Dendrimers and dendrons for siRNA binding: Computational insights

Journal of Drug Delivery Science and Technology

Volumn 22, Issue 1, 2012, Pages 83-89

  Pavan, G M ^a   Danani, A ^a  

^a UNIVERSITY OF APPLIED SCIENCES AND ARTS OF SOUTHERN SWITZERLAND   (Switzerland)

Author keywords

Dendrimers; Dendrons; Gene therapy; Molecular modeling; Multivalency; siRNA binding

Indexed keywords

DENDRIMER; DENDRON; NANOCARRIER; PHOSPHATE; SMALL INTERFERING RNA; UNCLASSIFIED DRUG;

BINDING SITE; DENDRITIC CELL; DNA STRUCTURE; GENETIC SCREENING; HUMAN; MOLECULAR MECHANICS; REVIEW; RNA BINDING; RNA STRUCTURE;

EID: 84857433515     PISSN: 17732247     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1773-2247(12)50008-0     Document Type: Review

References (34)

1. Mulder A.J., Huskens J., Reinhoudt D.N. - General introduction to multivalency. - Org. Biomol. Chem., 2, 3409-3424, 2004.
2. Badjic J.D., Nelson A., Cantrill S.J., Turnbull W.B., Stoddard J.F. - Multivalency and cooperativity in supramolecular chemistry. - Acc. Chem. Res., 38, 723-732, 2005.
3. Paleos C.M., Tziveleka L.A., Sideratou Z., Tsiourvas D. - Gene delivery using functional dendritic polymers. - Expert Opin. Drug Deliv., 6, 27-38, 2009.
4. Mintzer M.A., Simanek, E.E. - Synthetic vectors for gene delivery. - Chem. Rev., 109, 259-302, 2009.
5. Menjoge A.R., Kannan R.M., Tomalia, D.A. - Dendrimer-based drug and imaging conjugates: design considerations for nanomedical applications.- Drug Discov. Today, 15, 171-185, 2010.
6. Nanjwade B.K., Bechra H.M., Derkar G.K., Manvi F.V., Nanjwade V.K. - Dendrimers: emerging polymers for drug-delivery systems. - Eur. J. Pharm. Sci., 38, 185-196, 2009.
7. Labieniec M., Watala C. - PAMAM dendrimers - diverse biomedical applications. Facts and unresolved questions. - Cent. Eur. J. Biol., 4, 434-451, 2009.
8. Maiti P.K., Cagin T., Wang G., Goddard III W.A. - Structure of PAMAM dendrimers: Generation 1 through 11 - Macromolecules, 37, 6236-6254, 2004.
9. Prosa T.J., Bauer B.J., Amis E.J. - From Stars to spheres: a SAXS analysis of dilute dendrimer solutions. - Macromolecules, 34, 4897-4906, 2001. (Pubitemid 34217351)
10. Taratula O., Garbuzenko O.B., Kirkpatrick P., Pandya I., Savla R., Pozharov V.P., He H., Minko T. - Surface-engineering targeted PPI dendrimer for efficient intracellular and intratumoral siRNA delivery. - J. Control. Release, 140, 284-293, 2009.
11. Watanabe K., Harada-Shiba M., Suzuki A., Gokuden R., Kurihara R., Sugao Y., Mori T., Katayama Y., Niidome T. - In vivo siRNA delivery with dendritic poly(L-lysine) for the treatment of hypercholesterolemia. - Mol. Biosyst., 5, 1306-1310, 2009.
12. Weber N., Ortega P., demente M.I., Shcharbin D., Bryszewska M., de la Mata F.J., Gómez R., Muñoz-Fernández MA. - Characterization of carbosilane dendrimers as effective carriers of siRNA to HIV-infected lymphocytes. - J. Control. Release, 132, 55-64, 2008.
13. Merkel O.M., Mintzer M.A., Librizzi D., Samsonova O., Dicke T., Sproat B., Garn H., Barth P.J., Simanek E.E., Kissel T. - Triazine dendrimers as nonviral vectors for in vitro and in vivo RNAi: the effects of peripheral groups and core structure on biological activity. - Mol. Pharm., 7, 968-983, 2010.
14. Guillot-Nieckowski M., Eisler S., Diederich F. - Dendritic vectors for gene transfection. - New. J. Chem., 31, 1111-1127, 2007.
15. Shcharbin D.G., Klajnert B., Bryszewska M. - Dendrimers in gene transfection. - Biochemistry (Moscow), 74, 1070-1079, 2009.
16. Tomalia D.A. - Dendrons/dendrimers: quantized, nano-element like building blocks for soft-soft and soft-hard nano-compound synthesis. - Soft Matter, 6, 456-474, 2010.
