A methodological framework to embrace soil biodiversity

Stefan Geisen*, Maria J.I. Briones, Huijie Gan, Valerie M. Behan-Pelletier, Ville Petri Friman, G.A. de Groot, S.E. Hannula, Zoë Lindo, Laurent Philippot, Alexei V. Tiunov, Diana H. Wall

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)

Abstract

Soils host the vast majority of life on Earth including microorganisms and animals, and supporting all terrestrial vegetation. While soil organisms are pivotal for ecosystem functioning, the assemblages of different biota from a taxonomic and functional perspective, as well as how these different organisms interact, remains poorly known. We provide a brief overview of the taxonomic and functional diversity of all major groups of soil biota across different scales and organism sizes, ranging from viruses to prokaryotes and eukaryotes. This reveals knowledge gaps in relation to all soil biodiversity groups, which are especially evident for viruses, protists, micro- and meso-fauna. We review currently-available methods to study the taxonomic and functional diversity of soil organisms by grouping all commonly-used methods into morphological, biochemical and molecular approaches. We list potentials and limitations of the methods to reveal that there is, as yet, no single method to fully characterize the biodiversity even of a single group of soil biota. Yet, we stress that we now have the methods available to enable scientists to disentangle the taxonomic and functional diversity of virtually all soil organisms. We provide a user-friendly guide to help researchers address a wider variety of soil biodiversity in their studies by discussing and critically analysing the various potentials and limitations of diverse methods to study distinct groups of soil life. We highlight that integrative methodological approaches, ideally in collaborative interactions, are key to advancing our understanding of soil biodiversity, such as the combination of morphological and molecular approaches to overcome method-specific limitations. Together, integrative efforts can provide information on the abundance, biomass, diversity and function of several groups of soil biota simultaneously. This newly-obtained integrative information on soil biodiversity will help to define the importance of soil biodiversity in ecosystem processes, functions, and services, and serve to refine food-web and earth system models.

Original languageEnglish
Article number107536
JournalSoil Biology and Biochemistry
Volume136
DOIs
Publication statusPublished - Sep 2019

Fingerprint

Biodiversity
Soil
biodiversity
soil biota
functional diversity
soil
Biota
methodology
organisms
virus
fauna
viruses
ecosystems
ecosystem
protist
prokaryote
eukaryote
prokaryotic cells
method
Ecosystem

Keywords

  • Biodiversity
  • Fauna
  • Food-webs
  • Microorganisms
  • Molecular methods
  • Soil functions and health

Cite this

Geisen, S., Briones, M. J. I., Gan, H., Behan-Pelletier, V. M., Friman, V. P., de Groot, G. A., ... Wall, D. H. (2019). A methodological framework to embrace soil biodiversity. Soil Biology and Biochemistry, 136, [107536]. https://doi.org/10.1016/j.soilbio.2019.107536
Geisen, Stefan ; Briones, Maria J.I. ; Gan, Huijie ; Behan-Pelletier, Valerie M. ; Friman, Ville Petri ; de Groot, G.A. ; Hannula, S.E. ; Lindo, Zoë ; Philippot, Laurent ; Tiunov, Alexei V. ; Wall, Diana H. / A methodological framework to embrace soil biodiversity. In: Soil Biology and Biochemistry. 2019 ; Vol. 136.
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Geisen, S, Briones, MJI, Gan, H, Behan-Pelletier, VM, Friman, VP, de Groot, GA, Hannula, SE, Lindo, Z, Philippot, L, Tiunov, AV & Wall, DH 2019, 'A methodological framework to embrace soil biodiversity', Soil Biology and Biochemistry, vol. 136, 107536. https://doi.org/10.1016/j.soilbio.2019.107536

A methodological framework to embrace soil biodiversity. / Geisen, Stefan; Briones, Maria J.I.; Gan, Huijie; Behan-Pelletier, Valerie M.; Friman, Ville Petri; de Groot, G.A.; Hannula, S.E.; Lindo, Zoë; Philippot, Laurent; Tiunov, Alexei V.; Wall, Diana H.

