Geostatistical analysis of nematode taxa on hectare scale provide essential knowledge to monitor the ecological impact of bio-based crops and residues

Research output: Contribution to conferencePosterProfessional

Abstract

Because of their abundance, their trophic diversity and their relatively straightforward extractability, nematodes have a potential as a proxy for the biological condition of soils and sediments. So far the potential of this group is underexploited for technical reasons; the microscopic analysis of nematode assemblages is labour intensive and requires extensive expertise. With the availability of a relatively large molecular framework, it became possible to design molecular assays that allow for the quantitative analysis of individual taxa against complex DNA backgrounds (Vervoort et al. 2012). The availability of high throughput tools to monitor nematode assemblages makes it possible to investigate the spatial distribution of nematode taxa at field level. In order to assess the degree of patchiness of individual nematode taxa (and this relates directly to the strategy that should be used to sample them), 12 fields (4 from each marine clay, river clay and sandy soils) of a single hectare each were investigated in great detail. Using a sampling grid optimized for geostatistic analysis, 96 composite samples were taken from each of these fields. Each of these samples were analysed with 24 molecular assays (corresponding to 23 nematode taxa and one internal control). In total over 30,000 qPCR reactions were run, a preliminary results (visualized as semi-variograms and surface maps) show a great variation in distribution patterns not only on the basis of nematode taxa but also based on soil type. The data that will be presented are essential for the design of scientifically sound sampling schemes to monitor the ecological impact of bio-based crops and residues on arable field scale.
LanguageEnglish
Publication statusPublished - 2014
EventBe-Basic Symposium 2014 -
Duration: 4 Feb 20146 Feb 2014

Conference

ConferenceBe-Basic Symposium 2014
Period4/02/146/02/14

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ecological impact
nematode
crop
assay
patchiness
geostatistics
variogram
sampling
analysis
clay soil
sandy soil
quantitative analysis
soil type
labor
spatial distribution
DNA
clay
river
sediment
soil

Cite this

@conference{d58f1645e30642398dffc644fbb2b22f,
title = "Geostatistical analysis of nematode taxa on hectare scale provide essential knowledge to monitor the ecological impact of bio-based crops and residues",
abstract = "Because of their abundance, their trophic diversity and their relatively straightforward extractability, nematodes have a potential as a proxy for the biological condition of soils and sediments. So far the potential of this group is underexploited for technical reasons; the microscopic analysis of nematode assemblages is labour intensive and requires extensive expertise. With the availability of a relatively large molecular framework, it became possible to design molecular assays that allow for the quantitative analysis of individual taxa against complex DNA backgrounds (Vervoort et al. 2012). The availability of high throughput tools to monitor nematode assemblages makes it possible to investigate the spatial distribution of nematode taxa at field level. In order to assess the degree of patchiness of individual nematode taxa (and this relates directly to the strategy that should be used to sample them), 12 fields (4 from each marine clay, river clay and sandy soils) of a single hectare each were investigated in great detail. Using a sampling grid optimized for geostatistic analysis, 96 composite samples were taken from each of these fields. Each of these samples were analysed with 24 molecular assays (corresponding to 23 nematode taxa and one internal control). In total over 30,000 qPCR reactions were run, a preliminary results (visualized as semi-variograms and surface maps) show a great variation in distribution patterns not only on the basis of nematode taxa but also based on soil type. The data that will be presented are essential for the design of scientifically sound sampling schemes to monitor the ecological impact of bio-based crops and residues on arable field scale.",
author = "C.W. Quist and P.J.W. Mooijman and {van den Elsen}, S.J.J. and D.J. Brus and C. Mulder and A. Termoshuizen and J. Bakker and J. Helder",
year = "2014",
language = "English",
note = "Be-Basic Symposium 2014 ; Conference date: 04-02-2014 Through 06-02-2014",

}

Geostatistical analysis of nematode taxa on hectare scale provide essential knowledge to monitor the ecological impact of bio-based crops and residues. / Quist, C.W.; Mooijman, P.J.W.; van den Elsen, S.J.J.; Brus, D.J.; Mulder, C.; Termoshuizen, A.; Bakker, J.; Helder, J.

2014. Poster session presented at Be-Basic Symposium 2014, .

Research output: Contribution to conferencePosterProfessional

TY - CONF

T1 - Geostatistical analysis of nematode taxa on hectare scale provide essential knowledge to monitor the ecological impact of bio-based crops and residues

AU - Quist, C.W.

AU - Mooijman, P.J.W.

AU - van den Elsen, S.J.J.

AU - Brus, D.J.

AU - Mulder, C.

AU - Termoshuizen, A.

AU - Bakker, J.

AU - Helder, J.

PY - 2014

Y1 - 2014

N2 - Because of their abundance, their trophic diversity and their relatively straightforward extractability, nematodes have a potential as a proxy for the biological condition of soils and sediments. So far the potential of this group is underexploited for technical reasons; the microscopic analysis of nematode assemblages is labour intensive and requires extensive expertise. With the availability of a relatively large molecular framework, it became possible to design molecular assays that allow for the quantitative analysis of individual taxa against complex DNA backgrounds (Vervoort et al. 2012). The availability of high throughput tools to monitor nematode assemblages makes it possible to investigate the spatial distribution of nematode taxa at field level. In order to assess the degree of patchiness of individual nematode taxa (and this relates directly to the strategy that should be used to sample them), 12 fields (4 from each marine clay, river clay and sandy soils) of a single hectare each were investigated in great detail. Using a sampling grid optimized for geostatistic analysis, 96 composite samples were taken from each of these fields. Each of these samples were analysed with 24 molecular assays (corresponding to 23 nematode taxa and one internal control). In total over 30,000 qPCR reactions were run, a preliminary results (visualized as semi-variograms and surface maps) show a great variation in distribution patterns not only on the basis of nematode taxa but also based on soil type. The data that will be presented are essential for the design of scientifically sound sampling schemes to monitor the ecological impact of bio-based crops and residues on arable field scale.

AB - Because of their abundance, their trophic diversity and their relatively straightforward extractability, nematodes have a potential as a proxy for the biological condition of soils and sediments. So far the potential of this group is underexploited for technical reasons; the microscopic analysis of nematode assemblages is labour intensive and requires extensive expertise. With the availability of a relatively large molecular framework, it became possible to design molecular assays that allow for the quantitative analysis of individual taxa against complex DNA backgrounds (Vervoort et al. 2012). The availability of high throughput tools to monitor nematode assemblages makes it possible to investigate the spatial distribution of nematode taxa at field level. In order to assess the degree of patchiness of individual nematode taxa (and this relates directly to the strategy that should be used to sample them), 12 fields (4 from each marine clay, river clay and sandy soils) of a single hectare each were investigated in great detail. Using a sampling grid optimized for geostatistic analysis, 96 composite samples were taken from each of these fields. Each of these samples were analysed with 24 molecular assays (corresponding to 23 nematode taxa and one internal control). In total over 30,000 qPCR reactions were run, a preliminary results (visualized as semi-variograms and surface maps) show a great variation in distribution patterns not only on the basis of nematode taxa but also based on soil type. The data that will be presented are essential for the design of scientifically sound sampling schemes to monitor the ecological impact of bio-based crops and residues on arable field scale.

M3 - Poster

ER -