Key Questions for Next-Generation Biomonitoring

Andreas Makiola; Zacchaeus G. Compson; Donald J. Baird; Matthew A. Barnes; Sam P. Boerlijst; Agnès Bouchez; Georgina Brennan; Alex Bush; Elsa Canard; Tristan Cordier; Simon Creer; R. Allen Curry; Patrice David; Alex J. Dumbrell; Dominique Gravel; Mehrdad Hajibabaei; Brian Hayden; Berry van der Hoorn; Philippe Jarne; J. Iwan Jones; Battle Karimi; Francois Keck; Martyn Kelly; Ineke E. Knot; Louie Krol; Francois Massol; Wendy A. Monk; John Murphy; Jan Pawlowski; Timothée Poisot; Teresita M. Porter; Kate C. Randall; Emma Ransome; Virginie Ravigné; Alan Raybould; Stephane Robin; Maarten Schrama; Bertrand Schatz; Alireza Tamaddoni-Nezhad; Krijn B. Trimbos; Corinne Vacher; Valentin Vasselon; Susie Wood; Guy Woodward; David A. Bohan

doi:10.3389/fenvs.2019.00197

Key Questions for Next-Generation Biomonitoring

Andreas Makiola, Zacchaeus G. Compson, Donald J. Baird, Matthew A. Barnes, Sam P. Boerlijst, Agnès Bouchez, Georgina Brennan, Alex Bush, Elsa Canard, Tristan Cordier, Simon Creer, R. Allen Curry, Patrice David, Alex J. Dumbrell, Dominique Gravel, Mehrdad Hajibabaei, Brian Hayden, Berry van der Hoorn, Philippe Jarne, J. Iwan JonesBattle Karimi, Francois Keck, Martyn Kelly, Ineke E. Knot, Louie Krol, Francois Massol, Wendy A. Monk, John Murphy, Jan Pawlowski, Timothée Poisot, Teresita M. Porter, Kate C. Randall, Emma Ransome, Virginie Ravigné, Alan Raybould, Stephane Robin, Maarten Schrama, Bertrand Schatz, Alireza Tamaddoni-Nezhad, Krijn B. Trimbos, Corinne Vacher, Valentin Vasselon, Susie Wood, Guy Woodward, David A. Bohan^*

^*Corresponding author for this work

Research output: Contribution to journal › Review article › peer-review

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Abstract

Classical biomonitoring techniques have focused primarily on measures linked to various biodiversity metrics and indicator species. Next-generation biomonitoring (NGB) describes a suite of tools and approaches that allow the examination of a broader spectrum of organizational levels—from genes to entire ecosystems. Here, we frame 10 key questions that we envisage will drive the field of NGB over the next decade. While not exhaustive, this list covers most of the key challenges facing NGB, and provides the basis of the next steps for research and implementation in this field. These questions have been grouped into current- and outlook-related categories, corresponding to the organization of this paper.

Original language	English
Article number	197
Number of pages	14
Journal	Frontiers in Environmental Science
Volume	7
DOIs	https://doi.org/10.3389/fenvs.2019.00197
Publication status	Published - 9 Jan 2020
Externally published	Yes

Keywords

artificial intelligence
biodiversity assessment
ecological networks
eDNA
metabarcoding

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10.3389/fenvs.2019.00197

fenvs-07-00197Final published version, 1.06 MBLicence: CC BY

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Makiola, A., Compson, Z. G., Baird, D. J., Barnes, M. A., Boerlijst, S. P., Bouchez, A., Brennan, G., Bush, A., Canard, E., Cordier, T., Creer, S., Curry, R. A., David, P., Dumbrell, A. J., Gravel, D., Hajibabaei, M., Hayden, B., van der Hoorn, B., Jarne, P., ... Bohan, D. A. (2020). Key Questions for Next-Generation Biomonitoring. Frontiers in Environmental Science, 7, Article 197. https://doi.org/10.3389/fenvs.2019.00197

