Environmental biomonitoring of reef fish community structure with eDNA metabarcoding in the Coral Triangle

Coral reef fishes perform a range of vital ecosystem functions, and can serve as indicators of ecological stress and resilience. However, many species are not observed when using Underwater Visual Census (UVC) during biomonitoring, and therefore overall biodiversity is often underestimated. Environm...

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Bibliographic Details
Published in:Environmental biology of fishes 2021-08, Vol.104 (8), p.887-903
Main Authors: Gelis, Ester Restiana Endang, Kamal, M. Mukhlis, Subhan, Beginer, Bachtiar, Imam, Sani, Lalu M. Iqbal, Madduppa, Hawis
Format: Article
Language:English
Subjects:
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Animal Systematics/Taxonomy/Biogeography
Aquatic organisms
Biodiversity
Biomedical and Life Sciences
Biomonitoring
Community composition
Community structure
Coral reefs
DNA
Ecological function
Environment
Environmental DNA
Fish
Freshwater & Marine Ecology
Life Sciences
Marine fishes
Marine invertebrates
Marine parks
Marine protected areas
Nature Conservation
Protected areas
Reef fish
Reef fishes
Remote monitoring
Sediment samplers
Sediment samples
Species diversity
Submarine pipelines
Surveying
Visibility
Visual observation
Zoology
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Summary:Coral reef fishes perform a range of vital ecosystem functions, and can serve as indicators of ecological stress and resilience. However, many species are not observed when using Underwater Visual Census (UVC) during biomonitoring, and therefore overall biodiversity is often underestimated. Environmental DNA (eDNA) is proposed as an advanced and non-invasive next-generation biomonitoring method for determining the presence of aquatic organisms such as fish. Therefore, this study aimed to assess the community structure of coral fish from three different marine protected area reef zones (utility zone, open access zone, core zone) around Lombok Island using eDNA metabarcoding. Biological community composition, richness, and diversity were evaluated based on reads from mid-column water and sediment samples. A total of 58 species were identified from the eDNA samples using the Multiplex Barcode Research And Visualization Environment (mBRAVE) pipeline. The Shannon–Wiener index (H') showed significantly higher species diversity in the core zone than the utility and open access zones. There was no significant between-zone difference in community structure (ANOSIM, R = 0.11  F) = 0.001, p  
ISSN:0378-1909
1573-5133
DOI:10.1007/s10641-021-01118-3