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2014

Transient inflammatory-like state and microbial dysbiosis are pivotal in establishment of mucosal homeostasis during colonisation of germ-free mice

El Aidy, S. F., Derrien, M. M. N., Aardema, R., Hooiveld, G. J., Richards, S. E., Dane, A., Dekker, J., Vreeken, R., Levenez, F., Doré, J., Zoetendal, E. G., van Baarlen, P. & Kleerebezem, M., 2014, In : Beneficial Microbes. 5, 1, p. 67-77

Research output: Contribution to journalArticleAcademicpeer-review

37 Citations (Scopus)
2015

Activation of the chicken type I IFN response by infectious bronchitis coronavirus

Kint, J., Fernandez Gutierrez, M. M., Maier, H. J., Britton, P., Langereis, M. A., Koumans, J., Wiegertjes, G. F. & Forlenza, M., 2015, In : Journal of Virology. 89, 2, p. 1156-1167

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
41 Citations (Scopus)

Bacterial Histidine Kinases as Novel Antibacterial Drug Targets

Bem, A. E., Velikova, N. R., Pellicer, M. T., van Baarlen, P., Marina, A. & Wells, J. M., 2015, In : Acs Chemical Biology. 10, 1, p. 213-224

Research output: Contribution to journalArticleAcademicpeer-review

65 Citations (Scopus)

Cell-Free Propagation of Coxiella burnetii Does Not Affect Its Relative Virulence

Kuley, R., Smith, H. E., Frangoulidis, D., Smits, M. A., Roest, H. I. J. & Bossers, A., 2015, In : PLoS ONE. 10, 3, 16 p., e0121661.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
14 Citations (Scopus)

Construction and validation of a mCherry protein vector for promoter analysis in Lactobacillus acidophilus

Mohedano, M. L., Garcia-Cayuela, T., Perez-Ramos, A., Gaiser, R. A., Requena, T. & Lopez, P., 2015, In : Journal of Industrial Microbiology and Biotechnology. 42, 2, p. 247-253

Research output: Contribution to journalArticleAcademicpeer-review

12 Citations (Scopus)

Correlation of Lactobacillus rhamnosus genotypes and carbohydrate utilization signatures determined by phenotype profiling

Ceapa, C., Lambert, J., van Limpt, K., Wels, M., Smokvina, T., Knol, J. & Kleerebezem, M., 2015, In : Applied and Environmental Microbiology. 81, 16, p. 5458-5470

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
20 Citations (Scopus)

De huidmicrobiota in ziekte en gezondheid

Translated title of the contribution: The skin microbiota in health and diseaseKleerebezem, M. & Timmerman, H., 2015, In : Nederlands Tijdschrift voor Dermatologie en Venereologie. 25, 3, p. 107-109

Research output: Contribution to journalArticleAcademicpeer-review

Open Access

Differential distribution of type II CRISPR-Cas systems in agricultural and nonagricultural campylobacter coli and campylobacter jejuni isolates correlates with lack of shared environments

Pearson, B. M., Louwen, R., Van Baarlen, P. & Van Vliet, A. H. M., 2015, In : Genome Biology and Evolution. 7, 9, p. 2663-2679

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
10 Citations (Scopus)

Evolutionary engineering to enhance starter culture performance in food fermentations

Bachmann, H., Pronk, J. T., Kleerebezem, M. & Teusink, B., 2015, In : Current Opinion in Biotechnology. 32, p. 1-7

Research output: Contribution to journalArticleAcademicpeer-review

31 Citations (Scopus)

Faecalibacterium prausnitzii strain HTF-F and its extracellular polymeric matrix attenuate clinical parameters in DSS-induced colitis

Rossi, O., Khan, M. T., Schwarzer, M., Hudcovic, T., Srutkova, D., Duncan, S. H., Stolte, E. H., Kozakova, H., Flint, H. J., Samsom, J. N., Harmsen, H. J. M. & Wells, J. M., 2015, In : PLoS ONE. 10, 4, 17 p., e0123013.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
38 Citations (Scopus)

