Comparing fish prey diversity for a critically endangered aquatic mammal in a reserve and the wild using eDNA metabarcoding

Abstract Using environmental DNA (eDNA) metabarcoding, we compared fish diversity in two distinct water bodies within the Yangtze River Basin with known populations of the critically endangered Yangtze finless porpoise (Neophocaena asiaeorientalis; YFP): the Tian-e-Zhou Reserve and Poyang Lake. We a...

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Autores principales:	Chanjuan Qu, Kathryn A. Stewart, Rute Clemente-Carvalho, Jinsong Zheng, Yuxiang Wang, Cheng Gong, Limin Ma, Jianfu Zhao, Stephen C. Lougheed
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2020
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/cd23fd4afa644b2e88eb612e2209cd05
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spelling	oai:doaj.org-article:cd23fd4afa644b2e88eb612e2209cd052021-12-02T18:36:13ZComparing fish prey diversity for a critically endangered aquatic mammal in a reserve and the wild using eDNA metabarcoding10.1038/s41598-020-73648-22045-2322https://doaj.org/article/cd23fd4afa644b2e88eb612e2209cd052020-10-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-73648-2https://doaj.org/toc/2045-2322Abstract Using environmental DNA (eDNA) metabarcoding, we compared fish diversity in two distinct water bodies within the Yangtze River Basin with known populations of the critically endangered Yangtze finless porpoise (Neophocaena asiaeorientalis; YFP): the Tian-e-Zhou Reserve and Poyang Lake. We aimed to create a fish surveying tool for use in the Yangtze River Basin, while also gaining a better understanding of the prey distribution and diversity within two of the remaining strongholds of YFP. 16S rRNA universal primers were developed to amplify fish eDNA. After high-throughput sequencing and stringent data filtering, we identified a total of 75 fish species (6 orders, 9 families, 57 genera) across seasons and regions. Nine of the 75 fish species were among the 28 known YFP prey species, three of which were detected in all water samples. Our eDNA metabarcoding identified many species that had been previously captured using traditional netting practices, but also numerous species not previously collected in these water bodies. Fish diversity was higher in Poyang Lake than in Tian-e-Zhou Reserve, as well as higher in the spring than in summer. These methods provide a broadly applicable tool to quantify fish diversity and distributions throughout the Yangtze River Basin, and to inform conservation strategies of YFP.Chanjuan QuKathryn A. StewartRute Clemente-CarvalhoJinsong ZhengYuxiang WangCheng GongLimin MaJianfu ZhaoStephen C. LougheedNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 10, Iss 1, Pp 1-16 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Chanjuan Qu Kathryn A. Stewart Rute Clemente-Carvalho Jinsong Zheng Yuxiang Wang Cheng Gong Limin Ma Jianfu Zhao Stephen C. Lougheed Comparing fish prey diversity for a critically endangered aquatic mammal in a reserve and the wild using eDNA metabarcoding
description	Abstract Using environmental DNA (eDNA) metabarcoding, we compared fish diversity in two distinct water bodies within the Yangtze River Basin with known populations of the critically endangered Yangtze finless porpoise (Neophocaena asiaeorientalis; YFP): the Tian-e-Zhou Reserve and Poyang Lake. We aimed to create a fish surveying tool for use in the Yangtze River Basin, while also gaining a better understanding of the prey distribution and diversity within two of the remaining strongholds of YFP. 16S rRNA universal primers were developed to amplify fish eDNA. After high-throughput sequencing and stringent data filtering, we identified a total of 75 fish species (6 orders, 9 families, 57 genera) across seasons and regions. Nine of the 75 fish species were among the 28 known YFP prey species, three of which were detected in all water samples. Our eDNA metabarcoding identified many species that had been previously captured using traditional netting practices, but also numerous species not previously collected in these water bodies. Fish diversity was higher in Poyang Lake than in Tian-e-Zhou Reserve, as well as higher in the spring than in summer. These methods provide a broadly applicable tool to quantify fish diversity and distributions throughout the Yangtze River Basin, and to inform conservation strategies of YFP.
format	article
author	Chanjuan Qu Kathryn A. Stewart Rute Clemente-Carvalho Jinsong Zheng Yuxiang Wang Cheng Gong Limin Ma Jianfu Zhao Stephen C. Lougheed
author_facet	Chanjuan Qu Kathryn A. Stewart Rute Clemente-Carvalho Jinsong Zheng Yuxiang Wang Cheng Gong Limin Ma Jianfu Zhao Stephen C. Lougheed
author_sort	Chanjuan Qu
title	Comparing fish prey diversity for a critically endangered aquatic mammal in a reserve and the wild using eDNA metabarcoding
title_short	Comparing fish prey diversity for a critically endangered aquatic mammal in a reserve and the wild using eDNA metabarcoding
title_full	Comparing fish prey diversity for a critically endangered aquatic mammal in a reserve and the wild using eDNA metabarcoding
title_fullStr	Comparing fish prey diversity for a critically endangered aquatic mammal in a reserve and the wild using eDNA metabarcoding
title_full_unstemmed	Comparing fish prey diversity for a critically endangered aquatic mammal in a reserve and the wild using eDNA metabarcoding
title_sort	comparing fish prey diversity for a critically endangered aquatic mammal in a reserve and the wild using edna metabarcoding
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/cd23fd4afa644b2e88eb612e2209cd05
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Comparing fish prey diversity for a critically endangered aquatic mammal in a reserve and the wild using eDNA metabarcoding

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