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Effective environmental DNA collection for an endangered catfish species: testing for habitat and daily periodicity

The accuracy of environmental DNA (eDNA) methods developed as innovative biological monitoring technologies can be improved by considering the ecological characteristics of a target species. In this study, we performed an aquarium experiment and field surveys to establish an effective eDNA method fo...

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Published in:Ichthyological research 2023-11, Vol.70 (4), p.409-418
Main Authors: Takahara, Teruhiko, Doi, Hideyuki, Kosuge, Toshihiro, Nomura, Nanae, Maki, Nobutaka, Minamoto, Toshifumi, Watanabe, Katsutoshi
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container_issue 4
container_start_page 409
container_title Ichthyological research
container_volume 70
creator Takahara, Teruhiko
Doi, Hideyuki
Kosuge, Toshihiro
Nomura, Nanae
Maki, Nobutaka
Minamoto, Toshifumi
Watanabe, Katsutoshi
description The accuracy of environmental DNA (eDNA) methods developed as innovative biological monitoring technologies can be improved by considering the ecological characteristics of a target species. In this study, we performed an aquarium experiment and field surveys to establish an effective eDNA method for an endangered Japanese bagrid catfish ( Pseudobagrus ichikawai ) with nocturnal habits. First, we developed a species-specific eDNA method using quantitative real-time polymerase chain reaction (qPCR) for P. ichikawai . In the aquarium experiment, we demonstrated that the addition of benzalkonium chloride (BAC), a reagent that inhibits eDNA degradation, was effective for water sample storage. In the field, eDNA has consistently been detected at sites where P. ichikawai has been confirmed. There was no difference in eDNA concentration between the water samples taken at different sampling times or between those taken from pools and riffles in the rivers. This result provides evidence that researchers can collect water samples during the daytime, which would reduce the risk of water accidents (e.g., drowning or submerged in darkness) associated with field eDNA surveys of nocturnal species, such as P. ichikawai . Furthermore, we propose that researchers perform on-site surveys for collecting water samples without considering the microhabitat preferences of the target species (e.g., riffle/pool). We recommend that water samples be treated with BAC immediately after collection in the field and then stored in low-temperature conditions. The cooling procedure with BAC outlined here can be advantageous in collecting samples from many sites in a short time, because it only requires the collection of water in the field.
doi_str_mv 10.1007/s10228-022-00900-2
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ispartof Ichthyological research, 2023-11, Vol.70 (4), p.409-418
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subjects Animal Systematics/Taxonomy/Biogeography
Aquaria
Aquarium fishes
Aquariums
Benzalkonium chloride
Biomedical and Life Sciences
Biomonitoring
Drowning
Ecological distribution
Ecology
Endangered species
Environmental DNA
Freshwater & Marine Ecology
Life Sciences
Low temperature
Microenvironments
Microhabitat
Microhabitats
Nocturnal
Nucleotide sequence
PCR
Periodicity
Pseudobagrus ichikawai
Rare species
Riffles
Risk reduction
Rivers
Sample storage
Site surveys
Surveys
Water analysis
Water sampling
Zoology
title Effective environmental DNA collection for an endangered catfish species: testing for habitat and daily periodicity
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