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Intraspecific genetic variability and diurnal activity affect environmental DNA detection in Japanese eel

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Title: Intraspecific genetic variability and diurnal activity affect environmental DNA detection in Japanese eel
Authors: Takahashi, Sayaka Browse this author
Takada, Shingo Browse this author →KAKEN DB
Yamanaka, Hiroki Browse this author →KAKEN DB
Masuda, Reiji Browse this author →KAKEN DB
Kasai, Akihide Browse this author →KAKEN DB
Issue Date: 16-Sep-2021
Publisher: PLOS
Journal Title: PLoS ONE
Volume: 16
Issue: 9
Start Page: e0255576
Publisher DOI: 10.1371/journal.pone.0255576
Abstract: Environmental DNA (eDNA) analysis with species-specific primer/probe sets is promising as a tool to quantify fish abundance and distribution. Nevertheless, several factors could reduce the accuracy of this method. Here, we aimed to analyze whether intraspecific variability and diel activity rhythm affect eDNA detection in Japanese eels (Anguilla japonica). For this purpose, we performed tank experiments focusing on two points. First, we assessed the effects of base pair sequences with probe region polymorphism on eDNA detection. Next, we evaluated the influences of diel rhythm, activity, and individual differences in eDNA release rate on eDNA concentration. We examined the base pair sequences of the probe regions of 20 individuals and found genetic mismatches in two of them. The eDNA concentration was estimated to be much lower in these variants than it was in the other individuals. We conducted a rearing experiment on four non-variant individuals to explore the influences of diel activity and inter-individual differences in eDNA detection. Nocturnal eel activity was reflected in the eDNA detection but the inter-individual differences remained large. The observed weak positive correlations between eDNA concentration and activity suggest that eDNA emission is highly dependent on basal metabolism. The present study suggests that consideration of polymorphic sites at the probe region and diel activity rhythms should improve the accuracy and precision of abundance estimation through eDNA. Such fine-tuning is applicable not only for eels but also for other fishes to be targeted by eDNA technology.
Type: article
Appears in Collections:水産科学院・水産科学研究院 (Graduate School of Fisheries Sciences / Faculty of Fisheries Sciences) > 雑誌発表論文等 (Peer-reviewed Journal Articles, etc)

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