In: Soil Biology and Biochemistry, Vol. 136, 107536, 09.2019.

Research output: Contribution to journalArticleAcademicpeer-review

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AU - Geisen, Stefan

AU - Briones, Maria J.I.

AU - Gan, Huijie

AU - Behan-Pelletier, Valerie M.

AU - Friman, Ville Petri

AU - de Groot, G.A.

AU - Hannula, S.E.

AU - Lindo, Zoë

AU - Philippot, Laurent

AU - Tiunov, Alexei V.

AU - Wall, Diana H.

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N2 - Soils host the vast majority of life on Earth including microorganisms and animals, and supporting all terrestrial vegetation. While soil organisms are pivotal for ecosystem functioning, the assemblages of different biota from a taxonomic and functional perspective, as well as how these different organisms interact, remains poorly known. We provide a brief overview of the taxonomic and functional diversity of all major groups of soil biota across different scales and organism sizes, ranging from viruses to prokaryotes and eukaryotes. This reveals knowledge gaps in relation to all soil biodiversity groups, which are especially evident for viruses, protists, micro- and meso-fauna. We review currently-available methods to study the taxonomic and functional diversity of soil organisms by grouping all commonly-used methods into morphological, biochemical and molecular approaches. We list potentials and limitations of the methods to reveal that there is, as yet, no single method to fully characterize the biodiversity even of a single group of soil biota. Yet, we stress that we now have the methods available to enable scientists to disentangle the taxonomic and functional diversity of virtually all soil organisms. We provide a user-friendly guide to help researchers address a wider variety of soil biodiversity in their studies by discussing and critically analysing the various potentials and limitations of diverse methods to study distinct groups of soil life. We highlight that integrative methodological approaches, ideally in collaborative interactions, are key to advancing our understanding of soil biodiversity, such as the combination of morphological and molecular approaches to overcome method-specific limitations. Together, integrative efforts can provide information on the abundance, biomass, diversity and function of several groups of soil biota simultaneously. This newly-obtained integrative information on soil biodiversity will help to define the importance of soil biodiversity in ecosystem processes, functions, and services, and serve to refine food-web and earth system models.

AB - Soils host the vast majority of life on Earth including microorganisms and animals, and supporting all terrestrial vegetation. While soil organisms are pivotal for ecosystem functioning, the assemblages of different biota from a taxonomic and functional perspective, as well as how these different organisms interact, remains poorly known. We provide a brief overview of the taxonomic and functional diversity of all major groups of soil biota across different scales and organism sizes, ranging from viruses to prokaryotes and eukaryotes. This reveals knowledge gaps in relation to all soil biodiversity groups, which are especially evident for viruses, protists, micro- and meso-fauna. We review currently-available methods to study the taxonomic and functional diversity of soil organisms by grouping all commonly-used methods into morphological, biochemical and molecular approaches. We list potentials and limitations of the methods to reveal that there is, as yet, no single method to fully characterize the biodiversity even of a single group of soil biota. Yet, we stress that we now have the methods available to enable scientists to disentangle the taxonomic and functional diversity of virtually all soil organisms. We provide a user-friendly guide to help researchers address a wider variety of soil biodiversity in their studies by discussing and critically analysing the various potentials and limitations of diverse methods to study distinct groups of soil life. We highlight that integrative methodological approaches, ideally in collaborative interactions, are key to advancing our understanding of soil biodiversity, such as the combination of morphological and molecular approaches to overcome method-specific limitations. Together, integrative efforts can provide information on the abundance, biomass, diversity and function of several groups of soil biota simultaneously. This newly-obtained integrative information on soil biodiversity will help to define the importance of soil biodiversity in ecosystem processes, functions, and services, and serve to refine food-web and earth system models.

KW - Biodiversity

KW - Fauna

KW - Food-webs

KW - Microorganisms

KW - Molecular methods

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