Impact of agricultural practices and environmental variables on plant-parasitic nematode communities in fields at a landscape scale

in Nematology
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Agricultural practices shaping plant-parasitic nematode (PPN) assembly are still unclear, and this limits our understanding of the impact of anthropic disturbances on the resilience of PPN communities and the emergence of agronomic problems. Here the abundance and diversity of PPN in France’s oilseed rape production area was determined by sampling 72 fields over two consecutive years. We identified and counted PPN taxa and collected anthropic and environmental variables for the past 5 years. PPN were assigned to seven genera and one family including PPN that have not been identified to genus level. Using multiple correspondence analyses, we selected the main variables and tested their effect on the abundance of each taxon with mixed generalised linear models. We emphasise that at the landscape scale investigated, crop rotations were no longer a major factor impacting the PPN communities. However, we observed that tillage and pesticides had a significant impact on several taxa.

Nematology

International Journal of Fundamental and Applied Nematological Research

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References

AlendaC.MontarryJ.GrenierE. (2014). Human influence on the dispersal and genetic structure of French Globodera tabacum populations. Infection, Genetics and Evolution 27, 309-317. DOI: 10.1016/j.meegid.2014.07.027

AltieriM.A. (1999). The ecological role of biodiversity in agroecosystems. Agriculture, Ecosystems & Environment 74, 19-31. DOI: 10.1016/S0167-8809(99)00028-6

AndersenP.K.BorganO.GillR.D.KeidingN. (1997). Statistical models based on counting processes. Springer Series in Statistics. New York, USA, Springer.

BartonK. (2016). MuMIn: multi-model inference. R package version 1.15.6. https://CRAN.R-project.org/package=MuMIn.

BatesD.MaechlerM.BolkerB.WalkerS. (2015). Fitting linear mixed-effects models using lme4. Journal of Statistical Software 67, 1-48. DOI: 10.18637/jss.v067.i01

BongersT. (1990). The maturity index: an ecological measure of environmental disturbance based on nematode species composition. Oecologia 83, 14-19. DOI: 10.1007/BF00324627

BongersT.FerrisH. (1999). Nematode community structure as a bioindicator in environmental monitoring. Trends in Ecology & Evolution 14, 224-228. DOI: 10.1016/S0169-5347(98)01583-3

BünemannE.K.SchwenkeG.D.ZwietenL.V. (2006). Impact of agricultural inputs on soil organisms—a review. Soil Research 44, 379-406. DOI: 10.1071/SR05125

BurnhamK.P.AndersonD.R. (2002). Model selection and multimodel inference: a practical information-theoretic approach. New York, USA, Springer.

CarraraE.Arroyo-RodríguezV.Vega-RiveraJ.H.SchondubeJ.E.de FreitasS.M.FahrigL. (2015). Impact of landscape composition and configuration on forest specialist and generalist bird species in the fragmented Lacandona rainforest, Mexico. Biological Conservation 184, 117-126. DOI: 10.1016/j.biocon.2015.01.014

CiboisP. (1986). L’analyse des correspondances: l’indispensable retour aux données. Histoire & Mesure 1, 239-247. DOI: 10.3406/hism.1986.1540

CiboisP. (1997). Les pièges de l’analyse des correspondances. Histoire & Mesure 12, 299-320.

DecraemerW.HuntD.J. (2013). Structure and classification. In: PerryR.N.MoensM. (Eds). Plant nematology, 2nd edition. Wallingford, UK, CAB International, pp.  3-39. DOI: 10.1079/9781780641515.0000

DequiedtS.SabyN.P.A.LelievreM.JolivetC.ThioulouseJ.ToutainB.ArrouaysD.BispoA.LemanceauP.RanjardL. (2011). Biogeographical patterns of soil molecular microbial biomass as influenced by soil characteristics and management. Global Ecology and Biogeography 20, 641-652. DOI: 10.1111/j.1466-8238.2010.00628.x

EPPO Bulletin (2013). PM 7/119 nematode extraction. EPPO Bulletin 43, 471-495. DOI: 10.1111/epp.12077

FranzluebbersA.J. (2002). Soil organic matter stratification ratio as an indicator of soil quality. Soil and Tillage Research 66, 95-106. DOI: 10.1016/S0167-1987(02)00018-1

FreckmanD.W.EttemaC.H. (1993). Assessing nematode communities in agroecosystems of varying human intervention. Agriculture, Ecosystems & Environment 45, 239-261. DOI: 10.1016/0167-8809(93)90074-Y

GalipaudM.GillinghamM.A.F.DavidM.Dechaume-MoncharmontF.-X. (2014). Ecologists overestimate the importance of predictor variables in model averaging: a plea for cautious interpretations. Methods in Ecology and Evolution 5, 983-991. DOI: 10.1111/2041-210X.12251

GomesG.S.HuangS.P.CaresJ.E. (2003). Nematode community, trophic structure and population fluctuation in soybean fields. Fitopatologia Brasileira 28, 258-266. DOI: 10.1590/S0100-41582003000300006

GoodellP.FerrisH. (1980). Plant-parasitic nematode distributions in an alfalfa field. Journal of Nematology 12, 136-141.

GrueberC.E.NakagawaS.LawsR.J.JamiesonI.G. (2011). Multimodel inference in ecology and evolution: challenges and solutions. Journal of Evolutionary Biology 24, 699-711. DOI: 10.1111/j.1420-9101.2010.02210.x

HendrixP.F.ParmeleeR.W.CrossleyD.A.ColemanD.C.OdumE.P.GroffmanP.M. (1986). Detritus food webs in conventional and no-tillage agroecosystems. BioScience 36, 374-380. DOI: 10.2307/1310259

JibrinM.O.LawalH.M.ChindoP.S. (2014). Influence of cover crops and tillage systems on nematode populations in a maize-cover crop intercrop. Archives of Phytopathology and Plant Protection 47, 703-710. DOI: 10.1080/03235408.2013.819654

JonesJ.T.HaegemanA.DanchinE.G.J.GaurH.S.HelderJ.JonesM.G.K.KikuchiT.Manzanilla-LópezR.Palomares-RiusJ.E.WesemaelW.M.L. (2013). Top 10 plant-parasitic nematodes in molecular plant pathology. Molecular Plant Pathology 14, 946-961. DOI: 10.1111/mpp.12057

KerryB.R. (2000). Rhizosphere interactions and the exploitation of microbial agents for the biological control of plant-parasitic nematodes. Annual Review of Phytopathology 38, 423-441.

KingB.A.TabernaJ.P. (2013). Site-specific management of Meloidogyne chitwoodi in Idaho potatoes using 1,3-dichloropropene; approach, experiences, and economics. Journal of Nematology 45, 202-213.

LankinenA.SmithH.G.AnderssonS.MadjidianJ.A. (2016). Selection on pollen and pistil traits during pollen competition is affected by both sexual conflict and mixed mating in a self-compatible herb. American Journal of Botany 103, 541-552. DOI: 10.3732/ajb.1500148

LeS.JosseJ.HussonF. (2008). FactoMineR: an R package for multivariate analysis. Journal of Statistical Software 25, 1-18. DOI: 10.18637/jss.v025.i01

LiX.DingC.LiuJ.ZhangT.WangX. (2015). Evident response of the soil nematode community to consecutive peanut monoculturing. Agronomy Journal 107, 195. DOI: 10.2134/agronj14.0257

MateilleT.TavoillotJ.MartinyB.FargetteM. (2014). Importance of soil characteristics for plant-parasitic nematode communities in European coastal foredunes. European Journal of Soil Biology 64, 53-60. DOI: 10.1016/j.ejsobi.2014.08.002

McSorleyR.GallaherR.N. (1993). Effect of crop rotation and tillage on nematode densities in tropical corn. Journal of Nematology 25, 814-819.

MintonN.A. (1986). Impact of conservation tillage on nematode populations. Journal of Nematology 18, 135.

NicolJ.M.TurnerS.J.CoyneD.L.den NijsL.HocklandS.MaafiZ.T. (2011). Current nematode threats to world agriculture. In: JonesJ.GheysenG.FenollC. (Eds). Genomics and molecular genetics of plant-nematode interactions. Dordrecht, The Netherlands, Springer, pp.  21-43.

OkadaH.HaradaH. (2007). Effects of tillage and fertilizer on nematode communities in a Japanese soybean field. Applied Soil Ecology 35, 582-598. DOI: 10.1016/j.apsoil.2006.09.008

Palomares-RiusJ.E.CastilloP.Montes-BorregoM.Navas-CortésJ.A.LandaB.B. (2015). Soil properties and olive cultivar determine the structure and diversity of plant-parasitic nematode communities infesting olive orchards soils in southern Spain. PLoS ONE 10, e0116890. DOI: 10.1371/journal.pone.0116890

ParmeleeR.W.AlstonD.G. (1986). Nematode trophic structure in conventional and no-tillage agroecosystems. Journal of Nematology 18, 403-407.

PeelM.C.FinlaysonB.L.McMahonT.A. (2007). Updated world map of the Köppen-Geiger climate classification. Hydrology and Earth System Sciences Discussions 4, 439-473.

PoeydebatC.TixierP.ChabrierC.de BellaireL.de L.VargasR.DariboM.-O.CarvalD. (2017). Does plant richness alter multitrophic soil food web and promote plant-parasitic nematode regulation in banana agroecosystems? Applied Soil Ecology 117, 137-146. DOI: 10.1016/j.apsoil.2017.04.017

PokharelR.MarahattaS.P.HandooZ.A.ChitwoodD.J. (2015). Nematode community structures in different deciduous tree fruits and grape in Colorado, USA and impact of organic peach and apple production practices. European Journal of Soil Biology 67, 59-68. DOI: 10.1016/j.ejsobi.2015.02.003

PongeJ.-F.PérèsG.GuernionM.Ruiz-CamachoN.CortetJ.PerninC.VillenaveC.ChaussodR.Martin-LaurentF.BispoA. (2013). The impact of agricultural practices on soil biota: a regional study. Soil Biology and Biochemistry 67, 271-284. DOI: 10.1016/j.soilbio.2013.08.026

PorazinskaD.L.DuncanL.W.McSorleyR.GrahamJ.H. (1999). Nematode communities as indicators of status and processes of a soil ecosystem influenced by agricultural management practices. Applied Soil Ecology 13, 69-86. DOI: 10.1016/S0929-1393(99)00018-9

QuistC.W.SchramaM.de HaanJ.J.SmantG.BakkerJ.van der PuttenW.H.HelderJ. (2016). Organic farming practices result in compositional shifts in nematode communities that exceed crop-related changes. Applied Soil Ecology 98, 254-260. DOI: 10.1016/j.apsoil.2015.10.022

R Core Team (2016). R: a language and environment for statistical computing. Vienna, Austria, R Foundation for Statistical Computing. URL https://www.R-project.org/.

RahmanL.ChanK.Y.HeenanD.P. (2007). Impact of tillage, stubble management and crop rotation on nematode populations in a long-term field experiment. Soil and Tillage Research 95, 110-119. DOI: 10.1016/j.still.2006.11.008

RenčoM.ČerevkováA.HomolováZ.GömöryováE. (2015). Long-term effects on soil nematode community structure in spruce forests of removing or not removing fallen trees after a windstorm. Forest Ecology and Management 356, 243-252. DOI: 10.1016/j.foreco.2015.07.008

Rodriguez-KabanaR.CurlE.A. (1980). Nontarget effects of pesticides on soilborne pathogens and disease. Annual Review of Phytopathology 18, 311-332. DOI: 10.1146/annurev.py.18.090180.001523

SchomakerC.H.BeenT.H. (1999). A model for infestation foci of potato cyst nematodes Globodera rostochiensis and G. pallida. Phytopathology 89, 583-590. DOI: 10.1094/PHYTO.1999.89.7.583

ShannonC.WeaverW. (1949). The mathematical theory of information. Champaign, IL, USA, University of Illinois Press.

SiddiqiM.R. (2000). Tylenchida parasites of plants and insects, 2nd edition. Wallingford, UK, CAB International.

SiddiquiZ.A.MahmoodI. (1996). Biological control of plant-parasitic nematodes by fungi: a review. Bioresource Technology 58, 229-239. DOI: 10.1016/S0960-8524(96)00122-8

SmileyR.W.MachadoS.GourlieJ.A.PritchettL.C.YanG.JacobsenE.E. (2013). Effects of crop rotations and tillage on Pratylenchus spp. in the semiarid Pacific northwest United States. Plant Disease 97, 537-546.

StirlingG.R.HalpinN.V.BellM.J.MoodyP.W. (2011). Impact of tillage and residues from rotation crops on the nematode community in soil and surface mulch during the following sugarcane crop. International Sugar Journal 113, 56-64.

UgarteC.M.ZaborskiE.R.WanderM.M. (2013). Nematode indicators as integrative measures of soil condition in organic cropping systems. Soil Biology and Biochemistry 64, 103-113. DOI: 10.1016/j.soilbio.2013.03.035

Van der PuttenW.H.Van der StoelC.D. (1998). Plant-parasitic nematodes and spatio-temporal variation in natural vegetation. Applied Soil Ecology 10, 253-262. DOI: 10.1016/S0929-1393(98)00124-3

VillenaveC.JimenezA.GuernionM.PérèsG.CluzeaD.MateilleT.MartinyB.FargetteM.TavoillotJ. (2013). Nematodes for soil quality monitoring: results from the RMQS BioDiv programme. Open Journal of Soil Science 3, 30-45. DOI: 10.4236/ojss.2013.31005

