Microbiologie

2016

Dissection of novel resistance mechanisms in Cupriavidus metallidurans

Ali, M. M., Mijnendonckx, K., Leys, N., Monsieurs, P., Charlier, D. & Van Houdt, R., 28 okt 2016.

Onderzoeksoutput: Poster

Donor Species Richness Determines Faecal Microbiota Transplantation Success in Inflammatory Bowel Disease

Vermeire, S., Joossens, M., Verbeke, K., Wang, J., Machiels, K., Sabino, J., Ferrante, M., Van Assche, G., Rutgeerts, P. & Raes, J., 2016, In: J Crohns Colitis. 10, 4, blz. 387-394

Onderzoeksoutput: Article › peer review

245 Citaten (Scopus)

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, blz. 813-816 4 blz.

Onderzoeksoutput: Article › peer review

24 Citaten (Scopus)

Homeostasis of trace elements in mycorrhizal fungi

Ruytinx, J., Martino, E., Rozpądek, P., Daghino, S., Turnau, K., Colpaert, J. V. & Perotto, S., okt 2016

Onderzoeksoutput: Other contribution

9 Citaten (Scopus)

Meta-omics in Inflammatory Bowel Disease Research: Applications, Challenges, and Guidelines

Valles-Colomer, M., El Darzi, Y., Araujo Vieira Da Silva, S. M., Falony, G., Raes, J. & Joossens, M., 2016, In: J Crohns Colitis. 10, 6, blz. 735-746 12 blz.

Onderzoeksoutput: Scientific review › peer review

36 Citaten (Scopus)

Molecular characterization of a GntR-like transcription factor involved in heat stress response in Sulfolobus acidocaldarius

Lemmens, L., De Koning, E. & Peeters, E., 28 okt 2016.

Onderzoeksoutput: Poster

Orthogonal Gene Expression: Creating 3 Promoter Libraries Linked to Different Sigma Factors Which Are Orthogonal Between Each Other and Towards the Host

Bervoets, I., De Mey, M. & Charlier, D., 19 jul 2016, (Unpublished).

Onderzoeksoutput: Poster

Bestand

277 Downloads (Pure)

Orthogonal Gene Expression: Creating 3 Promoter Libraries Linked to Different Sigma Factors Which Are Orthogonal Between Each Other and Towards the Host

Bervoets, I., De Mey, M. & Charlier, D., 2016, (Unpublished).

Onderzoeksoutput: Unpublished abstract

Bestand

26 Downloads (Pure)

The genome-scale DNA-binding profile of BarR, a β-alanine responsive transcription factor in the archaeon Sulfolobus acidocaldarius

Liu, H., Wang, K., Lindås, A-C. & Peeters, E., 8 aug 2016, In: BMC Genomics. 17, 11 blz., 569.

Onderzoeksoutput: Article › peer review

13 Citaten (Scopus)

The role of phosphorylation for the TetR-like transcription factor FadR in Sulfolobus acidocaldarius

Maklad, H. R. M. A., Valegard, K., Lindås, A-C. & Peeters, E., 18 nov 2016.

Onderzoeksoutput: Poster

The trigger enzyme PepA (aminopeptidase A) of Escherichia coli, a transcriptional repressor that generates positive supercoiling. PepA, repressor and chromatin remodeler

Nguyen Le Minh, P., Nadal, M. & Charlier, D., 7 jun 2016, In: FEBS Letters. 590, 12, blz. 1816-1825 10 blz., doi: 10.1002/1873-3468:12224.

Onderzoeksoutput: Article › peer review

11 Citaten (Scopus)

Transcriptional regulation of fatty acid metabolism in Sulfolobus acidocaldarius

Sybers, D., Lemmens, L., Zhou, X., Shen, L., Brasen, C., Siebers, B. & Peeters, E., 1 aug 2016.

Onderzoeksoutput: Poster

2015

Antibacterial activity and mutagenesis of sponge-associated Pseudomonas fluorescens H41

Ye, L., Santos-Gandelman, J. F., Hardoim, C. C. P., George, I., Cornelis, P. & Laport, M. S., jul 2015, In: Antonie Van Leeuwenhoek. 108, 1, blz. 117-26 10 blz.

