. 2020 Mar 26;7(1):103.

doi: 10.1038/s41597-020-0437-3.

A global database of soil nematode abundance and functional group composition

Johan van den Hoogen^#¹, Stefan Geisen^#², Diana H Wall³, David A Wardle⁴, Walter Traunspurger⁵, Ron G M de Goede⁶, Byron J Adams⁷, Wasim Ahmad⁸, Howard Ferris⁹, Richard D Bardgett¹⁰, Michael Bonkowski¹¹, Raquel Campos-Herrera¹², Juvenil E Cares¹³, Tancredi Caruso¹⁴, Larissa de Brito Caixeta¹³, Xiaoyun Chen¹⁵, Sofia R Costa¹⁶, Rachel Creamer⁶, José Mauro da Cunha E Castro¹⁷, Marie Dam¹⁸, Djibril Djigal¹⁹, Miguel Escuer²⁰, Bryan S Griffiths²¹, Carmen Gutiérrez²⁰, Karin Hohberg²², Daria Kalinkina²³, Paul Kardol²⁴, Alan Kergunteuil²⁵, Gerard Korthals²⁶, Valentyna Krashevska²⁷, Alexey A Kudrin²⁸, Qi Li²⁹, Wenju Liang²⁹, Matthew Magilton³⁰, Mariette Marais³¹, José Antonio Rodríguez Martín³², Elizaveta Matveeva²³, El Hassan Mayad³³, E Mzough³³, Christian Mulder³⁴, Peter Mullin³⁵, Roy Neilson³⁶, T A Duong Nguyen^{11

37}, Uffe N Nielsen³⁸, Hiroaki Okada³⁹, Juan Emilio Palomares Rius⁴⁰, Kaiwen Pan⁴¹, Vlada Peneva⁴², Loïc Pellissier^{43

44}, Julio Carlos Pereira da Silva⁴⁵, Camille Pitteloud⁴³, Thomas O Powers³⁵, Kirsten Powers³⁵, Casper W Quist^{46

47}, Sergio Rasmann⁴⁸, Sara Sánchez Moreno⁴⁹, Stefan Scheu^{27

50}, Heikki Setälä⁵¹, Anna Sushchuk²³, Alexei V Tiunov⁵², Jean Trap⁵³, Mette Vestergård⁵⁴, Cecile Villenave^{53

55}, Lieven Waeyenberge⁵⁶, Rutger A Wilschut²⁶, Daniel G Wright⁵⁷, Aidan M Keith⁵⁷, Jiue-In Yang⁵⁸, Olaf Schmidt⁵⁹, R Bouharroud⁶⁰, Z Ferji⁶¹, Wim H van der Putten^{26