Genome-wide transcriptional responses to carbon starvation in nongrowing Lactococcus lactis

Ercan, O., Wels, M., Smid, E. J. & Kleerebezem, M., 2015, In : Applied and Environmental Microbiology. 81, 7, p. 2554-2561

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
12 Citations (Scopus)

Gut microbiota facilitates dietary heme-induced epithelial hyperproliferation by opening the mucus barrier in colon

IJssennagger, N., Belzer, C., Hooiveld, G. J. E. J., Dekker, J., Mil, S. W. C., Müller, M. R., Kleerebezem, M. & van der Meer, R., 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 32, p. 10038-10043

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
116 Citations (Scopus)

Human buccal epithelium acquires microbial hyporesponsiveness at birth, a role for secretory leukocyte protease inhibitor

Menckeberg, C. L., Hol, J., Simons-Oosterhuis, Y., Raatgeep, H. R., de Ruiter, L. F., Lindenbergh-Kortleve, D. J., Korteland-van Male, A. M., El Aidy, S. F., van Lierop, P. P. E., Kleerebezem, M., Groeneweg, M., Kraal, G., Elink-Schuurman, B. E., de Jongste, J. C., Nieuwenhuis, E. E. S. & Samsom, J. N., 2015, In : Gut. 64, p. 884-893

Research output: Contribution to journalArticleAcademicpeer-review

7 Citations (Scopus)

IL-22-STAT3 Pathway Plays a Key Role in the Maintenance of Ileal Homeostasis in Mice Lacking Secreted Mucus Barrier

Sovran, B., Loonen, L. M. P., Hugenholtz, F., Belzer, C., Kranenbarg-Stolte, H. H., Boekschoten, M. V., van Baarlen, P., Kleerebezem, M., de Vos, P., Dekker, J., Renes, I. B. & Wells, J. M., 2015, In : Inflammatory Bowel Diseases. 21, 3, p. 531-542

Research output: Contribution to journalArticleAcademicpeer-review

30 Citations (Scopus)

Kruiden verdringen antibiotica

Wolkers, H., Groot, M. J., Kleerebezem, M. & Rebel, J. M. J., 2015, In : WageningenWorld. 2, p. 34-39

Research output: Contribution to journalArticlePopular

Open Access

Live Faecalibacterium prausnitzii in an apical anaerobic model of the intestinal epithelial barrier

Ulluwishewa, D., Anderson, R. C., Young, W., McNabb, W. C., van Baarlen, P., Moughan, P. J., Wells, J. M. & Roy, N. C., 2015, In : Cellular Microbiology. 17, 2, p. 226-240

Research output: Contribution to journalArticleAcademicpeer-review

28 Citations (Scopus)

Major differential gene regulation in Coxiella burnetii between in vivo and in vitro cultivation models

Kuley, R., de Vries, R., Smith, H. E., Smits, M. A., Roest, H. I. J. & Bossers, A., 2015, In : BMC Genomics. 16, 953.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
14 Citations (Scopus)

Mining microbial metatranscriptomes for expression of antibiotic resistance genes under natural conditions

Versluis, D., D'Andrea, M. M., Ramiro Garcia, J., Leimena, M. M., Hugenholtz, F., Zhang, J., Öztürk, B., Nylund, L., Sipkema, D., van Schaik, W., de Vos, W. M., Kleerebezem, M., Smidt, H. & van Passel, M. W. J., 2015, In : Scientific Reports. 5, 10 p., 11981.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
25 Citations (Scopus)

Molecular and metabolic adaptations of Lactococcus lactis at near-zero growth rates

Ercan, O., Wels, M., Smid, E. J. & Kleerebezem, M., 2015, In : Applied and Environmental Microbiology. 81, 1, p. 320-331

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
8 Citations (Scopus)

Nearly complete genome sequence of Lactobacillus plantarum strain NIZO2877

Martino, M. E., Bayjanov, J. R., Joncour, P., Hughes, S., Gillet, B., Kleerebezem, M., Siezen, R., van Hijum, S. A. F. T. & Leulier, F., 25 Nov 2015, In : Genome Announcements. 3, 6, e0137015.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 Citations (Scopus)

