http://lod.bco-dmo.org/id/dataset/746395
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
2018-09-18
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Daily RBRconcerto data from surface waters off of the Santa Monica Pier, California from April 16-25th, 2018 as part of the San Pedro Ocean Time-series (SPOT)
2018-09-18
publication
2018-09-18
revision
BCO-DMO Linked Data URI
2018-09-18
creation
http://lod.bco-dmo.org/id/dataset/746395
David Caron
University of Southern California
principalInvestigator
Julie V. Hopper
University of Southern California
principalInvestigator
Sarah K. Hu
University of Southern California
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: Caron, D., Hu, S. K., Mesrop, L., Ollison, G. A., Hopper, J. V. (2018) Daily RBRconcerto data from surface waters off of the Santa Monica Pier, California from April 16-25th, 2018 as part of the San Pedro Ocean Time-series (SPOT). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2018-09-18 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/746395 [access date]
Methods and Sampling: Sampling and analytical procedures:
We used the RBRconcerto during the daily sampling period April 16-25th 2018 in surface waters off of the Santa Monica Pier, California. The RBRConcerto was lowered into the water for 10 minutes between 1 to 2 meters depth during which we sampled nearby sea water for downstream RNA extractions and 18S rRNA gene tag sequence processing.
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1737409 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1737409
onGoing
David Caron
University of Southern California
213-740-0203
Dornsife College of Letters, Arts, and Sciences 3616 Trousdale Parkway
Los Angeles
CA
90089
USA
dcaron@usc.edu
pointOfContact
Julie V. Hopper
University of Southern California
juliehop@usc.edu
pointOfContact
Sarah K. Hu
University of Southern California
skhu@tamu.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Date
Time
conductivity
temperature
pressure
dissolvedosaturation
chlorophylla
salinity
scan
lat
lon
ISO_DateTime_UTC
RBR concerto DO Fl CTD
theme
None, User defined
date
time of day
conductivity
water temperature at measurement depth
water pressure
dissolved Oxygen
chlorophyll a
salinity
scan
latitude
longitude
ISO_DateTime_UTC
featureType
BCO-DMO Standard Parameters
CTD Richard Brancker Research
instrument
BCO-DMO Standard Instruments
SPOT_SMP
service
Deployment Activity
Santa Monica Pier, CA
place
Locations
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.
Protistan, prokaryotic, and viral processes at the San Pedro Ocean Time-series
https://osprey.bco-dmo.org/project/743049
Protistan, prokaryotic, and viral processes at the San Pedro Ocean Time-series
<p>Planktonic marine microbial communities consist of a diverse collection of bacteria, archaea, viruses, protists (phytoplankton and protozoa) and small animals (metazoan). Collectively, these species are responsible for virtually all marine pelagic primary production where they form the basis of food webs and carry out a large fraction of respiratory processes. Microbial interactions include the traditional role of predation, but recent research recognizes the importance of parasitism, symbiosis and viral infection. Characterizing the response of pelagic microbial communities and processes to environmental influences is fundamental to understanding and modeling carbon flow and energy utilization in the ocean, but very few studies have attempted to study all of these assemblages in the same study. This project is comprised of long-term (monthly) and short-term (daily) sampling at the San Pedro Ocean Time-series (SPOT) site. Analysis of the resulting datasets investigates co-occurrence patterns of microbial taxa (e.g. protist-virus and protist-prokaryote interactions, both positive and negative) indicating which species consistently co-occur and potentially interact, followed by examination gene expression to help define the underlying mechanisms. This study augments 20 years of baseline studies of microbial abundance, diversity, rates at the site, and will enable detection of low-frequency changes in composition and potential ecological interactions among microbes, and their responses to changing environmental forcing factors. These responses have important consequences for higher trophic levels and ocean-atmosphere feedbacks. The broader impacts of this project include training graduate and undergraduate students, providing local high school student with summer lab experiences, and PI presentations at local K-12 schools, museums, aquaria and informal learning centers in the region. Additionally, the PIs advise at the local, county and state level regarding coastal marine water quality.</p>
