1. Article › Scientific › Not peer-reviewed
  2. 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

  3. Article › Scientific › Peer-reviewed
  4. 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

  5. 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

  6. A comparative study of the use of inorganic carbon resources by Chara aspera and Potamogeton pectinatus

    Van den Berg, M., Coops, H., Simons, J. & Pilon, J., 2002, In : Aquatic Botany. 72, 3-4, p. 219-233

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  7. 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

  8. Ammonia-oxidizing bacteria: A model for molecular microbial ecology

    Kowalchuk, G. A. & Stephen, J. R., 2001, In : Annual Review of Microbiology. 55, p. 485-529

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  9. Ammonium-induced inhibition of ammonium-starved Nitrosomonas europaea cells in soil and sand slurries

    Gerards, S., Duyts, H. & Laanbroek, H. J., 1998, In : FEMS Microbiology Ecology. 26, 4, p. 269-280

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  10. Ammonium-Oxidation at Low Ph by a Chemolithotrophic Bacterium Belonging to the Genus Nitrosospira

    De Boer, W., Klein Gunnewiek, P. J. A. & Laanbroek, H. J., 1995, In : Soil Biology & Biochemistry. 27, 2, p. 127-132

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  11. A molecular biological protocol to distinguish potentially human pathogenic Stenotrophomonas maltophilia from plant-associated Stenotrophomonas rhizophila

    Ribbeck-Busch, K., Roder, A., Hasse, D., De Boer, W., Martinez, J. L., Hagemann, M. & Berg, G., 2005, In : Environmental Microbiology. 7, 11, p. 1853-1858

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  12. Analysis of ammonia-oxidizing bacteria of the beta subdivision of the class Proteobacteria in coastal sand dunes by denaturing gradient gel electrophoresis and sequencing of PCR-amplified 16S ribosomal DNA fragments

    Kowalchuk, G. A., Stephen, J. R., De Boer, W., Prosser, J. I., Embley, T. M. & Woldendorp, J. W., 1997, In : Applied and Environmental Microbiology. 63, 4, p. 1489-1497

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  13. Analysis of bacterial communities in the rhizosphere of chrysanthemum via denaturing gradient gel electrophoresis of PCR-amplified 16S rRNA as well as DNA fragments coding for 16S rRNA

    Duineveld, B. M., Kowalchuk, G. A., Keijzer, A., Van Elsas, J. D. & Van Veen, J. A., 2001, In : Applied and Environmental Microbiology. 67, 1, p. 172-178

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  14. Analysis of ß-subgroup proteobacterial ammonia oxidizer populations in soil by denaturing gradient gel electrophoresis analysis and hierarchical phylogenetic probing

    Stephen, J. R., Kowalchuk, G. A., Bruns, M. A., McCaig, A. E., Phillips, C. B., Embley, T. M. & Prosser, J. I., 1998, In : Applied and Environmental Microbiology. 64, 8, p. 2958-2965

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  15. Analysis of the dynamics of bacterial communities in the rhizosphere of the Chrysanthemum via denaturing gradient gel eletrophoresis and substrate utilization patterns

    Duineveld, B. M., Rosado, A. S., Van Elsas, J. D. & Van Veen, J. A., 1998, In : Applied and Environmental Microbiology. 64, p. 4950-4957

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  16. 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

  17. Anti-fungal properties of chitinolytic dune soil bacteria

    De Boer, W., Klein Gunnewiek, P. J. A., Lafeber, P., Janse, J. H., Spit, B. E. & Woldendorp, J. W., 1998, In : Soil Biology & Biochemistry. 30, 2, p. 193-203

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  18. A PCR-denaturing gradient gel electrophoresis (DGGE) approach to assess Fusarium diversity in asparagus

    Yergeau, E., Filion, M., Vujanovic, V. & St-Arnaud, M., 2005, In : Journal of Microbiological Methods. 60, 2, p. 143-154

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  19. Arbuscular mycorrhizal fungi reveal distinct patterns of anastomosis formation and hyphal healing mechanisms between different phylogenic groups

    De Souza, F. A., Fernández, F., Delmas, N. S. & Declerck, S., 2005, In : New Phytologist. 165, 1, p. 261-271

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  20. Assessing response of soil microorganisms to GM plants

    Kowalchuk, G. A., Bruinsma, M. & Van Veen, J. A., 2003, In : Trends in Ecology & Evolution. 18, 8, p. 403-410

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  21. Assessment of the diversity, and antagonism towards Rhizoctonia solani AG3, of Pseudomonas species in soil from different agricultural regimes

    Garbeva, P. V., Van Veen, J. A. & van Elsas, J. D., 2004, In : FEMS Microbiology Ecology. 47, 1, p. 51-64

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  22. A survey of 16S rRNA and amoA genes related to autotrophic ammonia-oxidizing bacteria of the ß-subdivision of the class proteobacteria in contaminated groundwater

    Ivanova, I. A., Stephen, J. R., Chang, Y. J., Bruggemann, J., Long, P. E., McKinley, J. P., Kowalchuk, G. A., White, D. C. & MacNaughton, S. J., 2000, In : Canadian Journal of Microbiology. 46, 11, p. 1012-1020

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  23. 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

  24. 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

  25. Biodiversity and biogeography of Fusarium species from northeastern North American asparagus fields based on microbiological and molecular approaches

