http://lod.bco-dmo.org/id/dataset/854554
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
2021-06-23
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Temperature and salinity measured at the UConn dock in Groton, CT, USA, associated with DNA collection
2021-06-23
publication
2021-06-23
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-06-28
publication
https://doi.org/10.26008/1912/bco-dmo.854554.1
George McManus
University of Connecticut
principalInvestigator
Laura A. Katz
Smith College
principalInvestigator
Luciana Santoferrara
University of Connecticut
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
documentDigital
Cite this dataset as: McManus, G., Santoferrara, L., Katz, L. A. (2021) Temperature and salinity measured at the UConn dock in Groton, CT, USA, associated with DNA collection. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-06-23 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.854554.1 [access date]
Weekly dock samples Dataset Description: Acquisition Description: <p>Samples were collected at the UConn dock in Groton, CT, USA (41˚ 18' 59" N, 72˚ 03'39" W). Dock sampling was conducted weekly using a 20 um mesh plankton net, bulb thermometer, and temperature-corrected salinity refractometer. On some dates, cells were picked for single-cell genome/transcriptomes. There is a gap in the data between 2020-03-20 and 2020-05-01 when sampling was suspended due to COVID-19.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1924570 Award URL: http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1924570
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1924527 Award URL: http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1924527
completed
George McManus
University of Connecticut
860-405-8602
Department of Marine Sciences, University of Connecticut 1080 Shennecossett Rd.
Groton
CT
06340
USA
george.mcmanus@uconn.edu
pointOfContact
Laura A. Katz
Smith College
413-585-3825
Department of Biological Sciences Smith College Burton Hall 201
Northampton
MA
01063
USA
laura.katz@smith.edu
pointOfContact
Luciana Santoferrara
University of Connecticut
Stamford
CT
USA
luciana.santoferrara@uconn.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Date
Time_of_High_Tide_local
Time_of_Dock_Tow_local
Temperature
Salinity
ISO_DateTime_UTC_High_Tide
ISO_DateTime_UTC_Dock_Tow
20 um mesh plankton net
temperature-corrected salinity refractometer
bulb thermometer
theme
None, User defined
date
time of day
water temperature
salinity calculated from CTD primary sensors
ISO_DateTime_UTC
featureType
BCO-DMO Standard Parameters
Plankton Net
Refractometer
Thermometer
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: Combining single-cell and community 'omics' to test hypotheses about diversity and function of planktonic ciliates
http://microzooplankton.uconn.edu
Collaborative Research: Combining single-cell and community 'omics' to test hypotheses about diversity and function of planktonic ciliates
<p><em>NSF Award Abstract:</em><br />
Planktonic ciliates are key members of marine food webs where they serve diverse roles, including as food chain links between smaller microbes and larger plankton. Due to their small size and difficulties in identifying and cultivating them, we know less about ciliate diversity and distributions in the ocean than we do about larger organisms such as fish and invertebrates. Previous work from this team measured ciliate diversity in coastal waters and found that distinct genetic variants were separated in time and space in a way that could be related to factors such as ocean temperature, salinity, and depth gradients. Many questions remained unanswered, and it is important to understand the environmental factors that control the diversity and distribution of plankton such as ciliates to predict how these organisms may respond to a changing enviroment in the coming decades. This project focuses on: 1) how ciliate species are delineated using single-cell genomics and transcriptomics; 2) DNA-based studies of all ciliates and other planktonic members of the SAR clade (Stramenopila, Alveolata, Rhizaria), which will provide ecological context; 3) in situ gene expression by single-cell and meta- transcriptomics; and 4) laboratory studies of gene expression in cultivated ciliate species. This project involves training of postdoctoral scholars, graduate students, and undergraduates. The researchers are committed to creating diverse and inclusive research labs; recruitment of participants will be done through partnership with appropriate groups on our campuses. The project integrates with summer Research Experiences for Undergraduates (REU) activities at both Smith College and UCONN (including the UCONN/Mystic Aquarium joint REU), which are especially focused on underrepresented students. This project also enhances efforts to broaden understanding of biodiversity in partnership with the UCONN Noyce Scholars Program, which facilitates career-changing STEM professionals to become teachers in underserved secondary schools.</p>
