Detection of the Largest Deep-Sea-Endemic Teleost Fish at Depths of Over 2,000 m Through a Combination of eDNA Metabarcoding and Baited Camera Observations

Fujiwara, Yoshihiro; Tsuchida, Shinji; Kawato, Masaru; Masuda, Kotohiro; Sakaguchi, Sakiko Orui; Sadõ, Tetsuya; Miya, Masaki; Yoshida, Takao

doi:10.3389/fmars.2022.945758

Cited by 13 publications

(8 citation statements)

References 51 publications

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“…On the other hand, a few surveys of aquatic communities in the deep sea have been conducted (Fraija-Fernańdez et al, 2020;McClenaghan et al, 2020;Merten et al, 2021). Recently, a combination of eDNA with other methodologies (e.g., imaging data) is shown to be a more comprehensive method of monitoring deep-sea biodiversity (Fujiwara et al, 2022;Stefanni et al, 2022). However, it is estimated that in the deep sea, where biomass is low, the amount of eDNA sources is lower than in coastal and surface seawater (McClenaghan et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

Optimization of environmental DNA analysis using pumped deep-sea water for the monitoring of fish biodiversity

Yoshida

Kawato²,

Fujiwara³

et al. 2023

Front. Mar. Sci.

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Deep-sea ecosystems present difficulties in surveying and continuous monitoring of the biodiversity of deep-sea ecosystems because of the logistical constraints, high cost, and limited opportunities for sampling. Environmental DNA (eDNA) metabarcoding analysis provides a useful method for estimating the biodiversity in aquatic ecosystems but has rarely been applied to the study of deep-sea fish communities. In this study, we utilized pumped deep-sea water for the continuous monitoring of deep-sea fish communities by eDNA metabarcoding. In order to develop an optimum method for continuous monitoring of deep-sea fish biodiversity by eDNA metabarcoding, we determined the appropriate amount of pumped deep-sea water to be filtered and the practical number of filtered sample replicates required for biodiversity monitoring of deep-sea fish communities. Pumped deep-sea water samples were filtered in various volumes (5–53 L) at two sites (Akazawa: pumping depth 800 m, and Yaizu: pumping depth 400 m, Shizuoka, Japan) of deep-sea water pumping facilities. Based on the result of evaluations of filtration time, efficiency of PCR amplification, and number of detected fish reads, the filtration of 20 L of pumped deep-sea water from Akazawa and filtration of 10 L from Yaizu were demonstrated to be suitable filtration volumes for the present study. Fish biodiversity obtained by the eDNA metabarcoding analyses showed a clear difference between the Akazawa and Yaizu samples. We also evaluated the effect of the number of filter replicates on the species richness detected by eDNA metabarcoding from the pumped deep-sea water. At both sites, more than 10 sample replicates were required for the detection of commonly occurring fish species. Our optimized method using pumped deep-sea water and eDNA metabarcoding can be applied to eDNA-based continuous biodiversity monitoring of deep-sea fish to better understand the effects of climate change on deep-sea ecosystems.

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Section: Introductionmentioning

confidence: 99%

Optimization of environmental DNA analysis using pumped deep-sea water for the monitoring of fish biodiversity

Yoshida

Kawato²,

Fujiwara³

et al. 2023

Front. Mar. Sci.

Self Cite

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“…Environmental DNA analysis is an emerging tool for deep-sea biodiversity [25][26][27] and ecological studies [28][29][30] , yet eDNA is less abundant in the deep-sea, such that larger volumes of water are needed to attain representative samples, and the manual labour required to filter those samples in situ can become a limitation 31 . Furthermore, remote, deep-sea habitats are expensive to reach in the first place, so leveraging of natural samplers in this context represents a major boost for large scale ocean exploration and monitoring.…”

Section: Discussionmentioning

confidence: 99%

Trapped DNA fragments in marine sponge specimens unveil north Atlantic deep-sea fish diversity

Neave

Cai

Arias

et al. 2023

Preprint

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Sponges pump water to filter feed and for diffusive oxygen uptake. In doing so, trace DNA fragments from a multitude of organisms living around them are trapped in their tissues. Here we show that the environmental DNA retrieved from archived marine sponge specimens can reconstruct the fish communities at the place of sampling and discriminate North Atlantic assemblages according to biogeographic region (from Western Greenland to Svalbard), depth habitat (80-1600m), and even the level of protection in place. Given the cost associated with ocean biodiversity surveys, we argue that targeted and opportunistic sponge samples - as well as the specimens already stored in museums and other research collections - represent an invaluable trove of biodiversity information that can significantly extend the reach of ocean monitoring.

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“…A major advantage of the lander is that it can explore fauna behavior, including the interactions between species. It is a powerful tool for the detection of rare predatory sh species (Fujiwara et al, 2022), which are di cultly found through physical sampling. The structure of the community should be visually determined to better understand vulnerable marine ecosystems.…”

Section: Observation Advantages and Limitations Of The Landermentioning

confidence: 99%

Benthic biodiversity by baited camera observations on the Cosmonaut Sea shelf of East Antarctica

Mou

Liu

et al. 2023

Preprint

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A free-fall baited camera lander was launched for the first time on the Cosmonaut Sea shelf of East Antarctica at the depth of 694 m during the 38th Chinese National Antarctic Research Expedition (CHINARE) in 2022. We identified 31 unique taxa (23 of invertebrates and 8 of fishes) belonging to 8 phyla from 2403 pictures and 40 videos. The Antarctic jonasfish (Notolepis coatsi) was the most frequently observed fish taxa. Ten species of vulnerable marine ecosystem (VME) taxa were observed, accounting for 32% of all species. The maximum number (MaxN) of Natatolana meridionalis individuals per image frame was ten, and they were attracted to the bait. The macrobenthic community type was sessile suspension feeders with associated fauna (SSFA), which was shaped by the muddy substrata with scattered rocks. Rocks served as the best habitats for sessile fauna. The study reveals the megafauna community and their habitat by image survey in the Cosmonaut Sea for the first time. It helped us obtain Antarctic biodiversity baselines and monitoring data for future’s ecosystem health assessment and better protection.

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Detection of the Largest Deep-Sea-Endemic Teleost Fish at Depths of Over 2,000 m Through a Combination of eDNA Metabarcoding and Baited Camera Observations

Cited by 13 publications

References 51 publications

Optimization of environmental DNA analysis using pumped deep-sea water for the monitoring of fish biodiversity

Optimization of environmental DNA analysis using pumped deep-sea water for the monitoring of fish biodiversity

Trapped DNA fragments in marine sponge specimens unveil north Atlantic deep-sea fish diversity

Benthic biodiversity by baited camera observations on the Cosmonaut Sea shelf of East Antarctica

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