Network analysis of temporal functionalities of the gut induced by perturbations in new-born piglets

Benis, N., Schokker, D., Suarez Diez, M., Martins dos Santos, V. A. P., Smidt, H. & Smits, M. A., 2015, In : BMC Genomics. 16, 556.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
3 Citations (Scopus)

Physiological and cell morphology adaptation of Bacillus subtilis at near-zero specific growth rates: a transcriptome analysis

Overkamp, W., Ercan, O., Herber, M., van Maris, A. J., Kleerebezem, M. & Kuipers, O. P., 2015, In : Environmental Microbiology. 17, 2, p. 346-363

Research output: Contribution to journalArticleAcademicpeer-review

14 Citations (Scopus)

Physiological and transcriptional responses of different industrial microbes at near-zero specific growth rates

Ercan, O., Bisschops, M. M. M., Overkamp, W., Jørgensen, T. R., Ram, A. F., Smid, E. J., Pronk, J. T., Kuipers, O. P., Daran-Lapujade, P. & Kleerebezem, M., 2015, In : Applied and Environmental Microbiology. 81, 17, p. 5662-5670

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
19 Citations (Scopus)

Recombinant invasive Lactococcus lactis can transfer DNA vaccines either directly to dendritic cells or across an epithelial cell monolayer

de Azevedo, M., Meijerink, M., Taverne, N., Pereira, V. B., LeBlanc, J. G., Azevedo, V., Miyoshi, A., Langella, P., Wells, J. M. & Chatel, J. M., 2015, In : Vaccine. 33, 38, p. 4807-4812

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
15 Citations (Scopus)

Resequencing of the Lactobacillus plantarum strain WJL genome

Martino, M. E., Bayjanov, J. R., Joncour, P., Hughes, S., Gillet, B., Kleerebezem, M., Siezen, R., van Hijum, S. A. F. T. & Leulier, F., 25 Nov 2015, In : Genome Announcements. 3, 6, e0138215.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 Citations (Scopus)

The small intestine microbiota, nutritional modulation and relevance for health

El Aidy, S. F., van den Bogert, B. & Kleerebezem, M., 2015, In : Current Opinion in Biotechnology. 32, p. 14-20

Research output: Contribution to journalArticleAcademicpeer-review

73 Citations (Scopus)

TLR signaling-induced CD103-expressing cells protect against intestinal inflammation

Wittmann, A., Bron, P. A., Van Swam, I. I., Kleerebezem, M., Adam, P., Gronbach, K., Menz, S., Flade, I., Bender, A., Schäfer, A., Korkmaz, A. G., Parusel, R., Autenrieth, I. B. & Frick, J. S., 2015, In : Inflammatory Bowel Diseases. 21, 3, p. 507-519

Research output: Contribution to journalArticleAcademicpeer-review

6 Citations (Scopus)

Towards microbial fermentation metabolites as markers for health benefits of prebiotics

Verbeke, K. A., Boobis, A. R., Chiodini, A., Edwards, C. A., Franck, A., Kleerebezem, M., Nauta, A., Raes, J., Van Tol, E. A. F. & Tuohy, K. M., 2015, In : Nutrition Research Reviews. 28, 1, p. 42-66

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
99 Citations (Scopus)
2016

A zebrafish larval model to assess virulence of porcine streptococcus suis strains

Zaccaria, E., Cao, R., Wells, J. M. & Van Baarlen, P., 2016, In : PLoS ONE. 11, 3, e0151623.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
7 Citations (Scopus)

Characterization of the transcriptional regulation of the tariJKL locus involved in ribitol-containing wall teichoic acid biosynthesis in Lactobacillus plantarum

Tomita, S., Lee, I. C., van Swam, I. I., Boeren, S., Vervoort, J., Bron, P. A. & Kleerebezem, M., 1 Feb 2016, In : Microbiology. 162, 2, p. 420-432 000229.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
3 Citations (Scopus)

