Environmental DNA metabarcoding of benthic bacterial communities indicates the benthic footprint of salmon aquaculture

Marine Pollution Bulletin
Thorsten StoeckJan Pawlowski

Abstract

We evaluated benthic bacterial communities as bioindicators in environmental impact assessments of salmon aquaculture, a rapidly growing sector of seafood industry. Sediment samples (n=72) were collected from below salmon cages towards distant reference sites. Bacterial community profiles inferred from DNA metabarcodes were compared to reference data from standard macrofauna biomonitoring surveys of the same samples. Deltaproteobacteria were predominant in immediate vicinity of the salmon cages. Along the transect, significant shifts in bacterial community structures were observed with Gammaproteobacteria dominating the less-impacted sites. Alpha- and beta-diversity measures of bacterial communities correlated significantly with macrofauna diversity metrics and with five ecological status indices. Benthic bacterial communities mirror the reaction of macrofauna bioindicators to environmental disturbances caused by salmon farming. The implementation of bacterial eDNA metabarcoding in future Strategic Framework Directives is an alternative cost-effective high-throughput biomonitoring solution, providing a basis for management strategies in a matter of days rather than months.

References

Jan 1, 1987·Applied and Environmental Microbiology·J H PaulM F DeFlaun
Sep 1, 1997·Nucleic Acids Research·S F AltschulD J Lipman
Jun 11, 1998·Microbial Ecology·R H Findlay, L Watling
Sep 1, 1986·Applied and Environmental Microbiology·J A Novitsky
Jan 20, 2006·FEMS Microbiology Ecology·Andrew BissettChris Burke
Jan 18, 2007·Environmental Microbiology·Andrew BissettJohn P Bowman
Apr 13, 2010·Nature Methods·J Gregory CaporasoRob Knight
Aug 27, 2010·FEMS Microbiology Reviews·Balbina NogalesRafael Bosch
Nov 3, 2010·FEMS Microbiology Reviews·Dan KnightsRob Knight
Apr 8, 2011·The ISME Journal·Daniel Pr HerlemannAnders F Andersson
Apr 11, 2012·Molecular Ecology·Pierre TaberletEske Willerslev
Dec 4, 2012·Nature Methods·Nicholas A BokulichJ Gregory Caporaso
Jan 18, 2013·Proceedings of the National Academy of Sciences of the United States of America·Woo Jun SulMitchell L Sogin
Apr 25, 2015·Environmental Pollution·Anthony A CharitonChristopher M Hardy
May 8, 2015·Nature Reviews. Genetics·Maxwell W Libbrecht, William Stafford Noble
Oct 20, 2015·Molecular Ecology·Alice ValentiniTony Dejean
Dec 30, 2015·PeerJ·Frédéric MahéMicah Dunthorn
Oct 28, 2016·Marine Pollution Bulletin·Eva AylagasNaiara Rodríguez-Ezpeleta
Nov 1, 2016·Applied and Environmental Microbiology·Syrie M HermansGavin Lear
Nov 9, 2016·MSystems·Robert A QuinnRob Knight
Mar 16, 2017·Molecular Ecology Resources·Laure Apothéloz-Perret-GentilJan Pawlowski

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Citations

Sep 17, 2019·Water Environment Research : a Research Publication of the Water Environment Federation·Paula C FureySylvia Lee
Jan 21, 2019·Environment International·William A Gerhard, Claudia K Gunsch
Nov 2, 2019·The Science of the Total Environment·Nigel KeeleyRaymond Bannister

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