1. 2017
  2. Priming of soil organic matter: Chemical structure of added compounds is more important than the energy content

    Di Lonardo, P., De Boer, W., Klein Gunnewiek, P. J. A., Hannula, S. E. & Van der Wal, A., May 2017, In : Soil Biology & Biochemistry. 108, p. 41-54 14 p.

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  3. 2014
  4. Volatile-mediated interactions between phylogenetically different soil bacteria

    Garbeva, P. V., Hordijk, C. A., Gerards, S. & De Boer, W., 2014, In : Frontiers in Microbiology. 5, p. 289

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  5. Volatiles produced by the mycophagous soil bacterium Collimonas

    Garbeva, P. V., Hordijk, C. A., Gerards, S. & De Boer, W., 2014, In : FEMS Microbiology Ecology. 87, 3, p. 639-649

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  6. 2013
  7. Acidobacterial community responses to agricultural management of soybean in Amazon forest soils

    Navarrete, A. A., Kuramae, E. E., De Hollander, M., Pijl, A. S., Van Veen, J. A. & Tsai, S. M., 2013, In : FEMS Microbiology Ecology. 83, 3, p. 607-621

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  8. Heterodera schachtii nematodes interfere with aphid-plant relations on Brassica oleracea

    Hol, W. H. G., De Boer, W., Termorshuizen, A. J., Meyer, K. M., Schneider, J. H. M., Van der Putten, W. H. & Van Dam, N. M., 2013, In : Journal of Chemical Ecology. 39, 9, p. 1193-1203

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  9. Impacts of 3 years of elevated atmospheric CO2 on rhizosphere carbon flow and microbial community dynamics

    Drigo, B., Kowalchuk, G. A., Knapp, B. A., Pijl, A. S., Boschker, H. T. S. & Van Veen, J. A., 2013, In : Global Change Biology. 19, 2, p. 621-636

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  10. Rhizosphere Responses to Elevated CO2

    Drigo, B. & Kowalchuk, G. A., 2013, Molecular Microbial Ecology of The Rhizosphere. de Bruijn, F. J. (ed.). Wiley-Blackwell, p. 1063-1074 Chap 100

    Research output: Chapter in book/volumeChapterScientific

  11. Stimulation of Rhizosphere Microbial Communities During Chemophytostabilization of a Pb–Zn Mine Soil

    Galenda, M. A., Epelde, L., Gomez-Sagasti, M. T., Barrutia, J. M., Hernandez, A., Becerril, J. M., Kowalchuk, G. A. & Garbiscu, C., 2013, Molecular Microbial Ecology of The Rhizosphere. de Bruijn, F. J. (ed.). Wiley-Blackwell, p. 1013-1022 Chap 95

    Research output: Chapter in book/volumeChapterScientific

  12. 2012
  13. Acidicapsa borealis gen. nov., sp. nov. and Acidicapsa ligni sp. nov., subdivision 1 Acidobacteria from Sphagnum peat and decaying wood

    Kulichevskaya, I. S., Kostina, L. A., Valášková, V., Rijpstra, I. C., Sinninghe Damsté, J. S., De Boer, W. & Dedysh, S. N., 2012, In : International Journal of Systematic and Evolutionary Microbiology. 62, PT_7, p. 1512-1520

    Research output: Contribution to journal/periodicalArticleScientific

  14. A comparison of rpoB and 16S rRNA as markers in pyrosequencing studies of bacterial diversity

    Vos, M., Quince, C., Pijl, A. S., De Hollander, M. & Kowalchuk, G. A., 2012, In : PLoS One. 7, 2, e30600.

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  15. Community patterns of soil bacteria and nematodes in relation to geographic distance

    Monroy, F., Van der Putten, W. H., Yergeau, E., Mortimer, S. R., Duyts, H. & Bezemer, T. M., 2012, In : Soil Biology & Biochemistry. 45, p. 1-7

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  16. Links between pseudometallophytes and rhizosphere microbial communities in a metalliferous soil

    Epelde, L., Becerril, J. M., Blanco, F., Kowalchuk, G. A. & Garbisu, C., 2012, In : Pedobiologia. 55, 4, p. 219-225

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  17. Microbiology of the phyllosphere: a playground for testing ecological concepts

    Meyer, K. M. & Leveau, J. H. J., 2012, In : Oecologia. 168, 3, p. 621-629

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  18. New strategies for the accurate identification and detection of plant pathogens

    Van Doorn, R., 2012, Amsterdam: Vrije Universiteit.

    Research output: PhD ThesisPhD thesisScientific

  19. Pyrrolizidine alkaloid composition in the plant and its interaction with the soil microbial community

    Joosten, L., 2012, Leiden: Leiden University.

    Research output: PhD ThesisPhD thesisScientific

  20. Shifts in soil microorganisms in response to warming are consistent across a range of Antarctic environments

    Yergeau, E., Bokhorst, S. F., Kang, S., Zhou, J., Greer, C. W., Aerts, R. & Kowalchuk, G. A., 2012, In : ISME Journal. 6, 3, p. 692-702

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  21. Testing Potential Effects of Maize Expressing the Bacillus thuringiensis Cry1Ab Endotoxin (Bt Maize) on Mycorrhizal Fungal Communities via DNA- and RNA-Based Pyrosequencing and Molecular Fingerprinting

    Verbruggen, E., Kuramae, E. E., Hillekens, R. H. E., De Hollander, M., Kiers, E. T., Roling, W. F. M., Kowalchuk, G. A. & Van der Heijden, M. G. A., 2012, In : Applied and Environmental Microbiology. 78, 20, p. 7384-7392

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  22. Testing the paradox of enrichment along a land use gradient in a multitrophic aboveground and belowground community

    Meyer, K. M., Vos, M., Mooij, W. M., Hol, W. H. G., Termorshuizen, A. J. & Van der Putten, W. H., 2012, In : PLoS One. 7, 11, e49034.

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  23. 2011
  24. An EST-based analysis identifies new genes and reveals distinctive gene expression features of Coffea arabica and Coffea canephora

    Mondego, J. M. C., Vidal, R. O., Carazzolle, M. F., Tokuda, E. K., Parizzi, L. P., Costa, G. G. L., Pereira, L. F. P., Andrade, A. C., Colombo, C. A., Vieira, L. G. E., Pereira, G. A. G. & Kuramae, E. E., 2011, In : BMC Plant Biology. 11, p. 30

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  25. Defensive properties of pyrrolizidine alkaloids against microorganisms

    Joosten, L. & Van Veen, J. A., 2011, In : Phytochemistry Reviews. 10, 1, p. 127-136

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  26. Effects of jasmonic acid, ethylene, and salicylic acid signaling on the rhizosphere bacterial community of Arabidopsis thaliana.

    Doornbos, R. F., Geraats, B. P. J., Kuramae, E. E., van Loon, L. C. & Bakker, P., 2011, In : Molecular Plant-Microbe Interactions. 24, 4, p. 395-407

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  27. Idiosyncrasy in ecology - what's in a word?

    Hol, W. H. G., Meyer, K. M. & Van der Putten, W. H., 2011, In : Frontiers in Ecology and the Environment. 9, 8, p. 431-433

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  28. Soil and plant factors driving the community of soil-borne microorganisms across chronosequences of secondary succession of chalk grasslands with neutral pH

    Kuramae, E. E., Gamper, H. A., Van Veen, J. A. & Kowalchuk, G. A., 2011, In : FEMS Microbiology Ecology. 77, 2, p. 285-294

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  29. The genotype dependent presence of pyrrolizidine alkaloids as tertiary amine in Jacobaea vulgaris

    Joosten, L., Chenga, D., Mulder, P. P. J., Vrieling, K., Van Veen, J. A. & Klinkhamer, P. G. L., 2011, In : Phytochemistry. 72, 2-3, p. 214-222

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  30. 2010
  31. Comparing arbuscular mycorrhizal communities of individual plants in a grassland biodiversity experiment

    Van de Voorde, T. F. J., Van der Putten, W. H., Gamper, H. A., Hol, W. H. G. & Bezemer, T. M., 2010, In : New Phytologist. 186, 3, p. 746-754

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  32. Disentangling drivers of parasitoid foraging behaviour in structured plant communities

    Van Waveren, C-S., Meyer, K. M., Wiegand, K. & Bezemer, T. M., 2010.

