Repeated sequencing runs for individual samples</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
155605
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/a63531ef-4884-4c19-b6ee-985c6e1b3ef5/content
download
69400
https://darchive.mblwhoilibrary.org/bitstream/1912/26997/1/dataset-845039_coral-associated-microbes-moorean-coral-reefs__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.845039.1
download
onLine
dataset
<p><strong>Coral, water and sediment were sampled at 21 sites around the island of Mo'orea, French Polynesia in 2017, 2018, 2019, and 2020.</strong> Locations included Forereef on the oceanic side of the reef crest, Backreef on the lagoonal side of the reef crest, and Fringing Reef adjacent to the shoreline.</p>
<p><strong>Coral:</strong> Individual corals from three species (<em>Acropora hyacinthus</em>, <em>Porites lobata</em>, and <em>Pocillopora</em> <em>sp.</em>) were tagged and repeatedly sampled twice a year in the rainy and dry seasons at depths between 1 and 10 meters water depth. Note that <em>Pocillopora</em> are a species complex on the Island of Mo'orea and while all individuals appeared to be <em>Pocillopora meandrina</em>, different species of this genus are morphologically indistinguishable at the size of these corals. Sampling was done free-diving or on SCUBA, with individual corals sampled using bone cutters (or chisels for <em>P. lobata</em>) that had been flame sterilized prior to each day's collection and were used only for that species to eliminate cross-species contamination. Corals with the same ID are the same individual sampled over time. All collections were done while wearing nitrile gloves. Upon return to the boat, coral fragments were placed in Zymo DNA/RNA shield and kept cold on Techni ice (frozen to -80 degrees Celsius) until processing.<br />
<br />
<strong>Sediment</strong>: 2 milliliters (mL) of sediment were collected by gloved hands in sterile "snap-cap" vials. Upon return to the boat, samples were added to Zymo DNA/RNA shield and kept cold on Techni ice (frozen to -80 degrees Celsius) until processing.</p>
<p><strong>Water:</strong> 500 mL of seawater was collected and kept chilled until it was filtered onto a 0.1 micron filter, then put into Zymo DNA/RNA shield and kept cold on Techni ice (frozen to -80 degrees Celsius) until processing.</p>
<p><strong>Sample processing:</strong><br />
Initial processing included bead beating of all samples prior to them being frozen at -80 degrees Celsius&nbsp;and shipped back to either Rice University or Oregon State University. Coral and sediment were extracted using the ZYMO quick-DNA extraction kit and water samples with Qiagen Powerwater DNA extraction kit. DNA was amplified (at OSU) following the Earth Microbiome Project protocols, using the updated primers of 515f (Parada et al. 2016) and 806r (Apprill et al. 2015). Due to co-amplification of eukaryotic 12S rRNA genes, DNA was size selected using Blue Pippin (Sage Scientific) prior to sequencing to minimize 12S sequence generation. Sequencing was performed on the Illumina MiSeq platform using the V.2 chemistry at the Center for Genome Research and Biocomputing at Oregon State University. While we used forward and reverse barcoding for sequencing, reverse read quality scores were not acceptable and only forward reads were used and uploaded to the SRA. In certain cases, there were repeated sequencing runs for individual samples. That is indicated with different numbers.</p>
<p>Accession numbers of DNA sequences generated as part of this project are archived and available in the National Center for Biotechnology Information (NCBI) Short Read Archive under BioProject Identifier PRJNA684406 (<a href="https://www.ncbi.nlm.nih.gov/bioproject/PRJNA684406" target="_blank">https://www.ncbi.nlm.nih.gov/bioproject/PRJNA684406</a>).</p>
Specified by the Principal Investigator(s)
<p><strong>Data processing:</strong><br />
The only data processing was done by the sequencing facility which included stripping of sequencing primers and bar codes. No other data manipulation was done.</p>
<p><strong>Version History:<br />
Version 1</strong><br />
Version 1 date: 2021-03-14.<br />
Version 1 was supported by NSF awards OCE-1635913 and OCE-1635798 as part of the project "Collaborative Research: Viral Reefscapes: The Role of Viruses in Coral Reef Health, Disease, and Biogeochemical Cycling".<br />
<strong>BCO-DMO processing description for version 1:</strong><br />
