Dataset: CARP accession numbers

Name: Sequence accession numbers for coral acid rich proteins (CARPs) from Stylophora pistillata; analyzed in the Falkowski lab at Rutgers from 2010-2014 (CROA project)
Published: 2014-11-06
Keywords: oceans

Cite This Dataset

Project:

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

Program:

Science, Engineering and Education for Sustainability NSF-Wide Investment (SEES): Ocean Acidification (formerly CRI-OA) (SEES-OA)

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)

Version:

06 Nov 2014

Version Date:

2014-11-06

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Sequence accession numbers for coral acid rich proteins (CARPs) from Stylophora pistillata; analyzed in the Falkowski lab at Rutgers from 2010-2014 (CROA project)

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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

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

Data Files

File
CARP_accessions.csv (Comma Separated Values (.csv), 786 bytes) MD5:796ac6f5b8a6dbc1881101cb8be8f8ba Primary data file for dataset ID 537751

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Emerging Frontiers Division	EF-1041143

Deployments

Deployment	Synonyms	Start Date	Platform	Investigator
lab_Falkowski		2010-09-01	Rutgers_New_Brunswick	Paul G. Falkowski (Principal Investigator)	data info

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

Date and time formats are described in python strftime() syntax.

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

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Database

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Dataset: CARP accession numbers