@article{26c3c0cf3bcc4bdba16a667fdde9d620,

title = "Key Questions for Next-Generation Biomonitoring",

abstract = "Classical biomonitoring techniques have focused primarily on measures linked to various biodiversity metrics and indicator species. Next-generation biomonitoring (NGB) describes a suite of tools and approaches that allow the examination of a broader spectrum of organizational levels—from genes to entire ecosystems. Here, we frame 10 key questions that we envisage will drive the field of NGB over the next decade. While not exhaustive, this list covers most of the key challenges facing NGB, and provides the basis of the next steps for research and implementation in this field. These questions have been grouped into current- and outlook-related categories, corresponding to the organization of this paper.",

keywords = "artificial intelligence, biodiversity assessment, ecological networks, eDNA, metabarcoding",

author = "Andreas Makiola and Compson, {Zacchaeus G.} and Baird, {Donald J.} and Barnes, {Matthew A.} and Boerlijst, {Sam P.} and Agn{\`e}s Bouchez and Georgina Brennan and Alex Bush and Elsa Canard and Tristan Cordier and Simon Creer and Curry, {R. Allen} and Patrice David and Dumbrell, {Alex J.} and Dominique Gravel and Mehrdad Hajibabaei and Brian Hayden and {van der Hoorn}, Berry and Philippe Jarne and Jones, {J. Iwan} and Battle Karimi and Francois Keck and Martyn Kelly and Knot, {Ineke E.} and Louie Krol and Francois Massol and Monk, {Wendy A.} and John Murphy and Jan Pawlowski and Timoth{\'e}e Poisot and Porter, {Teresita M.} and Randall, {Kate C.} and Emma Ransome and Virginie Ravign{\'e} and Alan Raybould and Stephane Robin and Maarten Schrama and Bertrand Schatz and Alireza Tamaddoni-Nezhad and Trimbos, {Krijn B.} and Corinne Vacher and Valentin Vasselon and Susie Wood and Guy Woodward and Bohan, {David A.}",

note = "Funding information: ABo and JP would like to acknowledge funding from the FEDER and Swiss Confederation through the SYNAQUA project. ABo, FK, VV, MK, JP, and TC would like to acknowledge fruitful discussions in the framework of the COST action DNAqua-Net (CA15219). AD, KR, AT-N, and GW would like to acknowledge funding support from the UK Natural Environment Research Council (NERC-NE/M02086X/1 and NE/M020843/1). DAB, AM, EC, PD, FM, SR, VR, and CV would like to acknowledge the financial support of the French Agence Nationale de la Recherche project NGB (ANR-17-CE32-011). DAB, AM, SR, and CV would like to acknowledge the support of the Consortium Biocontrole, which provides funding for the BCMicrobiome project. TMP would like to acknowledge funding from the Canadian government through the Genomics Research and Development Initiative, Ecobiomics project.",

year = "2020",

month = jan,

day = "9",

doi = "10.3389/fenvs.2019.00197",

language = "English",

volume = "7",

journal = "Frontiers in Environmental Science",

issn = "5733-0338",

publisher = "Frontiers",

}

Makiola, A, Compson, ZG, Baird, DJ, Barnes, MA, Boerlijst, SP, Bouchez, A, Brennan, G, Bush, A, Canard, E, Cordier, T, Creer, S, Curry, RA, David, P, Dumbrell, AJ, Gravel, D, Hajibabaei, M, Hayden, B, van der Hoorn, B, Jarne, P, Jones, JI, Karimi, B, Keck, F, Kelly, M, Knot, IE, Krol, L, Massol, F, Monk, WA, Murphy, J, Pawlowski, J, Poisot, T, Porter, TM, Randall, KC, Ransome, E, Ravigné, V, Raybould, A, Robin, S, Schrama, M, Schatz, B, Tamaddoni-Nezhad, A, Trimbos, KB, Vacher, C, Vasselon, V, Wood, S, Woodward, G & Bohan, DA 2020, 'Key Questions for Next-Generation Biomonitoring', Frontiers in Environmental Science, vol. 7, 197. https://doi.org/10.3389/fenvs.2019.00197

TY - JOUR

T1 - Key Questions for Next-Generation Biomonitoring

AU - Makiola, Andreas

AU - Compson, Zacchaeus G.