17. Pavan G.M., Albertazzi L., Danani A. - Ability to adapt: different generations of PAMAM dendrimers show different behaviors. - J. Phys. Chem. B, 114, 2667-2675, 2010.
18. Pavan G.M., Danani A. - The influence of dendron's architecture on the "rigid" and "flexible" behaviour in binding DNA - a modelling study. - Phys. Chem. Chem. Phys., 12, 13914-13917, 2010.
19. Pavan G.M., Kostiainen M.A., Danani A. - Computational approach for understanding the interactions of UV-degradable dendrons with DNA and siRNA. - J. Phys. Chem. B, 114, 5686-5693, 2010.
20. Jones S.P., Pavan G.M., Danani A., Pricl S., Smith D.K. - Quantifying the effect of surface ligands on dendron-DNA interactions: insights into multivalency through a combined experimental and theoretical approach. - Chem. Eur. J., 16, 4519-4532, 2010.
21. Pavan G.M., Mintzer M.A., Simanek E.E., Merkel O.M., Kissel T., Danani A. - Computational insights into the interactions between DNA and siRNA with "rigid" and "flexible" triazine dendrimers. - Biomacromolecules, 11, 721-730, 2010.
22. Jensen L.B., Pavan G.M., Kasimova M.R., Rutherford S., Danani A., Nielsen H.M., Foged C. - Elucidating the molecular mechanism of PAMAM-siRNA dendriplex self-assembly: effect of dendrimer charge density. - Int. J. Pharm., 416, 410-428, 2011.
23. Kostiainen M.A., Hardy J.G., Smith D.K. - High-affinity multivalent DNA binding by using low-molecular-weight dendrons. - Angew. Chem. Int. Ed., 44, 2556-2559, 2005. (Pubitemid 40600329)
24. Kostiainen M.A., Szilvay G.R., Smith D.K., Under M.B., Ikkala O. - Multivalent dendrons for high-affinity adhesion of proteins to DNA. - Angew. Chem. Int. Ed., 45, 3538-3542, 2006. (Pubitemid 44098978)
25. Hardy J.G., Kostiainen M.A., Smith D.K., Gabrielson N.P., Pack D.W. - Dendrons with spermine surface groups as potential building blocks for nonviral vectors in gene therapy. - Bioconjugate Chem., 17, 172-178, 2006. (Pubitemid 43157599)
26. Pavan G.M., Danani A., Pricl S., Smith D.K. - Modeling the multivalent recognition between dendritic molecules and DNA: understanding how ligand "sacrifice"and screening can enhance binding. - J. Am. Chem. Soc., 131, 9686-9694, 2009.
27. Szalai M.L., Kevwitch R.M., McGrath D.V.J. - Geometric disassembly of dendrimers: dendritic amplification. - J. Am. Chem. Soc., 125, 15688-15689, 2003. (Pubitemid 37553655)
28. Sagi A., Weinstain R., Karton N., Shabat D. - Self-immolative polymers. - J. Am. Chem. Soc., 130, 5434-5435, 2008.
29. Doni G., Kostiainen M.A., Danani A., Pavan G.M. - Generation-dependent molecular recognition controls self-assembly in supramolecular dendron-virus complexes. - Nano Lett., 11, 723-728, 2011.
30. Kostiainen M.A., Kotimaa J., Laukkanen Ml., Pavan G.M., - Optically degradable dendrons for temporary adhesion of proteins to DNA. - Chem. Eur. J., 16, 6912-6918, 2010.
31. Mao, B. - Molecular-dynamics investigation of molecular flexibility in ligand binding. - Biochem. J., 288, 109-116, 1992.
32. Filipe L.C., Machuqueiro M., Baptista A.M. - Unfolding the conformational behavior of peptide dendrimers:insights from molecular dynamics simulations. - J. Am. Chem. Soc., 133, 5042-5052, 2011.
33. Pavan G.M., Posocco P., Tagliabue A., Maly M., Malek A., Danani A., Ragg E., Catapano C.V., Pricl S. - PAMAM dendrimers for siRNA delivery:computational and experimental insights. - Chem. Eur. J., 16, 7781-7795, 2010.
34. Fant K., Esbjörner E.K., Lincoln P., Norden B. - DNA condensation by PAMAM dendrimers: self-assembly characteristics and effect on transcription. - Biochemistry, 47, 1732-1740, 2008. (Pubitemid 351231222)