Dr. Irene de Bruijn
ResearcherMicrobial Ecology |
Research themes
Research expertiseComparative genomics Microbe-host interactions Molecular microbiology
Page last updated: 18-12-2019
I started studying Biology at the University of Utrecht because I wanted to study animal behaviour. But then I followed a course on molecular microbiology and I got intrigued by the communication among microorganisms and their interactions with their hosts. Microorganisms are of great importance in our daily life. Not only for us humans, but also in other animals and plants microorganims they influence our health, growth and development.
To date many studies describe which microbes are present (or absent) in different ecosystems, but how the microbial community influences its environment is largely lacking. My research focuses on the microbial community that suppresses plant and fish pathogens. By deciphering the interactions of bacterial consortia at a molecular and biochemical level an ecological understanding of the total microbial community will be pursued.
For more information on current projects, see the website: https://nioo.knaw.nl/en/de-bruijn-group
- CV
- Groups
- NIOO Projects
- Other Projects
- Key publications
- Peer-reviewed publications
- Popular-scientific publications
| 2015-present | NIOO-KNAW | Junior research group leader on STW project: Deciphering the fish egg microbiome to mitigate diseases in aquaculture. |
| 2011-2015 | NIOO-KNAW | Post-doc on STW project: Ecology and genomics of Lysobacter. |
| 2009-11 |
University of Aberdeen, Scotland, UK |
Post-doc on BBSRC project: A systems biology based approach to functionally annotate and analyse the genome of the fish pathogenic oomycete Saprolegnia parasitica. |
| 2008-09 | WUR |
Post-doc on NGI-Genomics project to identify antimicrobial compounds produced by Pseudomonas spp. against oomycetes and fungi. |
| 2004-08 | WUR | PhD entitled: Cyclic lipopeptide biosynthesis and regulation in Pseudomonas fluorescens. |
| 1999-04 | UU | BSc and MSc Biology |
OrcID: http://orcid.org/0000-0002-4889-3253
ParaFish Control: Advanced tools and research strategies for parasite control in European farmed fish
Risk factors for escalating saprolegniosis outbreaks in salmon farms (RIFE-SOS)
For total list, see "Peer reviewed publications"
De Bruijn, I., Liu, Y., Wiegertjes, G.F., Raaijmakers, J.M. 2017. Exploring fish microbial communities to mitigate emerging diseases in aquaculture. FEMS Microb Ecol. 94: fix161.
Gómez Expósito, R., De Bruijn, I., Postma, J., Raaijmakers, J.M. 2017. Current Insights into the role of rhizosphere bacteria in disease suppressive soils. Front Microbiology 8: 2529.
Medema, M.H., Kottmann, R. Yilmaz, P., Cummings, M., Biggins, J.B., Blin, K., De Bruijn, I., et al., 2015. The Minimum Information about a Biosynthetic Gene cluster (MIBiG) specification. NatChemBiol 11: 625–631.
^De Bruijn, I., ^Liu, Y., Jack, A.L.H., Van der Voort, M., Drynan, K., Skaar, I., Thoen, E., Van den Berg, H., Van West, P., Dieguez-Uribeondo, J., Sandoval-Sierra, J.V., Mendes, R. Mazzola, M., Raaijmakers, J.M. 2014. Deciphering the salmon egg microbiome to mitigate the emerging disease Saprolegniosis. ISME J 8: 2002-14.
^De Bruijn, I., ^Jiang, R.H.Y., ^Haas, B. J., Belmonte, R., Löbach, L., Christie, J., Van den Ackerveken, G., Bottin, A., Bulone, V., Díaz-Moreno, S.M., Dumas, B., Fan, L., Gaulin, E., Govers, F., Grenville-Briggs, L.J., Horner, N.R., Levin, J.Z., Mammella, M., Meijer, H.J.G., Morris, P., Nusbaum, C., Oome, S., Van Rooyen, D., Rzeszutek, E., Saraiva, M., Secombes, C.J., , M.F., Snel, B., Stassen, J.H.M., Sykes, S., Tripathy, S., Van den Berg, H., Vega-Arreguin, J.C., Wawra,, S., Young, S.K., Zeng, Q., Dieguez-Uribeondo, J., Russ, C., Tyler, B.M., Van West, P. 2013. Distinctive expansion of potential virulence genes in the genome of the oomycete fish pathogen Saprolegnia parasitica. PLOS Genetics 9: e1003272
Mendes, R., Kruijt, M., De Bruijn, I., Dekkers, E., van der Voort, M., Schneider, J.H., Piceno, Y.M., DeSantis, T.Z., Andersen, G.L., Bakker, P.A., Raaijmakers, J.M. 2011. Deciphering the rhizosphere microbiome for disease-suppressive bacteria. Science 332: 1097-100.
