Microbiology

Finished

Lactate production from C1 substrates using thermophilic bacilli

Paredes Barrada, M. (PhD candidate), van Kranenburg, R. (Promotor) & Claassens, N. J. H. P. (Co-promotor)

1/02/21 → 30/06/25

Project: PhD

Paving the C1-route: targeted genome engineering for synthetic one-carbon assimilation

Yilmaz, S. (PhD candidate), van der Oost, J. (Promotor) & Claassens, N. J. H. P. (Co-promotor)

1/02/20 → 6/09/24

Project: PhD

A toolbox to explore the optimal interactions between human milk sugars and gut microbiota

Ioannou, N. (PhD candidate), Belzer, C. (Promotor) & Knol, J. (Co-promotor)

1/02/20 → 21/03/25

Project: PhD

Using cultivation dependent and independent methods to study the ecology and physiology of anaerobic microbial communities

ter Horst, J. (PhD candidate), Ettema, T. (Promotor), Geesink, P. (Co-promotor) & Machado de Sousa, D. (Co-promotor)

1/10/19 → 6/09/24

Project: PhD

The quest of the Argonautes - from myth to reality (ARGO)

Bouzetos, E. (PhD candidate), van der Oost, J. (Promotor) & Staals, R. (Co-promotor)

1/10/19 → 4/10/24

Project: PhD

Isolation of novel biocatalysts for syngas conversion

Galani, A. (PhD candidate), Machado de Sousa, D. (Promotor) & Sipkema, D. (Co-promotor)

1/10/19 → 12/06/25

Project: PhD

Building a synthetic cell (BaSyC).

Olivi, L. (PhD candidate), van der Oost, J. (Promotor), Claassens, N. J. H. P. (Co-promotor) & Staals, R. (Co-promotor)

1/09/19 → 22/03/24

Project: PhD

Survival strategies and growth of acidophiles

Egas, R. (PhD candidate), Machado de Sousa, D. (Promotor) & Sanchez Andrea, I. (Co-promotor)

26/08/19 → 23/04/24

Project: PhD

How does fiber-induced colonic fermentation affect metabolic syndrome?

Puhlmann-Manusama, M.-L. (PhD candidate), Feskens, E. (Promotor), Smidt, H. (Promotor) & de Vos, W. (Promotor)

1/01/19 → 9/10/24

Project: PhD

The exploration & exploitation of CRISPR-Cas type III defence strategies.

Steens, J. (PhD candidate), Staals, R. (Promotor) & van der Oost, J. (Promotor)

1/01/19 → 17/05/24

Project: PhD

Gene drive: friend or foe? Surpassing Mendelian inheritance rules using CRISPR-powered gene drives

Nieuwenweg, C. (PhD candidate), Staals, R. (Promotor) & van der Oost, J. (Promotor)

1/11/18 → 28/06/24

Project: PhD

Effect of non-digestible carbohydrates on microbiota composition and activity: towards microbiota stratification

Liu, Z. (PhD candidate), Smidt, H. (Promotor) & Zoetendal, E. (Co-promotor)

1/10/18 → 14/09/23

Project: PhD

Assessing, Regulating, and Adapting Cas nucleases

Swartjes, T. (PhD candidate), van der Oost, J. (Promotor) & Staals, R. (Co-promotor)

1/10/18 → 3/05/23

Project: PhD

Gut microbiota development and its relations to child mental development and health

Ou, Y. (PhD candidate), Smidt, H. (Promotor) & Belzer, C. (Co-promotor)

1/10/18 → 14/04/23

Project: PhD

Exploiting the anti-CRISPR potential to enhance the CRISPR genome engineering toolbox.

Trasanidou, D. (PhD candidate) & van der Oost, J. (Promotor)

3/09/18 → 16/05/23

Project: PhD

Early life effect of human milk oligosaccharides and prebiotics on antibiotic associated gut microbiota changes and health.

