Microbiology

Organisational unit: Unit

  1. Growth and biofilm formation of Cupriavidus metallidurans CH34 on different metallic and polymeric materials used in spaceflight applications

    Abdeljelil, N., Yahia, N. B. M., Landoulsi, A., Chatti, A., Wattiez, R., Van Houdt, R. & Gillan, D., 4 Aug 2022, In: Biofouling. 38, 6, p. 643-655 13 p.

    Research output: Contribution to journalArticlepeer-review

  2. Low dose irradiation of thyroid cells reveals a unique transcriptomic and epigenetic signature in RET/PTC-positive cells

    Abouelaradat, K., Monsieurs, P., Anastasov, N., Atkinson, M., Derradji, H., De Meyer, T., Bekaert, S., Van Criekinge, W. & Baatout, S., Mar 2012, In: Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis. 731, 1-2, p. 27-40

    Research output: Contribution to journalArticlepeer-review

  3. Effect of ionic strength on the transport parameters of tritiated water, iodide and H14CO3- in Boom Clay

    Aertsens, M., De Cannière, P., Moors, H., Van Gompel, M., Valcke, E., Mariën, A. & Maes, N., Dec 2009, Scientific Basis for Nuclear Waste Management XXXIII. Symposium Proceedings. Volume 1193. Warrendale, PA, United States, p. 497-504 (Materials Research Society proceedings; no. Volume 1193).

    Research output: Contribution to report/book/conference proceedingsIn-proceedings paperpeer-review

  4. Overview and consistency of migration experiments in clay

    Aertsens, M., De Cannière, P., Lemmens, K., Maes, N. & Moors, H., Jun 2008, In: Physics and Chemistry of the Earth. 33, 14-16, p. 1019-1025

    Research output: Contribution to journalArticlepeer-review

  5. CATCh, an Ensemble Classifier for Chimera Detection in 16S rRNA Sequencing Studies

    Ahmed, M., Saeys, Y., Leys, N., Raes, J. & Monsieurs, P., 1 Mar 2015, In: Applied and Environmental Microbiology. 81, 5, p. 1573-1584

    Research output: Contribution to journalArticlepeer-review

  6. NoDe: a fast error-correction algorithm for pyrosequencing amplicon reads

    Ahmed, M., Leys, N., Raes, J. & Monsieurs, P., 15 Mar 2015, In: BMC Bioinformatics. 16, 88, p. 1-15

    Research output: Contribution to journalArticlepeer-review

  7. IPED: a highly efficient denoising tool for Illumina MiSeq Paired-end 16S rRNA gene amplicon sequencing data

    Ahmed, M., Leys, N., Raes, J. & Monsieurs, P., 29 Apr 2016, In: BMC Bioinformatics. 17, p. 192:1-192:11 11 p.

    Research output: Contribution to journalArticlepeer-review

  8. Reconciliation between operational taxonomic units and species boundaries: DynamiC OTU cut-off

    Ahmed, M., Vandamme, P., Props, R., Kerckhof, F-M., Leys, N., Boon, N., Raes, J. & Monsieurs, P., 1 Apr 2017, In: FEMS Microbiology Ecology. 93, p. 1-12 12 p.

    Research output: Contribution to journalArticlepeer-review

  9. Assessing the Impact of Flavophospholipol and Virginiamycin Supplementation on the Broiler Microbiota - a Prospective Controlled Intervention Study

    Ahmed, M., Berkell, M., Xavier, B., De Backer, S., Lammens, C. & Hautekiet, V., 31 Aug 2021, In: mSystems. 6, 4, p. 1-16 16 p., e00381-21.

    Research output: Contribution to journalArticlepeer-review

  10. From reads to operational taxonomic units: an ensemble processing pipeline for MiSeq amplicon sequencing data. OCToPUS 16s Metagenomic pipeline

    Ahmed, M. M., Njima, M., Leys, N., Raes, J. & Monsieurs, P., 1 Feb 2017, In: GigaScience. 6, 1-10, p. 1-10 10 p.

    Research output: Contribution to journalArticlepeer-review

  11. Impact of alignment algorithms on 16S metagenomics analysis

    Ahmed, M. M., Shahin, M., Monsieurs, P. & Ramakrishnan, A., 30 Jan 2018, Proceedings of the 8th Cairo International Biomedical Engineering Conference (CIBEC). IEEE - Institute of Electrical and Electronics Engineers, p. 19-21 3 p.

    Research output: Contribution to report/book/conference proceedingsIn-proceedings paperpeer-review

  12. Genomic and Transcriptomic Changes that Mediate Increased Platinum Resistance in Cupriavidus metallidurans

    Ali, M. M., Provoost, A., Maertens, L., Leys, N., Monsieurs, P., Charlier, D. & Van Houdt, R., 18 Jan 2019, In: Genes. 10, p. 1-22 22 p., 10010063.

    Research output: Contribution to journalArticlepeer-review

  13. Novel metal resistance mechanisms of Cupriavidus metallidurans

    Ali, M. M. & Van Houdt, R., 18 Nov 2019, 207 p.

