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A manager's guide to using eDNA metabarcoding in marine ecosystems.

التفاصيل البيبلوغرافية
العنوان: A manager's guide to using eDNA metabarcoding in marine ecosystems.
المؤلفون: Gold Z; Department of Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA, United States of America., Wall AR; Diversity Initiative for the Southern California Ocean (DISCO), Natural History Museum of Los Angeles County, Los Angeles, CA, United States of America., Schweizer TM; Department of Fish and Wildlife Conservation Biology, Colorado State University, Fort Collins, CO, United States of America., Pentcheff ND; Diversity Initiative for the Southern California Ocean (DISCO), Natural History Museum of Los Angeles County, Los Angeles, CA, United States of America., Curd EE; Department of Natural Sciences, Landmark College, Putney, VT, United States of America., Barber PH; Department of Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA, United States of America., Meyer RS; Department of Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA, United States of America.; Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, Santa Cruz, CA, United States of America., Wayne R; Department of Ecology and Evolutionary Biology, University of California, Los Angeles, Los Angeles, CA, United States of America., Stolzenbach K; Wood Environment and Infrastructure, Inc., San Diego, CA, United States of America., Prickett K; Port of Los Angeles, Los Angeles, CA, United States of America., Luedy J; Port of Long Beach, Long Beach, CA, United States of America., Wetzer R; Diversity Initiative for the Southern California Ocean (DISCO), Natural History Museum of Los Angeles County, Los Angeles, CA, United States of America.
المصدر: PeerJ [PeerJ] 2022 Nov 15; Vol. 10, pp. e14071. Date of Electronic Publication: 2022 Nov 15 (Print Publication: 2022).
نوع المنشور: Journal Article; Research Support, U.S. Gov't, Non-P.H.S.; Research Support, Non-U.S. Gov't
اللغة: English
بيانات الدورية: Publisher: PeerJ Inc Country of Publication: United States NLM ID: 101603425 Publication Model: eCollection Cited Medium: Print ISSN: 2167-8359 (Print) Linking ISSN: 21678359 NLM ISO Abbreviation: PeerJ
أسماء مطبوعة: Original Publication: Corte Madera, CA : PeerJ Inc.
مواضيع طبية MeSH: Ecosystem* , DNA, Environmental*/genetics, DNA Barcoding, Taxonomic/methods ; Environmental Monitoring/methods ; Biodiversity
مستخلص: Environmental DNA (eDNA) metabarcoding is a powerful tool that can enhance marine ecosystem/biodiversity monitoring programs. Here we outline five important steps managers and researchers should consider when developing eDNA monitoring program: (1) select genes and primers to target taxa; (2) assemble or develop comprehensive barcode reference databases; (3) apply rigorous site occupancy based decontamination pipelines; (4) conduct pilot studies to define spatial and temporal variance of eDNA; and (5) archive samples, extracts, and raw sequence data. We demonstrate the importance of each of these considerations using a case study of eDNA metabarcoding in the Ports of Los Angeles and Long Beach. eDNA metabarcoding approaches detected 94.1% (16/17) of species observed in paired trawl surveys while identifying an additional 55 native fishes, providing more comprehensive biodiversity inventories. Rigorous benchmarking of eDNA metabarcoding results improved ecological interpretation and confidence in species detections while providing archived genetic resources for future analyses. Well designed and validated eDNA metabarcoding approaches are ideally suited for biomonitoring applications that rely on the detection of species, including mapping invasive species fronts and endangered species habitats as well as tracking range shifts in response to climate change. Incorporating these considerations will enhance the utility and efficacy of eDNA metabarcoding for routine biomonitoring applications.
Competing Interests: Kat Prickett is an employee of the Port of Los Angeles. Justin Luedy is an employee of the Port of Long Beach. Kevin Stolzenbach is an employee of Wood Environment and Infrastructure, Inc. All other authors have no competing interests to report.
(©2022 Gold et al.)
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معلومات مُعتمدة: GT10483 United States HHMI Howard Hughes Medical Institute
فهرسة مساهمة: Keywords: Assessment; Biodiversity; Biomonitoring; Management; Marine; Metabarcoding; Primer set; Protocol; Site occupancy; eDNA
المشرفين على المادة: 0 (DNA, Environmental)
تواريخ الأحداث: Date Created: 20221121 Date Completed: 20230119 Latest Revision: 20230119
رمز التحديث: 20231215
مُعرف محوري في PubMed: PMC9673773
DOI: 10.7717/peerj.14071
PMID: 36405018
قاعدة البيانات: MEDLINE
الوصف
تدمد:2167-8359
DOI:10.7717/peerj.14071