Dataset: CP23S Genotypes

Name: Breviolum symbiont CP23S genotypes in Orbicella faveolata recruits from 2009-2011 (SymBioSys project)
Published: 2023-01-24
Keywords: oceans

Cite This Dataset

DOI:10.26008/1912/bco-dmo.882097.1

Spatial Extent: N:25.1167 E:-80.2833 S:24.5449 W:-81.4094

Temporal Extent: 2009 - 2011

Project:

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

Principal Investigator:

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

Co-Principal Investigator:

Margaret W. Miller (NOAA Southeast Fisheries Science Center, NOAA SEFSC)

David Sheets (Canisius College)

Student:

Noel J. Leigh (State University of New York at Buffalo, SUNY Buffalo)

Shelby E. McIlroy (State University of New York at Buffalo, SUNY Buffalo)

Contact:

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

BCO-DMO Data Manager:

Sawyer Newman (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2023-01-24

Restricted:

Release Date:

2022-11-09

Validated:

Yes

Current State:

Final no updates expected

Breviolum symbiont CP23S genotypes in Orbicella faveolata recruits from 2009-2011 (SymBioSys project)

Abstract:

Chloroplast 23S genotypes (based on length heteroplasmy in domain V of chloroplast large subunit (cp23S) ribosomal DNA sequences) of Breviolum sp. symbionts within Orbicella faveolata recruits that were outplanted to reefs in the Florida Keys.

Expand/Collapse All

Archival Copy

Version Date	Archive	Persistent Identifier (PID)	Date PID Issued
2023-01-24	Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)	10.26008/1912/bco-dmo.882097.1	2023-05-24

Methods & Sampling

Sampling and Analytical Methodology:

Egg-sperm bundles were collected from adult colonies of O. faveolata following the techniques described by Miller (2014). Larvae were reared at a shore-based lab and settled onto terracotta tiles. Once the larvae had metamorphosed and attached to the tiles, they were outplanted onto the reef by attachment vertically to a PVC rack approximately 0.2 m above the substrate to allow uptake of algal symbionts. Tiles with recruits were sampled one to three months after outplanting, recruits removed from the tile and preserved individually in 95% ethanol for subsequent molecular analysis. DNA extraction followed Coffroth et al. (1992). Cp-23S genotypes of the algal symbionts within the genus Breviolum were characterized following the protocol of Santos et al. (2003).

Locations in the Florida Keys with Abbreviations

Alligator (AR)
Coral Garden (CG)
Cheeca Rocks (CR)
East Turtle (ET)
Grecian Rocks (GR)
Looe Key (LK)
Sand Island (SI)
Tennessee (TR)

Data Processing Description

Processing notes from researcher:

NA indicates "No Amp - did not amplify after multiple attempts"

BCO-DMO Processing Notes:

Special characters and spaces replaced by underscores ("_") in parameter names
Longitude and latitude are split into separate columns and converted to decimal degrees
Longitude and latitude values rounded to the 6th place

Data Files

File
cp-type_recruits-1.csv (Comma Separated Values (.csv), 17.10 KB) MD5:d1639bdfb76f603f8beb949d3931fad5 File processed with laminar pipeline "882097_v1_CP23S_Genotypes" at path 882097/1/data/cp-type_recruits-1.csv

More Information about this dataset

Funding Sources

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

Deployments

None available yet

Instruments

None available yet

Parameters

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

Supplied Name	Supplied description	Supplied Units	Standard Name
Sample_ID	Identification of Orbicella faveolata recruit sampled	unitless	sample
Year	Year in which sample was collected	unitless	year
Spawn_site	Reef where egg-sperm bundles were collected from O. faveolata adult colonies; site of parental colonies. AR = Alligator; CG = Coral Garden; CR = Cheeca Rocks; ET = East Turtle; GR = Grecian Rocks; LK = Looe Key; SI = Sand Island; TR = Tennessee.	unitless	site
Latitude_Spawn_site_decimal_degrees	Latitude of reef where adult samples were taken in decimal degrees. A positive value indicates North.	decimal degrees	lat
Longitude_Spawn_site_decimal_degrees	Longitude of reef where adult samples were taken. A negative value indicates West.	decimal degrees	lon
Depth_m_Spawn_site	Depth where adult colonies were located.	meters (m)	depth
Outplant_Site	Reef where newly settled recruits were outplanted. AR = Alligator; CG = Coral Garden; CR = Cheeca Rocks; ET = East Turtle; GR = Grecian Rocks; LK = Looe Key; SI = Sand Island; TR = Tennessee.	unitless	site
Latitude_outplant_site_decimal_degrees	Latitude of reef where samples were taken in decimal degrees. A positive value indicates North.	decimal degrees	lat
Longitude_outplant_site_decimal_degrees	Longitude of reef where samples were taken. A negative value indicates West.	decimal degrees	lon
Depth_m_outplant site	Depth where newly settled recruits were outplanted.	meters (m)	depth
CP_type	Fragment size of the hypervariable region of domain V of chloroplast large subunit rDNA (cp23S) allele	unitless	no_bcodmo_term

Status message

Database

Contribute Data

Dataset: CP23S Genotypes