Acidity promotes degradation of multi-species environmental DNA in lotic mesocosms

Mathew Seymour, Isabelle Durance, Bernard J. Cosby, Emma Ransom-Jones, Kristy Deiner, Steve J. Ormerod, John K. Colbourne, Gregory Wilgar, Gary R. Carvalho, Mark de Bruyn, Francois Edwards, Bridget A. Emmett, Holly M. Bik, Simon Creer

Research output: Contribution to journalArticle

Abstract

Accurate quantification of biodiversity is fundamental to understanding ecosystem function and for environmental assessment. Molecular methods using environmental DNA (eDNA) offer a non-invasive, rapid, and cost-effective alternative to traditional biodiversity assessments, which require high levels of expertise. While eDNA analyses are increasingly being utilized, there remains considerable uncertainty regarding the dynamics of multispecies eDNA, especially in variable systems such as rivers. Here, we utilize four sets of upland stream mesocosms, across an acid–base gradient, to assess the temporal and environmental degradation of multispecies eDNA. Sampling included water column and biofilm sampling over time with eDNA quantified using qPCR. Our findings show that the persistence of lotic multispecies eDNA, sampled from water and biofilm, decays to non-detectable levels within 2 days and that acidic environments accelerate the degradation process. Collectively, the results provide the basis for a predictive framework for the relationship between lotic eDNA degradation dynamics in spatio-temporally dynamic river ecosystems.
LanguageEnglish
Article number4
Number of pages8
JournalCommunications Biology
Volume1
DOIs
Publication statusPublished - 22 Jan 2018
Externally publishedYes

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acidity
DNA
degradation
biofilm
biodiversity
sampling
environmental assessment
environmental degradation
ecosystem function
river
persistence
water column
ecosystem
acid
cost
water

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Seymour, Mathew ; Durance, Isabelle ; Cosby, Bernard J. ; Ransom-Jones, Emma ; Deiner, Kristy ; Ormerod, Steve J. ; Colbourne, John K. ; Wilgar, Gregory ; Carvalho, Gary R. ; de Bruyn, Mark ; Edwards, Francois ; Emmett, Bridget A. ; Bik, Holly M. ; Creer, Simon. / Acidity promotes degradation of multi-species environmental DNA in lotic mesocosms. In: Communications Biology. 2018 ; Vol. 1.
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abstract = "Accurate quantification of biodiversity is fundamental to understanding ecosystem function and for environmental assessment. Molecular methods using environmental DNA (eDNA) offer a non-invasive, rapid, and cost-effective alternative to traditional biodiversity assessments, which require high levels of expertise. While eDNA analyses are increasingly being utilized, there remains considerable uncertainty regarding the dynamics of multispecies eDNA, especially in variable systems such as rivers. Here, we utilize four sets of upland stream mesocosms, across an acid–base gradient, to assess the temporal and environmental degradation of multispecies eDNA. Sampling included water column and biofilm sampling over time with eDNA quantified using qPCR. Our findings show that the persistence of lotic multispecies eDNA, sampled from water and biofilm, decays to non-detectable levels within 2 days and that acidic environments accelerate the degradation process. Collectively, the results provide the basis for a predictive framework for the relationship between lotic eDNA degradation dynamics in spatio-temporally dynamic river ecosystems.",
author = "Mathew Seymour and Isabelle Durance and Cosby, {Bernard J.} and Emma Ransom-Jones and Kristy Deiner and Ormerod, {Steve J.} and Colbourne, {John K.} and Gregory Wilgar and Carvalho, {Gary R.} and {de Bruyn}, Mark and Francois Edwards and Emmett, {Bridget A.} and Bik, {Holly M.} and Simon Creer",
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Seymour, M, Durance, I, Cosby, BJ, Ransom-Jones, E, Deiner, K, Ormerod, SJ, Colbourne, JK, Wilgar, G, Carvalho, GR, de Bruyn, M, Edwards, F, Emmett, BA, Bik, HM & Creer, S 2018, 'Acidity promotes degradation of multi-species environmental DNA in lotic mesocosms' Communications Biology, vol. 1, 4. https://doi.org/10.1038/s42003-017-0005-3

Acidity promotes degradation of multi-species environmental DNA in lotic mesocosms. / Seymour, Mathew; Durance, Isabelle; Cosby, Bernard J.; Ransom-Jones, Emma; Deiner, Kristy ; Ormerod, Steve J.; Colbourne, John K.; Wilgar, Gregory ; Carvalho, Gary R.; de Bruyn, Mark; Edwards, Francois; Emmett, Bridget A.; Bik, Holly M.; Creer, Simon.

In: Communications Biology, Vol. 1, 4, 22.01.2018.

Research output: Contribution to journalArticle

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T1 - Acidity promotes degradation of multi-species environmental DNA in lotic mesocosms

AU - Seymour,Mathew

AU - Durance,Isabelle

AU - Cosby,Bernard J.

AU - Ransom-Jones,Emma

AU - Deiner,Kristy

AU - Ormerod,Steve J.

AU - Colbourne,John K.

AU - Wilgar,Gregory

AU - Carvalho,Gary R.

AU - de Bruyn,Mark

AU - Edwards,Francois

AU - Emmett,Bridget A.

AU - Bik,Holly M.

AU - Creer,Simon

PY - 2018/1/22

Y1 - 2018/1/22

N2 - Accurate quantification of biodiversity is fundamental to understanding ecosystem function and for environmental assessment. Molecular methods using environmental DNA (eDNA) offer a non-invasive, rapid, and cost-effective alternative to traditional biodiversity assessments, which require high levels of expertise. While eDNA analyses are increasingly being utilized, there remains considerable uncertainty regarding the dynamics of multispecies eDNA, especially in variable systems such as rivers. Here, we utilize four sets of upland stream mesocosms, across an acid–base gradient, to assess the temporal and environmental degradation of multispecies eDNA. Sampling included water column and biofilm sampling over time with eDNA quantified using qPCR. Our findings show that the persistence of lotic multispecies eDNA, sampled from water and biofilm, decays to non-detectable levels within 2 days and that acidic environments accelerate the degradation process. Collectively, the results provide the basis for a predictive framework for the relationship between lotic eDNA degradation dynamics in spatio-temporally dynamic river ecosystems.

AB - Accurate quantification of biodiversity is fundamental to understanding ecosystem function and for environmental assessment. Molecular methods using environmental DNA (eDNA) offer a non-invasive, rapid, and cost-effective alternative to traditional biodiversity assessments, which require high levels of expertise. While eDNA analyses are increasingly being utilized, there remains considerable uncertainty regarding the dynamics of multispecies eDNA, especially in variable systems such as rivers. Here, we utilize four sets of upland stream mesocosms, across an acid–base gradient, to assess the temporal and environmental degradation of multispecies eDNA. Sampling included water column and biofilm sampling over time with eDNA quantified using qPCR. Our findings show that the persistence of lotic multispecies eDNA, sampled from water and biofilm, decays to non-detectable levels within 2 days and that acidic environments accelerate the degradation process. Collectively, the results provide the basis for a predictive framework for the relationship between lotic eDNA degradation dynamics in spatio-temporally dynamic river ecosystems.

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