Publications
2021
Bulteel, L., Houwenhuyse, S., Declerck, S. A. J., & Decaestecker, E. (2021). The role of microbiome and genotype in Daphnia magna upon parasite re-exposure. Genes, 12(1), [70]. https://doi.org/10.3390/genes120100702020
Paseka, R., White, L., Van de Waal, D., Strauss, A., González, A., Everett, R., Peace, A., Seabloom, E. W., Frenken, T., & Borer, E. T. (2020). Disease-mediated ecosystem services: Pathogens, plants, and people. Trends in Ecology and Evolution, 35(8), 731-743. https://doi.org/10.1016/j.tree.2020.04.003Reyershove, L., Bulteel, J., Liu, J., Souffreau, C., Brans, K. I., Engelen, J. M. T., De Meester, L., Hendrickx, F., Muylaert, K., Declerck, S. A. J., & Decaestecker, E. (2020). Food nutrient availability affects epibiont prevalence and richness in natural Daphnia populations. Limnology and Oceanography, in press. https://doi.org/10.1002/lno.11469Carneiro, D., Czirják, G. Á., & Rowe, M. (2020). Innate and adaptive immune proteins in the preen gland secretions of male house sparrows. Journal of Avian Biology, 51(11). https://doi.org/10.1111/jav.02556Wilschut, R., Magnée, K. J. H., Geisen, S., van der Putten, W. H., & Kostenko, O. (2020). Plant population and soil origin effects on rhizosphere nematode community composition of a range-expanding plant species and a native congener. Oecologia, 194, 237-250. https://doi.org/10.1007/s00442-020-04749-yXiong, W., Song, Y., Yang, K., Gu, Y., Wei, Z., Kowalchuk, G. A., Xu, Y., Jousset, A., Shen, Q., & Geisen, S. (2020). Rhizosphere protists are key determinants of plant health. Microbiome, 8(1). https://doi.org/10.1186/s40168-020-00799-9Taparia, T., Krijger, M., Hodgetts, J., Hendriks, M., Elphinstone, J. G., & van der Wolf, J. (2020). Six Multiplex TaqManTM-qPCR Assays for Quantitative Diagnostics of Pseudomonas Species Causative of Bacterial Blotch Diseases of Mushrooms. Frontiers in Microbiology, 11, 989. https://doi.org/10.3389/fmicb.2020.00989Clocchiatti, A., Hannula, E., Van den Berg, M., Korthals, G., & De Boer, W. (2020). The hidden potential of saprotrophic fungi in arable soil: patterns of short-term stimulation by organic amendments. Applied Soil Ecology, 147, [103434]. https://doi.org/10.1016/j.apsoil.2019.103434Frenken, T., Miki, T., Kagami, M., Van de Waal, D. B., Van Donk, E., Rohrlack, T., & Gsell, A. S. (2020). The potential of zooplankton in constraining chytrid epidemics in phytoplankton hosts. Ecology, 101(1), [e02900]. https://doi.org/10.1002/ecy.2900Frenken, T., Brussaard, C. P. D., Velthuis, M., Aben, R. C., Kazanjian, G., Hilt, S., Kosten, S., Peeters, E. T. H. M., de Senerpont Domis, L., Stephan, S., van Donk, E., & Van de Waal, D. (2020). Warming advances virus population dynamics in a temperate freshwater plankton community. Limnology & Oceanography Letters, 5(4), 295-304. https://doi.org/10.1002/lol2.101602019
