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Research Output 1996 2020

A BAC library and paired-PCR approach to mapping and completing the genome sequence of Sulfolobus solfataricus P2 : an EC perspective

She, Q., Confalonieri, F., Zivanovic, Y., Medina, N., Billault, A., Awayez, M. J., Thi-Ghoc, H. P., Thi-Pham, B. T., van der Oost, J., Duguet, M. & Garrett, R. A., 2000, In : Dna sequence. 11, p. 183-136

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)

A capture approach for supercoiled plasmid DNA using a triplex-forming oligonucleotide

Ruigrok, V. J. B., Westra, E. R., Brouns, S. J. J., Escudé, C., Smidt, H. & van der Oost, J., 2013, In : Nucleic acids research. 41, 10, e111.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Superhelical DNA
Oligonucleotides
Plasmids
DNA
Lac Repressors
30 Citations (Scopus)

Activity and stability of hyperthermophilic enzymes : a comparative study on two archaeal b-glycosidases

Pouwels, J., Moracci, M., Cobucci-Ponzano, B., Perugino, G., van der Oost, J., Kaper, T., Lebbink, J. H. G., de Vos, W. M., Ciaramella, M. & Rossi, M., 2000, In : Extremophiles. 4, p. 157-164

Research output: Contribution to journalArticleAcademicpeer-review

2 Citations (Scopus)

Adaptation and application of a two-plasmid inducible CRISPR-Cas9 system in Clostridium beijerinckii

Diallo, M., Hocq, R., Collas, F., Chartier, G., Wasels, F., Wijaya, H. S., Werten, M. W. T., Wolbert, E. J. H., Kengen, S. W. M., van der Oost, J., Ferreira, N. L. & López-Contreras, A. M., 27 Jul 2019, In : Methods. 10 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Clostridium beijerinckii
Clustered Regularly Interspaced Short Palindromic Repeats
Clostridium
Butanols
Plasmids
51 Citations (Scopus)

Adaptations of archaeal and bacterial membranes to variations in temperature, pH and pressure

Siliakus, M. F., van der Oost, J. & Kengen, S. W. M., 2017, In : Extremophiles. 21, 4, p. 651-670

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Lipids
Pressure
Temperature
Membranes
Archaea

Addiction systems antagonize bacterial adaptive immunity

van Sluijs, L., van Houte, S., van der Oost, J., Brouns, S. J. J., Buckling, A. & Westra, E. R., 1 Mar 2019, In : FEMS Microbiology Letters. 366, 5, fnz047.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Adaptive Immunity
Plasmids
CRISPR-Cas Systems
Clustered Regularly Interspaced Short Palindromic Repeats
Microbial Drug Resistance
11 Citations (Scopus)

ADP-dependent glucokinase and phosphofructo-kinase from Pyrococcus furiosus

Kengen, S. W. M., Tuininga, J. E., Verhees, C. H., van der Oost, J., Stams, A. J. M. & de Vos, W. M., 2001, In : Methods in Enzymology. 331, p. 41-53

Research output: Contribution to journalArticleAcademicpeer-review

41 Citations (Scopus)

ADP-dependent Phosphofructokinases in Mesophilic and Thermophilic Methanogenic Archaea

Verhees, C. H., Tuininga, J. E., Kengen, S. W. M., Stams, A. J. M., van der Oost, J. & de Vos, W. M., 2001, In : Journal of Bacteriology. 183, p. 7145-7153

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Archaea
Thermococcales
Methanocaldococcus
Phosphofructokinases
Eukaryota
35 Citations (Scopus)

Adsorption of an endoglucanase from the hyperthermophilic Pyrococcus furiosus of hydrophobic (polysterene) and hydrophilic (silica) surfaces increases protein heat stability

Koutsopoulos, S., van der Oost, J. & Norde, W., 2004, In : Langmuir. 20, 15, p. 6401-6406

Research output: Contribution to journalArticleAcademicpeer-review

Cellulase
Silicon Dioxide
enzymes
Enzymes
Silica

Afweer bacteriën ontrafeld

van der Oost, J., 2011, In : Resource: nieuwssite voor studenten en medewerkers van Wageningen UR.