<p>This project will assess distributions of reproductively-isolated species, determined using a new method to characterize regions of the ciliate germline genome. Furthermore, it will use phylogenomic methods to identify clade-specific transcripts (e.g. those of spirotrich ciliates) within metatranscriptomes from the shelf environment and to expand knowledge of ciliate function with single-cell transcriptomics of field-collected cells. These approaches will be a substantial improvement over the culture-based methods that are potentially biased towards "weedy" species in the ocean. The combination of definitive species identification with assessment of function via single-cell and meta- transcriptomics promises to provide significant advances in marine plankton ecology. The research focuses on two broad questions: 1) does the observed high diversity in phylogenetically-informative genes reflect reproductive isolation and functional differentiation in planktonic ciliates? and 2) do different co-occurring species of planktonic ciliates show substantial functional differences that correspond to different niches in the ocean? The project assesses species boundaries (i.e. reproductive isolation) through analyses of patterns in the germline micronuclei of planktonic ciliate morphospecies; characterizes transitions of closely-related ciliates across ecological gradients in the ocean; and examines functional differences within and between species, and in communities, through analyses of transcriptomics.</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>
Ciliate Omics
largerWorkCitation
project
eng; USA
oceans
-72.06083
-72.06083
41.31639
41.31639
2020-01-24
2021-04-06
New England continental shelf
0
BCO-DMO catalogue of parameters from Temperature and salinity measured at the UConn dock in Groton, CT, USA, associated with DNA collection
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/854597.rdf
Name: Date
Units: unitless
Description: Date of sampling (local time zone EST/EDT); format: YYYY-MM-DD
http://lod.bco-dmo.org/id/dataset-parameter/854598.rdf
Name: Time_of_High_Tide_local
Units: unitless
Description: Time of high tide (local time zone EST/EDT); format: hh:mm
http://lod.bco-dmo.org/id/dataset-parameter/854599.rdf
Name: Time_of_Dock_Tow_local
Units: unitless
Description: Time of dock tow (local time zone EST/EDT); format: hh:mm
http://lod.bco-dmo.org/id/dataset-parameter/854600.rdf
Name: Temperature
Units: degrees Celsius
Description: Water temperature
http://lod.bco-dmo.org/id/dataset-parameter/854601.rdf
Name: Salinity
Units: parts per thousand (PPT)
Description: Water salinity
http://lod.bco-dmo.org/id/dataset-parameter/854602.rdf
Name: ISO_DateTime_UTC_High_Tide
Units: unitless
Description: Date and time (UTC) of high tide in ISO8601 format: YYYY-MM-DDThh:mmZ
http://lod.bco-dmo.org/id/dataset-parameter/854603.rdf
Name: ISO_DateTime_UTC_Dock_Tow
Units: unitless
Description: Date and time (UTC) of dock tow in ISO8601 format: YYYY-MM-DDThh:mmZ
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
https://www.bco-dmo.org/dataset/854554/data/download
download
onLine
dataset
<p>Samples were collected at the UConn dock in Groton, CT, USA (41˚ 18' 59" N, 72˚ 03'39" W). Dock sampling was conducted weekly using a 20 um mesh plankton net, bulb thermometer, and temperature-corrected salinity refractometer. On some dates, cells were picked for single-cell genome/transcriptomes. There is a gap in the data between 2020-03-20 and 2020-05-01 when sampling was suspended due to COVID-19.</p>
Specified by the Principal Investigator(s)
<p>BCO-DMO Processing:<br />
- removed empty rows;<br />
- renamed fields to conform with BCO-DMO naming conventions;<br />
- removed the Notes column (empty);<br />
- changed date format to YYYY-MM-DD;<br />
- added ISO8601 datetime (UTC) fields.</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
20 um mesh plankton net
20 um mesh plankton net
PI Supplied Instrument Name: 20 um mesh plankton net Instrument Name: Plankton Net Instrument Short Name:Plankton Net Instrument Description: A Plankton Net is a generic term for a sampling net that is used to collect plankton. It is used only when detailed instrument documentation is not available. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/22/
temperature-corrected salinity refractometer
temperature-corrected salinity refractometer
PI Supplied Instrument Name: temperature-corrected salinity refractometer Instrument Name: Refractometer Instrument Short Name:Refractometer Instrument Description: A refractometer is a laboratory or field device for the measurement of an index of refraction (refractometry). The index of refraction is calculated from Snell's law and can be calculated from the composition of the material using the Gladstone-Dale relation.
In optics the refractive index (or index of refraction) n of a substance (optical medium) is a dimensionless number that describes how light, or any other radiation, propagates through that medium.
bulb thermometer
bulb thermometer
PI Supplied Instrument Name: bulb thermometer Instrument Name: Thermometer Instrument Short Name: Instrument Description: