Dataset: CARP accession numbers
Deployment: lab_Falkowski

Sequence accession numbers for coral acid rich proteins (CARPs) from Stylophora pistillata.

Principal Investigator:

Paul G. Falkowski (Rutgers University, Rutgers IMCS)

Co-Principal Investigator:

Yair Rosenthal (Rutgers University, Rutgers IMCS)

Oscar M.E. Schofield (Rutgers University, Rutgers IMCS)

Robert M. Sherrell (Rutgers University, Rutgers IMCS)

Contact:

Paul G. Falkowski (Rutgers University, Rutgers IMCS)

BCO-DMO Data Manager:

Shannon Rauch (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Project:

The Molecular Basis of Ocean Acidification Effects on Calcification in Zooxanthellate Corals (CROA)

Current State:

Final no updates expected

Version:

06 Nov 2014

Version Date:

2014-11-06

Data URL:

https://osprey.bco-dmo.org/dataset-deployment/537760/data

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Description

Refer to the following publication for more information:
Mass, T., Jeana L. Drake, L. Haramaty, J. D. Kim, E. Zelzion, D. Bhattacharya & Paul G. Falkowski. 2013. Cloning and characterization of four novel coral acid-rich proteins that precipitate carbonates in vitro. Current Biology, 23(12): 1126-1131. doi: 10.1016/j.cub.2013.05.007

Methods & Sampling

Dataset acquisition description

Methods are described in their entirety in the Supplemental Information file of Mass et al. 2013 (PDF).

Data Processing Description

Dataset Processing Description

More information about this dataset deployment

Funding

Award Number	Funding Source
EF-1041143	NSF Emerging Frontiers Division

Instruments

Flow Cytometer

Supplied Name: BD Influx Mariner 209S Flow Cytometer

Supplied Description:

Flow cytometry analysis was performed on cells from different interfaces using a BD Influx Mariner 209S Flow Cytometer. Total genomic DNA of the Symbiodinium spp.-free cell fraction was extracted from harvested cells using a blood and cell culture DNA mini kit (Qiagen) with small modifications.

Instrument Type

Generic Name: Flow Cytometer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB37/

Generic Description:

Flow cytometers (FC or FCM) are automated instruments that quantitate properties of single cells, one cell at a time. They can measure cell size, cell granularity, the amounts of cell components such as total DNA, newly synthesized DNA, gene expression as the amount messenger RNA for a particular gene, amounts of specific surface receptors, amounts of intracellular proteins, or transient signalling events in living cells.
(from: http://www.bio.umass.edu/micro/immunology/facs542/facswhat.htm)

Thermal Cycler

Supplied Name: Perkin Elmer-Cetus 480 thermal cycler

Supplied Description:

Amplifications of the 16S and 18S rRNA were performed using a Perkin Elmer-Cetus 480 thermal cycler.

Instrument Type

Generic Name: Thermal Cycler

Generic Description:

A thermal cycler or "thermocycler" is a general term for a type of laboratory apparatus, commonly used for performing polymerase chain reaction (PCR), that is capable of repeatedly altering and maintaining specific temperatures for defined periods of time. The device has a thermal block with holes where tubes with the PCR reaction mixtures can be inserted. The cycler then raises and lowers the temperature of the block in discrete, pre-programmed steps. They can also be used to facilitate other temperature-sensitive reactions, including restriction enzyme digestion or rapid diagnostics.

(adapted from http://serc.carleton.edu/microbelife/research_methods/genomics/pcr.html)

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
accession_number	GenBank accession number.	dimensionless	accession_number
species	Name of the species.	text	species
description	Description of the sequence type.	text	no_bcodmo_term
accession_num_link	Hyperlink to GenBank for the specific accession number.	dimensionless	absorbance

Database

Contribute Data

Dataset: CARP accession numbers
Deployment: lab_Falkowski

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: CARP accession numbersDeployment: lab_Falkowski

Dataset acquisition description

Dataset Processing Description

Dataset: CARP accession numbers
Deployment: lab_Falkowski