Cheng, K., Frenken, T., Brussaard, C. P. D., & Van de Waal, D. B. (2019). Cyanophage Propagation in the Freshwater Cyanobacterium Phormidium Is Constrained by Phosphorus Limitation and Enhanced by Elevated pCO2. Frontiers in Microbiology, 10, [617]. https://doi.org/10.3389/fmicb.2019.00617Zwart, M., Ali, G., van Strien, E. A., Schijlen, E. G. W. M., van der Werf, W., Vlak, J. M., & Wang, M. (2019). Identification of loci associated with enhanced virulence in Spodoptera litura nucleopolyhedrovirus isolates using a deep sequencing approach. Viruses, 11(9), [872]. https://doi.org/10.3390/v11090872Ampt, E. A., van Ruijven, J., Raaijmakers, J. M., Termorshuizen, A. J., & Mommer, L. (2019). Linking ecology and plant pathology to unravel the importance of soil-borne fungal pathogens in species-rich grasslands. European Journal of Plant Pathology, 154(1), 141-156. https://doi.org/10.1007/s10658-018-1573-xThakur, M. P., van der Putten, W. H., Cobben, M. M. P., Van Kleunen, M., & Geisen, S. (2019). Microbial invasions in terrestrial ecosystems. Nature Reviews Microbiology, Online, 621-631. https://doi.org/10.1038/s41579-019-0236-zDe Boer, W., Li, X. G., Meisner, A., & Garbeva, P. V. (2019). Pathogen suppression by microbial volatile organic compounds in soils. FEMS Microbiology Ecology, 95(8), [fiz105]. https://doi.org/10.1093/femsec/fiz105Wilschut, R. A., van der Putten, W. H., Garbeva, P. V., Harkes, P., Konings, W., Kulkarni, P., Martens, H. J., & Geisen, S. (2019). Root traits and belowground herbivores relate to plant-soil feedback variation among congeners. Nature Communications, 10, [1564(2019)]. https://doi.org/10.1038/s41467-019-09615-x2018
Trusch, F., Loebach, L., Wawra, S., Durward, E., Wuensch, A., Iberahim, N. A., De Bruijn, I., MacKenzie, K., Willems, A., Toloczkoa, A., Diéguez-Uribeondo, J., Rasmussen, T., Schraderf, T., Bayer, P., Secombes, C. J., & van West, P. (2018). Cell entry of a host-targeting protein of oomycetes requires gp96. Nature Communications, 9, [2347]. https://doi.org/10.1038/s41467-018-04796-3De Bruijn, I., & Verhoeven, K. J. F. (2018). Cross-species interference of gene expression: Comment. Nature Communications, 9, [5019]. https://doi.org/10.1038/s41467-018-07353-0de Bruijn, I., Liu, Y., Wiegertjes, G. F., & Raaijmakers, J. M. (2018). Exploring fish microbial communities to mitigate emerging diseases in aquaculture. FEMS Microbiology Ecology, 94(1), [fix161]. https://doi.org/10.1093/femsec/fix161Frenken, T., Wierenga, J. H. W., van Donk, E., Declerck, S. A. J., de Senerpont Domis, L., Rohrlack, T., & Van de Waal, D. B. (2018). Fungal parasites of a toxic inedible cyanobacterium provide food to zooplankton. Limnology and Oceanography, 63(6), 2384-2393. https://doi.org/10.1002/lno.10945Al-Jubury, A., lu, C., Walter Kania, P., von Gersdorff Jørgensen, L., Liu, Y., De Bruijn, I., Raaijmakers, J. M., & Buchman, K. (2018). Impact of Pseudomonas H6 surfactant on all external life cycle stages of the fish parasitic ciliate Ichthyophthirius multifiliis. Journal of Fish Diseases, 41(7), 1147-1152. https://doi.org/10.1111/jfd.12810Geisen, S., Snoek, B., Ten Hooven, F. C., Duyts, H., Kostenko, O., Bloem, J., Martens, H. J., Quist, C. W., Helder, J., & van der Putten, W. H. (2018). Integrating quantitative morphological and qualitative molecular methods to analyse soil nematode community responses to plant range expansion. Methods in Ecology and Evolution, 9(6), 1366-1378. https://doi.org/10.1111/2041-210X.12999Poen, M. J., Bestebroer, T. M., Vuong, O., Scheuer, R. D., van der Jeugd, H. P., Kleyheeg, E., Eggink, D., Lexmond, P., van den Brand, J. M. A., Begeman, L., van der Vliet, S., Müskens, G. J. D. M., Majoor, F. A., Koopmans, M. P. G., Kuiken, T., & Fouchier, R. A. M. (2018). Local amplification of highly pathogenic avian influenza