Onderzoeksoutput: Article › peer review

4 Citaten (Scopus)

Belowground fungal communities in pioneer Scots pine stands growing on heavy metal polluted and non-polluted soils

Beeck, M. O. D., Ruytinx, J., Smits, M. M., Vangronsveld, J., Colpaert, J. V. & Rineau, F., jul 2015, In: Soil Biology and Biochemistry. 86, blz. 58-66 9 blz.

Onderzoeksoutput: Article › peer review

31 Citaten (Scopus)

CATCh, an ensemble classifier for chimera detection in 16S rRNA sequencing studies

Mysara, M., Saeys, Y., Leys, N., Raes, J. & Monsieurs, P., 2015, In: Applied and Environmental Microbiology. 81, 5, blz. 1573-1584 12 blz.

Onderzoeksoutput: Article › peer review

Open Access

40 Citaten (Scopus)

Characterization of Pseudomonas chlororaphis from Theobroma cacao L. rhizosphere with antagonistic activity against Phytophthora palmivora (Butler)

Acebo-Guerrero, Y., Hernandez-Rodriguez, A., Vandeputte, O., Miguelez-Sierra, Y., Heydrich-Perez, M., Ye, L., Cornelis, P., Bertin, P. & El-Jaziri, M., 2015, In: Journal of Applied Microbiology. 119, 4, blz. 1112-1126

Onderzoeksoutput: Article › peer review

24 Citaten (Scopus)

Commensal microbiota influence systemic autoimmune responses

Van Praet, J. T., Donovan, E., Vanassche, I., Drennan, M. B., Windels, F., Dendooven, A., Allais, L., Cuvelier, C. A., van de Loo, F., Norris, P. S., Kruglov, A. A., Nedospasov, S. A., Rabot, S., Tito, R., Raes, J., Gaboriau-Routhiau, V., Cerf-Bensussan, N., Van de Wiele, T., Eberl, G., Ware, C. F. & 1 anderen, Elewaut, D., 19 jan 2015, In: EMBO Journal. 34, 4, blz. 466-474

Onderzoeksoutput: Article › peer review

92 Citaten (Scopus)

Computational approaches to predict bacteriophage-host relationships

Edwards, R. A., McNair, K., Faust, K., Raes, J. & Dutilh, B. E., 9 dec 2015, In: FEMS Microbiology Reviews. 38, 6, blz. 258-272 15 blz.

Onderzoeksoutput: Article › peer review

Open Access

292 Citaten (Scopus)

Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists

Kohler, A., Kuo, A., Nagy, L. G., Morin, E., Barry, K. W., Buscot, F., Canbäck, B., Choi, C., Cichocki, N., Clum, A., Colpaert, J., Copeland, A., Costa, M. D., Doré, J., Floudas, D., Gay, G., Girlanda, M., Henrissat, B., Herrmann, S., Hess, J. & 30 anderen, Högberg, N., Johansson, T., Khouja, H-R., LaButti, K., Lahrmann, U., Levasseur, A., Lindquist, E. A., Lipzen, A., Marmeisse, R., Martino, E., Murat, C., Ngan, C. Y., Nehls, U., Plett, J. M., Pringle, A., Ohm, R. A., Perotto, S., Peter, M., Riley, R., Rineau, F., Ruytinx, J., Salamov, A., Shah, F., Sun, H., Tarkka, M., Tritt, A., Veneault-Fourrey, C., Zuccaro, A., Tunlid, A. & Grigoriev, I. V., apr 2015, In: Nature Genetics. 47, 4, blz. 410-415 6 blz.

Onderzoeksoutput: Article › peer review

794 Citaten (Scopus)

Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

Forslund, K., Hildebrand, F., Nielsen, T., Falony, G., Le Chatelier, E., Sunagawa, S., Prifti, E., Araujo Vieira Da Silva, S. M., et al, E. A., Raes, J., Hansen, T., Wang, J., Ehrlich, S. D., Bork, P. & Pederson, O., 2 dec 2015, In: Nature. 528, 7581, blz. 262-266

Onderzoeksoutput: Article › peer review

1545 Citaten (Scopus)

Expression of the translocator protein (TSPO) from Pseudomonas fluorescens Pf0-1 requires the stress regulatory sigma factors AlgU and RpoH

Leneveu-Jenvrin, C., Bouffartigues, E., Maillot, O., Cornelis, P., Feuilloley, M., Connil, N. & Chevalier, S., 2015, In: Frontiers in Microbiology. 6, 13 blz., 1023.