Complete genome sequence of Streptococcus salivarius HSISS4, a human commensal bacterium highly prevalent in the digestive tract

Mignolet, J., Fontaine, L., Kleerebezem, M. & Hols, P., 2016, In : Genome Announcements. 4, 1, e01637-15.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 Citations (Scopus)

Draft Genome Sequence of Lactobacillus plantarum SF2A35B

Bron, P. A., Lee, I. C., Backus, L., Van Hijum, S. A. F. T., Wels, M. & Kleerebezem, M., 2016, In : Genome Announcements. 4, 1, e01638-15.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
2 Citations (Scopus)

Effect of a long-term high-protein diet on survival, obesity development, and gut microbiota in mice

Kiilerich, P., Myrmel, L. S., Fjære, E., Hao, Q., Hugenholtz, F., Sonne, S. B., Derrien, M., Pedersen, L. M., Petersen, R. K., Mortensen, A., Licht, T. R., Rømer, M. U., Vogel, U. B., Waagbø, L. J., Giallourou, N., Feng, Q., Xiao, L., Liu, C., Liaset, B., Kleerebezem, M. & 3 others, Wang, J., Madsen, L. & Kristiansen, K., 2016, In : American Journal of Physiology. Endocrinology and Metabolism. 310, 11, p. E886-E899

Research output: Contribution to journalArticleAcademicpeer-review

26 Citations (Scopus)

Effects of digested onion extracts on intestinal gene expression: an interspecies comparison using different intestine models

de Wit, N. J. W., Hulst, M. M., Govers, C. C. F. M., van der Meulen, J., van Hoef, A. M. A., Stoopen, G. M., Hamers, A. R. M., Hoekman, A. J. W., de Vos, C. H., Bovee, T. F. H., Smits, M. A., Mes, J. J. & Hendriksen, P. J. M., 15 Sep 2016, In : PLoS ONE. 11, 9, 18 p., e0160719.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
4 Citations (Scopus)

Evaluation of Galleria mellonella larvae for studying the virulence of Streptococcus suis

Velikova, N., Kavanagh, K. & Wells, J. M., 2016, In : BMC Microbiology. 16, 1, 9 p., 291.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
11 Citations (Scopus)

Exopolysaccharides produced by lactic acid bacteria: from health-promoting benefits to stress tolerance mechanisms

Caggianiello, G., Kleerebezem, M. & Spano, G., 2016, In : Applied Microbiology and Biotechnology. 100, 9, p. 3877-3886

Research output: Contribution to journalArticleAcademicpeer-review

112 Citations (Scopus)

Faecalibacterium prausnitzii A2-165 has a high capacity to induce IL-10 in human and murine dendritic cells and modulates T cell responses

Rossi, O., Van Berkel, L. A., Chain, F., Tanweer Khan, M., Taverne, N., Sokol, H., Duncan, S. H., Flint, H. J., Harmsen, H. J. M., Langella, P., Samsom, J. N. & Wells, J. M., 2016, In : Scientific Reports. 6, 12 p., 18507.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
67 Citations (Scopus)

First Complete Genome Sequence of the Dutch Veterinary Coxiella burnetii Strain NL3262, Originating from the Largest Global Q Fever Outbreak, and Draft Genome Sequence of Its Epidemiologically Linked Chronic Human Isolate NLhu3345937

Kuley, R., Smith, H. E., Janse, I., Harders, F. L., Baas, F., Schijlen, E., Nabuurs-Fransen, M. H., Smits, M. A., Roest, H. I. J. & Bossers, A., 2016, In : Genome Announcements. 4, 2, 2 p., e00245-16.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
9 Citations (Scopus)

Functional Profiling of Unfamiliar Microbial Communities Using a Validated De Novo Assembly Metatranscriptome Pipeline

Davids, M., Hugenholtz, F., Martins dos Santos, V. A. P., Smidt, H., Kleerebezem, M. & Schaap, P. J., 2016, In : PLoS ONE. 11, 1, 18 p., e0146423.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
8 Citations (Scopus)

Human intestinal barrier function in health and disease

König, J., Wells, J., Cani, P. D., García-Ródenas, C. L., MacDonald, T., Mercenier, A., Whyte, J., Troost, F. J. & Brummer, R-J., 2016, In : Clinical and Translational Gastroenterology. 7, 10, e196.