Research output: Contribution to journalArticlePopular

Open Access
58 Citations (Scopus)

A global transcriptional regulator in Thermococcus kodakaraensis controls the expression levels of both glycolytic and gluconeogenic enzyme-encoding genes

Kanai, T., Akerboom, A. P., Takedomi, S., van de Werken, H. J. G., Blombach, F., van der Oost, J., Murakami, T., Atomi, H. & Imanaka, T., 2007, In : Journal of Biological Chemistry. 282, 46, p. 33659-33670

Research output: Contribution to journalArticleAcademicpeer-review

Thermococcales
Thermococcus
Gene encoding
Genes
Enzymes
1 Citation (Scopus)

A growth- and bioluminescence-based bioreporter for the in vivo detection of novel biocatalysts

van Rossum, T., Muras, A., Baur, M. J. J., Creutzburg, S. C. A., van der Oost, J. & Kengen, S. W. M., 2017, In : Microbial Biotechnology. 10, 3, p. 625-641

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Bioluminescence
Biocatalysts
Isomerases
Screening
Arabinose

Alcohol acetyl transferases for alkyl alkanoate production

Kruis, A. J., Levisson, M., Mars, A. E., Kengen, S. W. M., van der Oost, J., Sanders, J. P. M. & Weusthuis, R. A., 8 Jun 2018, Patent No. WO2018099719, Priority date 1 Dec 2016

Research output: PatentOther research output

Open Access
Transferases
Kluyveromyces
Acetyl Coenzyme A
Alcohols
Peptides
110 Citations (Scopus)

Alternative affinity tools: more attractive than antibodies?

Ruigrok, V. J. B., Levisson, M., Eppink, M. H. M., Smidt, H. & van der Oost, J., 2011, In : Biochemical Journal. 436, 1, p. 1-13

Research output: Contribution to journalArticleAcademicpeer-review

Antibodies
Nucleic Acids
Carrier Proteins
Drug delivery
Purification
3 Citations (Scopus)

An alternative model for heme ligation in nitrate reductase and analogous respiratory cytochrome b complexes.

van der Oost, J., Nederkoorn, P. H. J., Stouthamer, A. H., Westerhoff, H. V. & van Spanning, R. J. M., 1996, In : Molecular Microbiology. 22, p. 193-196

Research output: Contribution to journalArticleAcademicpeer-review

14 Citations (Scopus)

Analysis of protein-RNA interactions in CRISPR proteins and effector complexes by UV-induced cross-linking and mass spectrometry

Sharma, K., Hrle, A., Kramer, K., Sachsenberg, T., Staals, R. H. J., Randau, L., Marchfelder, A., van der Oost, J., Kohlbacher, O., Conti, E. & Urlaub, H., 2015, In : Methods : a companion to Methods in enzymology. 89, p. 138-148

Research output: Contribution to journalArticleAcademicpeer-review

Clustered Regularly Interspaced Short Palindromic Repeats
Mass spectrometry
Mass Spectrometry
RNA
Proteins
12 Citations (Scopus)

An HflX-type GTPase from Sulfolobus solfataricus binds to the 50S ribosomal subunit in all nucleotide-bound states

Blombach, F., Swarts, D. C. & van der Oost, J., 2011, In : Journal of Bacteriology. 193, 11, p. 2861-2867

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Sulfolobus solfataricus
Ribosome Subunits
GTP Phosphohydrolases
Nucleotides
Archaea
136 Citations (Scopus)

An integrated analysis of the genome of the hyperthermophilic archaeon Pyrococcus abyssi

Cohen, G., Barbe, V., Flament, D., Galperin, M., Heilig, R., Lecompte, O., Prieur, D., Poch, O., Querellou, J., Thierry, J. C., van der Oost, J., Weissenbach, J., Zivanovic, Y. & Forterre, P., 2003, In : Molecular Microbiology. 47, p. 1495-1512

