Publications

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Publications CBDD (see below for 2016 - 2023)

2024

Alvarado-Melendez, EI, de Jong, H, Hartman, JEM, Ong, JY, W枚sten, MMSM, Wennekes, T, 2024, Glycoengineering with neuraminic acid analogs to label lipooligosaccharides and detect native sialyltransferase activity in gram-negative bacteria. Glycobiology (DOI: 10.1093/glycob/cwae071).

Balsollier C, Bijkerk S, de Smit A, van Eekelen K, Bozovi膷ar K, Husstege D, Toma拧i膷 T, Anderluh M, Pieters RJ. Discovery of two non-UDP-mimic inhibitors of O-GlcNAc transferase by screening a DNA-encoded library. Bioorg Chem. 2024 Jun;147:107321 (DOI: 10.1016/j.bioorg.2024.107321).

Besermenji, K., Petracca, R. Rewiring Lysine Catabolism in Cancer Leads to Increased Histone Crotonylation and Immune Escape. ChemBioChem 2024, 25(24) (DOI: 10.1002/cbic.202400638).

Bosman, G.P., I.D. Stoof, H. Bastiaansen, L. Quarles van Ufford, J.M. Dobruchowska, J.H. Langenbach, B.M. Boruah, K.W. Moremen, A.E.H. Bentlage, S.N. Lissenberg-Thunnissen, G. Vidarsson, G.J. Boons. Bisecting N-acetylglucosamine of the N-glycan of immunoglobulin G does not affect binding to Fc gamma receptors. ACS Chem. Biol., Accepted subject to minor revision.

Bunyatov, M., M.A. Wolfert, L. Liu, R. Huizinga, M.W.J. Schreurs, B.C. Jacobs, G.J. Boons. Chemoenzymatic synthesis of human natural killer-1-containing glycans and application as serum antibodies probes. Nat. Synth.2024, 3(1): 85-98 (DOI: 10.1038/s44160-023-00394-4).

Chopra, P., S.D. Ray, C.K. Page, J.D. Shepard, A. Kandeil, T. Jeevan, A.S. Bowman, A.H. Ellebedy, R.J. Webby,R.P. de Vries, S.M. Tompkins, G.J. Boons. Receptor binding specificity of a bovine A(H5N1) influenza virus. Nat. Matters Arising, Accepted for publication.

Desai, K, Dobruchowska, JM, Elbers, K, Cybulska, J, Zdunek, A, Porbahaie, M, Jansen, E, Van Neerven, J, Albers, R, Wennekes, T, Mercenier, A,Schols, HA, 2025, Associating structural characteristics to immunomodulating properties of carrot rhamnogalacturonan-I fractions. Carbohydrate Polymers (DOI: 10.1016/j.carbpol.2024.122730).

Desai, K, van den Abbeele, P, Duysburgh, C, Albers, R, Wennekes, T, Schols, HA, Mercenier, A, 2024, Structure dependent fermentation kinetics of dietary carrot rhamnogalacturonan-I in an in vitro gut model. Food Hydrocolloids (DOI: 10.1016/j.foodhyd.2024.110036).

Ehren, HL, Jongkees, SAK, Wennekes, T, 2024, Alkyne- and Azide-Functionalised Cyclophellitol Derivatives for Selective Glucuronidase Targeting. European Journal of Organic Chemistry (DOI: 10.1002/ejoc.202401076).

Filius, M., R. van Wee, C. de Lannoy, I. Westerlaken, Z. Li, S.H. Kim, C. de Agrela Pinto, Y. Wu, G.J. Boons, M. Pabst, D. de Ridder, C. Joo. Full-length single-molecule protein fingerprinting. Nat. Nanotechnol. 2024, 19(5): 652-659 (DOI: 10.1038/s41565-023-01598-7).

Gimeno, A., A.M. Ehlers, S. Delgado, J.W.H. Langenbach, L.J. van den Bos, J.A.W. Kruijtzer, B.G.A. Guigas, G.J. Boons. Site-specific glyco-tagging of native proteins for the development of biologicals. J. Am. Chem. Soc. 2024, 146(50): 34452-34465 (DOI: 10.1021/jacs.4c11091).

