Dataset: Sample key: Dcyl_Symb_2014
Deployment: Coral_Bleaching_FRRP

Dendrogyra cylindrus 23S Illumina 2014 sample key

Principal Investigator:

Dr Mauricio Rodriguez-Lanetty (Florida International University, FIU)

Co-Principal Investigator:

Dr Diego Lirman (University of Miami Rosenstiel School of Marine and Atmospheric Science, UM-RSMAS)

Dr Laurie Richardson (Florida International University, FIU)

BCO-DMO Data Manager:

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

Project:

RAPID: A hyper-thermal anomaly in the Florida Reef Tract: An opportunity to explore the mechanisms underpinning patterns of coral bleaching and disease (EMUCoReS)

Data URL:

https://www.bco-dmo.org/dataset-deployment/700085/data

Expand/Collapse All

Description

This dataset includes a key to samples of Dendrogyra cylindrus which were analyzed for 23S on an Illumina platform from three sites in the Florida Reef Tract, one each in the upper, middle and lower Keys in 2014. Tube numbers are matched to sample name, status (pre-bleach, pale, bleached, recovery), region, locations, sampling time point, total number of colonies and number of colonies sampled.

Methods & Sampling

Dataset acquisition description

Data Processing Description

Dataset Processing Description

BCO-DMO Processing Notes:
- added conventional header with dataset name, PI name, version date
- modified parameter names to conform with BCO-DMO naming conventions

More information about this dataset deployment

Funding

Award Number	Funding Source
OCE-1503430	NSF Division of Ocean Sciences
OCE-1503483	NSF Division of Ocean Sciences

Instruments

Automated DNA Sequencer

Supplied Name: Illumina platform

Supplied Description:

Instrument Type

Generic Name: Automated DNA Sequencer

Acronym: Automated Sequencer

Generic Description:

General term for a laboratory instrument used for deciphering the order of bases in a strand of DNA. Sanger sequencers detect fluorescence from different dyes that are used to identify the A, C, G, and T extension reactions. Contemporary or Pyrosequencer methods are based on detecting the activity of DNA polymerase (a DNA synthesizing enzyme) with another chemoluminescent enzyme. Essentially, the method allows sequencing of a single strand of DNA by synthesizing the complementary strand along it, one base pair at a time, and detecting which base was actually added at each step.

Parameters

Supplied Name	Supplied description	Supplied Units	Standard Name
sample	sample tube	unitless	sample
sample_ID	sample identifier ((yyyymmdd.site.colony-num)	unitless	sample
region	region of Florida Reef Tract: upper/middle/lower	unitless	region
status	bleaching status: prebleach - April 2014; bleached - Sept 2014; Recovery – Oct 2014 and Dec 2014	unitless	status
date_sampled	date sampled	unitless	date
lat	latitude; north is positive	decimal degrees	lat
lon	longitude; east is postivie	decimal degrees	lon
depth	sampling depth	meters	depth
total_num_colonies	total number of Dendrogyra cylindrus colonies	colonies	count
num_colonies_sampled	number of Dendrogyra cylindrus colonies sampled	colonies	count

Database

Contribute Data

Dataset: Sample key: Dcyl_Symb_2014
Deployment: Coral_Bleaching_FRRP

Dataset acquisition description

Dataset Processing Description

Database

Contribute Data

Dataset: Sample key: Dcyl_Symb_2014Deployment: Coral_Bleaching_FRRP

Dataset acquisition description

Dataset Processing Description

Dataset: Sample key: Dcyl_Symb_2014
Deployment: Coral_Bleaching_FRRP