WallaceH.R. (1968). The dynamics of nematode movement. Annual Review of Phytopathology 6, 91-114. DOI: 10.1146/annurev.py.06.090168.000515

YeatesG.W. (2003). Nematodes as soil indicators: functional and biodiversity aspects. Biology and Fertility of Soils 37, 199-210. DOI: 10.1007/s00374-003-0586-5

YeatesG.W.BongersT. (1999). Nematode diversity in agroecosystems. Agriculture, Ecosystems & Environment 74, 113-135. DOI: 10.1016/S0167-8809(99)00033-X

ZhangZ.ZhangX.JhaoJ.ZhangX.LiangW. (2015). Tillage and rotation effects on community composition and metabolic footprints of soil nematodes in a black soil. European Journal of Soil Biology 66, 40-48. DOI: 10.1016/j.ejsobi.2014.11.006

ZhengG.D.ShiL.B.WuH.Y.PengD.L. (2012). Nematode communities in continuous tomato-cropping field soil infested by root-knot nematodes. Acta Agriculturae Scandinavica, Section B: Soil & Plant Science 62, 216-223. DOI: 10.1080/09064710.2011.598545

ZhongS.ZengH.JinZ. (2016). Response of soil nematode community composition and diversity to different crop rotations and tillage in the tropics. Applied Soil Ecology 107, 134-143. DOI: 10.1016/j.apsoil.2016.05.013

Figures

  • Projection of the modalities of environmental and anthropic variables summed over the 2012-2013 period using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). Arrows highlight opposite modalities from a same variable. The absolute contribution threshold to show the modalities of variables was 7.14. See also supplementary material Figure S2 for the visual display of the 2013 plant-parasitic nematode abundance as supplementary variables on this map.

    View in gallery
  • Projection of the modalities of environmental and anthropic variables summed over the 2013-2014 period using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). Arrows highlight opposite modalities from a same variable. The absolute contribution threshold to show the modalities of variables was 6.90. See also supplementary material Figure S6 for the visual display of 2014 plant-parasitic nematode abundance as supplementary variables on this map.

    View in gallery
  • Projection of the modalities of environmental and anthropic variables from 2013 using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). The absolute contribution threshold to show the modalities of variables was 7.14. The 2013 plant-parasitic nematode modalities of abundance were considered as supplementary variables within the analysis.

    View in gallery
  • Projection of the modalities of environmental and anthropic variables summed over the 2012-2013 period using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). The absolute contribution threshold to show the modalities of variables was 7.14. The 2013 plant-parasitic nematode modalities of abundance were considered as supplementary variables within the analysis.

    View in gallery
  • Projection of the modalities of environmental and anthropic variables summed over the 2011-2013 period using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). The absolute contribution threshold to show the modalities of variables was 6.90. The 2013 plant-parasitic nematode modalities of abundance were considered as supplementary variables within the analysis.

    View in gallery
  • Projection of the modalities of environmental and anthropic variables summed over the 2010-2013 period using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). The absolute contribution threshold to show the modalities of variables was 6.67. The 2013 plant-parasitic nematode modalities of abundance were considered as supplementary variables within the analysis.

    View in gallery
  • Projection of the modalities of environmental and anthropic variables from 2014 using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). The absolute contribution threshold to show the modalities of variables was 6.67. The 2014 plant-parasitic nematode modalities of abundance were considered as supplementary variables within the analysis.

    View in gallery
  • Projection of the modalities of environmental and anthropic variables summed over the 2013-2014 period using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). The absolute contribution threshold to show the modalities of variables was 6.90. The 2014 plant-parasitic nematode modalities of abundance were considered as supplementary variables within the analysis.

    View in gallery
  • Projection of the modalities of environmental and anthropic variables summed over the 2012-2014 period using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). The absolute contribution threshold to show the modalities of variables was 6.90. The 2014 plant-parasitic nematode modalities of abundance were considered as supplementary variables within the analysis.

    View in gallery
  • Projection of the modalities of environmental and anthropic variables summed over the 2011-2014 period using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). The absolute contribution threshold to show the modalities of variables was 6.67. The 2014 plant-parasitic nematode modalities of abundance were considered as supplementary variables within the analysis.

    View in gallery
  • Projection of the modalities of environmental and anthropic variables summed over the 2010-2014 period using MCA (see Table 1 for abbreviations and Table S1 for classes’ limits and values). The absolute contribution threshold to show the modalities of variables was 6.67. The 2014 plant-parasitic nematode modalities of abundance were considered as supplementary variables within the analysis.

    View in gallery

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