    Research output: Contribution to conferencePaperScientific

  33. Impact of metal pollution and Thlaspi caerulescens growth on soil microbial communities

    Epelde, L., Becerril, J. M., Kowalchuk, G. A., Deng, Y., Zhou, J. N. & Garbisu, C., 2010, In : Applied and Environmental Microbiology. 76, 23, p. 7843-7853

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  34. Influences of space, soil, nematodes and plants on microbial community composition of chalk grassland soils

    Yergeau, E., Bezemer, T. M., Hedlund, K., Mortimer, S. R., Kowalchuk, G. A. & Van der Putten, W. H., 2010, In : Environmental Microbiology. 12, 8, p. 2096-2106

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  35. Mechanism of antibacterial activity of the white-rot fungus Hypholoma fasciculare colonizing wood

    De Boer, W., Folman, L. B., Klein Gunnewiek, P. J. A., Svensson, T., Bastviken, D., Oberg, G., Del Rio, J. C. & Boddy, L., 2010, In : Canadian Journal of Microbiology. 56, 5, p. 380-388

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  36. Microbial secondary succession in a chronosequence of chalk grasslands

    Kuramae, E. E., Gamper, H. A., Yergeau, E., Piceno, Y. M., Brodie, E. L., DeSantis, T. Z., Andersen, G. L., Van Veen, J. A. & Kowalchuk, G. A., 2010, In : ISME Journal. 4, 5, p. 711-715

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  37. Molecular trait indicators: Moving beyond phylogeny in arbuscular mycorrhizal ecology

    Gamper, H. A., van der Heijden, M. & Kowalchuk, G. A., 2010, In : New Phytologist. 185, 1, p. 67-82

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  38. Patterns of Fusarium community structure and abundance in relation to spatial, abiotic and biotic factors in soil

    Yergeau, E., Labour, K., Hamel, C., Vujanovic, V., Nakano-Hylander, A., Jeannotte, R. & St-Arnaud, M., 2010, In : FEMS Microbiology Ecology. 71, 1, p. 34-42

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  39. Phylogenetic and metagenomic analysis of Verrucomicrobia in former agricultural grassland soil

    Kielak, A. M., Rodrigues, J. L. M., Kuramae, E. E., Chain, P. S. G., Van Veen, J. A. & Kowalchuk, G. A., 2010, In : FEMS Microbiology Ecology. 71, 1, p. 23-33

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  40. Positive effects of organic farming on below-ground mutualists: large-scale comparison of mycorrhizal fungal communities in agricultural soils

    Verbruggen, E., Röling, W. F. M., Gamper, H. A., Kowalchuk, G. A., Verhoef, H. A. & van der Heijden, M., 2010, In : New Phytologist. 186, 4, p. 968-979

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  41. Predicting population and community dynamics - the type of aggregation matters

    Meyer, K. M., Schiffers, K., Münkemüller, T., Schädler, M., Calabrese, J., Basset, A., Breulmann, M., Duquesne, S., Hidding, B., Huth, A., Schöb, C. & Van de Voorde, T. F. J., 2010, In : Basic and Applied Ecology. 11, 7, p. 563-571

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  42. Reduction of rare soil microbes modifies plant-herbivore interactions

    Hol, W. H. G., De Boer, W., Termorshuizen, A. J., Meyer, K. M., Schneider, J. H. M., Van Dam, N. M., Van Veen, J. A. & Van der Putten, W. H., 2010, In : Ecology Letters. 13, 3, p. 292-301

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  43. Shifting carbon flow from roots into associated microbial communities in response to elevated atmospheric CO2

    Drigo, B., Pijl, A. S., Duyts, H., Kielak, A. M., Gamper, H. A., Houtekamer, M. J., Boschker, H. T. S., Bodelier, P. L. E., Whiteley, A. S., Van Veen, J. A. & Kowalchuk, G. A., 2010, In : Proceedings of the National Academy of Sciences of the United States of America. 107, 24, p. 10938-10942