    Vujanovic, V., Hamel, C., Yergeau, E. & St-Arnaud, M., 2006, In : Microbial Ecology. 51, 2, p. 242-255

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  26. Bioreporters in microbial ecology

    Leveau, J. H. J. & Lindow, S. E., 2002, In : Current Opinion in Microbiology. 5, 3, p. 259-265

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  27. Changes in agricultural management drive the diversity of Burkholderia species isolated from soil on PCAT medium

    Salles, J., Samyn, E., Vandamme, P., Van Veen, J. A. & van Elsas, J. D., 2006, In : Soil Biology & Biochemistry. 38, 4, p. 661-673

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  28. Changes in Fusarium and arbuscular-mycorrhizal fungi communities as related with different asparagus cultural factors

    Yergeau, E., Vujanovic, V. & St-Arnaud, M., 2006, In : Microbial Ecology. 52, 1, p. 104-113

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  29. Changes in the community structure of ammonia-oxidizing bacteria during secondary succession of calcareous grasslands

    Kowalchuk, G. A., Stienstra, A. W., Heilig, G. H. J., Stephen, J. R. & Woldendorp, J. W., 2000, In : Environmental Microbiology. 2, 1, p. 99-110

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  30. Characterisation of Lysobacter enzymogenes ( Christensen and Cook 1978) strain 3.1 T8, a powerful antagonist of fungal diseases of cucumber

    Folman, L. B., Postma, J. & Van Veen, J. A., 2003, In : Microbiological Research. 158, 2, p. 107-115

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  31. 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

  32. 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

  33. 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

  34. 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

  35. 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

  36. Collimonas fungivorans gen. nov., sp. nov., a chitinolytic soil bacterium with the ability to grow on living fungal hyphae

    De Boer, W., Leveau, J. H. J., Kowalchuk, G. A., Klein Gunnewiek, P. J. A., Abeln, E. C. A., Figge, M. J., Sjollema, K., Janse, J. H. & Van Veen, J. A., 2004, In : International Journal of Systematic and Evolutionary Microbiology. 54, p. 857-864

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  37. Community analysis of ammonia-oxidising bacteria, in relation to oxygen availability in soils and root-oxygenated sediments, using PCR, DGGE and oligonucleotide probe hybridisation

    Kowalchuk, G. A., Bodelier, P. L. E., Heilig, G. H. J., Stephen, J. R. & Laanbroek, H. J., 1998, In : FEMS Microbiology Ecology. 27, 4, p. 339-350

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  38. Community analysis of arbuscular mycorrhizal fungi associated with Ammophila arenaria in Dutch coastal sand dunes

    Kowalchuk, G. A., De Souza, F. A. & Van Veen, J. A., 2002, In : Molecular Ecology. 11, 3, p. 571-581

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  39. 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

  40. Comparative-Analysis of Gene-Sequences Encoding Ammonia Monooxygenase of Nitrosospira Sp Ahb1 and Nitrosolobus- Multiformis C-71

    Rotthauwe, J. H., De Boer, W. & Liesack, W., 1995, In : FEMS Microbiology Letters. 133, 1-2, p. 131-135

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  41. Comparative diversity of ammonia oxidizer 16S rRNA gene sequences in native, tilled, and successional soils

    Bruns, M. A., Stephen, J. R., Kowalchuk, G. A., Prosser, J. I. & Paul, E. A., 1999, In : Applied and Environmental Microbiology. 65, 7, p. 2994-3000

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  42. 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

  43. 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

  44. Competition for nitrate and glucose between Pseudomonas fluorescens and Bacillus licheniformis under continuous or fluctuating anoxic conditions

    Nijburg, J. W., Gerards, S. & Laanbroek, H. J., 1998, In : FEMS Microbiology Ecology. 26, 4, p. 345-356

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  45. Competitive PCR-DGGE analysis of bacterial mixtures an internal standard and an appraisal of template enumeration accuracy

    Brüggemann, J., Stephen, J. R., Chang, Y. J., MacNaughton, S. J., Kowalchuk, G. A., Kline, E. & White, D. C., 2000, In : Journal of Microbiological Methods. 40, 2, p. 111-123

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  46. 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

  47. Constraints on development of fungal biomass and decomposition processes during restoration of arable sandy soils.

    Van der Wal, A., Van Veen, J. A., Pijl, A. S., Summerbell, R. C. & De Boer, W., 2006, In : Soil Biology & Biochemistry. 38, 9, p. 2890-2902

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  48. Contribution of nitrification and denitrification to the NO and N2O emissions of an acid forest soil, a river sediment and a fertilized grassland soil

    Kester, R. A., Meijer, M. L., Libochant, J. A., De Boer, W. & Laanbroek, H. J., 1997, In : Soil Biology & Biochemistry. 29, 11-12, p. 1655-1664

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

  49. 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

  50. 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

  51. 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

  52. Detection and characterization of fungal infections of Ammophila arenaria (marram grass) roots by denaturing gradient gel electrophoresis of specifically amplified 18S rDNA

    Kowalchuk, G. A., Gerards, S. & Woldendorp, J. W., 1997, In : Applied and Environmental Microbiology. 63, 10, p. 3858-3865

    Research output: Contribution to journal/periodicalArticleScientificpeer-review

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