    Research output: ThesisDoctoral thesis

  14. DNA-Binding and Transcription Activation by Unphosphorylated Response Regulator AgrR From Cupriavidus metallidurans Involved in Silver Resistance

    Ali, M. M., Provoost, A., Mijnendonckx, K., Van Houdt, R. & Charlier, D., 17 Jul 2020, In: Frontiers in Microbiology. p. 1-17 17 p., 1635.

    Research output: Contribution to journalArticlepeer-review

  15. First Description of Various Bacteria Resistant to Heavy Metals and Antibiotics Isolated from Polluted Sites in Tunisia

    Ali, M. M., Dziri, O., Ferjani, S., Ahmed, M. M., Boutiba Ben Boubaker, I., Van Houdt, R. & Chouchani, C., 1 Jun 2021, In: Polish Journal of Microbiology. 70, 2, p. 161-174 14 p.

    Research output: Contribution to journalArticlepeer-review

  16. Physiological changes induced in bacteria following pH stress as a model for space research.

    Baatout, S., Leys, N., Hendrickx, L., Dams, A., Mergeay, M. & Van Houdt, R., 15 Feb 2007, In: Acta Astronautica. 60, 4-7, p. 451-459

    Research output: Contribution to journalArticlepeer-review

  17. Molecular investigation of radiation resistant cyanobacterium Arthrospira sp. PCC8005

    Badri, H., Janssen, P. & Mastroleo, F., 23 Jan 2015, Mons, Belgium: UMONS - Université de Mons. 291 p.

    Research output: ThesisDoctoral thesis

  18. Temporal Gene Expression of the Cyanobacterium Arthrospira in Response to Gamma Rays

    Badri, H., Monsieurs, P., Coninx, I., Nauts, R., Wattiez, R. & Leys, N., Aug 2015, In: PLOS ONE. 10, 8, p. 1-29 e0135565.

    Research output: Contribution to journalArticlepeer-review

  19. Molecular investigation of the radiation resistance of edible cyanobacterium Arthrospira sp. PCC 8005

    Badri, H., Monsieurs, P., Coninx, I., Wattiez, R. & Leys, N., Apr 2015, In: Microbiology Open. 4, 2, p. 187-207

    Research output: Contribution to journalArticlepeer-review

  20. Investigations on the potential radio-protective properties of edible Cyanobacterium during pelvic irradiation in a mouse model

    Beeck, W. V., Verslegers, M. & Mastroleo, F., 24 Jun 2016, 76 p.

    Research output: ThesisMaster's thesis

  21. Book of abstracts Day of the PhD's October 27, 2016

    Belmans, N., Ali, M. M., Baselet, B., Byloos, B., Mbouombouo Mfossa, A. C., Van Eesbeeck, V., Yadav, A. & Baatout, S., 27 Oct 2016, SCK CEN. (SCK•CEN Reports; no. SCK•CEN BA-0083)

    Research output: Report/bookBook of abstractspeer-review

  22. First report of cross resistance to silver and antibiotics in Klebsiella pneumoniae isolated from patients and polluted water in Tunisia

    Ben Miloud, S., Ali, M. M., Boutiba Ben Boubaker, I., Van Houdt, R. & Chouchani, C., May 2021, In: Water and environment journal. 35, 2, p. 730-739 10 p.

    Research output: Contribution to journalArticlepeer-review

  23. Microbiota-based markers predictive of development of Clostridioides difficile infection

    Berkell, M., Ahmed, M., Xavier, B., van Werkhoven, C. H., Monsieurs, P., Lammens, C., Ducher, A., Vehreschild, M. J. G. T., Goossens, H., De Gunzburg, J., Bonten, M. J. M. & Malhotra-kumar, S., 14 Apr 2021, In: Nature Communications. 12, p. 1-14 14 p., 2241.

    Research output: Contribution to journalArticlepeer-review

  24. A molecular toolbox to estimate the number and diversity of Variovorax in the environment: application in soils treated with the phenylurea herbicide linuron

    Bers, K., Sniegowski, K., Albers, P., Breugelmans, P., Hendrickx, L., De Mot, R. & Springael, D., 1 Apr 2011, In: FEMS Microbiology Ecology. 76, 1, p. 14-25 12 p.

    Research output: Contribution to journalArticlepeer-review

  25. Structure and Metal binding Characterization of the C-terminal Mellochaperone Domain of Membrane Fusion Protein SilB from Cupriavidus metallidurans CH34

    Bersch, B., Derfoufi, K., de Angelis, F., Auquier, V., Ngonlong Ekende, E., Mergeay, M., Ruysschaert, J-M., Vandenbussche, G. & Monsieurs, P., 7 Feb 2011, In: Biochemistry. 50, 12, p. 2194-2204

    Research output: Contribution to journalArticlepeer-review

  26. Molecular Structure and Metal-binding Properties of the Periplasmic CopK Protein Expressed in Cupriavidus metallidurans CH34 During Copper Challenge