47}, Devin Routh⁶², Thomas W Crowther⁶³

Affiliations

¹ Department of Environmental Systems Science, Institute of Integrative Biology, ETH Zürich, Zürich, Switzerland. johan.vandenhoogen@usys.ethz.ch.
² Department of Terrestrial Ecology, Netherlands Institute of Ecology, Wageningen, The Netherlands. s.geisen@nioo.knaw.nl.
³ Department of Biology and School of Global Environmental Sustainability, Colorado State University, Fort Collins, CO, USA.
⁴ Asian School of the Environment, Nanyang Technological University, Singapore, Singapore.
⁵ Animal Ecology, Bielefeld University, Bielefeld, Germany.
⁶ Soil Biology Group, Wageningen University & Research, Wageningen, The Netherlands.
⁷ Department of Biology, Evolutionary Ecology Laboratories, Monte L. Bean Museum, Brigham Young University, Provo, UT, USA.
⁸ Nematode Biodiversity Research Laboratory, Department of Zoology, Aligarh Muslim University, Aligarh, India.
⁹ Department of Entomology & Nematology, University of California, Davis, CA, USA.
¹⁰ Department of Earth and Environmental Sciences, The University of Manchester, Manchester, UK.
¹¹ Institute of Zoology, Terrestrial Ecology, University of Cologne and Cluster of Excellence on Plant Sciences (CEPLAS), Cologne, Germany.
¹² Instituto de Ciencias de la Vid y del Vino (Universidad de La Rioja, CSIC, Gobierno de La Rioja), Logroño, Spain.
¹³ Department of Phytopathology, Institute of Biological Sciences, University of Brasília, Brasília, Brazil.
¹⁴ School of Biology and Environmental Science, University College Dublin, Belfield, Dublin 4, Ireland.
¹⁵ Soil Ecology Laboratory, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, China.
¹⁶ Centre of Molecular and Environmental Biology, University of Minho, Braga, Portugal.
¹⁷ Empresa Brasileira de Pesquisa Agropecuária (Embrapa), Centro de Pesquisa Agropecuária do Trópico Semiárido, Petrolina, Brazil.
¹⁸ Zealand Institute of Business and Technology, Slagelse, Denmark.
¹⁹ Institut Sénégalais de Recherches Agricoles/CDH, Dakar, Senegal.
²⁰ Instituto de Ciencias Agrarias, CSIC, Madrid, Spain.
²¹ Crop and Soil Systems Research Group, SRUC, Edinburgh, UK.
²² Senckenberg Museum of Natural History Görlitz, Görlitz, Germany.
²³ Institute of Biology of Karelian Research Centre, Russian Academy of Sciences, Petrozavodsk, Russia.
²⁴ Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden.
²⁵ Laboratory of Functional Ecology, Institute of Biology, University of Neuchâtel, Neuchâtel, Switzerland.
²⁶ Department of Terrestrial Ecology, Netherlands Institute of Ecology, Wageningen, The Netherlands.
²⁷ J. F. Blumenbach Institute of Zoology and Anthropology, University of Göttingen, Göttingen, Germany.
²⁸ Institute of Biology of the Komi Scientific Centre, Ural Branch of the Russian Academy of Sciences, Syktyvkar, Russia.
²⁹ Erguna Forest-Steppe Ecotone Research Station, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, China.
³⁰ School of Biological Sciences, Institute for Global Food Security, Queen's University of Belfast, Belfast, UK.
³¹ Nematology Unit, Agricultural Research Council, Plant Health and Protection, Pretoria, South Africa.
³² Department of Environment, Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Madrid, Spain.
³³ Laboratory of Biotechnology and Valorization of Natural Resources, Faculty of Science Agadir, Ibn Zohr University, Agadir, Morocco.
³⁴ Department of Biological, Geological and Environmental Sciences, University of Catania, Catania, Italy.
³⁵ Department of Plant Pathology, University of Nebraska-Lincoln, Lincoln, NE, USA.
³⁶ Ecological Sciences, The James Hutton Institute, Dundee, UK.
³⁷ Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology, Hanoi, Vietnam.
³⁸ Hawkesbury Institute for the Environment, Western Sydney University, Penrith, New South Wales, Australia.
³⁹ Nematode Management Group, Division of Applied Entomology and Zoology, Central Region Agricultural Research Center, NARO, Tsukuba, Japan.
⁴⁰ Institute for Sustainable Agriculture, Spanish National Research Council, Córdoba, Spain.
⁴¹ Ecological Processes and Biodiversity, Center for Ecological Studies, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China.
⁴² Institute of Biodiversity and Ecosystem Research, Bulgarian Academy of Sciences, Sofia, Bulgaria.
⁴³ Landscape Ecology, Institute of Terrestrial Ecosystems, Department of Environmental Systems Science, ETH Zürich, Zürich, Switzerland.
⁴⁴ Swiss Federal Research Institute WSL, Birmensdorf, Switzerland.
⁴⁵ Department of Phytosanitary Defense, Universidade Federal de Santa Maria, Santa Maria, RS, Brazil.
⁴⁶ Biosystematics Group, Wageningen University, Wageningen, The Netherlands.
⁴⁷ Laboratory of Nematology, Wageningen University, Wageningen, The Netherlands.
⁴⁸ Institute of Biology, University of Neuchâtel, Neuchâtel, Switzerland.
⁴⁹ Plant Protection Products Unit, Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Madrid, Spain.
⁵⁰ Centre of Biodiversity and Sustainable Land Use, University of Göttingen, Göttingen, Germany.
⁵¹ Faculty of Biological and Environmental Sciences, Ecosystems and Environment Research Programme, University of Helsinki, Lahti, Finland.
⁵² A. N. Severtsov Institute of Ecology and Evolution, Russian Academy of Sciences, Moscow, Russia.
⁵³ Eco&Sols, University of Montpellier, CIRAD, INRA, IRD, Montpellier SupAgro, Montpellier, France.
⁵⁴ Department of Agroecology, AU-Flakkebjerg, Aarhus University, Slagelse, Denmark.
⁵⁵ ELISOL Environnement, Congénies, France.
⁵⁶ Plant Sciences Unit, Flanders Research Institute for Agriculture, Fisheries and Food, Merelbeke, Belgium.
⁵⁷ UK Centre for Ecology & Hydrology, Lancaster Environment Centre, Lancaster, UK.
⁵⁸ Department of Plant Pathology and Microbiology, National Taiwan University, Taipei, Taiwan.
⁵⁹ UCD School of Agriculture and Food Science, University College Dublin, Belfield, Dublin 4, Ireland.
⁶⁰ Research Unit of Integrated Crop Production, Centre Regional de la Recherche Agronomique d'Agadir, Agadir, Morocco.
⁶¹ Institut Agronomique et Vétérinaire Hassan II, Campus d'Agadir, Département de Protection des Plantes, Agadir, Morocco.
⁶² Department of Environmental Systems Science, Institute of Integrative Biology, ETH Zürich, Zürich, Switzerland.
⁶³ Department of Environmental Systems Science, Institute of Integrative Biology, ETH Zürich, Zürich, Switzerland. tom.crowther@usys.ethz.ch.