^De Bruijn, I.,^Raaijmakers, J. M., ^Nybroe, O., and ^Ongena, M. 2010. Natural functions of lipopeptides from Bacillus and Pseudomonas: more than surfactants and antibiotics. FEMS Microbiology Reviews 34: 1037-62
De Bruijn, I., and Raaijmakers, J.M. 2009. Regulation of cyclic lipopeptide biosynthesis in Pseudomonas fluorescens by the ClpP protease. J Bacteriol 191:1910-23.
Walker, L.A., Munro, C.A., De Bruijn, I., Lenardon, M.D., McKinnon, A., and Gow, N.A. 2008. Stimulation of chitin synthesis rescues Candida albicans from echinocandins. PLOS Pathog 4(4):e1000040.
De Bruijn, I., de Kock, M.J., Yang, M., de Waard, P., van Beek, T.A., and Raaijmakers, J.M. 2007. Genome-based discovery, structure prediction and functional analysis of cyclic lipopeptide antibiotics in Pseudomonas species. Mol Microbiol 63:417-28.
- 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/s41467-018-04796-3
- De Bruijn, I., & Verhoeven, K. J. F. (2018). Cross-species interference of gene expression: Comment. Nature Communications, 9, [5019]. https://doi.org/10.1038/s41467-018-07353-0
- de 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/fix161
- Al-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.12810
- Carrion, V. J., Cordovez, V., Tyc, O., Etalo, D. W., De Bruijn, I., de Jager, V. C. L., Medema, M. H., Eberl, L., & Raaijmakers, J. M. (2018). Involvement of Burkholderiaceae and sulfurous volatiles in disease suppressive soils. ISME Journal, 12, 2307-2321. https://doi.org/10.1038/s41396-018-0186-x
- Gómez 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.2017.02529
- Bosmans, L., de Bruijn, I., Gerards, S., Moerkens, R., Van Looveren, L., Wittemans, L., Van Calenberge, B., Paeleman, A., Van Kerckhove, S., Rozenski, J., de Mot, R., Rediers, H., Raaijmakers, J. M., & Lievens, B. (2017). Potential for biocontrol of hairy root disease by a Paenibacillus clade. Frontiers in Microbiology, 8, [447]. https://doi.org/10.3389/fmicb.2017.00447
- 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.2016.05.004
- Liu, 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/ijms17010140
- De Bruijn, I., Cheng, X., de Jager, V. C. L., Gómez Expósito, R., Watrous, J., Patel, N., Postma, J., Dorrestein, P. C., Kobayashi, D., & Raaijmakers, J. M. (2015). Comparative genomics and metabolic profiling of the genus Lysobacter. BMC Genomics, 16, [991]. https://doi.org/10.1186/s12864-015-2191-z
- Gómez Expósito, R., Postma, J., Raaijmakers, J. M., & de Bruijn, I. (2015). Diversity and activity of Lysobacter species from disease suppressive soils. Frontiers in Microbiology, 6(1243), [2015.01243]. https://doi.org/10.3389/fmicb.2015.01243
- Liu, Y., Rzeszutek, E., van der Voort, M., Wu, C. H., Thoen, E., Skaar, I., Bulone, V., Dorrestein, P. C., Raaijmakers, J. M., & De Bruijn, I. (2015). Diversity of aquatic Pseudomonas species and their activity against the fish pathogenic oomycete Saprolegnia. PLoS One, 10(8), [e0136241]. https://doi.org/10.1371/journal.pone.0136241
- Song, C., Sundqvist, G., Malm, E., de Bruijn, I., Kumar, A., van de Mortel, J., Bulone, V., & Raaijmakers, J. (2015). Lipopeptide biosynthesis in Pseudomonas fluorescens is regulated by the protease complex ClpAP. BMC Microbiology, 15, [29]. https://doi.org/10.1186/s12866-015-0367-y
- Medema, M. H., Kottmann, R., Yilmaz, P., Cummings, M., Biggins, J. B., Blin, K., de Bruijn, I., Chooi, Y. H., Claesen, J., Coates, R. C., Cruz-Morales, P., Duddela, S., Dusterhus, S., Edwards, D. J., Fewer, D. P., Garg, N., Geiger, C., Gomez-Escribano, J. P., Greule, A.,... Glockner, F. O. (2015). Minimum Information about a Biosynthetic Gene cluster: commentary. Nature Chemical Biology, 11(9), 625-631. https://doi.org/10.1038/nchembio.1890