Onderzoeksoutput: Article › peer review

5 Citaten (Scopus)

Heterogeneity of the gut microbiome in mice: guidelines for optimizing experimental design

Laukens, D., Brinkman, B. M., Raes, J., De Vos, M. & Vandenabeele, P., 30 aug 2015, In: FEMS Microbiology Reviews. 38, 6, blz. 117-132 15 blz.

Onderzoeksoutput: Article › peer review

Open Access

280 Citaten (Scopus)

How informative is the mouse for human gut microbiota research?

Nguyen, T. L. A., Araujo Vieira Da Silva, S. M., Liston, A. & Raes, J., jan 2015, In: Disease Models and Mecanisms. 8, blz. 1-16 16 blz.

Onderzoeksoutput: Article › peer review

Open Access

902 Citaten (Scopus)

Interindividual differences in response to treatment with butyrate-producing Butyricicoccus pullicaecorum 25-3T studied in an in vitro gut model

Geirnaert, A., Wang, J., Tinck, M., Steyaert, A., Van den Abbeele, P., Eeckhaut, V., Vilchez-Vargas, R., Falony, G., Laukens, D., De Vos, M., Van Immerseel, F., Raes, J., Boon, N. & Van de Wiele, T., 20 mei 2015, In: FEMS Microbiology Ecology. 91, 6, 12 blz., fiv054.

Onderzoeksoutput: Article › peer review

48 Citaten (Scopus)

Intestinal microbiota and diet in IBS: causes, consequences, or epiphenomena?

Rajilić-Stojanović, M., Jonkers, D. M., Salonen, A., Havenik, K., Raes, J. & Penders, J., 27 jan 2015, In: Am J Gastroenterol. 110, 2, blz. 278-287

Onderzoeksoutput: Article › peer review

Open Access

288 Citaten (Scopus)

Ion current rectification, limiting and overlimiting conductances in nanopores

Van Oeffelen, L., Van Roy, W., Idrissi, H., Charlier, D., Lagae, L. & Borghs, G., 15 mei 2015, In: PLoS ONE. 10, 5, 16 blz., e0124171.

Onderzoeksoutput: Article › peer review

Open Access

14 Citaten (Scopus)

Ligand binding specificity of RutR, a member of the TetR family of transcription regulators in Escherichia coli

Nguyen Le Minh, P., De Cima, S., Bervoets, I., Maes, D., Rubio, V. & Charlier, D., 2015, FEBS Open Bio, 5, blz. 76-84 9 blz.

Onderzoeksoutput: Article › Specialist

Open Access

Bestand

15 Citaten (Scopus)

122 Downloads (Pure)

Ligand binding specificity of RutR, a member of the TetR family of transcription regulators in Escherichia coli

Nguyen Le Minh, P., de Cima, S., Bervoets, I., Maes, D., Rubio, V. & Charlier, D., 2015, In: FEBS Open Bio. 5, blz. 76-84 9 blz.

Onderzoeksoutput: Article › peer review

15 Citaten (Scopus)

Low Structural Variation in the Host-Defense Peptide Repertoire of the Dwarf Clawed Frog Hymenochirus boettgeri (Pipidae)

Matthijs, S., Lumeng, Y., Stijlemans, B., Cornelis, P., Bossuyt, F. & Roelants, K., 8 okt 2015, 22nd Benelux Congress of Zoology. blz. 47-47

Onderzoeksoutput: Meeting abstract (Book) › Research

Metagenomics meets time series analysis: unraveling microbial community dynamics

Faust, K., Lahti, L., Gonze, D., de Vos, W. M. & Raes, J., jun 2015, In: Current Opinion in Microbiology. 25, blz. 56-66 11 blz.

Onderzoeksoutput: Article › peer review

Open Access

294 Citaten (Scopus)

Microbiology Meets Big Data: The Case of Gut Microbiota-Derived Trimethylamine

Falony, G., Araujo Vieira Da Silva, S. M. & Raes, J., 15 okt 2015, In: Annu Rev Microbiol. 69, blz. 305-321

Onderzoeksoutput: Article › peer review

144 Citaten (Scopus)

Molecular mechanisms of action by a TetR-family transcription factor in S. acidocaldarius

Lemmens, L., Sybers, D., Wang, K., Lindås, A-C. & Peeters, E., jan 2015.

Onderzoeksoutput: Poster

Molecular mechanisms of action by a TetR-family transcription factor in Sulfolobus acidocaldarius

Lemmens, L., Sybers, D., Wang, K., Lindås, A-C. & Peeters, E., jun 2015, FEMS 2015 meeting abstract book. FEMS-1447

Onderzoeksoutput: Meeting abstract (Book) › Research

Open Access

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

Mysara, M., Leys, N., Raes, J. & Monsieurs, P., 2015, In: BMC Bioinformatics. 16, 1, blz. 88 10 blz.

Onderzoeksoutput: Article › peer review

Open Access

11 Citaten (Scopus)

Ocean plankton. Determinants of community structure in the global plankton interactome

Lima-Mendez, G., Faust, K., Henry, N., Decelle, J., Colin, S., Carcillo, F., Chaffron, S., Ignacio-Espinosa, J. C., Roux, S., Vincent, F., Bittner, L., Darzi, Y., Wang, J., Audic, S., Berline, L., Bontempi, G., Cabello, A. M., Coppola, L., Cornejo-Castillo, F. M., d'Ovidio, F. & 31 anderen, De Meester, L., Ferrera, I., Garet-Delmas, M-J., Guidi, L., Lara, E., Pesant, S., Royo-Llonch, M., Salazar, G., Sánchez, P., Sebastian, M., Souffreau, C., Dimier, C., Picheral, M., Searson, S., Kandels-Lewis, S., Gorsky, G., Not, F., Ogata, H., Speich, S., Stemmann, L., Weissenbach, J., Wincker, P., Acinas, S. G., Sunagawa, S., Bork, P., Sullivan, M. B., Karsenti, E., Bowler, C., de Vargas, C., Raes, J. & Tara Oceans Coordinators, 2015, In: Science. 348, 6237, blz. 1262073

Onderzoeksoutput: Article › peer review

668 Citaten (Scopus)

Ocean plankton. Eukaryotic plankton diversity in the sunlit ocean

de Vargas, C., Audic, S., Henry, N., Decelle, J., Mahé, F., Logares, R., Lara, E., Berney, C., Le Bescot, N., Probert, I., Carmichael, M., Poulain, J., Romac, S., Colin, S., Aury, J-M., Bittner, L., Chaffron, S., Dunthorn, M., Engelen, S., Flegontova, O. & 31 anderen, Guidi, L., Horák, A., Jaillon, O., Lima-Mendez, G., Lukeš, J., Malviya, S., Morard, R., Mulot, M., Scalco, E., Siano, R., Vincent, F., Zingone, A., Dimier, C., Picheral, M., Searson, S., Kandels-Lewis, S., Acinas, S. G., Bork, P., Bowler, C., Gorsky, G., Grimsley, N., Hingamp, P., Iudicone, D., Not, F., Ogata, H., Pesant, S., Raes, J., Sieracki, M. E., Speich, S., Stemmann, L. & Tara Oceans Coordinators, 2015, In: Science. 348, 6237, blz. 1261605

Onderzoeksoutput: Article › peer review

1279 Citaten (Scopus)

Ocean plankton. Structure and function of the global ocean microbiome

Sunagawa, S., Coelho, L. P., Chaffron, S., Lima Mendez, G., Araujo Vieira Da Silva, S. M., Raes, J., Acinas, S. G. & Bork, P., 22 mei 2015, In: Science. 348, 6237, 9 blz., 1261359.

Onderzoeksoutput: Article › peer review

1741 Citaten (Scopus)

Ovarian hyperstimulation syndrome after gonadotropin-releasing hormone agonist triggering and 'freeze-all': in depth analysis of genetic predisposition

Dos Santos Ribeiro, S., Polyzos, N., Stouffs, K., De Vos, M., Seneca, S., Tournaye, H. & Blockeel, C., jul 2015, In: Journal of Assisted Reproduction and Genetics. 32, 7, blz. 1063-1068

Onderzoeksoutput: Article › peer review

38 Citaten (Scopus)

Pseudomonas moraviensis subsp. stanleyae, a bacterial endophyte of hyperaccumulator Stanleya pinnata, is capable of efficient selenite reduction to elemental selenium under aerobic conditions

Staicu, L., Ackerson, C. J., Cornelis, P., Ye, L., Berendsen, R., Hunter, W. J., Noblitt, S. D., Henry, C. S., Cappa, J. J., Montenieri, R. L., Wong, A. O., Musilova, L., Sura-de-Jong, M., Van Hullebusch, E. D., Lens, P. N. L., Reynolds, R. J. B. & Pilon-Smits, E. A. H., 2015, In: Journal of Applied Microbiology. 119, 2, blz. 400-410