^# Contributed equally.

PMID: 32218461
PMCID: PMC7099023
DOI: 10.1038/s41597-020-0437-3

A global database of soil nematode abundance and functional group composition

Johan van den Hoogen et al. Sci Data. 2020.

. 2020 Mar 26;7(1):103.

doi: 10.1038/s41597-020-0437-3.

Authors

Affiliations

¹ Department of Environmental Systems Science, Institute of Integrative Biology, ETH Zürich, Zürich, Switzerland. johan.vandenhoogen@usys.ethz.ch.
² Department of Terrestrial Ecology, Netherlands Institute of Ecology, Wageningen, The Netherlands. s.geisen@nioo.knaw.nl.
³ Department of Biology and School of Global Environmental Sustainability, Colorado State University, Fort Collins, CO, USA.
⁴ Asian School of the Environment, Nanyang Technological University, Singapore, Singapore.
⁵ Animal Ecology, Bielefeld University, Bielefeld, Germany.
⁶ Soil Biology Group, Wageningen University & Research, Wageningen, The Netherlands.
⁷ Department of Biology, Evolutionary Ecology Laboratories, Monte L. Bean Museum, Brigham Young University, Provo, UT, USA.
⁸ Nematode Biodiversity Research Laboratory, Department of Zoology, Aligarh Muslim University, Aligarh, India.
⁹ Department of Entomology & Nematology, University of California, Davis, CA, USA.
¹⁰ Department of Earth and Environmental Sciences, The University of Manchester, Manchester, UK.
¹¹ Institute of Zoology, Terrestrial Ecology, University of Cologne and Cluster of Excellence on Plant Sciences (CEPLAS), Cologne, Germany.
¹² Instituto de Ciencias de la Vid y del Vino (Universidad de La Rioja, CSIC, Gobierno de La Rioja), Logroño, Spain.
¹³ Department of Phytopathology, Institute of Biological Sciences, University of Brasília, Brasília, Brazil.
¹⁴ School of Biology and Environmental Science, University College Dublin, Belfield, Dublin 4, Ireland.
¹⁵ Soil Ecology Laboratory, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, China.
¹⁶ Centre of Molecular and Environmental Biology, University of Minho, Braga, Portugal.
¹⁷ Empresa Brasileira de Pesquisa Agropecuária (Embrapa), Centro de Pesquisa Agropecuária do Trópico Semiárido, Petrolina, Brazil.
¹⁸ Zealand Institute of Business and Technology, Slagelse, Denmark.
¹⁹ Institut Sénégalais de Recherches Agricoles/CDH, Dakar, Senegal.
²⁰ Instituto de Ciencias Agrarias, CSIC, Madrid, Spain.
²¹ Crop and Soil Systems Research Group, SRUC, Edinburgh, UK.
²² Senckenberg Museum of Natural History Görlitz, Görlitz, Germany.
²³ Institute of Biology of Karelian Research Centre, Russian Academy of Sciences, Petrozavodsk, Russia.
²⁴ Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden.
²⁵ Laboratory of Functional Ecology, Institute of Biology, University of Neuchâtel, Neuchâtel, Switzerland.
²⁶ Department of Terrestrial Ecology, Netherlands Institute of Ecology, Wageningen, The Netherlands.
²⁷ J. F. Blumenbach Institute of Zoology and Anthropology, University of Göttingen, Göttingen, Germany.
²⁸ Institute of Biology of the Komi Scientific Centre, Ural Branch of the Russian Academy of Sciences, Syktyvkar, Russia.
²⁹ Erguna Forest-Steppe Ecotone Research Station, Institute of Applied Ecology, Chinese Academy of Sciences, Shenyang, China.
³⁰ School of Biological Sciences, Institute for Global Food Security, Queen's University of Belfast, Belfast, UK.