- Bonnichsen, L., Svenningsen, N. B., Rybtke, M., de Bruijn, I., Raaijmakers, J. M., Tolker-Nielsen, T., & Nybroe, O. (2015). The lipopeptide biosurfactant viscosin enhances dispersal of Pseudomonas fluorescens SBW25 biofilms. Microbiology, 161(12), 2289-2297. https://doi.org/10.1099/mic.0.000191
- Zachow, C., Jahanshah, G., de Bruijn, I., Song, C., Ianni, F., Pataj, Z., Gerhardt, H., Pianet, I., Lämmerhofer, M., Berg, G., Gross, H., & Raaijmakers, J. M. (2015). The novel lipopeptide Poaeamide of the endophyte Pseudomonas poae RE*1-1-14 is involved in pathogen suppression and root colonization. Molecular Plant-Microbe Interactions, 28(7), 800-810. https://doi.org/10.1094/MPMI-12-14-0406-R
- Liu, Y., De Bruijn, I., Jack, A., Drynan, K., van den Berg, A. H., Thoen, E., Sandoval-Sierra, V., Skaar, I., van West, P., Diéguez-Uribeondo, J., van der Voort, M., Mendes, R., Mazzola, M., & Raaijmakers, J. M. (2014). Deciphering microbial landscapes of fish eggs to mitigate emerging diseases. ISME Journal, 8, 2002-2014. https://doi.org/10.1038/ismej.2014.44
- Saraiva, M., de Bruijn, I., Grenville-Briggs, L., McLaggan, D., Willems, A., Bulone, V., & van West, P. (2014). Functional characterization of a tyrosinase gene from the oomycete Saprolegnia parasitica by RNAi silencing. Fungal Biology, 118(7), 621-629. https://doi.org/10.1016/j.funbio.2014.01.011
- Jiang, R. H. Y., de Bruijn, I., Haas, B. J., Belmonte, R., Löbach, L., Christie, J., van den Ackerveken, G., Bottin, A., Bulone, V., Díaz-Moreno, S. M., Dumas, B., Fan, L., Gaulin, E., Govers, F., Grenville-Briggs, L. J., Horner, N. R., Levin, J. Z., Mammella, M., Meijer, H. J. G.,... van West, P. (2013). Distinctive Expansion of Potential Virulence Genes in the Genome of the Oomycete Fish Pathogen Saprolegnia parasitica. PLoS Genetics, 9(6). https://doi.org/10.1371/journal.pgen.1003272
- Cheng, X., de Bruijn, I., van der Voort, M., Loper, J. E., & Raaijmakers, J. M. (2013). The Gac regulon of Pseudomonas fluorescensSBW25. Environmental Microbiology Reports, 5(4), 608-619. https://doi.org/10.1111/1758-2229.12061
- Wawra, S., Bain, J., Durward, E., De Bruijn, I., Minor, K. L., Matena, A., Löbach, L., Whisson, S. C., Bayer, P., Porter, A. J., Birch, P. R. J., Secombes, C. J., & Van West, P. (2012). Host-targeting protein 1 (SpHtp1) from the oomycete Saprolegnia parasitica translocates specifically into fish cells in a tyrosine-O-sulphate-dependent manner. Proceedings of the National Academy of Sciences of the United States of America, 109(6), 2096-2101. https://doi.org/10.1073/pnas.1113775109
- De Bruijn, I., Belmonte, R., Anderson, V. L., Saraiva, M., Wang, T., Van West, P., & Secombes, C. J. (2012). Immune gene expression in trout cell lines infected with the fish pathogenic oomycete Saprolegnia parasitica. Developmental and Comparative Immunology, 38(1), 44-54. https://doi.org/10.1016/j.dci.2012.03.018
- Mendes, R., Kruijt, M., De Bruijn, I., Dekkers, E., Van Der Voort, M., Schneider, J. H. M., Piceno, Y. M., DeSantis, T. Z., Andersen, G. L., Bakker, P. A. H. M., & Raaijmakers, J. M. (2011). Deciphering the rhizosphere microbiome for disease-suppressive bacteria. Science, 332, 1097-1100. https://doi.org/10.1126/science.1203980
