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Items: 1 to 50 of 280

1.

Argonaute bypasses cellular obstacles without hindrance during target search.

Cui TJ, Klein M, Hegge JW, Chandradoss SD, van der Oost J, Depken M, Joo C.

Nat Commun. 2019 Sep 26;10(1):4390. doi: 10.1038/s41467-019-12415-y.

2.

Nature of Amorphous Hydrophilic Block Affects Self-Assembly of an Artificial Viral Coat Polypeptide.

Willems L, van Westerveld L, Roberts S, Weitzhandler I, Calcines Cruz C, Hernandez-Garcia A, Chilkoti A, Mastrobattista E, van der Oost J, de Vries R.

Biomacromolecules. 2019 Aug 29. doi: 10.1021/acs.biomac.9b00512. [Epub ahead of print]

PMID:
31418550
3.

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 HS, Werten MWT, Wolbert EJH, Kengen SWM, van der Oost J, Ferreira NL, López-Contreras AM.

Methods. 2019 Jul 27. pii: S1046-2023(19)30090-8. doi: 10.1016/j.ymeth.2019.07.022. [Epub ahead of print]

4.

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

Claassens NJ, Finger-Bou M, Scholten B, Muis F, de Groot JJ, de Gier JW, de Vos WM, van der Oost J.

ACS Synth Biol. 2019 Jul 19;8(7):1685-1690. doi: 10.1021/acssynbio.9b00101. Epub 2019 Jul 2.

5.

Inducible Fibril Formation of Silk-Elastin Diblocks.

Willems L, Roberts S, Weitzhandler I, Chilkoti A, Mastrobattista E, van der Oost J, de Vries R.

ACS Omega. 2019 May 31;4(5):9135-9143. doi: 10.1021/acsomega.9b01025. Epub 2019 May 23.

6.

Distant Non-Obvious Mutations Influence the Activity of a Hyperthermophilic Pyrococcus furiosus Phosphoglucose Isomerase.

Subramanian K, Mitusińska K, Raedts J, Almourfi F, Joosten HJ, Hendriks S, Sedelnikova SE, Kengen SWM, Hagen WR, Góra A, Martins Dos Santos VAP, Baker PJ, van der Oost J, Schaap PJ.

Biomolecules. 2019 May 31;9(6). pii: E212. doi: 10.3390/biom9060212.

7.

Multiplex genome editing of microorganisms using CRISPR-Cas.

Adiego-Pérez B, Randazzo P, Daran JM, Verwaal R, Roubos JA, Daran-Lapujade P, van der Oost J.

FEMS Microbiol Lett. 2019 Apr 1;366(8). pii: fnz086. doi: 10.1093/femsle/fnz086.

8.

DNA-guided DNA cleavage at moderate temperatures by Clostridium butyricum Argonaute.

Hegge JW, Swarts DC, Chandradoss SD, Cui TJ, Kneppers J, Jinek M, Joo C, van der Oost J.

Nucleic Acids Res. 2019 Jun 20;47(11):5809-5821. doi: 10.1093/nar/gkz306.

9.

CRISPR-Cas ribonucleoprotein mediated homology-directed repair for efficient targeted genome editing in microalgae Nannochloropsis oceanica IMET1.

Naduthodi MIS, Mohanraju P, Südfeld C, D'Adamo S, Barbosa MJ, van der Oost J.

Biotechnol Biofuels. 2019 Mar 25;12:66. doi: 10.1186/s13068-019-1401-3. eCollection 2019.

10.

The Use of Defined Microbial Communities To Model Host-Microbe Interactions in the Human Gut.

Elzinga J, van der Oost J, de Vos WM, Smidt H.

Microbiol Mol Biol Rev. 2019 Mar 13;83(2). pii: e00054-18. doi: 10.1128/MMBR.00054-18. Print 2019 May 15. Review.

PMID:
30867232
11.

Addiction systems antagonize bacterial adaptive immunity.

van Sluijs L, van Houte S, van der Oost J, Brouns SJ, Buckling A, Westra ER.

FEMS Microbiol Lett. 2019 Mar 1;366(5). pii: fnz047. doi: 10.1093/femsle/fnz047.

12.

Microbial Diversity and Organic Acid Production of Guinea Pig Faecal Samples.

Palakawong Na Ayudthaya S, van der Oost H, van der Oost J, van Vliet DM, Plugge CM.

Curr Microbiol. 2019 Apr;76(4):425-434. doi: 10.1007/s00284-019-01630-x. Epub 2019 Feb 12.

13.

Incorporation of a Synthetic Amino Acid into dCas9 Improves Control of Gene Silencing.