³¹ Nematology Unit, Agricultural Research Council, Plant Health and Protection, Pretoria, South Africa.
³² Department of Environment, Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Madrid, Spain.
³³ Laboratory of Biotechnology and Valorization of Natural Resources, Faculty of Science Agadir, Ibn Zohr University, Agadir, Morocco.
³⁴ Department of Biological, Geological and Environmental Sciences, University of Catania, Catania, Italy.
³⁵ Department of Plant Pathology, University of Nebraska-Lincoln, Lincoln, NE, USA.
³⁶ Ecological Sciences, The James Hutton Institute, Dundee, UK.
³⁷ Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology, Hanoi, Vietnam.
³⁸ Hawkesbury Institute for the Environment, Western Sydney University, Penrith, New South Wales, Australia.
³⁹ Nematode Management Group, Division of Applied Entomology and Zoology, Central Region Agricultural Research Center, NARO, Tsukuba, Japan.
⁴⁰ Institute for Sustainable Agriculture, Spanish National Research Council, Córdoba, Spain.
⁴¹ Ecological Processes and Biodiversity, Center for Ecological Studies, Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China.
⁴² Institute of Biodiversity and Ecosystem Research, Bulgarian Academy of Sciences, Sofia, Bulgaria.
⁴³ Landscape Ecology, Institute of Terrestrial Ecosystems, Department of Environmental Systems Science, ETH Zürich, Zürich, Switzerland.
⁴⁴ Swiss Federal Research Institute WSL, Birmensdorf, Switzerland.
⁴⁵ Department of Phytosanitary Defense, Universidade Federal de Santa Maria, Santa Maria, RS, Brazil.
⁴⁶ Biosystematics Group, Wageningen University, Wageningen, The Netherlands.
⁴⁷ Laboratory of Nematology, Wageningen University, Wageningen, The Netherlands.
⁴⁸ Institute of Biology, University of Neuchâtel, Neuchâtel, Switzerland.
⁴⁹ Plant Protection Products Unit, Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria, Madrid, Spain.
⁵⁰ Centre of Biodiversity and Sustainable Land Use, University of Göttingen, Göttingen, Germany.
⁵¹ Faculty of Biological and Environmental Sciences, Ecosystems and Environment Research Programme, University of Helsinki, Lahti, Finland.
⁵² A. N. Severtsov Institute of Ecology and Evolution, Russian Academy of Sciences, Moscow, Russia.
⁵³ Eco&Sols, University of Montpellier, CIRAD, INRA, IRD, Montpellier SupAgro, Montpellier, France.
⁵⁴ Department of Agroecology, AU-Flakkebjerg, Aarhus University, Slagelse, Denmark.
⁵⁵ ELISOL Environnement, Congénies, France.
⁵⁶ Plant Sciences Unit, Flanders Research Institute for Agriculture, Fisheries and Food, Merelbeke, Belgium.
⁵⁷ UK Centre for Ecology & Hydrology, Lancaster Environment Centre, Lancaster, UK.
⁵⁸ Department of Plant Pathology and Microbiology, National Taiwan University, Taipei, Taiwan.
⁵⁹ UCD School of Agriculture and Food Science, University College Dublin, Belfield, Dublin 4, Ireland.
⁶⁰ Research Unit of Integrated Crop Production, Centre Regional de la Recherche Agronomique d'Agadir, Agadir, Morocco.
⁶¹ Institut Agronomique et Vétérinaire Hassan II, Campus d'Agadir, Département de Protection des Plantes, Agadir, Morocco.
⁶² Department of Environmental Systems Science, Institute of Integrative Biology, ETH Zürich, Zürich, Switzerland.
⁶³ Department of Environmental Systems Science, Institute of Integrative Biology, ETH Zürich, Zürich, Switzerland. tom.crowther@usys.ethz.ch.

^# Contributed equally.

PMID: 32218461
PMCID: PMC7099023
DOI: 10.1038/s41597-020-0437-3

Abstract

As the most abundant animals on earth, nematodes are a dominant component of the soil community. They play critical roles in regulating biogeochemical cycles and vegetation dynamics within and across landscapes and are an indicator of soil biological activity. Here, we present a comprehensive global dataset of soil nematode abundance and functional group composition. This dataset includes 6,825 georeferenced soil samples from all continents and biomes. For geospatial mapping purposes these samples are aggregated into 1,933 unique 1-km pixels, each of which is linked to 73 global environmental covariate data layers. Altogether, this dataset can help to gain insight into the spatial distribution patterns of soil nematode abundance and community composition, and the environmental drivers shaping these patterns.

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Conflict of interest statement

The authors declare no competing interests.

Figures

**Fig. 1**
Nematode extraction methods used. The majority of the samples were processed using the Baermann funnel method and Oostenbrink elutriation.

**Fig. 2**
Data processing approach. 6,825 georeferenced samples are included in the raw dataset. These sampling locations represent 1,933 unique 30 arc-seconds pixels (~1 km at the equator), or 1,895 pixels excluding locations falling off the covariate grid. To gain mechanistic insights and discern the major environmental drivers of nematode abundance, these pixels were sampled across 73 global covariate layers.

**Fig. 3**
Nematode communities vary across biomes. The median and interquartile range of nematode abundances (n = 6,825) per biome from all continents.

**Fig. 4**
Environmental representativeness of the dataset. The sampled locations represent a wide range of environmental conditions. For illustrative purposes, ten environmental variables were chosen from the full set of 73.

**Fig. 5**
Assessment of the representativeness of the dataset in multivariate environmental space. The map displays the percentage of pixels that fall within the convex hulls of the first 17 principal component spaces (collectively covering >90% of the sample space variation).

See this image and copyright information in PMC

Dataset use reported in

doi: 10.1038/s41586-019-1418-6

References

1. Crowther TW, et al. The global soil community and its influence on biogeochemistry. Science. 2019;365:eaav0550. doi: 10.1126/science.aav0550. - DOI - PubMed
1. Crowther TW, Boddy L, Jones TH. Species-specific effects of soil fauna on fungal foraging and decomposition. Oecologia. 2011;167:535–545. doi: 10.1007/s00442-011-2005-1. - DOI - PubMed
1. Ferris H. Contribution of nematodes to the structure and function of the soil food web. J. Nemat. 2010;42:63–67. - PMC - PubMed
1. Ingham RE, Trofymow JA, Ingham ER, Coleman DC. Interactions of bacteria, fungi, and their nematode grazers: effects on nutrient cycling and plant growth. Ecol. Monogr. 1985;55:119–140. doi: 10.2307/1942528. - DOI
1. Neher D. Role of nematodes in soil health and their use as indicators. J. Nemat. 2001;33:161–168. - PMC - PubMed

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A global database of soil nematode abundance and functional group composition

Affiliations

A global database of soil nematode abundance and functional group composition

Authors

Affiliations

Abstract

Conflict of interest statement

Figures

Dataset use reported in

References

Publication types

MeSH terms

Substances

Grants and funding

LinkOut - more resources

Full Text Sources

Research Materials