H5N8 viruses in wild birds in the Netherlands, 2016 to 2017. Eurosurveillance, 23(4), [25]. https://doi.org/10.2807/1560-7917.ES.2018.23.4.17-00449Martínez-García, L. B., Korthals, G. W., Brussaard, L., Jørgensen, H. B., & De Deyn, G. B. (2018). Organic management and cover crop species steer soil microbial community structure and functionality along with soil organic matter properties. Agriculture, Ecosystems and Environment, 263. https://doi.org/10.1016/j.agee.2018.04.018Wubs, J., & Bezemer, T. M. (2018). Plant community evenness responds to spatial plant-soil feedback heterogeneity primarily through the diversity of soil conditioning. Functional Ecology, 32(2), 509-521. https://doi.org/10.1111/1365-2435.13017Robinson, A., Busula, A. O., Voets, M. A., Beshir, K. B., Caulfield, J. C., Powers, S. J., Verhulst, N. O., Winskill, P., Muwanguzi, J., Birkett, M. A., Smallegange, R. C., Masiga, D. K., Mukabana, W. R., Sauerwein, R. W., Sutherland, C. J., Bousema, T., Pickett, J. A., Takken, W., Logan, J. G., & de Boer, J. G. (2018). Plasmodium-associated changes in human odor attract mosquitoes. Proceedings of the National Academy of Sciences of the United States of America, 115(18), E4209-E4218. https://doi.org/10.1073/pnas.1721610115Kurm, V., van der Putten, W. H., Pineda, A. M., & Hol, W. H. G. (2018). Soil microbial species loss affects plant biomass and survival of an introduced bacterial strain, but not inducible plant defences. Annals of Botany, 121(12), 311-319. [mcx162]. https://doi.org/10.1093/aob/mcx162Wubs, J., & Bezemer, T. M. (2018). Temporal carry-over effects in sequential plant-soil feedbacks. Oikos, 127(2), 220-229. https://doi.org/10.1111/oik.04526Lisovski, S., Van Dijk, J. G. B., Klinkenberg, D., Nolet, B. A., Fouchier, R. A. M., & Klaassen, M. (2018). The roles of migratory and resident birds in local avian influenza infection dynamics. Journal of Applied Ecology, 55(6), 2963-2975. https://doi.org/10.1111/1365-2664.13154Van Agtmaal, M., Straathof, A. L., Termorshuizen, A. J., Lievens, B., Hoffland, E., & De Boer, W. (2018). Volatile-mediated suppression of plant pathogens is related to soil properties and microbial community composition. Soil Biology & Biochemistry, 164-174. https://doi.org/10.1016/j.soilbio.2017.11.0152017
Frenken, T., Wierenga, J., Gsell, A. S., van Donk, E., Rohrlack, T., & Van de Waal, D. B. (2017). Changes in N:P Supply Ratios affect the Ecological Stoichiometry of a Toxic Cyanobacterium and its Fungal Parasite. Frontiers in Microbiology, 8, [1015]. https://doi.org/10.3389/fmicb.2017.01015Cheng, K., Van de Waal, D. B., Niu, X. Y., & Zhao, Y. J. (2017). Combined Effects of Elevated pCO2 and Warming Facilitate Cyanophage Infections. Frontiers in Microbiology, 8, [fmicb.2017.01096]. https://doi.org/10.3389/fmicb.2017.01096Buitenhuis, R., Harvey, J. A., Vet, L. E. M., Boivin, G., & Brodeur, J. (2017). Comparing and contrasting life history variation in four aphid hyperparasitoids. Ecological Entomology, 42(3), 325-335. https://doi.org/10.1111/een.12390Gómez Expósito, R., De Bruijn, I., Postma, J., & Raaijmakers, J. M. (2017). Current insights into the role of rhizosphere bacteria in disease suppressive soils. Frontiers in