    Bersch, B., Favier, A., Schanda, P., van Aelst, S., Vallaeys, T., Covès, J., Mergeay, M., Wattiez, R. & Van Houdt, R., 4 Jul 2008, In: Journal of Molecular Biology. 380, 2, p. 386-403

    Research output: Contribution to journalArticlepeer-review

  27. BIOSMHARS: Biocontamination specific modelling in habitats related to space

    Berthier, A., Leys, N., Van Houdt, R., Tikhomirov, A., Novikova, N., Ilyin, V., Kulmala, I., Lehtimäki, M., Kokkonen, E., Pasanen, P., Abaibou, H. & Mastroleo, F., Jul 2012, Let’s Embrace Space. 1 ed. Luxembourg, Luxembourg: EC - European Commission, Vol. 2. p. 278-284 (Let's Embrace Space; no. volume 2).

    Research output: Contribution to report/book/conference proceedingsChapterpeer-review

  28. Bacillus thuringiensis conjugation in simulated microgravity

    Beuls, E., Van Houdt, R., Leys, N., Dijkstra, C., Larkin, O., Mahillon, J. & Mijnendonckx, K., 21 Oct 2009, In: Astrobiology. 9, 8, p. 797-805

    Research output: Contribution to journalArticlepeer-review

  29. Impact of the electron donor on in situ microbial nitrate reduction in Opalinus Clay: results from the Mont Terri rock laboratory (Switzerland)

    Bleyen, N., Smets, S., Small, J., Moors, H., Leys, N., Albrecht, A., De Cannière, P., Schwyn, B., Wittebroodt, C. & Valcke, E., 1 Apr 2017, In: Swiss Journal of Geosciences. 110, 1, p. 355-374 20 p.

    Research output: Contribution to journalArticlepeer-review

  30. Biodegradability of dissolved organic matter in Boom Clay pore water under nitrate-reducing conditions: Effect of additional C and P sources

    Bleyen, N., Hendrix, K., Moors, H., Durce, D., Vasile, M. & Valcke, E., 2 May 2018, In: Applied Geochemistry. 92, p. 45-58 14 p.

    Research output: Contribution to journalArticlepeer-review

  31. Ex and in situ reactivity and sorption of selenium in Opalinus clay in the presence of a selenium reducing microbial community

    Bleyen, N., Small, J., Mijnendonckx, K., Hendrix, K., Albrecht, A., De Cannière, P., Surkova, M., Wittebroodt, C. & Valcke, E., 13 Jul 2021, In: Minerals. 11, 757, p. 1-33 33 p., 11070757.

    Research output: Contribution to journalArticlepeer-review

  32. Gravitational Cell Biology

    Boonstra, J., Bradamante, S., Colige, A. C., Hemmersbach, R., Lambert, C. A., Leys, N., van Loon, J. J. W. A., Nusgens, B. V. & Mastroleo, F., Dec 2011, Laboratory Science with Space Data. 1 ed. Heidelberg, Germany: Springer, Vol. 1. p. 107-112

    Research output: Contribution to report/book/conference proceedingsChapterpeer-review

  33. Conjugative transfer of broad host range plasmids to an acidobacterial strain, Edaphobacter aggregans

    Bouhajja, E., Efthymiopoulus, T., George, I. F., Moreels, D., Van Houdt, R., Mergeay, M. & Agathos, S. N., 22 Jan 2016, In: Journal of Biotechnology. 221, p. 107-113

    Research output: Contribution to journalArticlepeer-review

  34. Loss of Furin in β cells Induces an mTORC1-ATF4 Anabolic Pathway that Leads to β cell Dysfunction

    Brouwers, B., Coppola, I., Vints, K., Dislich, B., Van Lommel, L., Segers, C., Gounko, N. V., Thorrez, L., Schuit, F., Lichtenthaler, S. F., Estall, J. L., Declercq, J., Ramos-Molina, B. & Creemers, J. W. M., 4 Dec 2020, In: Diabetes. 70, 2, p. 492-503 12 p., db200474.

    Research output: Contribution to journalArticlepeer-review

  35. Reevaluating multicolor flow cytometry to assess microbial viability

    Buysschaert, B., Byloos, B., Leys, N., Van Houdt, R. & Boon, N., 1 Sep 2016, In: Applied Microbiology and Biotechnology. 100, p. 9037-9051 15 p.

    Research output: Contribution to journalArticlepeer-review

  36. The Impact of Space Flight on Survival and Interaction of Cupriavidus metallidurans CH34 with Basalt, a Volcanic Moon Analog Rock

    Byloos, B., Coninx, I., Van Hoey, O., Van Houdt, R. & Leys, N., 28 Apr 2017, In: Frontiers in Microbiology. 8, p. 1-14 14 p., 671.

    Research output: Contribution to journalArticlepeer-review

  37. The Ability of Basalt to Leach Nutrients and Support Growth of Cupriavidus metallidurans CH34 Depends on Basalt Composition and Element Release

    Byloos, B., Maan, H., Van Houdt, R., Boon, N. & Leys, N., 15 Feb 2018, In: Geomicrobiology Journal. 35, 5, p. 438-446 8 p.

