Dataset: Pigment absorbance

Name: Absorbance at 3 wavelengths from pigment extractions of coral Orbicella faveolata from Rosaria and Varadero reef sites, Colombia, 2016 & 2017 (Varadero Reef project)
Published: 2018-03-05
Keywords: biota, oceans

Cite This Dataset

Spatial Extent: N:10.3028 E:-75.5819 S:10.3028 W:-75.5819

Temporal Extent: 2016-10 - 2017-05

Project:

RAPID: Coral robustness: lessons from an "improbable" reef (Varadero Reef)

Principal Investigator:

Mónica Medina (Pennsylvania State University, PSU)

Co-Principal Investigator:

Roberto Iglesias-Prieto (Pennsylvania State University, PSU)

Contact:

Tomás Lopez Lodoño (Pennsylvania State University, PSU)

BCO-DMO Data Manager:

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

Version:

Version Date:

2018-03-05

Restricted:

Validated:

Yes

Current State:

Final no updates expected

Absorbance at 3 wavelengths from pigment extractions of coral Orbicella faveolata from Rosaria and Varadero reef sites, Colombia, 2016 & 2017 (Varadero Reef project)

Abstract:

This dataset contains absorbance at 3 wavelengths from pigment extractions of coral Orbicella faveolata, the results of the preliminary analysis of the optical descriptors calculated for each coral fragment of the species Orbicella faveolata used in the transplant experiment between three sites: Varadero (10°18'23.3"N, 75°35'08.0"W), Rosario (10°11'12.1"N, 75°44'43.0"W) and Abanico (10°18'5.80"N, 75°34'37.10"W). The tag number/color of each fragment, the date of data collection, and the sites of origin and destination are specified.

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Description

This dataset contains the absorbance at D630, D663, and D750 of pigments extracted from coral Orbicella faveolata collected at Rosaria and Varadero reef sites, Colombia, Nov-Dec. 2016.

Related Reference:
Pizarro V, Rodríguez SC, López-Victoria M, Zapata FA, Zea S, Galindo-Martínez CT, Iglesias-Prieto R, Pollock J, Medina M. (2017) Unraveling the structure and composition of Varadero Reef, an improbable and imperiled coral reef in the Colombian Caribbean. PeerJ 5:e4119 https://doi.org/10.7717/peerj.4119

Methods & Sampling

The Varadero Reef is located south-west of the Cartagena Bay close to the southern strait that connects the Bay to the Caribbean Sea in Colombia. The Bay is a receiving estuary from the Magdalena River through the Canal del Dique, a man-made channel whose construction and operation dates back almost a century. The depth of the particular transplant site in Varadero is 3.5m, while at Rosario, a site inside a marine protected area located south-west with relatively high coral cover, is 3m and 12m.

Absorbance (D) spectra were calculated as D=log (1/R), assuming that transmission through the skeleton is negligible. Optical determinations were estimated following Shibata (1969) and Enríquez et al. (2005).

Methodology References:

- Shibata, K. 1969. Pigments and a UV-absorbing substance in corals and a blue-green alga living in the Great Barrier Reef. Plant Cell Physiol. 10: 325–335. DOI: 10.1093/oxfordjournals.pcp.a074411
- Enríquez, S., E.R. Méndez and R. Iglesias-Prieto. 2005. Multiple scattering on coral skeletons enhances light absorption by symbiotic algae. Limnol. Oceanogr., 50(4), 2005, 1025–1032. DOI: 10.4319/lo.2005.50.4.1025

Data 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
- corrected spelling of Orbicella faveoalta to Orbicella faveolata

Data Files

File
absorbance_v2.csv (Comma Separated Values (.csv), 17.96 KB) MD5:fb3f6393281123816447394f3953dd28 Primary data file for dataset ID 719318

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1642311

Deployments

None available yet

Instruments

Spectrophotometer

Supplied Name: mini spectrophotometer (Ocean Optics USB4000)

Supplied Description:

Instrument Type

Generic Name: Spectrophotometer

Community Identifier: http://vocab.nerc.ac.uk/collection/L05/current/LAB20/

Generic Description:

An instrument used to measure the relative absorption of electromagnetic radiation of different wavelengths in the near infra-red, visible and ultraviolet wavebands by samples.

Parameters

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

Supplied Name	Supplied description	Supplied Units	Standard Name
Species	taxonomic species name	unitless	species
Parent_Colony_id	parent colony number	unitless	sample
Parent_tag_color	parent colony tag color	unitless	tagid
Fragment_id	fragment number	unitless	sample
Fragment_tag_color	fragment tag color	unitless	tagid
replicate	replicate number	unitless	replicate
Date_collected	date collected	unitless	date
Transplanted_from	location coral fragment was transplanted from	unitless	site
Transplanted_to	location coral fragment was transplanted to	unitless	site
D_675_nm	absorbance at 630 nm	unitless	absorbance
D_663_nm	absorbance at 750 nm	unitless	absorbance
D_750_nm	absorbance at 630 nm	unitless	absorbance

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Database

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Dataset: Pigment absorbance