Microbiology, [2529]. https://doi.org/10.3389/fmicb.2017.02529Kleyheeg, E., Slaterus, R., Bodewes, R., Rijks, J. M., Spierenburg, M. A. H., Beerens, N., Kelder, L., Poen, M. J., Stegeman, J. A., Fouchier, R. A. M., Kuiken, T., & Jeugd, H. P. V. D. (2017). Deaths among Wild Birds during Highly Pathogenic Avian Influenza A(H5N8) Virus Outbreak, the Netherlands. Emerging Infectious Diseases, 23(12), 2050-2054. https://doi.org/10.3201/eid2312.171086Van Agtmaal, M., Straathof, A. L., Termorshuizen, A. J., Teurlincx, S., Hundscheid, M. P. J., Ruyters, S., Busschaert, P., Lievens, B., & De Boer, W. (2017). Exploring the reservoir of potential fungal plant pathogens in agricultural soil. Applied Soil Ecology, 121, 152-160. https://doi.org/10.1016/j.apsoil.2017.09.032Marinov, M. P., Zehtindjiev, P., Dimitrov, D., Ilieva, M., Bobeva, A., & Marchetti, C. M. (2017). Haemosporidian infections and host behavioural variation: a case study on wild-caught nightingales (Luscinia megarhynchos). Ethology Ecology and Evolution, 29(2), 126-137. https://doi.org/10.1080/03949370.2015.1102776Harvey, J. A., Essens, T., Las, R., van Veen, C., Visser, B., Ellers, J., Heinen, R., & Gols, R. (2017). Honey and honey-based sugars partially affect reproductive trade-offs in parasitoids exhibiting different life-history and reproductive strategies. Journal of Insect Physiology, 98(April), 134-140. https://doi.org/10.1016/j.jinsphys.2016.12.003Heylen, D. J. A., Sprong, H., Krawczyk, A., Van Houtte, N., Genné, D., Gomez-Chamorro, A., van Oers, K., & Voordouw, M. J. (2017). Inefficient co-feeding transmission of Borrelia afzelii in two common European songbirds. Scientific Reports, 7, [39596]. https://doi.org/10.1038/srep39596Frenken, T., Alacid, E., Berger, S. A., Bourne, E. C., Gerphagnon, M., Grossart, H-P., Gsell, A. S., Ibelings, B. W., Kagami, M., Küpper, F. C., Letcher, P. M., Loyau, A., Miki, T., Nejstgaard, J. C., Rasconi, S., Reñé, A., Rohrlack, T., Rojas-Jimenez, K., Schmeller, D. S.,... Agha, R. (2017). Integrating chytrid fungal parasites into plankton ecology: research gaps and needs. Environmental Microbiology, 19(10), 3802-3822. https://doi.org/10.1111/1462-2920.13827Marinov, M. P., Marchetti, C., Dimitrov, D., Ilieva, M., & Zehtindjiev, P. (2017). Mixed haemosporidian infections are associated with higher fearfulness in Yellow Wagtail (Motacilla flava). Canadian Journal of Zoology, 95(6), 405-410. https://doi.org/10.1139/cjz-2016-0121Kleyheeg, E., Treep, J., de Jager, M., Nolet, B. A., & Soons, M. B. (2017). Seed dispersal distributions resulting from landscape-dependent daily movement behavior of a key vector species, Anas platyrhynchos. Journal of Ecology, 105(5), 1279-1289. https://doi.org/10.1111/1365-2745.12738Geisen, S., Mitchell, E. A. D., Wilkinson, D. M., Adl, S., Bonkowski, M., Brown, M. W., Fiore-donno, A. M., Heger, T. J., Jassey, V. E. J., Krashevska, V., Lahr, D. J. G., Marcisz, K., Mulot, M., Payne, R., Singer, D., Anderson, O. R., Charman, D. J., Ekelund, F., Griffiths, B. S.,... Lara, E. (2017). Soil protistology rebooted: 30 fundamental questions to start with. Soil Biology & Biochemistry, 111, 94-103. https://doi.org/10.1016/j.soilbio.2017.04.001De Boer, W. (2017). Upscaling of fungal-bacterial interactions: from the lab to the field. Current Opinion in Microbiology, 37, 35-41. https://doi.org/10.1016/j.mib.2017.03.007Cadar, D., Lühken, R., van der Jeugd, H., Garigliany, M., Ziegler, U., Keller, M., Lahoreau, J., Lachmann, L., Becker, N., Kik, M., Oude Munnink, B. B., Bosch, S., Tannich, E., Linden, A., Schmidt, V., Koopmans, M. P., Rijks, J., Desmecht, D., Groschup, M. H.,... Schmidt-Chanasit, J. (2017). Widespread activity of multiple lineages of Usutu virus, western Europe, 2016. Eurosurveillance, 22(4), [30452]. https://doi.org/10.2807/1560-7917.ES.2017.22.4.304522016
