Dataset: Symbiodinium culture collection
Deployment: Coffroth_2010

Cnidarian symbiont culture collection, BURRCC

Principal Investigator:

Mary Alice Coffroth (State University of New York at Buffalo, SUNY Buffalo)

BCO-DMO Data Manager:

Nancy Copley (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

Ontogenic change in Cnidarian-algal symbioses: A genomic and ecologic perspective (SymBioSys)

Current State:

Final no updates expected

Version:

2015-01-15

Version Date:

2015-01-15

Data URL:

https://www.bco-dmo.org/dataset-deployment/546059/data

Expand/Collapse All

Description

Summary of Symbiodinium cultures in the BURR Culture Collection with symbiont phylotype based on variation in the chloroplast 23S-rDNA. Collections made world-wide; cultures are maintained at the University at Buffalo. Cultures are available to researchers for a nominal charge. Contact coffroth@buffalo.edu for further information.

This dataset provides the Symbiodinium clade (Rowan and Powers, 1991, Science 251: 1348-1351) and variation in domain V of the chloroplast 23S rDNA (Santos et al 2003, Mar.Biotech. 5:130-140).

Methods & Sampling

Dataset acquisition description

Symbionts isolated from cnidarian fragments and reared in F/2 media under 40W cool-white lights at 26oC on a 14:10h light:dark cycle. Symbiont identification followed that of Santos et al. 2003, Mar.Biotech. 5:130-140.

Related Reference:

- Santos SR, Gutiérrez-Rodríguez C, Coffroth MA (2003) Phylogenetic identification of symbiotic dinoflagellates via length heteroplasmy in domain V of chloroplast large subunit (cp23S)-rDNA sequences. Mar Biotech 5: 130-140 for technique to characterize symbionts based on of chloroplast large subunit (cp23S)-rDNA.
- Rowan, R. and D. Powers (1991). A molecular genetic classification of zooxanthellae and the evolution of animal-algal symbioses. Science 251: 1348-1351 for technique to characterize symbionts at the clade level.
- BURR webpage (http://www.nsm.buffalo.edu/Bio/burr/) for details of symbiont isolation and culturing.

Data Processing Description

Dataset Processing Description

BCO-DMO Processing:

- original file: Coffroth_BURR Culture Collection database_Dec 2014.xlsx
- added conventional header with dataset name, PI name, version date, reference information
- changed parameter names to be BCO-DMO compatible
- replaced spaces with underscores

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-0926822	NSF Division of Ocean Sciences
OCE-9907319	NSF Division of Ocean Sciences
OCE-0424996	NSF Division of Ocean Sciences

Instruments

None available yet

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
clade	Symbiodinium clade	unitless	no_bcodmo_term
cp_23S_rDNA_genotype	variation in domain V of the chloroplast 23S rDNA	unitless	no_bcodmo_term
culture_id	Symbiodinium culture identification	unitless	no_bcodmo_term
lab	laboratory identification; for mapping puposes	unitless	laboratory
lat	latitude of lab; north is positive	decimal degrees	lat
lon	londitude of lab; east is positive	decimal degrees	lon

Database

Contribute Data

Dataset: Symbiodinium culture collection
Deployment: Coffroth_2010

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Symbiodinium culture collectionDeployment: Coffroth_2010

Dataset acquisition description

Dataset Processing Description

Dataset: Symbiodinium culture collection
Deployment: Coffroth_2010