Gonsalves, N., M.K. Sun, P. Chopra, C.F. Latchoumane, S. Bajwa, R. Tang, B. Patel, G.J. Boons, L. Karumbaiah. Neuritogenic glycosaminoglycan hydrogels promote functional recovery after severe traumatic brain injury. J. Neural Eng. 2024, 21(3): 036058 (DOI: 10.1088/1741-2552/ad5108).

Gr盲we, A.; Spruit, C. M.; De Vries, R. P.; Merkx, M. Bioluminescent Detection of Viral Surface Proteins Using Branched Multivalent Protein Switches. RSC Chem. Biol. 2024, 5 (2), 148鈥157. .

Gr盲we, A.; Van Der Veer, H.; Jongkees, S. A. K.; Flipse, J.; Rossey, I.; De Vries, R. P.; Saelens, X.; Merkx, M. Direct and Ultrasensitive Bioluminescent Detection of Intact Respiratory Viruses. ACS Sens. 2024, 9 (10), 5550鈥5560. .

Jacobs, B.C., G.J. Boons. Research Briefing: Synthetic glycans provide insight in binding properties of toxic serum antibodies. Nat. Synth. 2024, 3: 15-16 (DOI: 10.1038/s44160-023-00395-3).

de Jong, S.P.J., Z.C. Felix Garza, J.C. Gibson, S. van Leeuwen, R.P. de Vries, G.J. Boons, M. van Hoesel, K. de Haan, L.E. van Groeningen, K.D. Hulme, H.D.G. van Willigen, E. Wynberg, G.J. de Bree, A. Matser, M. Bakker, L. van der Hoek, M. Prins, N.A. Kootstra, D. Eggink, B.E. Nichols, A.X. Han, M.D. de Jong, C.A. Russell. Determinants of epidemic size and the impacts of lulls in seasonal influenza virus circulation. Nat. Commun. 2024, 15(1): 591 (DOI: 10.1038/s41467-023-44668-z).

Joshi, A., P. Chopra, A. Venot, G.J. Boons. Chemical synthesis of delta-4,5 unsaturated heparan sulfate oligosaccharides for biomarker discovery. Org. Lett. 2024, 26(12): 2462-2466 (DOI: 10.1021/acs.orglett.4c00596).

Karakus, U., I. Mena, J. Kottur, S.S. El Zahed, R. Seoane, S. Yildiz, L. Chen, M. Plancarte, L. Lindsay, R. Halpin, T.B. Stockwell, D.E. Wentworth, G.J. Boons, F. Krammer, S. Stertz, W. Boyce, R.P. de Vries, A.K. Aggarwal, A. Garcia-Sastre. H19 influenza A virus exhibits species-specific MHC class II receptor usage. Cell Host Microbe2024, 32(7): 1089-1102 e1010 (DOI: 10.1016/j.chom.2024.05.018).

Koenen, M. H.; De Steenhuijsen Piters, W. A. A.; De Jonge, M. I.; Langereis, J. D.; Nierkens, S.; Chu, M. L. J. N.; Van Der Woude, R.; De Vries, R. P.; Sanders, E. A. M.; Bogaert, D.; Van Der Vries, E.; Boes, M.; Verhagen, L. M. Salivary Polyreactive Antibodies and Haemophilus Influenzae Are Associated with Respiratory Infection Severity in Young Children with Recurrent Respiratory Infections. Eur Respir J 2024, 64 (4), 2400317. .

Krimpenfort, L. T.; Degn, S. E.; Heesters, B. A. The Follicular Dendritic Cell: At the Germinal Center of Autoimmunity? Cell Reports 2024, 43 (3), 113869. .

Li, T., C.M. Spruit, N. Wei, L. Liu, M.A. Wolfert, R.P. de Vries, G.J. Boons. Chemoenzymatic synthesis of tri-antennary N-glycans terminating in sialyl-Lewis(x) reveals the importance of glycan complexity for influenza A virus receptor binding. Chem. Eur. J. 2024, 30(32): e202401108 (DOI: 10.1002/chem.202401108).