Koopal B, Kruis AJ, Claassens NJ, Nobrega FL, van der Oost J.

ACS Synth Biol. 2019 Feb 15;8(2):216-222. doi: 10.1021/acssynbio.8b00347. Epub 2019 Jan 28.

PMID:
30668910
14.

Contribution of Eat1 and Other Alcohol Acyltransferases to Ester Production in Saccharomyces cerevisiae.

Kruis AJ, Gallone B, Jonker T, Mars AE, van Rijswijck IMH, Wolkers-Rooijackers JCM, Smid EJ, Steensels J, Verstrepen KJ, Kengen SWM, van der Oost J, Weusthuis RA.

Front Microbiol. 2018 Dec 21;9:3202. doi: 10.3389/fmicb.2018.03202. eCollection 2018.

15.

Improved protein production and codon optimization analyses in Escherichia coli by bicistronic design.

Nieuwkoop T, Claassens NJ, van der Oost J.

Microb Biotechnol. 2019 Jan;12(1):173-179. doi: 10.1111/1751-7915.13332. Epub 2018 Nov 28.

16.

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

Tytgat HLP, Nobrega FL, van der Oost J, de Vos WM.

Trends Microbiol. 2019 Jan;27(1):17-25. doi: 10.1016/j.tim.2018.08.009. Epub 2018 Sep 12. Review.

PMID:
30219265
17.

Alcohol Acetyltransferase Eat1 Is Located in Yeast Mitochondria.

Kruis AJ, Mars AE, Kengen SWM, Borst JW, van der Oost J, Weusthuis RA.

Appl Environ Microbiol. 2018 Sep 17;84(19). pii: e01640-18. doi: 10.1128/AEM.01640-18. Print 2018 Oct 1.

18.

Engineering Geobacillus thermodenitrificans to introduce cellulolytic activity; expression of native and heterologous cellulase genes.

Daas MJA, Nijsse B, van de Weijer AHP, Groenendaal BWAJ, Janssen F, van der Oost J, van Kranenburg R.

BMC Biotechnol. 2018 Jun 27;18(1):42. doi: 10.1186/s12896-018-0453-y.

19.

Genome editing by natural and engineered CRISPR-associated nucleases.

Wu WY, Lebbink JHG, Kanaar R, Geijsen N, van der Oost J.

Nat Chem Biol. 2018 Jul;14(7):642-651. doi: 10.1038/s41589-018-0080-x. Epub 2018 Jun 18. Review.

PMID:
29915237
20.

Shooting the messenger: RNA-targetting CRISPR-Cas systems.

Zhu Y, Klompe SE, Vlot M, van der Oost J, Staals RHJ.

Biosci Rep. 2018 Jun 21;38(3). pii: BSR20170788. doi: 10.1042/BSR20170788. Print 2018 Jun 29. Review.

21.

Mining for novel bacterial defence systems.

Barrangou R, van der Oost J.

Nat Microbiol. 2018 May;3(5):535-536. doi: 10.1038/s41564-018-0149-z. No abstract available.

PMID:
29632365
22.

Converting Escherichia coli into an archaebacterium with a hybrid heterochiral membrane.

Caforio A, Siliakus MF, Exterkate M, Jain S, Jumde VR, Andringa RLH, Kengen SWM, Minnaard AJ, Driessen AJM, van der Oost J.

Proc Natl Acad Sci U S A. 2018 Apr 3;115(14):3704-3709. doi: 10.1073/pnas.1721604115. Epub 2018 Mar 19.

23.

Exploration and exploitation of the environment for novel specialized metabolites.

Loureiro C, Medema MH, van der Oost J, Sipkema D.

Curr Opin Biotechnol. 2018 Apr;50:206-213. doi: 10.1016/j.copbio.2018.01.017. Epub 2018 Feb 14. Review.

PMID:
29454184
24.

Hijacking CRISPR-Cas for high-throughput bacterial metabolic engineering: advances and prospects.

Mougiakos I, Bosma EF, Ganguly J, van der Oost J, van Kranenburg R.

Curr Opin Biotechnol. 2018 Apr;50:146-157. doi: 10.1016/j.copbio.2018.01.002. Epub 2018 Feb 3. Review.

25.

Progress of CRISPR-Cas Based Genome Editing in Photosynthetic Microbes.

Naduthodi MIS, Barbosa MJ, van der Oost J.

Biotechnol J. 2018 Sep;13(9):e1700591. doi: 10.1002/biot.201700591. Epub 2018 Feb 27. Review.

PMID:
29396999
26.

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 SJA, Swarts DC, Zheng P, Kunne T, Mohanraju P, Anders C, Jinek M, van der Oost J, Dickman MJ, Brouns SJJ.

Nucleic Acids Res. 2018 Jan 25;46(2):873-885. doi: 10.1093/nar/gkx1264.

27.

Characterizing a thermostable Cas9 for bacterial genome editing and silencing.

Mougiakos I, Mohanraju P, Bosma EF, Vrouwe V, Finger Bou M, Naduthodi MIS, Gussak A, Brinkman RBL, van Kranenburg R, van der Oost J.

Nat Commun. 2017 Nov 21;8(1):1647. doi: 10.1038/s41467-017-01591-4.

28.

FnCpf1: a novel and efficient genome editing tool for Saccharomyces cerevisiae.

Swiat MA, Dashko S, den Ridder M, Wijsman M, van der Oost J, Daran JM, Daran-Lapujade P.

Nucleic Acids Res. 2017 Dec 1;45(21):12585-12598. doi: 10.1093/nar/gkx1007.

29.

Improving heterologous membrane protein production in Escherichia coli by combining transcriptional tuning and codon usage algorithms.

Claassens NJ, Siliakus MF, Spaans SK, Creutzburg SCA, Nijsse B, Schaap PJ, Quax TEF, van der Oost J.

PLoS One. 2017 Sep 13;12(9):e0184355. doi: 10.1371/journal.pone.0184355. eCollection 2017.

30.

Complete Genome Sequence of Geobacillus thermodenitrificans T12, A Potential Host for Biotechnological Applications.

Daas MJA, Vriesendorp B, van de Weijer AHP, van der Oost J, van Kranenburg R.

Curr Microbiol. 2018 Jan;75(1):49-56. doi: 10.1007/s00284-017-1349-0. Epub 2017 Sep 12.

31.

Prokaryotic Argonaute proteins: novel genome-editing tools?

Hegge JW, Swarts DC, van der Oost J.

Nat Rev Microbiol. 2018 Jan;16(1):5-11. doi: 10.1038/nrmicro.2017.73. Epub 2017 Jul 24. Review.

PMID:
28736447
32.

Monascus ruber as cell factory for lactic acid production at low pH.

Weusthuis RA, Mars AE, Springer J, Wolbert EJ, van der Wal H, de Vrije TG, Levisson M, Leprince A, Houweling-Tan GB, Pha Moers A, Hendriks SN, Mendes O, Griekspoor Y, Werten MW, Schaap PJ, van der Oost J, Eggink G.

Metab Eng. 2017 Jul;42:66-73. doi: 10.1016/j.ymben.2017.05.005. Epub 2017 Jun 3.

PMID:
28583672
33.

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

Daas MJA, Martínez PM, van de Weijer AHP, van der Oost J, de Vos WM, Kabel MA, van Kranenburg R.

BMC Biotechnol. 2017 May 18;17(1):44. doi: 10.1186/s12896-017-0357-2.

34.

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

Siliakus MF, van der Oost J, Kengen SWM.

Extremophiles. 2017 Jul;21(4):651-670. doi: 10.1007/s00792-017-0939-x. Epub 2017 May 15. Review.

35.

Structural Basis for Guide RNA Processing and Seed-Dependent DNA Targeting by CRISPR-Cas12a.

Swarts DC, van der Oost J, Jinek M.

Mol Cell. 2017 Apr 20;66(2):221-233.e4. doi: 10.1016/j.molcel.2017.03.016.

36.

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

van Rossum T, Muras A, Baur MJJ, Creutzburg SCA, van der Oost J, Kengen SWM.

Microb Biotechnol. 2017 May;10(3):625-641. doi: 10.1111/1751-7915.12612. Epub 2017 Apr 10.

37.

Ethyl acetate production by the elusive alcohol acetyltransferase from yeast.

Kruis AJ, Levisson M, Mars AE, van der Ploeg M, Garcés Daza F, Ellena V, Kengen SWM, van der Oost J, Weusthuis RA.

Metab Eng. 2017 May;41:92-101. doi: 10.1016/j.ymben.2017.03.004. Epub 2017 Mar 27.

PMID:
28356220
38.

Autonomous Generation and Loading of DNA Guides by Bacterial Argonaute.

Swarts DC, Szczepaniak M, Sheng G, Chandradoss SD, Zhu Y, Timmers EM, Zhang Y, Zhao H, Lou J, Wang Y, Joo C, van der Oost J.

Mol Cell. 2017 Mar 16;65(6):985-998.e6. doi: 10.1016/j.molcel.2017.01.033. Epub 2017 Mar 2.

39.

Erratum: Multiplex gene editing by CRISPR-Cpf1 using a single crRNA array.