    Research output: Contribution to journalArticlepeer-review

  38. The interaction of bacteria with volcanic rocks on Earth and in Space

    Byloos, B., Leys, N. & Van Houdt, R., 27 Sep 2017, 243 p.

    Research output: ThesisDoctoral thesis

  39. Characterization of the bacterial communities on recent Icelandic volcanic deposits of different ages

    Byloos, B., Monsieurs, P., Ahmed, M., Leys, N., Boon, N. & Van Houdt, R., 24 Sep 2018, In: BMC Microbiology. 11 p., 18:122.

    Research output: Contribution to journalArticlepeer-review

  40. Genome-wide transcriptional analysis suggests hydrogenase- and nitrogenase-mediated hydrogen production in Clostridium butyricum CWBI 1009

    Calusinska, M., Hamilton, C., Monsieurs, P., Mathy, G., Leys, N., Franck, F., Joris, B., Thonart, P., Hiligsmann, S., Wilmotte, A., Van Houdt, R. & Moors, H., 22 Feb 2015, In: Biotechnology for Biofuels. 8, 27, p. 1-16

    Research output: Contribution to journalArticlepeer-review

  41. Expression of a Novel P22 ORFan Gene Reveals the Phage Carrier State in Salmonella Typhimurium

    Cenens, W., Mebrhatu, M. T., Makumi, A., Ceyssens, P-J., Lavigne, R., Van Houdt, R., Taddei, F. & Aertsen, A., 14 Feb 2013, In: PLOS Genetics. 9, 2, p. 1003269-1

    Research output: Contribution to journalArticlepeer-review

  42. Evolutionary Divergence of Brain-specific Precursor miRNAs Drives Efficient Processing and Production of Mature miRNAs in Human

    Chakroborty, S., Islam, M. R., Ali, M. M. & Nabi, A. H. M. N., 10 Nov 2018, In: Neuroscience. 392, p. 141-159 19 p.

    Research output: Contribution to journalArticlepeer-review

  43. A “Refined Hydrogen Rule” and a “Refined Hydrogen and Halogen Rule” for Organic Molecules

    Claesen, J., Valkenborg, D. & Burzykowski, T., 2 Jan 2020, In: Journal of Mass Spectrometry. 31, 1, p. 132-136 5 p.

    Research output: Contribution to journalArticlepeer-review

  44. Predicting the number of sulfur atoms in peptides and small proteins based on the observed aggregated isotope distribution

    Claesen, J., Valkenborg, D. & Burzykowski, T., 8 Jul 2021, In: Rapid Communications in Mass Spectrometry. 35, p. 1-8 8 p., e9162.

    Research output: Contribution to journalArticlepeer-review

  45. Space station biomining experiment demonstrates rare earth element extraction in microgravity and Mars gravity

    Cockell, C. S., Santomartino, R., Finster, K., Waajen, A. C., Eades, L. J., Moeller, R., Rettberg, P., Fuchs, F., Van Houdt, R., Leys, N., Coninx, I., Hatton, J., Parmitano, L., Krause, J., Koehler, A., Caplin, N., Zuijderduijn, L., Demets, R., Mariani, A., Pellari, S. S. & 9 others, Carubia, F., Luciani, G., Balsamo, M., Zolesi, V., Doswald-Winkler, J., Herova, M., Rattenbacher, B., Wadsworth, J. & Everroad, C. R., 10 Nov 2020, In: Nature Communications. 11, p. 1-11 11 p., 5523.

    Research output: Contribution to journalArticlepeer-review

  46. Microbially-Enhanced Vanadium Mining and Bioremediation Under Micro- and Mars Gravity on the International Space Station

    Cockell, C. S., Santomartino, R., Finster, K., Waajen, A. C., Nicholson, N., Loudon, C-M., Eades, L. J., Moeller, R., Rettberg, P., Fuchs, F., Van Houdt, R., Leys, N., Coninx, I., Hatton, J., Parmitano, L., Krause, J., Koehler, A., Caplin, N., Zuijderduijn, L., Mariani, A. & 15 others, Pellari, S. S., Carubia, F., Luciani, G., Balsamo, M., Zolesi, V., Zolesi, V., Ochoa, J., Sen, P., Watt, J. A. J., Doswald-Winkler, J., Herova, M., Rattenbacher, B., Wadsworth, J., Everroad, C. R. & Demets, R., 1 Apr 2021, In: Frontiers in Microbiology. p. 1-15 15 p.

    Research output: Contribution to journalArticlepeer-review

  47. Construction and phenotypic characterization of M68, an RruI quorum sensing knockout mutant of the photosynthetic alphaproteobacterium Rhodospirillum rubrum

    Condori Catachura, S., Leys, N. & Mastroleo, F., 16 Mar 2016, In: Microbiology. 167, p. 380-392

    Research output: Contribution to journalArticlepeer-review

  48. Quorum sensing in life support systems: The MELiSSA loop

    Condori Catachura, S., Leys, N. & Mastroleo, F., 12 Aug 2018, Quorum Sensing and its Biotechnological Applications. Springer Singapore, p. 249-260 12 p.