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  44. The analysis of pyrrolizidine alkaloids in Jacobaea vulgaris; a comparison of extraction and detection methods

    Joosten, L., Mulder, P. P. J., Vrieling, K., Van Veen, J. A. & Klinkhamer, P. G. L., 2010, In : Phytochemical Analysis. 21, 2, p. 197-204

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  45. Understanding the physiology of Lactobacillus plantarum at zero growth

    Goffin, P., van de Bunt, B., Giovane, M., Leveau, J. H. J., Höppener-Ogawa, S., Teusink, B. & Hugenholtz, J., 2010, In : Molecular Systems Biology. 6, p. 413

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  46. 2009
  47. Accurate quantification of microorganisms in PCR-inhibiting environmental DNA extracts by a novel Internal Amplification Control approach using Biotrove OpenArrays

    Van Doorn, R., Klerks, M., van Gent-Pelzer, M., Speksnijder, A. G. C. L., Kowalchuk, G. A. & Schoen, C. D., 2009, In : Applied and Environmental Microbiology. 75, 22, p. 7253-7260

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  48. Bacteria, not archaea, restore nitrification in a zinc-contaminated soil

    Mertens, J., Broos, K., Wakelin, S. A., Kowalchuk, G. A., Springael, D. & Smolders, E., 2009, In : ISME Journal. 3, 8, p. 916-923

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  49. Diversispora celata sp. nov: molecular ecology and phylotaxonomy of an inconspicuous arbuscular mycorrhizal fungus

    Gamper, H. A., Walker, C. & Schüßler, A., 2009, In : New Phytologist. 182, 2, p. 495-506

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  50. Empirical and theoretical challenges in aboveground–belowground ecology

    Van der Putten, W. H., Bardgett, R. D., de Ruiter, P. C., Hol, W. H. G., Meyer, K. M., Bezemer, T. M., Bradford, M. A., Christensen, S., Eppinga, M. B., Fukami, T., Hemerik, L., Molofsky, J., Schädler, M., Scherber, C., Strauss, S. Y., Vos, M. & Wardle, D. A., 2009, In : Oecologia. 161, 1, p. 1-14

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  51. Environmental microarray analyses of Antarctic soil microbial communities

    Yergeau, E., Schoondermark-Stolk, S. A., Brodie, E. L., Déjean, S., DeSantis, T. Z., Gonçalves, O., Piceno, Y. M., Andersen, G. L. & Kowalchuk, G. A., 2009, In : ISME Journal. 3, 3, p. 340-351

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  52. Impact of Collimonas bacteria on community composition of soil fungi

    Höppener-Ogawa, S., Leveau, J. H. J., Hundscheid, M. P. J., Van Veen, J. A. & De Boer, W., 2009, In : Environmental Microbiology. 11, 6, p. 1444-1452

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  53. Inter-specific interactions between carbon-limited soil bacteria affect behavior and gene expression

    Garbeva, P. V. & De Boer, W., 2009, In : Microbial Ecology. 58, 1, p. 36-46

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  54. Methylovirgula ligni gen. nov., sp. nov., an obligately acidophilic, facultatively methylotrophic bacterium with a highly divergent mxaF gene

    Vorob'ev, A. V., De Boer, W., Folman, L. B., Bodelier, P. L. E., Doronina, N. V., Suzina, N. E., Trotsenko, Y. A. & Dedysh, S. N., 2009, In : International Journal of Systematic and Evolutionary Microbiology. 59, p. 2538-2545

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  55. Mycophagous growth of Collimonas bacteria in natural soils, impact on fungal biomass turnover and interactions with mycophagous Trichoderma fungi

    Höppener-Ogawa, S., Leveau, J. H. J., Van Veen, J. A. & De Boer, W., 2009, In : ISME Journal. 3, 2, p. 190-198

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  56. No Paradox for Invasive Plants

    Meisner, A., De Boer, W., Hol, W. H. G., Krumins, J. A. & Van der Putten, W. H., 2009, In : Science Magazine. 325, 5942, p. 814-814