Research output: Contribution to journalArticleAcademicpeer-review

Pyrococcus abyssi
Archaea
Genome
Archaeal DNA
Archaeal Genes
73 Citations (Scopus)

An Lrp-like protein of the hyperthermophilic archaeon Sulfolobus solfataricus which binds to its own promoter

Napoli, A., van der Oost, J., Sensen, C. W., Charlebois, R. L., Rossi, M. & Ciaramella, M., 1999, In : Journal of Bacteriology. 181, p. 1474-1480

Research output: Contribution to journalArticleAcademicpeer-review

11 Citations (Scopus)

A novel bacterial enzyme with D-glucuronyl C5-epimerase activity

Raedts, J. G. J., Lundgren, M., Kengen, S. W. M., Li, J. P. & van der Oost, J., 2013, In : Journal of Biological Chemistry. 288, 34, p. 24332-24339

Research output: Contribution to journalArticleAcademicpeer-review

4 alpha-glucanotransferase
Racemases and Epimerases
Iduronic Acid
Glycosaminoglycans
Polysaccharides
60 Citations (Scopus)

A novel ligand-binding domain involved in allosteric regulation of amino acid metabolism in prokaryotes

Ettema, T. J. G., Brinkman, A. B., Tani, T. H., Rafferty, J. B. & van der Oost, J., 2002, In : Journal of Biological Chemistry. 277, 40, p. 37464-37468

Research output: Contribution to journalArticleAcademicpeer-review

Allosteric Regulation
Random access storage
Metabolism
Ligands
Amino Acids
79 Citations (Scopus)

A novel link between Campylobacter jejuni bacteriophage defence, virulence and Guillain-Barré syndrome

Louwen, R., Horst-Kreft, D., de Boer, A. G., van der Graaf, L., de Knegt, G., Hamersma, M., Heikema, A. P., Timms, A. R., Jacobs, B. C., Wagenaar, J. A., Endtz, H. P., van der Oost, J., Wells, J., Nieuwenhuis, E. E. S., van Vliet, A. H., Willemsen, P. T. J., van Baarlen, P. & van Belkum, A., 2013, In : European Journal of Clinical Microbiology and Infectious Diseases. 32, 2, p. 207-226

Research output: Contribution to journalArticleAcademicpeer-review

Campylobacter jejuni
Bacteriophages
Virulence
Gangliosides
Computational Biology
803 Citations (Scopus)

An updated evolutionary classification of CRISPR-Cas systems

Makarova, K. S., Wolf, Y. I., Alkhnbashi, O. S., Brouns, S. J. J. & Van Der Oost, J., 2015, In : Nature Reviews Microbiology. 13, 11, p. 722-736

Research output: Contribution to journalArticleAcademicpeer-review

CRISPR-Cas Systems
Clustered Regularly Interspaced Short Palindromic Repeats
Archaea
Immune System
Bacteria

Archaea: de ontdekking van een nieuwe vorm van leven

van der Oost, J., 2011, Microcanon. wat je beslist moet weten over microbiologie. Smit, H., Reijders, W., van Doorn, J., van der Oost, J. & Willemsen, P. (eds.). Diemen: NVVM, p. Hfst. 3 246 p.

Research output: Chapter in Book/Report/Conference proceedingChapterPopular

86 Citations (Scopus)

Archaeal fructose-1,6-bisphosphate aldolases constitute a new family of archaeal type Class I aldolase

Siebers, B., Tjaden, B., Brinkmann, H., Dorr, C., Lilie, H., van der Oost, J. & Verhees, C. H., 2001, In : Journal of Biological Chemistry. 276, p. 28710-28718

Research output: Contribution to journalArticleAcademicpeer-review

Fructose-Bisphosphate Aldolase
Genes
Pyrococcus furiosus
Archaeal Genome
Microbiology
6 Citations (Scopus)