    Research output: Contribution to report/book/conference proceedingsChapterpeer-review

  49. Alveolar epithelium protects macrophages from quorum sensing-induced cytotoxicity in a three-dimensional co-culture model

    Crabbé, A., Sarker, S., Van Houdt, R., Ott, M., Leys, N., Cornelis, P., Nickerson, C. & Monsieurs, P., Mar 2011, In: Cellular Microbiology. 13, 3, p. 469-481

    Research output: Contribution to journalArticlepeer-review

  50. Transcriptional and proteomic responses of Pseudomonas aeruginosa PAO1 to spaceflight conditions involve Hfq regulation and reveal a role for oxygen.

    Crabbé, A., Schurr, M., Monsieurs, P., Morici, L., Schurr, J., Wilson, J., Ott, M., Tsaprailis, G., Pierson, D., Stefanyshyn-Piper, H. & Nickerson, C., 1 Feb 2011, In: Applied and Environmental Microbiology. 77, 4, p. 1221-1230

    Research output: Contribution to journalArticlepeer-review

  51. Effect van gesimuleerde micrograviteit op het gedrag van de bacterie Cupriavidus Metallidurans CH34

    Crabbé, A., De Boever, P. & Mergeay, M., Jun 2005, Brussels, Belgium: VUB - Vrije Universiteit Brussel. 64 p.

    Research output: ThesisMaster's thesis

  52. Response of Pseudomonas aeruginosa PAO1 to low shear modelled microgravity involves AlgU regulation

    Crabbé, A., Pycke, B., Van Houdt, R., Monsieurs, P., Nickerson, C., Leys, N., Cornelis, P. & Moors, H., Jun 2010, In: Environmental Microbiology. 12, 6, p. 1545-1564

    Research output: Contribution to journalArticlepeer-review

  53. Use of the rotating wall vessel technology to study the effect of shear stress on growth behaviour of Pseudomonas aeruginosa PA01

    Crabbé, A., De Boever, P., Van Houdt, R., Moors, H., Mergeay, M. & Cornelis, P., Aug 2008, In: Environmental Microbiology. 10, 8, p. 2098-2110

    Research output: Contribution to journalArticlepeer-review

  54. Differential proteomics and physiology of Pseudomonas putida KT2440 under filament-inducing conditions

    Crabbé, A., Leroy, B., Wattiez, R., Aertsen, A., Leys, N., Cornelis, P., Van Houdt, R. & Mastroleo, F., Nov 2012, In: BMC Microbiology. 12, p. 282-287

    Research output: Contribution to journalArticlepeer-review

  55. Antimicrobial efficacy against Pseudomonas aeruginosa biofilm formation in a three-dimensional lung epithelial model and the influence of fetal bovine serum

    Crabbé, A., Liu, Y., Matthijs, N., Rigole, P., De La Fuente-Nùñez, C., Davis, R., Ledesma, M. A., Sarker, S., Van Houdt, R., Hancock, R. E. W., Coenye, T. & Nickerson, C. A., 3 Mar 2017, In: Scientific Reports. 7, p. 1-13 13 p., 43321.

    Research output: Contribution to journalArticlepeer-review

  56. Interaction plantes - bactéries sur des substrats contaminés en cuivre; cas de l’arc cuprifère du Katanga

    Cubaka Kabagale, A. & Leys, N., 26 Aug 2010, Brussels, Belgium: ULB - Université Libre de Bruxelles. 204 p.

    Research output: ThesisDoctoral thesis

  57. Sulphur-related issues in deep underground nuclear waste disposal systems

    De Cannière, P., Kursten, B., Druyts, F., Moors, H. & Gens, R., Sep 2011, Sulphur-assisted corrosion in nuclear disposal systems. 1 ed. Leeds, United Kingdom: Taylor & Francis (CRC), p. 165-169 (European Federation of Corrosion Publications; no. Number 59).

    Research output: Contribution to report/book/conference proceedingsChapterpeer-review

  58. Description of the HADES piezometers used for the study of in situ Boom Clay pore water chemistry

    De Craen, M., Moors, H. & Verstricht, J., 3 Jun 2019, SCK CEN. 194 p. (SCK•CEN Reports; no. SCK•CEN ER-0329)

    Research output: Report/bookER - External reportpeer-review

  59. Biological removal of 17a-ethinylestradiol by a nitrifier enrichment culture in a membrane bioreactor

    De Gusseme, B., Pycke, B., Hennebel, T., Marcoen, A., Vlaeminck, S. E., Noppe, H., Boon, N., Verstraete, W. & Van Houdt, R., Feb 2009, In: Water Research. 43, 9, p. 2493-2503

    Research output: Contribution to journalArticlepeer-review

  60. Fungi and Mycotoxins in Space - A Review

    De Middeleer, G., Leys, N., Sas, B. & De Saeger, S., 11 Apr 2019, In: Astrobiology. 19, 7, p. 1-12 12 p.

    Research output: Contribution to journalArticlepeer-review

  61. Space omics research in Europe - Contributions, geographical distribution and ESA member state funding schemes

    Deane, C. S., Mastroleo, F., Leys, N., da Silveira, W. A. & Herranz, R., 18 Mar 2022, In: iScience. 25, 3, p. 1-18 18 p., 103920.

    Research output: Contribution to journalArticlepeer-review

  62. Trade-Off between Growth and Carbohydrate Accumulation in Nutrient-Limited Arthrospira sp. PCC 8005 Studied by Integrating Transcriptomic and Proteomic Approaches

    Depraetere, O., Deschoenmaeker, F., Badri, H., Monsieurs, P., Foubert, I., Leys, N., Wattiez, R. & Muylaert, K., Jul 2015, In: PLOS ONE. 10, 7, p. 1-19

    Research output: Contribution to journalArticlepeer-review

  63. Harvesting carbohydrate-rich Arthrospira platensis by spontaneous settling

    Depraetere, O., Pierre, G., Deschoenmaeker, F., Badri, H., Foubert, I., Leys, N., Markou, G., Wattiez, R., Philippe, M., Muylaert, K. & Janssen, P., Mar 2015, In: Bioresource Technology. 180, p. 16-21

    Research output: Contribution to journalArticlepeer-review

  64. Proteomic and cellular views of Arthrospira sp.PCC 8005 adaptation to nitrogen depletion

    Deschoenmaeker, F., Facchini, R., Leroy, B., Badri, H., Zhang, C-C. & Wattiez, R., 17 Apr 2014, In: Microbiology. 160, 2014, p. 1224-1236

    Research output: Contribution to journalArticlepeer-review

  65. From industrial sites to environmental applications with Cupriavidus metallidurans

    Diels, L., Van Roy, S., Taghavi, S., Van Houdt, R. & Moors, H., Aug 2009, In: Antonie van Leeuwenhoek. 96, 2, p. 247-258

    Research output: Contribution to journalArticlepeer-review

  66. Adaptation of Pseudomonas aeruginosa to the cystic fibrosis lung and the role of shear stress in disrupting alginate matrix biofilms

    Dingemans, J. & Van Houdt, R., Oct 2015, Brussels, Belgium: VUB - Vrije Universiteit Brussel. 233 p.

    Research output: ThesisDoctoral thesis

  67. The deletion of TonB-dependent receptor genes is part of the genome reduction process that occurs during adaptation of Pseudomonas aeruginosa to the cystic fibrosis lung

    Dingemans, J., Ye, L., Hildebrand, F., Tontodonati, F., Craggs, M., Bilocq, F., De Vos, D., Crabbé, A., Van Houdt, R., Malfroot, A. & Cornelis, P., Apr 2014, In: Pathogens and Disease. 71, 3-4, p. 26-38

    Research output: Contribution to journalArticlepeer-review

  68. Effect of Shear Stress on Pseudomonas aeruginosa Isolated from the Cystic Fibrosis Lung

    Dingemans, J., Monsieurs, P., Yu, S-H., Crabbé, A., Förstner, K. U., Malfroot, A., Cornelis, P. & Van Houdt, R., 2 Aug 2016, In: mBio. 7, 4, 16 p., e00813-16.

    Research output: Contribution to journalArticlepeer-review

  69. Intrapulmonary percussive ventilation improves lung function in cystic fibrosis patients chronically colonized with Pseudomonas aeruginosa: a pilot cross-over study

    Dingemans, J., Eyns, H., Willekens, J., Monsieurs, P., Van Houdt, R., Cornelis, P., Malfroot, A. & Crabbé, A., 20 Mar 2018, In: European Journal of Clinical Microbiology & Infectious Diseases. 37, p. 1143-1151 8 p.

    Research output: Contribution to journalArticlepeer-review

  70. Microarray gene expression analysis Highlights Different Profiles in Whole Blood Samples X-Irradiated with Low and High Doses

    El Saghire, H., Thierens, H., Monsieurs, P., Michaux, A., Vandevoorde, C., Vanmarcke, H. & Baatout, S., Apr 2013, In: Annalen van de Belgische Vereniging voor Stralingsbescherming / Annales de l'association Belge de radioprotection. 38, 3, p. 279-287

    Research output: Contribution to journalArticlepeer-review

  71. Intensity modulated radiotherapy induces pro-inflammatory and pro-survival responses in prostate cancer patients

    El Saghire, H., Vandevoorde, C., Ost, P., Monsieurs, P., Michaux, A., De Meerleer, G., Baatout, S. & Thierens, H., Feb 2014, In: International Journal of Oncology. 44, 4, p. 1073-1083

    Research output: Contribution to journalArticlepeer-review

  72. Gene set enrichment analysis highlights different gene expression profiles in whole blood samples X-irradiated with low and high doses

    El Saghire, H., Thierens, H., Monsieurs, P., Michaux, A., Vandevoorde, C. & Baatout, S., Aug 2013, In: International Journal of Radiation Biology. 89, 8, p. 628-638