Research output: Contribution to journalArticleAcademicpeer-review

177 Citations (Scopus)

Human oral isolate Lactobacillus fermentum AGR1487 induces a pro-inflammatory response in germ-free rat colons

Anderson, R. C., Ulluwishewa, D., Young, W., Ryan, L. J., Henderson, G., Meijerink, M., Maier, E., Wells, J. M. & Roy, N. C., 2016, In : Scientific Reports. 6, 20318.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
7 Citations (Scopus)

Identification of commensal species positively correlated with early stress responses to a compromised mucus barrier

Sovran, B., Lu, P., Loonen, L. M. P., Hugenholtz, F., Belzer, C., Stolte, E. H., Boekschoten, M. V., Van Baarlen, P., Smidt, H., Kleerebezem, M., De Vos, P., Renes, I. B., Wells, J. M. & Dekker, J., 2016, In : Inflammatory Bowel Diseases. 22, 4, p. 826-840

Research output: Contribution to journalArticleAcademicpeer-review

13 Citations (Scopus)

Immunomodulatory properties of oat and barley β-glucan populations on bone marrow derived dendritic cells

Rosch, C., Meijerink, M., Delahaije, R. J. B. M., Taverne, N., Gruppen, H., Wells, J. M. & Schols, H. A., 2016, In : Journal of Functional Foods. 26, p. 279-289

Research output: Contribution to journalArticleAcademicpeer-review

6 Citations (Scopus)

Increased fat and polyunsaturated fatty acid content in sow gestation diet has no effect on gene expression in progeny during the first 7 days of life

de Greeff, A., Bikker, P., Smit-Heinsbroek, A., Bruininx, E., Zwolschen, H., Fijten, H. P. D., Zetteler, P., Vastenhouw, S. A., Smits, M. A. & Rebel, J. M. J., 2016, In : Journal of Animal Physiology and Animal Nutrition. 100, 1, p. 127-135

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)

Metabolic Context of the Competence-Induced Checkpoint for Cell Replication in Streptococcus suis

Zaccaria, E., Wells, J. M. & van Baarlen, P., 2016, In : PLoS ONE. 11, 5, e0153571.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
8 Citations (Scopus)

Nomadic lifestyle of Lactobacillus plantarum revealed by comparative genomics of 54 strains isolated from different habitats

Martino, M. E., Bayjanov, J. R., Caffrey, B. E., Wels, M., Joncour, P., Hughes, S., Gillet, B., Kleerebezem, M., van Hijum, S. A. F. T. & Leulier, F., 2016, In : Environmental Microbiology. 18, 12, p. 4974-4989

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
43 Citations (Scopus)

Plasmid Complement of Lactococcus lactis NCDO712 Reveals a Novel Pilus Gene Cluster

Tarazanova, M., Beerthuyzen, M., Siezen, R., Fernandez Gutierrez, M., de Jong, A., van der Meulen, S., Kok, J. & Bachmann, H., 2016, In : PLoS ONE. 11, 12, e0167970.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
7 Citations (Scopus)

Protein, peptide, amino acid composition, and potential functional properties of existing and novel dietary protein sources for monogastrics

Kar, S. K., Jansman, A. J. M., Boeren, S., Kruijt, L. & Smits, M. A., 2016, In : Journal of Animal Science. 94, 7 supplement 3, p. 30-39

Research output: Contribution to journalArticleAcademicpeer-review

7 Citations (Scopus)

Putative histidine kinase inhibitors with antibacterial effect against multi-drug resistant clinical isolates identified by in vitro and in silico screens

Velikova, N., Fulle, S., Manso, A. S., Mechkarska, M., Finn, P., Conlon, J. M., Oggioni, M. R., Wells, J. M. & Marina, A., 13 May 2016, In : Scientific Reports. 6, 26085.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
18 Citations (Scopus)