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  57. Phylogenetic composition and properties of bacteria coexisting with the fungus Hypholoma fasciculare in decaying wood

    Valášková, V., De Boer, W., Klein Gunnewiek, P. J. A., Pospíšek, M. & Baldrian, P., 2009, In : ISME Journal. 3, 10, p. 1218-1221

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  58. Phylogenetic diversity of Acidobacteria in a former agricultural soil

    Kielak, A. M., Pijl, A. S., Van Veen, J. A. & Kowalchuk, G. A., 2009, In : ISME Journal. 3, 3, p. 378-382

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  59. Plant defence against nematodes is not mediated by changes in the soil microbial community

    Wurst, S., Van Beersum, S., Wagenaar, R., Bakx-Schotman, T., Drigo, B., Janzik, I., Lanoue, A. & Van der Putten, W. H., 2009, In : Functional Ecology. 23, 3, p. 488-495

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  60. Possible mechanism for spontaneous establishment of Calluna vulgaris in a recently abandoned agricultural field

    Van der Wal, A., De Boer, W., Klein Gunnewiek, P. J. A. & Van Veen, J. A., 2009, In : Restoration Ecology. 17, 2, p. 308-313

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  61. Possible role of reactive chlorine in microbial antagonism and organic matter chlorination in terrestrial environments

    Bengtson, P., Bastviken, D., De Boer, W. & Öberg, G., 2009, In : Environmental Microbiology. 11, 6, p. 1330-1339

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  62. Quantifying the impact of above- and belowground higher trophic levels on plant and herbivore performance by modeling

    Meyer, K. M., Vos, M., Mooij, W. M., Hol, W. H. G., Termorshuizen, A. J., Vet, L. E. M. & Van der Putten, W. H., 2009, In : Oikos. 118, 7, p. 981-990

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  63. Relative abundance and activity of melanized hyphae in different soil ecosystems

    Van der Wal, A., Bloem, J., Mulder, C. H. & De Boer, W., 2009, In : Soil Biology & Biochemistry. 41, 2, p. 417-419

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  64. Robust detection and identification of multiple oomycetes and fungi in environmental samples by using a novel cleavable padlock probe-based ligation-detection assay

    Van Doorn, R., Slawiak, M., Szemes, M., Dullemans, A., Bonants, P. J. M., Kowalchuk, G. A. & Schoen, C. D., 2009, In : Applied and Environmental Microbiology. 75, 12, p. 4185-4193

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  65. Soil-borne microorganisms and soil-type affect pyrrolizidine alkaloids in Jacobaea vulgaris

    Joosten, L., Mulder, P. P. J., Klinkhamer, P. G. L. & Van Veen, J. A., 2009, In : Plant and Soil. 325, 1-2, p. 133-143

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  66. Specific rhizosphere bacterial and fungal groups respond differently to elevated atmospheric CO2

    Drigo, B., Van Veen, J. A. & Kowalchuk, G. A., 2009, In : ISME Journal. 3, 10, p. 1204-1217

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  67. Temperature adaptation of soil bacterial communities along an Antarctic climate gradient: predicting responses to climate warming

    Rinnan, R., Rousk, J., Yergeau, E., Kowalchuk, G. A. & Baath, E., 2009, In : Global Change Biology. 15, 11, p. 2615-2625

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  68. The impact of increased atmospheric carbon dioxide on microbial community dynamics in the rhizosphere

    Drigo, B., 2009, Leiden: Leiden University. 165 p.

    Research output: PhD ThesisPhD thesisScientific

  69. The power of simulating experiments

    Meyer, K. M., Mooij, W. M., Vos, M., Hol, W. H. G. & Van der Putten, W. H., 2009, In : Ecological Modelling. 220, 19, p. 2594-2597

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  70. The rhizosphere zoo: An overview of plant-associated communities of microorganisms, including phages, bacteria, archaea, and fungi, and of some of their structuring factors

    Buée, M., De Boer, W., Martin, F., van Overbeek, L. & Jurkevitch, E., 2009, In : Plant and Soil. 321, 1-2, p. 189-212

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  71. 2008
  72. Ecology of mycophagous Collimonas bacteria in soil

    Höppener-Ogawa, S., 15 Dec 2008, Leiden: Leiden University. 136 p.