Zetsche B, Heidenreich M, Mohanraju P, Fedorova I, Kneppers J, DeGennaro EM, Winblad N, Choudhury SR, Abudayyeh OO, Gootenberg JS, Wu WY, Scott DA, Severinov K, van der Oost J, Zhang F.

Nat Biotechnol. 2017 Feb 8;35(2):178. doi: 10.1038/nbt0217-178b. No abstract available.

PMID:
28178246
40.

Efficient Genome Editing of a Facultative Thermophile Using Mesophilic spCas9.

Mougiakos I, Bosma EF, Weenink K, Vossen E, Goijvaerts K, van der Oost J, van Kranenburg R.

ACS Synth Biol. 2017 May 19;6(5):849-861. doi: 10.1021/acssynbio.6b00339. Epub 2017 Feb 16.

41.

Multiplex gene editing by CRISPR-Cpf1 using a single crRNA array.

Zetsche B, Heidenreich M, Mohanraju P, Fedorova I, Kneppers J, DeGennaro EM, Winblad N, Choudhury SR, Abudayyeh OO, Gootenberg JS, Wu WY, Scott DA, Severinov K, van der Oost J, Zhang F.

Nat Biotechnol. 2017 Jan;35(1):31-34. doi: 10.1038/nbt.3737. Epub 2016 Dec 5. Erratum in: Nat Biotechnol. 2017 Feb 8;35(2):178.

42.

Isolation of a genetically accessible thermophilic xylan degrading bacterium from compost.

Daas MJ, van de Weijer AH, de Vos WM, van der Oost J, van Kranenburg R.

Biotechnol Biofuels. 2016 Oct 6;9:210. eCollection 2016.

43.

Harnessing the power of microbial autotrophy.

Claassens NJ, Sousa DZ, Dos Santos VA, de Vos WM, van der Oost J.

Nat Rev Microbiol. 2016 Nov;14(11):692-706. doi: 10.1038/nrmicro.2016.130. Epub 2016 Sep 26. Review.

PMID:
27665719
44.

Healthy human gut phageome.

Manrique P, Bolduc B, Walk ST, van der Oost J, de Vos WM, Young MJ.

Proc Natl Acad Sci U S A. 2016 Sep 13;113(37):10400-5. doi: 10.1073/pnas.1601060113. Epub 2016 Aug 29.

45.

Complete genome sequence of thermophilic Bacillus smithii type strain DSM 4216(T).

Bosma EF, Koehorst JJ, van Hijum SA, Renckens B, Vriesendorp B, van de Weijer AH, Schaap PJ, de Vos WM, van der Oost J, van Kranenburg R.

Stand Genomic Sci. 2016 Aug 24;11(1):52. doi: 10.1186/s40793-016-0172-8. eCollection 2016.

46.

CRISPR-Cas9 gene editing: Delivery aspects and therapeutic potential.

Oude Blenke E, Evers MJ, Mastrobattista E, van der Oost J.

J Control Release. 2016 Dec 28;244(Pt B):139-148. doi: 10.1016/j.jconrel.2016.08.002. Epub 2016 Aug 4. Review.

PMID:
27498021
47.

Diverse evolutionary roots and mechanistic variations of the CRISPR-Cas systems.

Mohanraju P, Makarova KS, Zetsche B, Zhang F, Koonin EV, van der Oost J.

Science. 2016 Aug 5;353(6299):aad5147. doi: 10.1126/science.aad5147. Review.

PMID:
27493190
48.

Integrated In Silico Analysis of Pathway Designs for Synthetic Photo-Electro-Autotrophy.

Volpers M, Claassens NJ, Noor E, van der Oost J, de Vos WM, Kengen SW, Martins Dos Santos VA.

PLoS One. 2016 Jun 23;11(6):e0157851. doi: 10.1371/journal.pone.0157851. eCollection 2016.

49.

Structural and biochemical characterisation of Archaeoglobus fulgidus esterase reveals a bound CoA molecule in the vicinity of the active site.

Sayer C, Finnigan W, Isupov MN, Levisson M, Kengen SW, van der Oost J, Harmer NJ, Littlechild JA.

Sci Rep. 2016 May 10;6:25542. doi: 10.1038/srep25542.

50.

Next Generation Prokaryotic Engineering: The CRISPR-Cas Toolkit.

Mougiakos I, Bosma EF, de Vos WM, van Kranenburg R, van der Oost J.

Trends Biotechnol. 2016 Jul;34(7):575-587. doi: 10.1016/j.tibtech.2016.02.004. Epub 2016 Mar 2. Review.

PMID:
26944793

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