Bosmans, L., De Bruijn, I., de Mot, R., Readers, H., & Lievens, B. (2016). Agar composition affects in vitro screening of biocontrol activity of antagonistic microorganisms. Journal of Microbiological Methods, 127, 7-9. https://doi.org/10.1016/j.mimet.2016.05.004Rall, B. C., & Latz, E. (2016). Analyzing pathogen suppressiveness in bioassays with natural soils using integrative maximum likelihood methods in R. PeerJ, 4, e2615. https://doi.org/10.7717/peerj.2615Dignam, B. E. A., O'Callaghan, M., Condron, L. M., Raaijmakers, J. M., Kowalchuk, G. A., & Wakelin, S. A. (2016). Challenges and opportunities in harnessing soil disease suppressiveness for sustainable pasture production. Soil Biology & Biochemistry, 95(April), 100-111. https://doi.org/10.1016/j.soilbio.2015.12.006Benelli, G., Daane, K. M., Soler, R., & Stoekl, J. (2016). Chemical Ecology of Parasitic Hymenoptera. BioMed Research International. https://doi.org/10.1155/2016/4298150Harvey, J. A., Fei, M., Lammers, M., Kos, M., Zhu, F., Heinen, R., Poelman, E. H., & Gols, R. (2016). Development of a solitary koinobiont hyperparasitoid in different instars of its primary and secondary hosts. Journal of Insect Physiology, 90, 36-42. https://doi.org/10.1016/j.jinsphys.2016.05.006Hajirajabi, N., Fazel, M. M., Harvey, J. A., Arbab, A., & Asgari, S. (2016). Dietary sugars and proline influence biological parameters of adult Trissolcus grandis, an egg parasitoid of Sunn pest, Eurygaster integriceps. Biological Control, 96, 21-27. https://doi.org/10.1016/j.biocontrol.2016.01.009Ode, P. J., Harvey, J. A., Reichelt, M., Gershenzon, J., & Gols, R. (2016). Differential induction of plant chemical defenses by parasitized and unparasitized herbivores: consequences for reciprocal, multitrophic interactions. Oikos, 125(10), 1398-1407. https://doi.org/10.1111/oik.03076Visser, B., Le Lann, C., Snaas, H., Verdeny-Vilalta, O., & Harvey, J. A. (2016). Divergent life history strategies in congeneric hyperparasitoids. Evolutionary Ecology, 30(3), 535-549. https://doi.org/10.1007/s10682-016-9819-6Liu, Y., Zachow, C., Raaijmakers, J. M., & De Bruijn, I. (2016). Elucidating the diversity of aquatic Microdochium and Trichoderma species and their activity against the fish pathogen Saprolegnia diclina. International Journal of Molecular Sciences, 17, [140]. https://doi.org/10.3390/ijms17010140Hoye, B. J., Munster, V. J., Huig, N., de Vries, P., Oosterbeek, K., Tijsen, W., Klaassen, M. R. J., Fouchier, R. A. M., & van Gils, J. A. (2016). Hampered performance of migratory swans: intra- and inter-seasonal effects of avian influenza virus. Integrative and Comparative Biology, 56(2), 317-329. https://doi.org/10.1093/icb/icw038Pekas, A., Tena, A., Harvey, J. A., Garcia-Mari, F., & Frago, E. (2016). Host size and spatiotemporal patterns mediate the coexistence of specialist parasitoids. Ecology, 97(5), 