Next Article in Journal
Balkan Chamois (Rupicapra rupicapra balcanica) Avoids Roads, Settlements, and Hunting Grounds: An Ecological Overview from Timfi Mountain, Greece
Previous Article in Journal
Diversity and Conservation through Cultivation of Hypoxis in Africa—A Case Study of Hypoxis hemerocallidea
Open AccessArticle

DNA Metabarcoding of Deep-Sea Sediment Communities Using COI: Community Assessment, Spatio-Temporal Patterns and Comparison with 18S rDNA

1
Norwegian College of Fishery Science, UiT the Arctic University of Norway, 9019 Tromsø, Norway
2
Department of Marine Ecology, Centre for Advanced Studies of Blanes (CEAB, CSIC), 17300 Blanes, Catalonia, Spain
*
Authors to whom correspondence should be addressed.
Diversity 2020, 12(4), 123; https://doi.org/10.3390/d12040123
Received: 30 January 2020 / Revised: 20 March 2020 / Accepted: 23 March 2020 / Published: 26 March 2020
(This article belongs to the Special Issue Molecular Biodiversity Assessment in the Deep-Sea)
Among the complex ecosystems and habitats that form the deep sea, submarine canyons and open slope systems are regarded as potential hotspots of biodiversity. We assessed the spatial and temporal patterns of biodiversity in sediment communities of a NW Mediterranean Canyon and its adjacent open slope (Blanes Canyon) with DNA metabarcoding. We sampled three layers of sediment and four different depths (900–1750 m) at two seasons, and used a fragment of the mitochondrial gene cytochrome c oxidase subunit I (COI) as a metabarcoding marker. The final dataset contained a total of 15,318 molecular operational taxonomic units (MOTUs). Metazoa, Stramenopiles and Archaeplastida were the dominant taxa and, within metazoans, Arthropoda, Nematoda and Cnidaria were the most diverse. There was a trend towards decreasing MOTU richness and diversity in the first few cm (1 to 5) of the sediment, with only 26.3% of the MOTUs shared across sediment layers. Our results show the presence of heterogeneous communities in the studied area, which was significantly different between zones, depths and seasons. We compared our results with the ones presented in a previous study, obtained using the v7 region of the 18S rRNA gene in the same samples. There were remarkable differences in the total number of MOTUs and in the most diverse taxa. COI recovered a higher number of MOTUs, but more remained unassigned taxonomically. However, the broad spatio-temporal patterns elucidated from both datasets coincided, with both markers retrieving the same ecological information. Our results showed that COI can be used to accurately characterize the studied communities and constitute a high-resolution method to detect ecological shifts. We also highlight that COI reference databases for deep-sea organisms have important gaps, and their completeness is essential in order to successfully apply metabarcoding techniques. View Full-Text
Keywords: DNA metabarcoding; COI; 18S rRNA gene; deep sea; submarine canyons; meiofauna DNA metabarcoding; COI; 18S rRNA gene; deep sea; submarine canyons; meiofauna
Show Figures

Figure 1

MDPI and ACS Style

Atienza, S.; Guardiola, M.; Præbel, K.; Antich, A.; Turon, X.; Wangensteen, O.S. DNA Metabarcoding of Deep-Sea Sediment Communities Using COI: Community Assessment, Spatio-Temporal Patterns and Comparison with 18S rDNA. Diversity 2020, 12, 123.

Show more citation formats Show less citations formats
Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Article Access Map by Country/Region

1
Search more from Scilit
 
Search
Back to TopTop