Archaeal MBF1 binds to 30S and 70S ribosomes via its helix-turn-helix domain

Blombach, F., Launay, H., Snijders, A. P., Zorraquino, V., Wu, H., de Koning, B., Brouns, S. J. J., Ettema, T. J., Camilloni, C., Cavalli, A., Vendruscolo, M., Dickman, M. J., Cabrita, L. D., La Teana, A., Benelli, D., Londei, P., Christodoulou, J. & van der Oost, J., 2014, In : Biochemical Journal. 462, 2, p. 373-384

Research output: Contribution to journalArticleAcademicpeer-review

Archaeal Proteins
Ribosomes
Ribosome Subunits
Proteins
Transcription

Argonaute bypasses cellular obstacles without hindrance during target search

Cui, T. J., Klein, M., Hegge, J. W., Chandradoss, S. D., van der Oost, J., Depken, M. & Joo, C., 26 Sep 2019, In : Nature Communications. 10, 4390.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
bypasses
nucleic acids
Nucleic Acids
proteins
Kinetics
56 Citations (Scopus)

Argonaute of the archaeon Pyrococcus furiosus is a DNA-guided nuclease that targets cognate DNA

Swarts, D. C., Hegge, J. W., Hinojo, I., Shiimori, M., Ellis, M. A., Dumrongkulraksa, J., Terns, R. M., Terns, M. P. & Van Der Oost, J., 2015, In : Nucleic acids research. 43, 10, p. 5120-5129

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Pyrococcus furiosus
Deoxyribonucleases
Archaea
DNA
Guide RNA
10 Citations (Scopus)

Assembling the archaeal ribosome: roles for translation-factor-related GTPases

Blombach, F., Brouns, S. J. J. & van der Oost, J., 2011, In : Biochemical Society Transactions. 39, 1, p. 45-50

Research output: Contribution to journalArticleAcademicpeer-review

GTP Phosphohydrolases
Ribosomes
Ribosome Subunits
Archaea
Eukaryota
13 Citations (Scopus)

A thermophile under pressure: Transcriptional analysis of the response of Caldicellulosiruptor saccharolyticus to different H2 partial pressures

Bielen, A. A. M., Verhaart, M. R. A., Vanfossen, A. L., Blumer-Schuette, S. E., Stams, A. J. M., van der Oost, J., Kelly, R. M. & Kengen, S. W. M., 2013, In : International Journal of Hydrogen Energy. 38, 4, p. 1837-1849

Research output: Contribution to journalArticleAcademicpeer-review

thermophiles
lactates
fermentation
dehydrogenases
Transcription
22 Citations (Scopus)

Autonomous Generation and Loading of DNA Guides by Bacterial Argonaute

Swarts, D. C., Szczepaniak, M., Sheng, G., Chandradoss, S. D., Zhu, Y., Timmers, E. M., Zhang, Y., Zhao, H., Lou, J., Wang, Y., Joo, C. & van der Oost, J., 2017, In : Molecular Cell. 65, 6, p. 985-998

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Argonaute Proteins
Thermus thermophilus
Deoxycytidine
Deoxyguanosine
DNA
12 Citations (Scopus)

Bacteriophage DNA glucosylation impairs target DNA binding by type I and II but not by type V CRISPR–Cas effector complexes

Vlot, M., Houkes, J., Lochs, S. J. A., Swarts, D. C., Zheng, P., Kunne, T., Mohanraju, P., Anders, C., Jinek, M., Van Der Oost, J., Dickman, M. J. & Brouns, S. J. J., 25 Jan 2018, In : Nucleic acids research. 46, 2, p. 873-885

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Bacteriophages
DNA
T-Phages
Interspersed Repetitive Sequences
Bacteriophage T4
13 Citations (Scopus)

Bacteriophage exclusion, a new defense system

Barrangou, R. & van der Oost, J., 2015, In : The EMBO Journal. 34, 2, p. 134-135

Research output: Contribution to journalArticleAcademicpeer-review

Bacteriophages
Clustered Regularly Interspaced Short Palindromic Repeats
Bacterial Genomes
Genes
DNA Restriction-Modification Enzymes
1 Citation (Scopus)