    Research output: Contribution to journalArticlepeer-review

  73. Inferring the transcriptional network of Bacillus subtilis

    Fadda, A., Fierro, A. C., Lemmens, K., Monsieurs, P., Engelen, K. & Marchal, K., 1 Nov 2009, In: Molecular Biosystems. 5, 12, p. 1840-1852

    Research output: Contribution to journalArticlepeer-review

  74. Microbial Monitoring in the EDEN ISS Greenhouse, a Mobile Test Facility in Antarctica

    Fahrion, J., Fink, C., Zabel, P., Schubert, D., Ahmed, M. M., Van Houdt, R., Eikmanns, B., Beblo-Vranesevic, K. & Rettberg, P., 31 Mar 2020, In: Frontiers in Microbiology. p. 1-15 15 p.

    Research output: Contribution to journalArticlepeer-review

  75. Use of Photobioreactors in Regenerative Life Support Systems for Human Space Exploration

    Fahrion, J., Mastroleo, F., Gilles, D. & Leys, N., 29 Jun 2021, In: Frontiers in Microbiology. 12, p. 1-14 14 p., 699525.

    Research output: Contribution to journalSpecial issuepeer-review

  76. Impact of oxygen on cyanobacterium Arthrospira sp. PCC 8005

    Garcia, J. & Leys, N., 23 Jun 2015, Bilao, Spain: UC - University of Cantabria. 39 p.

    Research output: ThesisMaster's thesis

  77. Diversité microbienne dans les milieux karstiques

    Gerin, X. & Moors, H., 5 Sep 2012, Liège, Belgium: ULg - Université de Liège. 70 p.

    Research output: ThesisMaster's thesis

  78. Paleomicrobiology to investigate copper resistance in bacteria: isolation and description of Cupriavidus necator B9 in the soil of a medieval foundry

    Gillan, D. C., Van Camp, C., Mergeay, M., Provoost, A., Thomas, N., Vermard, L., Billon, G. & Wattiez, R., 27 Jan 2017, In: Environmental Microbiology. 19, 2, p. 770-787 7 p.

    Research output: Contribution to journalArticlepeer-review

  79. A Conceptual Framework for Abundance Estimation of Genomic Targets in the Presence of Ambiguous Short Sequencing Reads

    Górzcak, K., Claesen, J. & Burzykowski, T., 31 Dec 2019, In: Journal of Computational Biology. 27, 0, p. 1-16 16 p.

    Research output: Contribution to journalArticlepeer-review

  80. PaSiT: a novel approach based on short-oligonucleotide frequencies for efficient bacterial identification and typing

    Goussarov, G., Cleenwerck, I., Ahmed, M., Leys, N., Monsieurs, P., Tahon, G., Carlier, A., Vandamme, P. & Van Houdt, R., 3 Jan 2020, In: Bioinformatics. p. 1-8 8 p., 964.

    Research output: Contribution to journalArticlepeer-review

  81. Bioinformatics tools for metagenomic analysis of bacterial communities

    Goussarov, G. & Van Houdt, R., 9 Nov 2021, UGent - Universiteit Gent. 178 p.

    Research output: ThesisDoctoral thesis

  82. Accurate prediction of metagenome‑assembled genome completeness by MAGISTA, a random forest model built on alignment‑free intra‑bin statistics

    Goussarov, G., Claesen, J., Ahmed, M., Leys, N., Vandamme, P. & Van Houdt, R., 5 Mar 2021, In: Environmental Microbiome. 17, 9, p. 1-13 13 p.

    Research output: Contribution to journalArticlepeer-review

  83. Introduction to the principles and methods underlying the recovery of metagenome‐assembled genomes from metagenomic data

    Goussarov, G., Ahmed, M., Vandamme, P. & Van Houdt, R., 9 Jun 2022, In: Microbiology Open. 11, 3, p. 1-19 19 p., e1298.

    Research output: Contribution to journalArticlepeer-review

  84. A global approach to asses stress response of the bioregenerative life support system organism Rhodospirillum rubrum under space-flight related environmental conditions.

    Hendrickx, L., Mastroleo, F., Baatout, S., Paillé, C., Mergeay, M. & Wattiez, R., 11 Jul 2005, A global approach to asses stress response of the bioregenerative life support system organism Rhodospirillum rubrum under space-flight related environmental conditions.. San Francisco, United States, p. 1-5

    Research output: Contribution to report/book/conference proceedingsIn-proceedings paperpeer-review

  85. From the deep sea to the stars: human life support through minimal communities

    Hendrickx, L. & Mergeay, M., 5 Jun 2007, In: Current opinion in microbiology. 10, 3, p. 231-237

    Research output: Contribution to journalArticlepeer-review

  86. Tomato plants rather than fertilizers drive microbial community structure in horticultural growing media

    Hernandez-Sanabria, E., Grunert, O., Grunert, O., Robles-Aguilar, A. A., Hernandez-Sanabria, E., Schrey, S. D., Reheul, D., Van Labeke, M-C., Vlaeminck, S. E., Vandekerckhove, T. G. L., Ahmed, M., Monsieurs, P., Temperton, V. M., Boon, N. & Jablonowski, N. D., 2 Jul 2019, In: Scientific Reports. 9, p. 1-15 15 p., 9561.