    Research output: PhD ThesisPhD thesisScientific

  73. Effects of global warming on Antarctic soil microorganisms and associated functions

    Yergeau, E., 30 Jun 2008, Amsterdam: Vrije Universiteit. 174 p.

    Research output: PhD ThesisPhD thesisScientific

  74. Bacterial mycophagy: definition and diagnosis of a unique bacterial-fungal interaction

    Leveau, J. H. J. & Preston, G. M., 2008, In : New Phytologist. 177, 4, p. 859-876

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  75. Characterization of Xanthomonas axonopodis pv. phaseoli isolates

    Nunes, W. M. C., Corazza, M. J., De Souza, S. A. C. D., Tsai, S. M. & Kuramae, E. E., 2008, In : Summa Phytopathologica. 34, 3, p. 228-231

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  76. Climate change goes underground: effects of elevated atmospheric CO2 on microbial community structure and activities in the rhizosphere

    Drigo, B., Kowalchuk, G. A. & Van Veen, J. A., 2008, In : Biology and Fertility of Soils. 44, 5, p. 667-679

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  77. Collimonas arenae sp. nov. and Collimonas pratensis sp. nov., isolated from (semi-) natural grassland soils

    Höppener-Ogawa, S., De Boer, W., Leveau, J. H. J., Van Veen, J. A., de Brandt, E., Vanlaere, E., Sutton, H., Dare, D. J. & Vandamme, P., 2008, In : International Journal of Systematic and Evolutionary Microbiology. 58, p. 414-419

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  78. Comparative genomics of the pIPO2/pSB102 family of environmental plasmids: sequence, evolution, and ecology of pTer331 isolated from Collimonas fungivorans Ter331

    Mela, F., Fritsche, K., Boersma, H., van Elsas, J. D., Bartels, D., Meyer, F., De Boer, W., Van Veen, J. A. & Leveau, J. H. J., 2008, In : FEMS Microbiology Ecology. 66, 1, p. 45-62

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  79. Differences in vegetation composition and plant species identity lead to only minor changes in soil-borne microbial communities in a former arable field

    Kielak, A. M., Pijl, A. S., Van Veen, J. A. & Kowalchuk, G. A., 2008, In : FEMS Microbiology Ecology. 63, 3, p. 372-382

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  80. Discovery of a bacterial gene cluster for catabolism of the plant hormone indole 3-acetic acid

    Leveau, J. H. J. & Gerards, S., 2008, In : FEMS Microbiology Ecology. 65, 2, p. 238-250

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  81. Filipin is a reliable in situ marker of ergosterol in the plasma membrane of germinating conidia (spores) of Penicillium discolor and stains intensively at the site of germ tube formation

    van Leeuwen, M. R., Smant, W., De Boer, W. & Dijksterhuis, J., 2008, In : Journal of Microbiological Methods. 74, 2-3, p. 64-73 10 p.

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  82. Genetic diversity and host plant preferences revealed by simple sequence repeat and mitochondrial markers in a population of the arbuscular mycorrhizal fungus Glomus intraradices

    Croll, D., Wille, L., Gamper, H. A., Mathimaran, N., Lammers, P. J., Corradi, N. & Sanders, I. R., 2008, In : New Phytologist. 178, 3, p. 672-687

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  83. Identification and characterization of genes underlying chitinolysis in Collimonas fungivorans Ter331

    Fritsche, K., De Boer, W., Gerards, S., Van den Berg, M., Van Veen, J. A. & Leveau, J. H. J., 2008, In : FEMS Microbiology Ecology. 66, 1, p. 123-135

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  84. Impact of white-rot fungi on numbers and community composition of bacteria colonizing beech wood from forest soil

    Folman, L. B., Klein Gunnewiek, P. J. A., Boddy, L. & De Boer, W., 2008, In : FEMS Microbiology Ecology. 63, 2, p. 181-191