Endika, M. (PhD candidate) & Smidt, H. (Promotor)

3/09/18 → 14/11/23

Project: PhD

Anaerobic microbiology of Black Sea

Fischer, P. (PhD candidate), Machado de Sousa, D. (Promotor) & Stams, F. (Promotor)

1/08/18 → 12/05/23

Project: PhD

Novel approaches for microbial syngas conversion to chemical building blocks

Dykstra, J. (PhD candidate), Machado de Sousa, D. (Promotor), van der Oost, J. (Promotor) & Kengen, S. (Co-promotor)

1/06/18 → 3/07/23

Project: PhD

Building a Synthetic Cell (BaSyC).

Finger Bou, M. (PhD candidate), van der Oost, J. (Promotor), Claassens, N. J. H. P. (Co-promotor) & Staals, R. (Co-promotor)

1/05/18 → 8/09/23

Project: PhD

Synthetic microbial consortia for syngas fermentation

Parera Olm, I. (PhD candidate), Machado de Sousa, D. (Promotor) & Suarez-Diez, M. (Promotor)

16/04/18 → 27/10/23

Project: PhD

Danone Early Life.

Schimmel, P. (PhD candidate), Knol, J. (Promotor) & Belzer, C. (Co-promotor)

3/04/18 → 6/12/22

Project: PhD

Eat2BeNice.

Konstanti, P. (PhD candidate), Belzer, C. (Promotor) & Smidt, H. (Promotor)

1/03/18 → 14/10/24

Project: PhD

From healthy defecation to functional constipation in children and adults a clinical and microbiological perspective

Wegh, C. (PhD candidate), Smidt, H. (Promotor) & Belzer, C. (Co-promotor)

1/02/18 → 11/11/22

Project: PhD

Development of a novel, interdisciplinary model to study interactions between foodborne xenobiotics, the intestinal microbiome and the intestinal epithelium.

van Dongen, K. (PhD candidate), Rietjens, I. (Promotor), Beekmann, K. (Co-promotor) & Belzer, C. (Co-promotor)

1/12/17 → 10/06/22

Project: PhD

Microbes, models and mucins: Modelling host-microbe interactions at the intestinal mucus layer in vitro

Elzinga, J. (PhD candidate), Smidt, H. (Promotor) & Belzer, C. (Co-promotor)

15/11/17 → 31/05/23

Project: PhD

The effect of a synbiotic nutritional supplement on white matter injury in preterm infants.

Henderickx, J. (PhD candidate), Knol, J. (Promotor) & Belzer, C. (Co-promotor)

16/10/17 → 25/03/22

Project: PhD

Biobased Production of Valuable Ester Compounds by a Novel Type Alcohol Acetyl Transferase.

Patinios, C. (PhD candidate), Weusthuis, R. (Promotor), van der Oost, J. (Promotor) & Kengen, S. (Co-promotor)

9/10/17 → 22/04/22

Project: PhD

ShaPR (Shaping CRISPR scissors and synthetic tools for multiplexed, high-throughput genome editing in yeast).

Adiego Pérez, B. (PhD candidate), van der Oost, J. (Promotor) & D'Adamo, S. (Co-promotor)

1/10/17 → 13/09/22

Project: PhD

Unravelling ecological concepts that drive general composition patterns, stability, perturbations, and major metabolite production in the intestine.

Wang, T. (PhD candidate), Smidt, H. (Promotor) & Zoetendal, E. (Co-promotor)

1/09/17 → 21/06/22

Project: PhD

"Mare incognita"- from exploration to exploitation: Sponge microbiota metabolites for improved gut health.

Sales E Santos Loureiro, C. (PhD candidate), Medema, M. (Promotor), Sipkema, D. (Promotor) & van der Oost, J. (Promotor)

1/09/17 → 2/10/23

Project: PhD

Diet as treatment of irritable bowel syndrome.

Rijnaarts-Modder, I. (PhD candidate), Witteman, B. (Promotor), Zoetendal, E. (Co-promotor), de Roos, N. (Co-promotor) & de Wit, N. (Co-promotor)

1/09/17 → 24/06/22

Project: PhD

Towards a synthetic cell: designing, testing and optimizing functional genomic modules in E. coli

Houkes, J. (PhD candidate), van der Oost, J. (Promotor) & Claassens, N. J. H. P. (Co-promotor)

1/09/17 → 11/01/23

Project: PhD

Tailored microalgae as a sustainable oil crop production platform.