Beat their swords into ploughshares

van der Oost, J., 2015, In : Microbial Biotechnology. 8, 1, p. 34-35

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Biotechnology
1 Citation (Scopus)

Bicistronic Design-Based Continuous and High-Level Membrane Protein Production in Escherichia coli

Claassens, N. J., Finger-Bou, M., Scholten, B., Muis, F., De Groot, J. J., De Gier, J. W., De Vos, W. M. & Van Der Oost, J., 17 Jun 2019, In : ACS synthetic biology. 8, 7, p. 1685-1690 6 p.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Escherichia coli
Membrane Proteins
Proteins
Membranes
Cell Engineering
10 Citations (Scopus)

Biocatalytic asymmetric phosphorylation of mevalonate

Matsumi, R., Hellriegel, C., Schoenenberger, B., Milesi, T., van der Oost, J. & Wohlgemuth, R., 2014, In : RSC Advances : An international journal to further the chemical sciences. 4, 25, p. 12989-12994

Research output: Contribution to journalArticleAcademicpeer-review

mevalonate kinase
Mevalonic Acid
Phosphorylation
Phosphates
Biocatalysts
39 Citations (Scopus)

Biochemical adaptations of two sugar kinases from the hyperthermophilic archaeon Pyrococcus furiosus

Verhees, C. H., Koot, D. G., Ettema, T. J., Dijkema, C., de Vos, W. M. & van der Oost, J., 2002, In : Biochemical Journal. 366, p. 121-127

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Pyrococcus furiosus
Galactokinase
Archaea
Sugars
Phosphotransferases
23 Citations (Scopus)

Biochemical and structural exploration of the catalytic capacity of Sulfolobus KDG aldolases

Wolterink-van Loo, S., van Eerde, A., Siemerink, M. A. J., Akerboom, A. P., Dijkstra, B. W. & van der Oost, J., 2007, In : Biochemical Journal. 403, p. 421-430

Research output: Contribution to journalArticleAcademicpeer-review

Aldehyde-Lyases
Sulfolobus
Sulfolobus acidocaldarius
Glyceraldehyde 3-Phosphate
Substrates
3 Citations (Scopus)

Biochemical characterization of the xylan hydrolysis profile of the extracellular endo-xylanase from Geobacillus thermodenitrificans T12

Daas, T., Martínez, P. M., van de Weijer, T., van der Oost, J., de Vos, W. M., Kabel, M. A. & van Kranenburg, R., 2017, In : BMC Biotechnology. 17, 1, 44.

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Geobacillus
Xylans
Hydrolysis
Triticum
Enzymes
97 Citations (Scopus)

Biogenesis pathways of RNA guides in archaeal and bacterial CRISPR-Cas adaptive immunity

Charpentier, E., Richter, H., van der Oost, J. & White, M. F., 2015, In : FEMS Microbiology Reviews. 39, 3, p. 428-441

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Clustered Regularly Interspaced Short Palindromic Repeats
Guide RNA
Adaptive Immunity
CRISPR-Associated Proteins
RNA
24 Citations (Scopus)

Biohydrogen Production by the Thermophilic Bacterium Caldicellulosiruptor saccharolyticus: Current Status and Perspectives

Bielen, A. A. M., Verhaart, M. R. A., van der Oost, J. & Kengen, S. W. M., 2013, In : Life. 3, 1, p. 52-85

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Caldicellulosiruptor saccharolyticus
thermophilic bacterium
thermophilic bacteria
hydrogen production
bacteria
9 Citations (Scopus)

Bowel Biofilms: Tipping Points between a Healthy and Compromised Gut?