    Research output: Contribution to journalArticlepeer-review

  87. Boom Clay pore water geochemistry at the Mol site: Experimental data as determined by in situ sampling of the piezometers

    Honty, M., Frederickx, L., Wang, L., De Craen, M., Thomas, P., Moors, H. & Jacops, E., 1 Jan 2022, In: Applied Geochemistry. 136, p. 1-19 19 p., 105156.

    Research output: Contribution to journalArticlepeer-review

  88. Ferrous Iron Is a Significant Component of Bioavailable Iron in Cystic Fibrosis Airways

    Hunter, R. C., Asfour, F., Dingemans, J., Osuna, B. L., Samad, T., Malfroot, A., Cornelis, P., Newman, D. K. & Van Houdt, R., Aug 2013, In: mBio. 4, 4, p. 1-8

    Research output: Contribution to journalArticlepeer-review

  89. Reactivation of Microbial Strains and Synthetic Communities After a Spaceflight to the International Space Station: Corroborating the Feasibility of Essential Conversions in the MELiSSA Loop

    Ilgrande, C., Mastroleo, F., Christiaens, M. E. R., Lindeboom, R. E. F., Prat, D., Van Hoey, O., Ambrozova, I., Coninx, I., Heylen, W., Pommerening-Roser, A., Spieck, E., Boon, N., Vlaeminck, S. E., Leys, N. & Clauwaert, P., 4 Jun 2019, In: Astrobiology. 19, 9, p. 1-10 10 p.

    Research output: Contribution to journalArticlepeer-review

  90. Measuring the effective diffusion coefficient of dissolved hydrogen in saturated Boom Clay

    Jacops, E., Wouters, K., Volckaert, G., Moors, H., Maes, N., Bruggeman, C., Swennen, R. & Littke, R., Oct 2015, In: Applied Geochemistry. 61, p. 175-184

    Research output: Contribution to journalArticlepeer-review

  91. Radiation sensitivity of the gastrula-stage embryo: Chromosomeaberrations and mutation induction in lacZ transgenic mice: The rolesof DNA double-strand break repair systems

    Jacquet, P., van Buul, P., van Duijn-Goedhart, A., Reynaud, K., Buset, J., Neefs, M., Michaux, A., Monsieurs, P., de Boer, P. & Baatout, S., Oct 2015, In: Mutation Research. 792, 10, p. 26-34

    Research output: Contribution to journalArticlepeer-review

  92. The Complete Genome Sequence of Cupriavidus metallidurans strain CH34, a Master Survivalist in Harsh and Anthropogenic Environments

    Janssen, P., Van Houdt, R., Moors, H., Monsieurs, P., Morin, N., Michaux, A., Benotmane, R., Leys, N., Vallaeys, T., Lapidus, A., Monchy, S., Médigue, C., Taghavi, S., McCorkle, S., Dunn, J., van der Lelie, D., Mergeay, M., Deconinck, F., Vandenhove, H. & Maes, N., 5 May 2010, In: PLOS ONE. 5, 5, p. e10433-e10433

    Research output: Contribution to journalArticlepeer-review

  93. Arthrospira - a multitalented microalga

    Janssen, P., Monsieurs, P., Vandenhove, H. & Massaut, V., 30 Apr 2014, In: International Innovation. 134, p. 58-60

    Research output: Contribution to journalArticlepeer-review

  94. Genome Sequence of the Edible Cyanobacterium Arthrospira sp. PCC 8005

    Janssen, P., Morin, N., Mergeay, M., Leroy, B., Wattiez, R., Vallaeys, T., Waleron, K., Waleron, M., Wilmotte, A., Quillardet, P., Tandeau de Marsac, N., Talla, E., Zhang, C-C., Leys, N., Collard, G., Baatout, S. & Moors, H., 1 May 2010, In: Journal of Bacteriology. 192, 9, p. 2465-2466

    Research output: Contribution to journalArticlepeer-review

  95. Photosynthesis at the forefront of a sustainable life

    Janssen, P., Lambreva, M. D., Plumeré, N., Bartolucci, C., Antonacci, A., Buonasera, K., Frese, R. N., Scognamiglio, V., Rea, G., Horemans, N. & Mastroleo, F., Jun 2014, In: Frontiers in Chemistry. 2, p. 1-22

    Research output: Contribution to journalArticlepeer-review

  96. Topical Day | Ionising radiation: how do bacteria cope and what can we learn?

    Janssen, P., Yadav, A., Van Houdt, R., Monsieurs, P., Mastroleo, F., Mijnendonckx, K. & Van Eesbeeck, V., 21 Apr 2017, SCK CEN. (SCK•CEN Reports; no. BA-88)

    Research output: Report/bookBook of abstractspeer-review

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