Naduthodi, M. (PhD candidate), Barbosa, M. (Promotor), van der Oost, J. (Promotor) & D'Adamo, S. (Co-promotor)

1/09/17 → 13/12/21

Project: PhD

Akkermansia muciniphila as a model organism representing Verrucomicrobia in the gut.

Geerlings, S. (PhD candidate), de Vos, W. (Promotor) & Belzer, C. (Co-promotor)

1/09/17 → 18/01/23

Project: PhD

Acidothermophilic Sulphur Bioreduction

van der Graaf, L. (PhD candidate), Stams, F. (Promotor) & Sanchez Andrea, I. (Co-promotor)

1/07/17 → 5/07/22

Project: PhD

Zooming into the sponge microbiome in the omics era

Gavriilidou, M. (PhD candidate), Sipkema, D. (Promotor) & Smidt, H. (Promotor)

18/04/17 → 25/05/22

Project: PhD

Bioprocess engineering for ethyl acetate production

Bohnenkamp, A. (PhD candidate), Weusthuis, R. (Promotor), Wijffels, R. (Promotor) & Kengen, S. (Co-promotor)

1/04/17 → 12/11/21

Project: PhD

Improving heterologous protein production by tweaking transcript elements.

Nieuwkoop, T. (PhD candidate), van der Oost, J. (Promotor) & Claassens, N. J. H. P. (Co-promotor)

16/01/17 → 8/12/21

Project: PhD

The role of the gut microbiota in toxicity and risk assessment of masked Fusarium mycotoxins.

Jin, J. (PhD candidate) & Rietjens, I. (Promotor)

31/12/16 → 9/11/22

Project: PhD

Resilience and stress response pathways of microorganisms used for bioremediation

Zhang, C. (PhD candidate), Smidt, H. (Promotor), Atashgahi, S. (Co-promotor) & Bosma, T. (Co-promotor)

1/11/16 → 5/07/23

Project: PhD

Host-metabolite interactions in the piglet intestine and its relation to diarrhea

van der Hee, B. (PhD candidate), Wells, J. (Promotor) & Smidt, H. (Co-promotor)

1/11/16 → 28/06/23

Project: PhD

Effect of transgenic sugarcane on diversity of associated bacterial communities

Baig, N. (PhD candidate) & Smidt, H. (Promotor)

1/07/16 → 13/12/23

Project: PhD

Colonic and ileal carbohydrate degradation in healthy adults and elderly

An, R. (PhD candidate), Smidt, H. (Promotor) & Zoetendal, E. (Co-promotor)

15/06/16 → 10/12/20

Project: PhD

Impact of early life diet on microbiome development and later health

van Daele, E. (PhD candidate), Knol, J. (Promotor) & Smidt, H. (Promotor)

4/04/16 → 24/05/24

Project: PhD

Glycans in early life effect the microbiome and determine health

Kostopoulos, I. (PhD candidate), Knol, J. (Promotor) & Belzer, C. (Co-promotor)

4/04/16 → 8/01/21

Project: PhD

Create a toolbox using Cpf1 for bacterial genome engineering

Wu, W. (PhD candidate), van der Oost, J. (Promotor) & Staals, R. (Co-promotor)

1/03/16 → 12/02/21

Project: PhD

The host-microbiota interactome in early life and its role in gut immune development

de Vries, H. (PhD candidate), Smidt, H. (Promotor) & Wells, J. (Promotor)

1/02/16 → 14/12/22

Project: PhD

Fermentation and cooperation by marine anaerobes

van Vliet, D. (PhD candidate), Stams, F. (Promotor) & Sanchez Andrea, I. (Co-promotor)

2/11/15 → 8/09/21

Project: PhD

Sporulation and its significance to butanol production in C. acetobutylicum

Diallo, M. (PhD candidate), van der Oost, J. (Promotor), Kengen, S. (Co-promotor) & Lopez Contreras, A. (Co-promotor)

19/10/15 → 7/04/21

Project: PhD

Mining the metagenome of sponge-associated microorganisms from the central coastal region of Vietnam for antimicrobial compounds

Ton, D. (PhD candidate), Sipkema, D. (Promotor) & Smidt, H. (Promotor)

5/10/15 → 13/11/23

Project: PhD

Microbiology

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