Onderzoeksoutput: Article › peer review

49 Citaten (Scopus)

Soil microbiome responses to the short-term effects of Amazonian deforestation

Navarrete, A. A., Tsai, S. M., Mendes, L. W., Faust, K., de Hollander, M., Cassman, N. A., Raes, J., van Veen, J. A. & Kuramae, E. E., mei 2015, In: Molecular Ecology. 24, 10, blz. 2433-2448

Onderzoeksoutput: Article › peer review

139 Citaten (Scopus)

Stool consistency is strongly associated with gut microbiota richness and composition, enterotypes and bacterial growth rates

Vandeputte, D., Falony, G., Araujo Vieira Da Silva, S. M., Tito, R. Y., Joossens, M. & Raes, J., 11 jun 2015, In: Gut. 65, 1, blz. 57-62

Onderzoeksoutput: Article › peer review

Open Access

682 Citaten (Scopus)

The interplay between nucleoid organization and transcription in archaeal genomes

Peeters, E., Driessen, R., Werner, F. & Dame, R., 2015, In: Nature Reviews Microbiology. 13, 6, blz. 333-341

Onderzoeksoutput: Article › peer review

83 Citaten (Scopus)

Towards biome-specific analysis of meta-omics data

Darzi, Y., Falony, G., Araujo Vieira Da Silva, S. M. & Raes, J., 1 dec 2015, In: The ISME Journal. 2015, blz. 1-4

Onderzoeksoutput: Article › peer review

Open Access

64 Citaten (Scopus)

Towards microbial fermentation metabolites as markers for health benefits of prebiotics

Verbeke, K., Boobis, A. R., Chiodini, A., Edwards, C. A., Franck, A., Kleerebezem, M., Nauta, A., Raes, J., van Tol, E. A. & Tuohy, K. M., 28 jun 2015, In: Nutr Res Rev. 28, 1, blz. 42-66

Onderzoeksoutput: Article › peer review

Open Access

254 Citaten (Scopus)

Use of sigma factors from Bacillus subtilis in the development of an orthogonal expression system in Escherichia coli.

Bervoets, I., De Mey, M. & Charlier, D., 6 jun 2015, (Unpublished).

Onderzoeksoutput: Poster

Bestand

54 Downloads (Pure)

Use of sigma factors from Bacillus subtilis in the development of an orthogonal expression system in Escherichia coli.

Bervoets, I., De Mey, M. & Charlier, D., 6 jun 2015, (Unpublished).

Onderzoeksoutput: Unpublished abstract

Bestand

15 Downloads (Pure)

2014

BarR, an Lrp-type transcription factor in Sulfolobus acidocaldarius, regulates an aminotransferase gene in a β-alanine responsive manner

Liu, H., Orell, A., Maes, D., Van Wolferen, M., Lindås, A-C., Bernander, R., Albers, S-V., Charlier, D. & Peeters, E., 15 mrt 2014, In: Molecular Microbiology. 92, 3, blz. 625-639

Onderzoeksoutput: Article › peer review

14 Citaten (Scopus)

Insight into the cellular involvement of the two reverse gyrases from the hyperthermophilic archaeon Sulfolobus solfataricus.

Couturier, M., Bizard, AH., Garnier, F. & Nadal, M., sep 2014, In: BMC Molecular Biology. 15, 13 blz., 18.

Onderzoeksoutput: Article › peer review

8 Citaten (Scopus)

Low structural variation in the Host-Defense Peptide Repertoire of the Dwarf Clawed Frog Hymenochirus boettgeri (Pipidae)

Matthijs, S., Lumeng, Y., Stijlemans, B., Cornelis, P., Bossuyt, F. & Roelants, K., jan 2014, In: PLoS ONE. 9, 1, 12 blz., e86339.

Onderzoeksoutput: Article › peer review

Open Access

11 Citaten (Scopus)

Molecular mechanisms of action by a TetR-family transcription factor in Sulfolobus acidocaldarius

Lemmens, L., Maklad, H. R. M. A., Wang, K., Lindås, A-C. & Peeters, E., mei 2014.

Onderzoeksoutput: Poster

Microbiologie

Onderzoeksoutput

Zoekresultaten