Liu, Y., I.R. Sweet, G.J. Boons. 2,2-Di-fluoro-derivatives of fucose can inhibit cell surface fucosylation without causing slow transfer to acceptors. JACS Au 2024, 4(10): 3953-3963 (DOI: 10.1021/jacsau.1024c00681).

Ma, S., L. Liu, D. Eggink, S. Herfst, R.A.M. Fouchier, R.P. de Vries, G.J. Boons. Asymmetrical biantennary glycans prepared by a stop-and-go strategy reveal receptor binding evolution of human influenza A viruses. JACS Au2024, 4(2): 607-618 (DOI: 10.1021/jacsau.3c00695).

Mandalasi, M.N., E. Gas-Pascual, C.G. Baptista, B. Deng, H. van der Wel, J.A.W. Kruijtzer, G.J. Boons, I.J. Blader, C.M. West. Oxygen-dependent regulation of F-box proteins in Toxoplasma gondii is mediated by Skp1 glycosylation. J. Biol. Chem. 2024, 300(11):107801 (DOI: 10.1016/j.jbc.2024.107801).

Math盲, L.; Krabbendam, L.; Martinez H酶yer, S.; Heesters, B. A.; Golebski, K.; Kradolfer, C.; Ghaedi, M.; Ma, J.; Stadhouders, R.; Bachert, C.; Cardell, L.-O.; Zhang, N.; Holtappels, G.; Reitsma, S.; Helgers, L. C.; Geijtenbeek, T. B. H.; Coquet, J. M.; Takei, F.; Spits, H.; Martinez-Gonzalez, I. Human CD127 Negative ILC2s Show Immunological Memory. Journal of Experimental Medicine 2024, 221 (8), e20231827. .

Medley, B.J., K.E. Low, J.D.W. Irungu, L. Kipchumba, P. Daneshgar, L. Liu, J.M. Garber, L. Klassen, G.D. Inglis, G.J. Boons, W.F. Zandberg, D.W. Abbott, A.B. Boraston. A "terminal" case of glycan catabolism: structural and enzymatic characterization of the sialidases of Clostridium perfringens. J. Biol. Chem. 2024: 107750 (DOI: 10.1016/j.jbc.2024.107750).

Mihatsch, W. A.; Stahl, B.; Braun, U. The Umbilical Cord Creatine Flux and Time Course of Human Milk Creatine across Lactation. Nutrients 2024, 16 (3), 345. .

Prestegard J.H., G.J. Boons, P. Chopra, J. Glushka, J.H. Grimes Jr, B.J. Simon. Neural net analysis of NMR spectra from strongly-coupled spin systems. J. Magn Reson. 2024, 368:107792 (DOI: 10.1016/j.jmr.2024.107792).

R铆os Carrasco, M.; Gr枚ne, A.; Van Den Brand, J. M. A.; De Vries, R. P. The Mammary Glands of Cows Abundantly Display Receptors for Circulating Avian H5 Viruses. J Virol 2024, 98 (11), e01052-24. .

R铆os Carrasco M, Lin TH, Zhu X, Gabarocca Garc铆a A, Uslu E, Liang R, Spruit CM, Richard M, Boons GJ, Wilson IA, de Vries RP. The Q226L mutation can convert a highly pathogenic H5 2.3.4.4e virus to bind human-type receptors.. 2025:2025.01.10.632119. doi: 10.1101/2025.01.10.632119. PNAS Accepted subject to minor revision.

Saito-Diaz, K., P. Dietrich,.T. Saini, M.M. Rashid, H.F. Wu, M. Ishan, X. Sun, S. Bedillion, A.J. Patel, A.R. Prudden,C.G. Wzientek, T.N. Knight, Y.W. Chen, G.J. Boons, S. Chen, L. Studer, M. Tiemeyer, B. Xu, I. Dragatsis, H.X. Liu, N. Zeltner. Genipin rescues developmental and degenerative defects in familial dysautonomia models and accelerates axon regeneration. Sci. Transl. Med. 2024, 16(774): eadq2418 (DOI: 10.1126/scitranslmed.adq2418).