Tytgat, H. L. P., Nobrega, F. L., van der Oost, J. & de Vos, W. M., Jan 2019, In : Trends in Microbiology. 27, 1, p. 17-25

Research output: Contribution to journalArticleAcademicpeer-review

Biofilms
Mucous Membrane
Intestinal Diseases
Health
Colonic Neoplasms
5 Citations (Scopus)

Calcium-induced tertiary structure modifications of endo-B-1,3-glucanase form Pyrococcus furiosus in 7.9 M guanidinium chloride

Chiaraluce, R., Gianese, G., Angelaccio, S., Florio, R., van Lieshout, J. F. T., van der Oost, J. & Consalvi, V., 2005, In : Biochemical Journal. 386, 3, p. 515-524

Research output: Contribution to journalArticleAcademicpeer-review

Pyrococcus furiosus
Guanidine
Calcium
Enzymes
Cellulases
66 Citations (Scopus)

Carboxylic ester hydrolases from hyperthermophiles

Levisson, M., van der Oost, J. & Kengen, S. W. M., 2009, In : Extremophiles. 13, 4, p. 567-581

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Carboxylic Ester Hydrolases
Esters
Enzymes
Archaea
Esterases
25 Citations (Scopus)

Cascade-mediated binding and bending of negatively supercoiled DNA

Westra, E. R., Nilges, B., Erp, P. B., van der Oost, J., Dame, R. T. & Brouns, S. J. J., 2012, In : RNA Biology. 9, 9, p. 1134-1138

Research output: Contribution to journalEditorialAcademicpeer-review

Superhelical DNA
DNA
Clustered Regularly Interspaced Short Palindromic Repeats
Ribonucleoproteins
Conserved Sequence
34 Citations (Scopus)

Characterisation and mode of action of an exopolygalacturonase from the hyperthermophilic bacterium Thermotoga maritime

Kluskens, L. D., van Alebeek, G. J. W. M., Walther, J., Voragen, A. G. J., de Vos, W. M. & van der Oost, J., 2005, In : FEBS Journal. 272, 21, p. 5464-5473

Research output: Contribution to journalArticleAcademicpeer-review

exopolygalacturonase
Bacteria
pectate disaccharide-lyase
Enzymes
Thermotoga maritima
53 Citations (Scopus)

Characterization and structural modeling of a new type of thermostable esterase from Thermotoga maritima

Levisson, M., van der Oost, J. & Kengen, S. W. M., 2007, In : FEBS Journal. 274, 11, p. 2832-2842

Research output: Contribution to journalArticleAcademicpeer-review

Thermotoga maritima
Esterases
Carboxylesterase
Esters
Geobacillus stearothermophilus
24 Citations (Scopus)

Characterization of Aptamer-Protein Complexes by X-ray Crystallography and Alternative Approaches

Ruigrok, V. J. B., Levisson, M., Hekelaar, J., Smidt, H., Dijkstra, B. W. & van der Oost, J., 2012, In : International Journal of Molecular Sciences. 13, 8, p. 10537-10552

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
X ray crystallography
X Ray Crystallography
crystallography
proteins
Proteins
16 Citations (Scopus)

Characterization of a thermostable dihydrodipicolinate synthase from Thermoanaerobacter tengcongensis

Wolterink-van Loo, S., Levisson, M., Cabrières, M. C., Franssen, M. C. R. & van der Oost, J., 2008, In : Extremophiles. 12, 3, p. 461-469 9 p.

Research output: Contribution to journalArticleAcademicpeer-review

4-hydroxy-tetrahydrodipicolinate synthase
Thermoanaerobacter
Lysine
Escherichia coli
Genes
32 Citations (Scopus)

Characterization of CprK1, a CRP/FNR-type transcriptional regulator of halorespiration from Desulfitobacterium hafniense

Gabor, K., Verissimo, C. S., Cyran, B. C., Ter Horst, P., Meijer, N. P., Smidt, H., de Vos, W. M. & van der Oost, J., 2006, In : Journal of Bacteriology. 188, 7, p. 2604-2613

Research output: Contribution to journalArticleAcademicpeer-review

Open Access
Desulfitobacterium
Cyclic AMP Receptor Protein
Disulfides
Fumarates
Proteins