- Raaijmakers, J. M., de Bruijn, I., Nybroe, O., & Ongena, M. (2010). Natural functions of lipopeptides from Bacillus and Pseudomonas: More than surfactants and antibiotics. FEMS Microbiology Reviews, 34(6), 1037-1062. https://doi.org/10.1111/j.1574-6976.2010.00221.x
- Van West, P., De Bruijn, I., Minor, K. L., Phillips, A. J., Robertson, E. J., Wawra, S., Bain, J., Anderson, V. L., & Secombes, C. J. (2010). The putative RxLR effector protein SpHtp1 from the fish pathogenic oomycete Saprolegnia parasitica is translocated into fish cells. FEMS Microbiology Letters, 310(2), 127-137. https://doi.org/10.1111/j.1574-6968.2010.02055.x
- De Bruijn, I., & Raaijmakers, J. M. (2009). Diversity and functional analysis of LuxR-type transcriptional regulators of cyclic lipopeptide biosynthesis in Pseudomonas fluorescens. Applied and Environmental Microbiology, 75(14), 4753-4761. https://doi.org/10.1128/AEM.00575-09
- Mazzola, M., De Bruijn, I., Cohen, M. F., & Raaijmakers, J. M. (2009). Protozoan-induced regulation of cyclic lipopeptide biosynthesis is an effective predation defense mechanism for Pseudomonas fluorescens. Applied and Environmental Microbiology, 75(21), 6804-6811. https://doi.org/10.1128/AEM.01272-09
- De Bruijn, I., & Raaijmakers, J. M. (2009). Regulation of cyclic lipopeptide biosynthesis in pseudomonas fluorescens by the ClpP Protease. Journal of Bacteriology, 191(6), 1910-1923. https://doi.org/10.1128/JB.01558-08
- De Bruijn, I., De Kock, M. J. D., De Waard, P., Van Beek, T. A., & Raaijmakers, J. M. (2008). Massetolide A biosynthesis in Pseudomonas fluorescens. Journal of Bacteriology, 190(8), 2777-2789. https://doi.org/10.1128/JB.01563-07
- Walker, L. A., Munro, C. A., De Bruijn, I., Lenardon, M. D., McKinnon, A., & Gow, N. A. R. (2008). Stimulation of chitin synthesis rescues Candida albicans from echinocandins. PLoS Pathogens, 4(4). https://doi.org/10.1371/journal.ppat.1000040
- De Bruijn, I., De Kock, M. J. D., Yang, M., De Waard, P., Van Beek, T. A., & Raaijmakers, J. M. (2007). Genome-based discovery, structure prediction and functional analysis of cyclic lipopeptide antibiotics in Pseudomonas species. Molecular Microbiology, 63(2), 417-428. https://doi.org/10.1111/j.1365-2958.2006.05525.x
- Munro, C. A., Selvaggini, S., De Bruijn, I., Walker, L., Lenardon, M. D., Gerssen, B., Milne, S., Brown, A. J. P., & Gow, N. A. R. (2007). The PKC, HOG and Ca2+ signalling pathways co-ordinately regulate chitin synthesis in Candida albicans. Molecular Microbiology, 63(5), 1399-1413. https://doi.org/10.1111/j.1365-2958.2007.05588.x
- Raaijmakers, J. M., De Bruijn, I., & De Kock, M. J. D. (2006). Cyclic lipopeptide production by plant-associated Pseudomonas spp.: Diversity, activity, biosynthesis, and regulation. Molecular Plant-Microbe Interactions, 19(7), 699-710. https://doi.org/10.1094/MPMI-19-0699
2018
2017
2016
2015
2014
2013
2012
2011
2010
2009
2008
2007
2006
- De Bruijn, I. (2016). Oomycetes: ParaFishControl Project News. (pp. 11-12). ParafishControl. http://www.parafishcontrol.eu/images/PARAFISHCONTROL/MediaCentre/PFC_1st-newsletter_Aug2016-AquaTT.pdf
- De Bruijn, I. (2014). Vergelijking van de genoomsequenties en metabolietprofielen van vijf Lysobacter-stammen geïsoleerd uit de bodem. Gewasbescherming, 45, 120. http://docplayer.nl/741520-Gewasbescherming-mededelingenblad-van-de-koninklijke-nederlandse-plantenziektekundige-vereniging.html
- De Bruijn, I. (2013). Role of Lysobacter spp. in suppressiveness of soils. Gewasbescherming, 44, 172.
2016
2014
2013
Contact
+31 (0)317 473 400
Droevendaalsesteeg 10
6708 PB Wageningen
+31 (0)317 47 34 00
Postbus 50
6700 AB Wageningen