Schakelaar, M.Y., A. Maas, A.-M.L.N. van Ommen, A.E. Spiering, R. de Jonge, P. Wijchers, G. van Rossum, B.A. Heesters, O.G. de Jong, J. Zandveld, H.G. Rebel, J. Meeldijk, E.W. Pijnappel, S. van Dijk, A. Di Maggio, O. Nijssen, J.G.F. Sanders, L. Hoogerwerf, M. van Spaandonk, S. Crnko, T. Koorman, K. Jenniskens, N.C. Onland-Moret, S.M. van Geelen, T. ten Broeke, A. van Royen-Kerkhof, G. Dilaver, S. Oliveira, R.J. Kok, L.W. van Laake, P. van der Harst, W. Spiering, F.H. Rutten, M. van Brussel, H.M. den Ruijter, N. Bovenschen. Uniting education, research, healthcare, and society to advance women鈥檚 heart health. J Exp Med 2024 Nov 4, 221(11): e20240877 (DOI: 10.1084/jem.20240877).

Sluga J, Toma拧i膷 T, Anderluh M, Rambaher MH, Bajc G, Sev拧ek A, Martin NI, Pieters RJ, Novi膷 M, Venko K. Targeting N-Acetylglucosaminidase in Staphylococcus aureus with Iminosugar Inhibitors. Antibiotics (Basel). 2024, Aug 10;13(8):751 (DOI: 10.3390/antibiotics13080751).

Sminia, TJ, Aalvink, S, de Jong, H, Tempelaars, MH, Zuilhof, H, Abee, T, de Vos, WM, Tytgat, HLP, Wennekes, T, 2024, Probing Peptidoglycan Synthesis in the Gut Commensal Akkermansia Muciniphila with Bioorthogonal Chemical Reporters. ChemBioChem (DOI: 10.1002/cbic.202400037).

Spruit, C.M., D.I. Palme, T. Li, M. Rios Carrasco, A. Gabarroca Garcia, I.R. Sweet, M. Kuryshko, J.C.L. Maliepaard, K.R. Reiding, D. Scheibner, G.J. Boons, E.M. Abdelwhab, R.P. de Vries. Complex N-glycans are important for interspecies transmission of H7 influenza A viruses. J. Virol. 2024, 98(4): e0194123 (DOI: 10.1128/jvi.01941-23).

Tomris, I., A.L.M. Kimpel, R. Liang, R. van der Woude, G.J. Boons, Z. Li, and R.P. de Vries. The HCoV-HKU1 N-terminal domain binds a wide range of 9-O-acetylated sialic acids presented on different glycan cores. ACS Infect. Dis. 2024, 10(11):3880-3890 (DOI: 10.1021/acsinfecdis.4c00488).

Tomris, I.; Van Der Woude, R.; De Paiva Froes Rocha, R.; Torrents De La Pe帽a, A.; Ward, A. B.; De Vries, R. P. Viral Envelope Proteins Fused to Multiple Distinct Fluorescent Reporters to Probe Receptor Binding. Protein Science 2024, 33 (4), e4974. .

Unione, L., A.N.A. Ammerlaan, G.P. Bosman, E. Uslu, R. Liang, F. Broszeit, R. van der Woude, Y. Liu, S. Ma, L. Liu, M. Gomez-Redondo, I.A. Bermejo, P. Valverde, T. Diercks, A. Arda, R.P. de Vries, G.J. Boons. Probing altered receptor specificities of antigenically drifting human H3N2 viruses by chemoenzymatic synthesis, NMR, and modeling. Nat. Commun. 2024, 15(1): 2979 (DOI: 10.1038/s41467-024-47344-y).

Verpalen, E., A.J. Brouwer, M.A. Wolfert, G.J. Boons. Structure-based design and synthesis of lipid A derivatives to modulate cytokine responses. Chem. Eur. J. 2024, 30(32): e202400429 (DOI: 10.1002/chem.202400429).

