FN Archimer Export Format
PT J
TI GAPeDNA: Assessing and mapping global species gaps in genetic databases for eDNA metabarcoding
BT 
AF Marques, Virginie
   Milhau, Tristan
   Albouy, Camille
   Dejean, Tony
   Manel, Stéphanie
   Mouillot, David
   Juhel, Jean‐Baptiste
   Dutta, Trishna
AS 1:1,2;2:3;3:4;4:3;5:2;6:1,5;7:1;8:;
FF 1:;2:;3:PDG-RBE-EMH;4:;5:;6:;7:;8:;
C1 MARBEC, Univ Montpellier CNRS Ifremer IRD Montpellier, France
   CEFE ,EPHE CNRS UM UPV IRD PSL Research University Montpellier ,France
   SPYGEN ,Le Bourget‐du‐Lac ,France
   IFREMER, Unité Ecologie et Modèles pour l’Halieutique Nantes cedex 3 Nantes, France
   Australian Research Council Centre of Excellence for Coral Reef Studies James Cook University Townsville Qld, Australia
C2 UNIV MONTPELLIER, FRANCE
   UNIV MONTPELLIER, FRANCE
   SPYGEN, FRANCE
   IFREMER, FRANCE
   UNIV JAMES COOK, AUSTRALIA
SI NANTES
SE PDG-RBE-EMH
UM MARBEC
IN WOS Ifremer UPR
   WOS Cotutelle UMR
   DOAJ
   copubli-france
   copubli-univ-france
   copubli-int-hors-europe
IF 5.717
TC 36
UR https://archimer.ifremer.fr/doc/00688/79976/82921.pdf
   https://archimer.ifremer.fr/doc/00688/79976/82922.docx
LA English
DT Article
DE ;environmental DNA;genetic markers;IUCN;marine and freshwater fish;non-indigenous species;reference database;shiny;threatened species
AB Aim Environmental DNA metabarcoding has recently emerged as a non‐invasive tool for aquatic biodiversity inventories, frequently surpassing traditional methods for detecting a wide range of taxa in most habitats. The major limitation currently impairing the large‐scale application of eDNA‐based inventories is the lack of species sequences available in public genetic databases. Unfortunately, these gaps are still unknown spatially and taxonomically, hindering targeted future sequencing efforts. Innovation We propose GAPeDNA, a user‐friendly web interface that provides a global overview of genetic database completeness for a given taxon across space and conservation status. As an application, we synthetized data from regional checklists for marine and freshwater fishes along with their IUCN conservation status to provide global maps of species coverage using the European Nucleotide Archive public reference database for 19 metabarcoding primers. This tool automatizes the scanning of gaps in these databases to guide future sequencing efforts and support the deployment of eDNA inventories at larger scale. This tool is flexible and can be expanded to other taxa and primers upon data availability. Main conclusions Using our global fish case study, we show that gaps increase towards the tropics where species diversity and the number of threatened species are the highest. It highlights priority areas for fish sequencing like the Congo, the Mekong and the Mississippi freshwater basins which host more than 60 non‐sequenced threatened fish species. For marine fishes, the Caribbean and East Africa host up to 42 non‐sequenced threatened species. By presenting the global genetic database completeness for several primers on any taxa and building an open‐access, updatable and flexible tool, GAPeDNA appears as a valuable contribution to support any kind of eDNA metabarcoding study. 
PY 2021
PD OCT
SO Diversity And Distributions
SN 1366-9516
PU Wiley
VL 27
IS 10
UT 000629615300001
BP 1880
EP 1892
DI 10.1111/ddi.13142
ID 79976
ER

EF