<p>This research project is unique in that it is a holistic study (including all microbes from viruses to small metazoa) of microbial species diversity and ecological activities, carried out at the SPOT site off the coast of southern California. In studying all microbes simultaneously, this work aims to identify important ecological interactions among microbial species, and identify the basis(es) for those interactions. This research involves (1) extensive analyses of prokaryote (archaean and bacterial) and eukaryote (protistan and micro-metazoan) diversity via the sequencing of marker genes, (2) studies of whole-community gene expression by eukaryotes and prokaryotes in order to identify key functional characteristics of microorganismal groups and the detection of active viral infections, and (3) metagenomic analysis of viruses and bacteria to aid interpretation of transcriptomic analyses using genome-encoded information. The project includes exploratory metatranscriptomic analysis of poorly-understood aphotic and hypoxic-zone protists, to examine their stratification, functions and hypothesized prokaryotic symbioses.</p>
SPOT
largerWorkCitation
project
eng; USA
oceans
Santa Monica Pier, CA
-118.500153
-118.500153
34.007653
34.007653
2018-04-16
2018-04-25
San Pedro Channel off the coast of Los Angeles
0
BCO-DMO catalogue of parameters from Daily RBRconcerto data from surface waters off of the Santa Monica Pier, California from April 16-25th, 2018 as part of the San Pedro Ocean Time-series (SPOT)
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/747600.rdf
Name: Date
Units: unitless
Description: <p>Date (local,UTC-7) in format m/d/yyyy</p>
http://lod.bco-dmo.org/id/dataset-parameter/747601.rdf
Name: Time
Units: unitless
Description: <p>Time (local,UTC-7) in format HH:MM:SS</p>
http://lod.bco-dmo.org/id/dataset-parameter/747602.rdf
Name: conductivity
Units: milli-Siemens per centimeter (mS/cm)
Description: <p>Conductivity</p>
http://lod.bco-dmo.org/id/dataset-parameter/747603.rdf
Name: temperature
Units: degrees Celsius (C)
Description: <p>Water temperature</p>
http://lod.bco-dmo.org/id/dataset-parameter/747604.rdf
Name: pressure
Units: decibars (dbar)
Description: <p>Pressure</p>
http://lod.bco-dmo.org/id/dataset-parameter/747605.rdf
Name: dissolvedosaturation
Units: percent (%)
Description: <p>Dissolved oxygen saturation</p>
http://lod.bco-dmo.org/id/dataset-parameter/747606.rdf
Name: chlorophylla
Units: micrograms per liter (µg/l)
Description: <p>Chlorophyll a</p>
http://lod.bco-dmo.org/id/dataset-parameter/747607.rdf
Name: salinity
Units: Practical Salinity Units (PSU)
Description: <p>Salinity</p>
http://lod.bco-dmo.org/id/dataset-parameter/747608.rdf
Name: scan
Units: unitless
Description: <p>Scan (RBRconcerto measurement number)</p>
http://lod.bco-dmo.org/id/dataset-parameter/747609.rdf
Name: lat
Units: decimal degrees
Description: <p>Latitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/747610.rdf
Name: lon
Units: decimal degrees
Description: <p>Longitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/747611.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>Timestamp (UTC) in standard ISO 8601:2004(E) format YYYY-mm-ddTHH:MM:SSZ</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
2967645
https://datadocs.bco-dmo.org/file/N77Gg0oiPWP7RZ/CTD.csv
CTD.csv
Primary data file for dataset ID 746395
download
https://osprey.bco-dmo.org/dataset/746395/data/download
download
onLine
dataset
Sampling and analytical procedures:
We used the RBRconcerto during the daily sampling period April 16-25th 2018 in surface waters off of the Santa Monica Pier, California. The RBRConcerto was lowered into the water for 10 minutes between 1 to 2 meters depth during which we sampled nearby sea water for downstream RNA extractions and 18S rRNA gene tag sequence processing.
Specified by the Principal Investigator(s)
RBRconcerto data was processed, trimmed and compiled with the OCE package in R (version 0.9-23). We trimmed the downcast and upcast parts of the data, resulting in consistent scans from 1000 to 2999 for each day.
BCO-DMO Data Manager Processing Notes (after communication with data submitter):
* added a conventional header with dataset name, PI name, version date
* modified parameter names to conform with BCO-DMO naming conventions
* blank values in this dataset are displayed as "nd" for "no data." nd is the default missing data identifier in the BCO-DMO system.
* added lat/lon values (in decimal degrees) to the dataset from the single deployment location provided in the metadata for this dataset.
* Added ISO_DateTime_UTC column from local time values
* pressure column rounded to two decimal places.
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
RBR concerto DO Fl CTD
RBR concerto DO Fl CTD
PI Supplied Instrument Name: RBR concerto DO Fl CTD PI Supplied Instrument Description:The RBRconcerto instrument (Conductivity, Temperature, Pressure (Depth), Dissolved Oxygen, Fluorescence), calibrated in 2018 by RBR. Instrument Name: CTD Richard Brancker Research Instrument Short Name:CTD - RBR Instrument Description: The RBR Conductivity, Temperature and Depth instrument:
http://www.rbr-global.com/products/ct-and-ctd-loggers/rbrconcerto-ctd
Deployment: SPOT_SMP
SPOT_SMP
shoreside Santa Monica Pier
dock
SPOT_SMP
David Caron
University of Southern California
shoreside Santa Monica Pier
dock