The original data submitted in CSV file "AroundIsland_Metadata_final.csv" was modified during processing:<br />
- Adjusted field/parameter names to comply with database requirements<br />
- Added a conventional header with dataset name, PI names, version date, and BioProject<br />
- Added separate columns for Latitude and Longitude and converted to decimal degrees<br />
- Split column "collection_date" to show separate "Month" and Year" columns</p>
<p><strong>Version 2</strong><br />
Version 2 date: 2023-07-27.<br />
Version 2 is a continuation or extension of the data in version 1. It was supported by NSF award OCE-1933165 as part of the project "RAPID: Ecosystem impact of a coral bleaching event: The role of coral exudates in shifting oligotrophic biogeochemistry and reef microbiomes."<br />
<strong>BCO-DMO processing description for version 2:</strong><br />
- imported original file named "UpdateCoralMicrobiome.txt" into the BCO-DMO system;<br />
- converted year and month columns into a single date field with format YYYY-MM;<br />
- renamed fields to comply with BCO-DMO naming conventions;<br />
- separated latitude and longitude into separate columns;<br />
- concatenated the version 1 data with the data in "UpdateCoralMicrobiome.txt";<br />
- named the final data file "845039_v2_coral_microbes.csv".</p>
Specified by the Principal Investigator(s)
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
Illumina MiSeq platform
Illumina MiSeq platform
PI Supplied Instrument Name: Illumina MiSeq platform PI Supplied Instrument Description:Illumina MiSeq platform using the V.2 chemistry at the Center for Genome Research and Biocomputing at Oregon State University. Instrument Name: Automated DNA Sequencer Instrument Short Name:Automated Sequencer Instrument Description: A DNA sequencer is an instrument that determines the order of deoxynucleotides in deoxyribonucleic acid sequences.
PI Supplied Instrument Name: PI Supplied Instrument Description:Samples were collected by free diving Instrument Name: Diving Mask and Snorkel Instrument Short Name: Instrument Description: A diving mask (also half mask, dive mask or scuba mask) is an item of diving equipment that allows underwater divers, including, scuba divers, free-divers, and snorkelers to see clearly underwater.
Snorkel: A breathing apparatus for swimmers and surface divers that allows swimming or continuous use of a face mask without lifting the head to breathe, consisting of a tube that curves out of the mouth and extends above the surface of the water.
BluePippin
BluePippin
PI Supplied Instrument Name: BluePippin PI Supplied Instrument Description:BluePippin is a an automated DNA Size Selection System, a preparative electrophoresis platform that uses agarose gel plates.
For this dataset, DNA was size selected using Blue Pippin (Sage Scientific) prior to sequencing to minimize 12S sequence generation
Instrument Name: Sage Science BluePippin DNA size selection device Instrument Short Name:BluePippin Instrument Description: An automated DNA size selection instrument, with pulsed-field electrophoresis for resolving and collecting high molecular weight DNA. The instrument is used to automatically extract DNA fragments of a user selected size for downstream technologies such as miRNA isolation, DNA sequencing, RNA-seq, genotyping, DNA sequencing, ChIP-seq, and Long-read sequencing. The instrument uses electrophoresis along with laser detection or other imaging technology to determine when to start collecting DNA based on size ranges entered by the user. Once the DNA is no longer in the desired size range, collection ceases. The instrument has electrophoresis voltage options: 25V, 100V or 150V constant, or 100V pulsed field. The optical detection wavelength is 470 nm excitation, and 525 nm emission. The instrument can run up to 5 samples/gel cassettes at a time, with no possibility of cross contamination.
SCUBA
SCUBA
PI Supplied Instrument Name: SCUBA Instrument Name: Self-Contained Underwater Breathing Apparatus Instrument Short Name:SCUBA Instrument Description: The self-contained underwater breathing apparatus or scuba diving system is the result of technological developments and innovations that began almost 300 years ago. Scuba diving is the most extensively used system for breathing underwater by recreational divers throughout the world and in various forms is also widely used to perform underwater work for military, scientific, and commercial purposes.
Reference: https://oceanexplorer.noaa.gov/technology/technical/technical.html