Verpalen, E.C.J.M., A.M. Ehlers, A.C.A. van Wingaarden, A. Brouwer, G.J. Boons. Synthesis and biological evaluation of lipid A derived from commensal Bacteroides. Org. Biomol. Chem. 2024, 22(44): 8793-8800 (DOI: 10.1039/d1034ob01340a).

Vigeveno, R.M., A.X. Han, R.P. de Vries, E. Parker, K. de Haan, S. van Leeuwen, K.D. Hulme, A.S. Lauring, A.J.W. Te Velthuis, G.J. Boons, R.A.M. Fouchier, C.A. Russell, M.D. de Jong, D. Eggink. Long-term evolution of human seasonal influenza virus A(H3N2) is associated with an increase in polymerase complex activity. Virus Evol. 2024, 10(1): veae030 (DOI: 10.1093/ve/veae030).

Vos, G.M., Y. Wu, R. van der Woude, R.P. de Vries, G.J. Boons. Chemo-enzymatic synthesis of isomeric i-branched polylactosamines using traceless blocking groups. Chem. Eur. J. 2024, 30(5): e202302877 (DOI: 10.1002/chem.202302877).

Walton, B., S. Abbondante, M.E. Marshall, J.M. Dobruchowska, A. Alvi, L.A. Gallagher, N. Vallikat, Z. Zhang, D.J. Wozniak, E.W. Yu, G.J. Boons, E. Pearlman, and A. Rietsch. A biofilm-tropic Pseudomonas aeruginosabacteriophage uses the exopolysaccharide Psl as receptor. eLife 2024, 13: RP102352 (DOI: 10.7554/eLife.102352.1).

Westerveld, M., Besermenji, K., Aidukas, D., Ostrovitsa, N., Petracca, R. Cracking Lysine Crotonylation (Kcr): Enlightening a Promising Post-Translational Modification. ChemBioChem 2024, e202400639 (DOI: 10.1002/cbic.202400639).

Westerveld, M., Petracca, R. The mystery of crotonyl-CoA. Nat. Chem. 2024, 16: 2094 (DOI: 10.1038/s41557-024-01678-8).

Wu, J.; Gan, J.; Zeng, G.; Luo, X.; Yang, N.; Zhang, Z.; Sun, Y.; Shen, J.; Wei, W.; Yan, J.; Zhu, J.; Ludwig, T.; Stahl, B.; Zhao, X.; Wang, Z. Investigation of Human Milk as a Biological System in a Multicenter Mother鈥揑nfant Cohort: Protocol Design and Cohort Profile of the Phoenix Study. Nutrients 2024, 16 (17), 2892. .

Wu, XS, Goebbels, M, Debski-Antoniak, O, Marougka, K, Chao, LM, Smits, T, Wennekes, T, Kuppeveld, FJMV, Vries, ED, de Haan, CAM. Unraveling dynamics of paramyxovirus-receptor interactions using nanoparticles displaying hemagglutinin-neuraminidase. PLOS Pathogens 2024 (DOI: 10.1371/journal.ppat.1012371).

Wu, Y., G.P. Bosman, D. Chapla, C. Huang, K.W. Moremen, R.P. de Vries, G.J. Boons. A biomimetic synthetic strategy can provide keratan sulfate I and II oligosaccharides with diverse fucosylation and sulfation patterns. J. Am. Chem. Soc. 2024, 146(13): 9230-9240 (DOI: 10.1021/jacs.4c00363).

Wu, Y., G.P. Bosman, G.M. Vos, E. Uslu, D. Chapla, C. Huang, K.W. Moremen, G.J. Boons. Chemoenzymatic synthesis of keratan sulfate oligosaccharides using UDP-galactose-6-aldehyde to control sulfation at galactosides. Org. Lett. 2024, 26(39): 8272-8277 (DOI: 10.1021/acs.orglett.4c02899).

Xu Y, Wang X, Zaal EA, Berkers CR, Lorent JH, Heise T, Cox R, Pieters RJ, Breukink E. Specific labeling of newly synthesized lipopolysaccharide via metabolic incorporation of azido-galactose. Biochim Biophys Acta Mol Cell Biol Lipids. 2024 May;1869(4):159467 (DOI: 10.1016/j.bbalip.2024.159467).