AU - Baird, Donald J.

AU - Barnes, Matthew A.

AU - Boerlijst, Sam P.

AU - Bouchez, Agnès

AU - Brennan, Georgina

AU - Bush, Alex

AU - Canard, Elsa

AU - Cordier, Tristan

AU - Creer, Simon

AU - Curry, R. Allen

AU - David, Patrice

AU - Dumbrell, Alex J.

AU - Gravel, Dominique

AU - Hajibabaei, Mehrdad

AU - Hayden, Brian

AU - van der Hoorn, Berry

AU - Jarne, Philippe

AU - Jones, J. Iwan

AU - Karimi, Battle

AU - Keck, Francois

AU - Kelly, Martyn

AU - Knot, Ineke E.

AU - Krol, Louie

AU - Massol, Francois

AU - Monk, Wendy A.

AU - Murphy, John

AU - Pawlowski, Jan

AU - Poisot, Timothée

AU - Porter, Teresita M.

AU - Randall, Kate C.

AU - Ransome, Emma

AU - Ravigné, Virginie

AU - Raybould, Alan

AU - Robin, Stephane

AU - Schrama, Maarten

AU - Schatz, Bertrand

AU - Tamaddoni-Nezhad, Alireza

AU - Trimbos, Krijn B.

AU - Vacher, Corinne

AU - Vasselon, Valentin

AU - Wood, Susie

AU - Woodward, Guy

AU - Bohan, David A.

N1 - Funding information: ABo and JP would like to acknowledge funding from the FEDER and Swiss Confederation through the SYNAQUA project. ABo, FK, VV, MK, JP, and TC would like to acknowledge fruitful discussions in the framework of the COST action DNAqua-Net (CA15219). AD, KR, AT-N, and GW would like to acknowledge funding support from the UK Natural Environment Research Council (NERC-NE/M02086X/1 and NE/M020843/1). DAB, AM, EC, PD, FM, SR, VR, and CV would like to acknowledge the financial support of the French Agence Nationale de la Recherche project NGB (ANR-17-CE32-011). DAB, AM, SR, and CV would like to acknowledge the support of the Consortium Biocontrole, which provides funding for the BCMicrobiome project. TMP would like to acknowledge funding from the Canadian government through the Genomics Research and Development Initiative, Ecobiomics project.

PY - 2020/1/9

Y1 - 2020/1/9

N2 - Classical biomonitoring techniques have focused primarily on measures linked to various biodiversity metrics and indicator species. Next-generation biomonitoring (NGB) describes a suite of tools and approaches that allow the examination of a broader spectrum of organizational levels—from genes to entire ecosystems. Here, we frame 10 key questions that we envisage will drive the field of NGB over the next decade. While not exhaustive, this list covers most of the key challenges facing NGB, and provides the basis of the next steps for research and implementation in this field. These questions have been grouped into current- and outlook-related categories, corresponding to the organization of this paper.

AB - Classical biomonitoring techniques have focused primarily on measures linked to various biodiversity metrics and indicator species. Next-generation biomonitoring (NGB) describes a suite of tools and approaches that allow the examination of a broader spectrum of organizational levels—from genes to entire ecosystems. Here, we frame 10 key questions that we envisage will drive the field of NGB over the next decade. While not exhaustive, this list covers most of the key challenges facing NGB, and provides the basis of the next steps for research and implementation in this field. These questions have been grouped into current- and outlook-related categories, corresponding to the organization of this paper.

KW - artificial intelligence

KW - biodiversity assessment

KW - ecological networks

KW - eDNA

KW - metabarcoding

UR - http://www.scopus.com/inward/record.url?scp=85078248080&partnerID=8YFLogxK

U2 - 10.3389/fenvs.2019.00197

DO - 10.3389/fenvs.2019.00197

M3 - Review article

AN - SCOPUS:85078248080

SN - 5733-0338

VL - 7

JO - Frontiers in Environmental Science

JF - Frontiers in Environmental Science

M1 - 197

ER -

Key Questions for Next-Generation Biomonitoring

Abstract

Keywords

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