Quantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey

Abstract Since the early 1970s, many artificial reefs (ARs) have been deployed in Japanese coastal waters to create fisheries grounds. Recently, researchers began to use environmental DNA (eDNA) methods for biodiversity monitoring of aquatic species. A metabarcoding approach using internal standard...

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Autores principales:	Masaaki Sato, Nariaki Inoue, Ryogen Nambu, Naoki Furuichi, Tomohito Imaizumi, Masayuki Ushio
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/239d4af83f7742d782e3f65c2dce8083
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spelling	oai:doaj.org-article:239d4af83f7742d782e3f65c2dce80832021-12-02T19:17:05ZQuantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey10.1038/s41598-021-98926-52045-2322https://doaj.org/article/239d4af83f7742d782e3f65c2dce80832021-09-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-98926-5https://doaj.org/toc/2045-2322Abstract Since the early 1970s, many artificial reefs (ARs) have been deployed in Japanese coastal waters to create fisheries grounds. Recently, researchers began to use environmental DNA (eDNA) methods for biodiversity monitoring of aquatic species. A metabarcoding approach using internal standard DNAs [i.e., quantitative MiSeq sequencing (qMiSeq)] makes it possible to monitor eDNA concentrations of multiple species simultaneously. This method can improve the efficiency of monitoring AR effects on fishes. Our study investigated distributions of marine fishes at ARs and surrounding stations in the open oceanographic environment of Tateyama Bay, central Japan, using qMiSeq and echo sounder survey. Using the qMiSeq with 12S primers, we found higher quantities of fish eDNAs at the ARs than at surrounding stations and different fish species compositions between them. Comparisons with echo sounder survey also showed positive correlations between fish eDNA concentration and echo intensity, which indicated a highly localized signal of eDNA at each sampling station. These results suggest that qMiSeq is a promising technique to complement conventional methods to monitor distributions of multiple fish species.Masaaki SatoNariaki InoueRyogen NambuNaoki FuruichiTomohito ImaizumiMasayuki UshioNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-14 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Masaaki Sato Nariaki Inoue Ryogen Nambu Naoki Furuichi Tomohito Imaizumi Masayuki Ushio Quantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey
description	Abstract Since the early 1970s, many artificial reefs (ARs) have been deployed in Japanese coastal waters to create fisheries grounds. Recently, researchers began to use environmental DNA (eDNA) methods for biodiversity monitoring of aquatic species. A metabarcoding approach using internal standard DNAs [i.e., quantitative MiSeq sequencing (qMiSeq)] makes it possible to monitor eDNA concentrations of multiple species simultaneously. This method can improve the efficiency of monitoring AR effects on fishes. Our study investigated distributions of marine fishes at ARs and surrounding stations in the open oceanographic environment of Tateyama Bay, central Japan, using qMiSeq and echo sounder survey. Using the qMiSeq with 12S primers, we found higher quantities of fish eDNAs at the ARs than at surrounding stations and different fish species compositions between them. Comparisons with echo sounder survey also showed positive correlations between fish eDNA concentration and echo intensity, which indicated a highly localized signal of eDNA at each sampling station. These results suggest that qMiSeq is a promising technique to complement conventional methods to monitor distributions of multiple fish species.
format	article
author	Masaaki Sato Nariaki Inoue Ryogen Nambu Naoki Furuichi Tomohito Imaizumi Masayuki Ushio
author_facet	Masaaki Sato Nariaki Inoue Ryogen Nambu Naoki Furuichi Tomohito Imaizumi Masayuki Ushio
author_sort	Masaaki Sato
title	Quantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey
title_short	Quantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey
title_full	Quantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey
title_fullStr	Quantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey
title_full_unstemmed	Quantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey
title_sort	quantitative assessment of multiple fish species around artificial reefs combining environmental dna metabarcoding and acoustic survey
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/239d4af83f7742d782e3f65c2dce8083
work_keys_str_mv	AT masaakisato quantitativeassessmentofmultiplefishspeciesaroundartificialreefscombiningenvironmentaldnametabarcodingandacousticsurvey AT nariakiinoue quantitativeassessmentofmultiplefishspeciesaroundartificialreefscombiningenvironmentaldnametabarcodingandacousticsurvey AT ryogennambu quantitativeassessmentofmultiplefishspeciesaroundartificialreefscombiningenvironmentaldnametabarcodingandacousticsurvey AT naokifuruichi quantitativeassessmentofmultiplefishspeciesaroundartificialreefscombiningenvironmentaldnametabarcodingandacousticsurvey AT tomohitoimaizumi quantitativeassessmentofmultiplefishspeciesaroundartificialreefscombiningenvironmentaldnametabarcodingandacousticsurvey AT masayukiushio quantitativeassessmentofmultiplefishspeciesaroundartificialreefscombiningenvironmentaldnametabarcodingandacousticsurvey
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Quantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey

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