1345-1356. https://doi.org/10.1890/15-0118.1Flury, P., Aellen, N., Ruffner, B., Pechy-Tarr, M., Fataar, S., Metla, Z., Dominguez-Ferreras, A., Bloemberg, G., Frey, J., Goesmann, A., Raaijmakers, J. M., Duffy, B., Hofte, M., Blom, J., Smits, T. H. M., Keel, C., & Maurhofer, M. (2016). Insect pathogenicity in plant-beneficial pseudomonads: phylogenetic distribution and comparative genomics. ISME Journal, 10, 2527-2542. https://doi.org/10.1038/ismej.2016.5Poen, M. J., Verhagen, J. H., Manvell, R. J., Brown, I., Besteboer, T. M., van der Vliet, S., Vuong, O., Scheuer, R. D., van der Jeugd, H. P., Nolet, B. A., Kleyheeg, E., Müskens, G. J. D. M., Majoor, F., Grund, C., & Fouchier, R. A. M. (2016). Lack of virological and serological evidence for continued circulation of highly pathogenic avian influenza H5N8 virus in wild birds in the Netherlands, 14 November 2014 to 31 January 2016. Eurosurveillance, 21(38), [pii=30349]. https://doi.org/10.2807/1560-7917.ES.2016.21.38.30349Harvey, J. A., & Malčická, M. (2016). Nutritional integration between insect hosts and koinobiont parasitoids in an evolutionary framework. Entomologia Experimentalis et Applicata, 159(2), 181-188. https://doi.org/10.1111/eea.12426Biere, A., & Goverse, A. (2016). Plant-mediated systemic interactions between pathogens, parasitic nematodes, and herbivores above- and belowground. Annual Review of Phytopathology, 54 , 499-527. https://doi.org/10.1146/annurev-phyto-080615-100245Fei, M., Gols, R., Zhu, F., & Harvey, J. A. (2016). Plant quantity affects development and survival of a gregarious insect herbivore and its endoparasitoid wasp. PLoS One, 11(3), [ e0149539]. https://doi.org/10.1371/journal.pone.0149539Ballhausen, M-B., & De Boer, W. (2016). The sapro-rhizosphere: Carbon flow from saprotrophic fungi into fungus-feeding bacteria. Soil Biology & Biochemistry, 102(November), 14-17. https://doi.org/10.1016/j.soilbio.2016.06.014Geisen, S., Koller, R., Huenninghaus, M., Dumack, K., Urich, T., & Bonkowski, M. (2016). The soil food web revisited: Diverse and widespread mycophagous soil protists. Soil Biology & Biochemistry, 94, 10-18. https://doi.org/10.1016/j.soilbio.2015.11.010Geisen, S. (2016). Thorough high-throughput sequencing analyses unravels huge diversities of soil parasitic protists. Environmental Microbiology, 18(6), 1669-1672. https://doi.org/10.1111/1462-2920.13309Ballhausen, M-B., Vandamme, P., & De Boer, W. (2016). Trait differentiation within the fungus-feeding (mycophagous) bacterial genus Collimonas. PLoS One, 11(6), [e0157552]. https://doi.org/10.1371/journal.pone.0157552Frenken, T., Velthuis, M., De Senerpont Domis, L., Stephan, S., Aben, R. C., Kosten, S., van Donk, E., & Van de Waal, D. B. (2016). Warming accelerates termination of a phytoplankton spring bloom by fungal parasites. Global Change Biology, 22(1), 299-309. https://doi.org/10.1111/gcb.13095Magdaraog, P. M., Tanaka, T., & Harvey, J. A. (2016). WASP-ASSOCIATED FACTORS ACT IN INTERSPECIES COMPETITION DURING MULTIPARASITISM. Archives of Insect Biochemistry and Physiology, 92(2), 87-107. https://doi.org/10.1002/arch.21321Rijks, J., Kik, M., Slaterus, R., Foppen, R., Stroo, A., Ijzer, J., Stahl, J., Gröne, A., Koopmans, M., van der Jeugd, H. P., & Reusken, C. (2016). Widespread Usutu virus outbreak in birds in the Netherlands, 2016. Eurosurveillance, 21(45), [30391]. https://doi.org/10.2807/1560-7917.ES.2016.21.45.30391
