IHB OpenIR  > 水生生物多样性与资源保护研究中心  > 期刊论文
Characterization, optimization, and validation of environmental DNA (eDNA) markers to detect an endangered aquatic mammal
Ma, Hongjuan1; Stewart, Kathryn1; Lougheed, Stephen2; Zheng, Jinsong3; Wang, Yuxiang2; Zhao, Jianfu1
2016-12-01
Source PublicationCONSERVATION GENETICS RESOURCES
ISSN1877-7252
Volume8Issue:4Pages:561-568
Abstract

Environmental DNA (eDNA) represents a sensitive and efficient method for noninvasively sampling rare or otherwise hard to monitor taxa, potentially making it a powerful tool for conservation management. Still, this novel method can be affected by sampling protocols, abiotic characteristics of the microhabitat, the focal taxa itself, and primer design. Here we designed 12 species-specific primers for the critically endangered Yangtze finless porpoise (Neophocaena asiaeorientalis asiaeorientalis) inhabiting the middle to lower Yangtze River in China to enable complementary population survey tools for conservation efforts. Representing primer pairs that amplify a range of DNA fragment sizes, we test these primers for sensitivity at amplifying finless porpoise DNA using conventional PCR from serial diluted blood samples, and from eDNA in aquaria and in the wild, including a nature reserve and a negative control site. We further investigated the capacity for these primers to detect finless porpoise DNA signals from water samples over a 30-day period. Our study presents which primers were successful at amplifying finless porpoise DNA from aquaria and in the wild, and further demonstrates no significant amplicon size effects on primer sensitivity or longevity. We summarize the impact primer design may have on eDNA applications in general and suggest future considerations for conservation efforts with the Yangtze finless porpoise.

KeywordEnvironmental DNA eDNA Primers Detection sensitivity Detection longevity Amplicon length Conservation management Yangtze finless porpoise Neophocaena asiaeorientalis asiaeorientalis
DOI10.1007/s12686-016-0597-9
Funding OrganizationNational Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse
Indexed BySCI
Language英语
Funding ProjectNational Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse
WOS Research AreaBiodiversity & Conservation ; Genetics & Heredity
WOS SubjectBiodiversity Conservation ; Genetics & Heredity
WOS IDWOS:000387482700037
WOS KeywordYANGTZE FINLESS PORPOISE ; CONSERVATION ; PERSISTENCE ; TOOL ; PCR
PublisherSPRINGER
Funding OrganizationNational Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; National Natural Sciences Foundation of China (NSFC) ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse ; Tongji University State Key Laboratory for Pollution Control and Resource Reuse
Citation statistics
Cited Times:9[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/34099
Collection水生生物多样性与资源保护研究中心_期刊论文
Corresponding AuthorStewart, Kathryn
Affiliation1.Tongji Univ, Coll Environm Sci & Engn, Shanghai, Peoples R China
2.Queens Univ, Dept Biol, Kingston, ON, Canada
3.Chinese Acad Sci, Key Lab Aquat Biodivers & Conservat, Inst Hydrobiol, Wuhan, Peoples R China
Recommended Citation
GB/T 7714
Ma, Hongjuan,Stewart, Kathryn,Lougheed, Stephen,et al. Characterization, optimization, and validation of environmental DNA (eDNA) markers to detect an endangered aquatic mammal[J]. CONSERVATION GENETICS RESOURCES,2016,8(4):561-568.
APA Ma, Hongjuan,Stewart, Kathryn,Lougheed, Stephen,Zheng, Jinsong,Wang, Yuxiang,&Zhao, Jianfu.(2016).Characterization, optimization, and validation of environmental DNA (eDNA) markers to detect an endangered aquatic mammal.CONSERVATION GENETICS RESOURCES,8(4),561-568.
MLA Ma, Hongjuan,et al."Characterization, optimization, and validation of environmental DNA (eDNA) markers to detect an endangered aquatic mammal".CONSERVATION GENETICS RESOURCES 8.4(2016):561-568.
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