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  85. Interactions between saprotrophic basidiomycetes and bacteria

    De Boer, W. & Van der Wal, A., 2008, British Mycological Society Symposia Series, Volume 28. Boddy, L., Frankland, J. C. & van West, P. (eds.). Amsterdam: Elsevier, p. 141-151

    Research output: Chapter in book/volumeChapterScientific

  86. Microbes orchestrate life on Earth

    Kowalchuk, G. A., Jones, S. & Blackall, L. L., 2008, In : ISME Journal. 2, 8, p. 795-796

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  87. Microbial diversity underground: do we need to protect the Earth's greatest source of biodiversity?

    Kowalchuk, G. A., 2008, Forgotten kingdoms : proceedings of a seminar on the conservation of small and hidden species at the occasion of the retirement of Wim Bergmans as scientific director of IUCN NL. Bergmans, W., de Iongh, H. & Simons, H. (eds.). Amsterdam [etc.]: IUCN National Committee of the Netherlands [etc.], p. 17-29

    Research output: Chapter in book/volumeChapterScientific

  88. Multilocus genotyping of arbuscular mycorrhizal fungi and marker suitability for population genetics

    Croll, D., Corradi, N., Gamper, H. A. & Sanders, I. R., 2008, In : New Phytologist. 180, 3, p. 564-568

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  89. Real-time PCR and microscopy: Are the two methods measuring the same unit of arbuscular mycorrhizal fungal abundance?

    Gamper, H. A., Young, J. P. W., Jones, D. L. & Hodge, A., 2008, In : Fungal Genetics and Biology. 45, 5, p. 581-596

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  90. Responses of Antarctic soil microbial communities and associated functions to temperature and freeze-thaw cycle frequency

    Yergeau, E. & Kowalchuk, G. A., 2008, In : Environmental Microbiology. 10, 9, p. 2223-2235

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  91. Restoration of species-rich grasslands on ex-arable land: Seed addition outweighs soil fertility reduction

    Kardol, P., Van der Wal, A., Bezemer, T. M., De Boer, W., Duyts, H., Holtkamp, R. & Van der Putten, W. H., 2008, In : Biological Conservation. 141, 9, p. 2208-2217

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  92. Rhizosphere bacteria from sites with higher fungal densities exhibit greater levels of potential antifungal properties

    De Boer, W., De Ridder-Duine, A. S., Klein Gunnewiek, P. J. A., Smant, W. & Van Veen, J. A., 2008, In : Soil Biology & Biochemistry. 40, 6, p. 1542-1544

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  93. Rhizosphere microbial community and its response to plant species and soil history

    Garbeva, P. V., van Elsas, J. D. & Van Veen, J. A., 2008, In : Plant and Soil. 302, 1-2, p. 19-32

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  94. Six monophyletic lineages identified within Cryptococcus neoformans and Cryptococcus gattii by multi-locus sequence typing

    Bovers, M., Hagen, F., Kuramae, E. E. & Boekhout, T., 2008, In : Fungal Genetics and Biology. 45, 4, p. 400-421

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  95. Soil food web structure during ecosystem development after land abandonment

    Holtkamp, R., Kardol, P., Van der Wal, A., Dekker, S. C., Van der Putten, W. H. & de Ruiter, P. C., 2008, In : Applied Soil Ecology. 39, 1, p. 23-34

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  96. The minimum information about a genome sequence (MIGS) specification

