More publications of the consortium for 2016 will be added shortly

  • Daly A.J., Baetens J.M. and De Baets B. (2016). The impact of resource dependence of the mechanisms of life on the spatial population dynamics of an in silico microbial community, Chaos 26 , 123121.
  • Daly A.J., Baetens J.M. and De Baets B. (2016). In silico substrate dependence increases community productivity, threatens biodiversity, Physical Review E 93, 042414.
  • Courtens, E. N., Spieck, E., Vilchez-Vargas, R., Bodé, S., Boeckx, P., Schouten, S., ... & Boon, N. (2016). A robust nitrifying community in a bioreactor at 50° C opens up the path for thermophilic nitrogen removal. The ISME journal. doi:10.1038/ismej.2016.8
  • Courtens, E. N., Vandekerckhove, T., Prat, D., Vilchez-Vargas, R., Vital, M., Pieper, D. H., ... & Vlaeminck, S. E. (2016). Empowering a mesophilic inoculum for thermophilic nitrification: growth mode and temperature pattern as critical proliferation factors for archaeal ammonia oxidizers. Water Research, (92), 94-103
  • Verstraelen, H., Vilchez-Vargas, R., Desimpel, F., Jauregui, R., Vankeirsbilck, N., Weyers, S., ... & Van De Wiele, T. (2016). Characterisation of the human uterine microbiome in non-pregnant women through deep sequencing of the V1-2 region of the 16S rRNA gene. PeerJ, 4, e1602.
  • Grunert, O., Hernandez-Sanabria, E., Vilchez-Vargas, R., Jauregui, R., Pieper, D. H., Perneel, M., ... & Boon, N. (2016). Mineral and organic growing media have distinct community structure, stability and functionality in soilless culture systems. Scientific reports, 6.


  • Lopez-Fernandez, M., Cherkouk, A., Vilchez-Vargas, R., Jauregui, R., Pieper, D., Boon, N., ... & Merroun, M. L. (2015). Bacterial diversity in bentonites, engineered barrier for deep geological disposal of radioactive wastes. Microbial ecology, 70(4), 922-935.
  • Geirnaert, A., Wang, J., Tinck, M., Steyaert, A., Van den Abbeele, P., Eeckhaut, V., ... & Van Immerseel, F. (2015). Interindividual differences in response to treatment with butyrate-producing Butyricicoccus pullicaecorum 25–3T studied in an in vitro gut model. FEMS microbiology ecology, 91(6), fiv054.
  • Daly, A. J., Baetens, J. M., & De Baets, B. (2015). The impact of initial evenness on biodiversity maintenance for a four-species in silico bacterial community. Journal of theoretical biology, 387, 189-205.
  • Stenuit, B., & Agathos, S. N. (2015). Deciphering microbial community robustness through synthetic ecology and molecular systems synecology. Current opinion in biotechnology, 33, 305-317.
  • De Vrieze, J., Gildemyn, S., Vilchez-Vargas, R., Jáuregui, R., Pieper, D. H., Verstraete, W., & Boon, N. (2015). Inoculum selection is crucial to ensure operational stability in anaerobic digestion. Applied microbiology and biotechnology, 99(1), 189-199.
  • Ehsani, E., Jauregui, R., Geffers, R., Jareck, M., Boon, N., Pieper, D. H., & Vilchez-Vargas, R. (2015). Draft genome sequence of Rhodococcus sp. strain 311R. Genome announcements, 3(3), e00378-15.
  • Gillan, D. C., Roosa, S., Kunath, B., Billon, G., & Wattiez, R. (2015). The long-term adaptation of bacterial communities in metal-contaminated sediments: a metaproteogenomic study. Environmental microbiology, 17(6), 1991-2005.
  • Ehsani, E., Jauregui, R., Geffers, R., Jarek, M., Boon, N., Pieper, D. H., & Vilchez-Vargas, R. (2015). First draft genome sequence of the Acidovorax caeni sp. nov. type strain R-24608 (DSM 19327). Genome announcements, 3(6), e01378-15.


  • Courtens, E. N., Vlaeminck, S. E., Vilchez-Vargas, R., Verliefde, A., Jauregui, R., Pieper, D. H., & Boon, N. (2014). Trade-off between mesophilic and thermophilic denitrification: Rates vs. sludge production, settleability and stability. Water research, 63, 234-244.
  • Kerckhof, F. M., Courtens, E. N., Geirnaert, A., Hoefman, S., Ho, A., Vilchez-Vargas, R., ... & Vandamme, P. (2014). Optimized cryopreservation of mixed microbial communities for conserved functionality and diversity. PloS one, 9(6), e99517.
  • Jauregui, R., Rodelas, B., Geffers, R., Boon, N., Pieper, D. H., & Vilchez-Vargas, R. (2014). Draft genome sequence of the naphthalene degrader Herbaspirillum sp. strain RV1423. Genome announcements, 2(2), e00188-14.
  • Horemans, B., Hofkens, J., Smolders, E., & Springael, D. (2014). Biofilm formation of a bacterial consortium on linuron at micropollutant concentrations in continuous flow chambers and the impact of dissolved organic matter. FEMS microbiology ecology, 88(1), 184-194
  • Horemans, B., Vandermaesen, J., Breugelmans, P., Hofkens, J., Smolders, E., & Springael, D. (2014). The quantity and quality of dissolved organic matter as supplementary carbon source impacts the pesticide-degrading activity of a triple-species bacterial biofilm. Applied microbiology and biotechnology, 98(2), 931-943.


  • Van Nevel, S., De Roy, K., & Boon, N. (2013). Bacterial invasion potential in water is determined by nutrient availability and the indigenous community. FEMS microbiology ecology, 85(3), 593-603.
  • De Roy, K., Marzorati, M., Negroni, A., Thas, O., Balloi, A., Fava, F., ... & Boon, N. (2013). Environmental conditions and community evenness determine the outcome of biological invasion. Nature communications, 4, 1383.
  • Van Nevel, S., Koetzsch, S., Weilenmann, H. U., Boon, N., & Hammes, F. (2013). Routine bacterial analysis with automated flow cytometry. Journal of microbiological methods, 94(2), 73-76.