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Characterizing reef fish in the Gulf of Mexico using environmental DNA metabarcoding

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Abstract:
A wide range of environmental pressures and anthropogenic stressors, such as overfishing, climate change, and coastal development, have negatively affected fish communities in the Gulf of Mexico, specifically reef fish inhabiting natural or artificial reefs. Fish communities in the Gulf of Mexico vary both spatially and temporally due to movements in the water column, migrations, and environmental pressures making conventional survey sampling challenging to perform. Conventional methods can often be costly, time-consuming and invasive to the target organism. A possible resolution to overcome these challenges to inventory reef fish species lies with environmental DNA (eDNA) metabarcoding. Water samples were collected from artificial and natural reefs in the Gulf of Mexico. The 12s rRNA mitochondrial gene was amplified using elasmobranch and MiFish primers. Only elasmobranch primers were able to provide valuable reads. Amplicon libraries generated by PCR were sequenced using Illumina HiSeq. Environmental DNA metabarcoding revealed 4 reef-associated species out of 12 detected species, the Rough scad (Trachurus lathami), Sand diver (Synodus intermedius), Pearly razorfish (Xyrichtys novacula) and the invasive Lionfish (Pterois spp.). Fish species detections across nine sites were grouped by habitat and IUCN status. Surface and benthic fish detections were grouped by temperature and salinity. A generalized linear model and linear regression were used to test for correlation. This project demonstrates the utility of eDNA and metabarcoding as a valuable tool for characterization of reef fish species in the Gulf of Mexico.
Title: Characterizing reef fish in the Gulf of Mexico using environmental DNA metabarcoding.
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Name(s): Giraldo-Meneses, Juliana, author.
Type of Resource: text
Genre: Bibliography
Text-txt
Academic Theses.
Academic Theses.
Electronic Thesis Or Dissertation.
Issuance: monographic
Date Created: 2021
Other Date: 2021.
Publisher: University of West Florida,
Place of Publication: [Pensacola, Florida] :
Physical Form: electronic resource
Extent: 1 online resource (vii, 51 leaves : illustrations, maps, charts)
Language(s): eng
Abstract: A wide range of environmental pressures and anthropogenic stressors, such as overfishing, climate change, and coastal development, have negatively affected fish communities in the Gulf of Mexico, specifically reef fish inhabiting natural or artificial reefs. Fish communities in the Gulf of Mexico vary both spatially and temporally due to movements in the water column, migrations, and environmental pressures making conventional survey sampling challenging to perform. Conventional methods can often be costly, time-consuming and invasive to the target organism. A possible resolution to overcome these challenges to inventory reef fish species lies with environmental DNA (eDNA) metabarcoding. Water samples were collected from artificial and natural reefs in the Gulf of Mexico. The 12s rRNA mitochondrial gene was amplified using elasmobranch and MiFish primers. Only elasmobranch primers were able to provide valuable reads. Amplicon libraries generated by PCR were sequenced using Illumina HiSeq. Environmental DNA metabarcoding revealed 4 reef-associated species out of 12 detected species, the Rough scad (Trachurus lathami), Sand diver (Synodus intermedius), Pearly razorfish (Xyrichtys novacula) and the invasive Lionfish (Pterois spp.). Fish species detections across nine sites were grouped by habitat and IUCN status. Surface and benthic fish detections were grouped by temperature and salinity. A generalized linear model and linear regression were used to test for correlation. This project demonstrates the utility of eDNA and metabarcoding as a valuable tool for characterization of reef fish species in the Gulf of Mexico.
Identifier: 1295644282 (oclc), WFE0000776 (IID)
Note(s): by Juliana Giraldo-Meneses.
Department of Biology, Hal Marcus College of Science and Engineering
Thesis (M.S.) University of West Florida 2021
Includes bibliographical references.
Also available in print.
Subject(s): University of West Florida
University of West Florida.
Reef fishes -- Mexico, Gulf of
Library Classification: LD1807.F62k 2021 G573
Persistent Link to This Record: http://purl.flvc.org/uwf/fd/WFE00007776
Use and Reproduction: http://rightsstatements.org/vocab/InC-EDU/1.0/
Host Institution: UWF
Other Format: Characterizing reef fish in the Gulf of Mexico using environmental DNA metabarcoding. (Print version:)
(OCoLC)1295644432

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