    Field, D., Garrity, G., Gray, T., Morrison, N., Selengut, J., Sterk, P., Tatusova, T., Thomson, N., Allen, M. J., Angiuoli, S. V., Ashburner, M., Axelrod, N., Baldauf, S., Ballard, S., Boore, J., Cochrane, G., Cole, J., Dawyndt, P., De Vos, P., dePamphilis, C. & 52 othersEdwards, R., Faruque, N., Feldman, R., Gilbert, J., Gilna, P., Glöckner, F. O., Goldstein, P., Guralnick, R., Haft, D., Hancock, D., Hermjakob, H., Hertz-Fowler, C., Hugenholtz, P., Joint, I., Kagan, L., Kane, M., Kennedy, J., Kowalchuk, G. A., Kottmann, R., Kolker, E., Kravitz, S., Kyrpides, N., Leebens-Mack, J., Lewis, S. E., Li, K. W., Lister, A. L., Lord, P., Maltsev, N., Markowitz, V., Martiny, J., Methe, B., Mizrachi, I., Moxon, R., Nelson, K. E., Parkhill, J., Proctor, L., White, O., Sansone, S-A., Spiers, A., Stevens, R., Swift, P., Taylor, C., Tateno, Y., Tett, A., Turner, S., Ussery, D., Vaughan, B., Ward, N., Whetzel, T., GIil, I. S., Wilson, G. & Wipat, A., 2008, In : Nature Biotechnology. 26, 5, p. 541-547

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  97. Toward a Standards-Compliant Genomic and Metagenomic Publication Record

    Garrity, G., Field, D., Kyrpides, N., Hirschman, L., Sansone, S-A., Angiuoli, S. V., Cole, J., Glöckner, F. O., Kolker, E., Kowalchuk, G. A., Moran, M. A., Ussery, D. & White, O., 2008, In : OMICS: a journal of integrative biology. 12, 2, p. 157-160

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  98. 2007
  99. Biocontrol of plant pathogens: Principles, promises and pitfalls

    Lugtenberg, B. & Leveau, J. H. J., 2007, The Rhizosphere: Biochemistry and Organic Substances at the Soil-Plant Interface. Pinton, R., Varanini, Z. & Nannipieri, P. (eds.). Boca Raton, Fla: CRC Press, p. 267-296

    Research output: Chapter in book/volumeChapterScientific

  100. Citomorphological, cultural, molecular and pathogenical characterization of Rhizoctonia solani Kühn associated with rice in Tocantins, Brazil

    Souza, E. C., Kuramae, E. E., Nakatani, A. K., Basseto, M. A., Prabhu, A. S. & Ceresini, P. C., 2007, In : Summa Phytopathologica. 33, 2, p. 129-136

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  101. Collimonas fungivorans, an unpredicted in vitro but efficient in vivo biocontrol agent for the suppression of tomato foot and root rot

    Kamilova, F., Leveau, J. H. J. & Lugtenberg, B., 2007, In : Environmental Microbiology. 9, 6, p. 1597-1603

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  102. Concentration and vertical distribution of total soil phosphorus in relation to time of abandonment of arable fields

    Van der Wal, A., De Boer, W., Lubbers, I. M. & Van Veen, J. A., 2007, In : Nutrient Cycling in Agroecosystems. 79, 1, p. 73-79

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  103. Cophenetic correlation analysis as a strategy to select phylogenetically informative proteins: an example from the fungal kingdom

    Kuramae, E. E., Robert, V., Echavarri-Erasun, C. & Boekhout, T., 2007, In : BMC Evolutionary Biology. 7, p. 134

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  104. Dandruff-associated Malassezia genomes reveal convergent and divergent virulence traits shared with plant and human fungal pathogens

    Xu, J., Saunders, C., Hu, P., Grant, R. A., Boekhout, T., Kuramae, E. E., Kronstad, J. W., DeAngelis, Y. M., Reeder, N. L., Johnstone, K. R., Leland, M., Fieno, A. M., Begley, W. M., Sun, Y., Lacey, M. P., Chaudhary, T., Keough, T., Chu, L., Sears, R., Yuan, B. & 1 othersDawson Jr., T. L., 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, 47, p. 18730-18735

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  105. Environmental microbial ecology in an “Omics” era : Summary report of MicroEnGen-II (Shanghai, June 12–15, 2006)

    Nelson, K. E., Methé, B. A. & Kowalchuk, G. A., 2007, In : Microbial Ecology. 53, p. 369-370

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  106. Finding the needles in the metagenome haystack

    Kowalchuk, G. A., Speksnijder, A. G. C. L., Zhang, K., Goodman, R. M. & Van Veen, J. A., 2007, In : Microbial Ecology. 53, 3, p. 475-485

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

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