[{"publication_status":"published","date_updated":"2026-05-02T10:20:35Z","title":"Global Quantitative Analysis of Ligation Reactions in Self‐Assembled DNA Nanostructures at the Single‐Nick Level","year":"2026","status":"public","author":[{"first_name":"Konrad","last_name":"Hacker","full_name":"Hacker, Konrad"},{"last_name":"Juricke","first_name":"Emilia","full_name":"Juricke, Emilia","id":"68157"},{"first_name":"Carolin","last_name":"Münch","full_name":"Münch, Carolin"},{"full_name":"Suma, Antonio","first_name":"Antonio","last_name":"Suma"},{"id":"48864","last_name":"Keller","orcid":"0000-0001-7139-3110","first_name":"Adrian Clemens","full_name":"Keller, Adrian Clemens"},{"full_name":"Zhang, Yixin","first_name":"Yixin","last_name":"Zhang"}],"publication_identifier":{"issn":["1613-6810","1613-6829"]},"user_id":"48864","doi":"10.1002/smll.202508136","article_number":"e08136","language":[{"iso":"eng"}],"_id":"65545","publisher":"Wiley","abstract":[{"text":"<jats:title>ABSTRACT</jats:title>\r\n                  <jats:p>Ligation of staple strands in DNA origami nanostructures (DONs) can yield enhanced structural stability in critical environments. This process can be viewed as performing hundreds of parallel reactions programmed on a self‐assembled nanoscale platform. While previous studies have focused on investigating the collective results of the chemical or enzymatic ligation reactions, herein, the global quantitative analysis of individual ligation reactions is achieved using quantitative PCR (qPCR). By mapping enzymatic ligation efficiency on a trapezoidal substructure representing one‐third of a triangular DON, ligation is shown to preferentially occur at the trapezoid edges rather than at inner sites. Excellent agreement between the experimental ligation yields and docking simulations suggests that this is a result of variations in the ligase docking probability. Ligation products involving more than two consecutive sequences can be generated with each enzyme‐catalyzed reaction as an independent event. Interestingly, the sharp contrast between the edges vs. the inner sites has been abolished by changing the reaction conditions and performing the ligation in a DMSO co‐solvent system. This analytic method provides unprecedented insight into the multiple ligation reactions occurring in parallel within complex DONs and will be an invaluable tool in the translation of DONs from the lab to real‐world applications.</jats:p>","lang":"eng"}],"publication":"Small","citation":{"mla":"Hacker, Konrad, et al. “Global Quantitative Analysis of Ligation Reactions in Self‐Assembled DNA Nanostructures at the Single‐Nick Level.” <i>Small</i>, e08136, Wiley, 2026, doi:<a href=\"https://doi.org/10.1002/smll.202508136\">10.1002/smll.202508136</a>.","bibtex":"@article{Hacker_Juricke_Münch_Suma_Keller_Zhang_2026, title={Global Quantitative Analysis of Ligation Reactions in Self‐Assembled DNA Nanostructures at the Single‐Nick Level}, DOI={<a href=\"https://doi.org/10.1002/smll.202508136\">10.1002/smll.202508136</a>}, number={e08136}, journal={Small}, publisher={Wiley}, author={Hacker, Konrad and Juricke, Emilia and Münch, Carolin and Suma, Antonio and Keller, Adrian Clemens and Zhang, Yixin}, year={2026} }","ama":"Hacker K, Juricke E, Münch C, Suma A, Keller AC, Zhang Y. Global Quantitative Analysis of Ligation Reactions in Self‐Assembled DNA Nanostructures at the Single‐Nick Level. <i>Small</i>. Published online 2026. doi:<a href=\"https://doi.org/10.1002/smll.202508136\">10.1002/smll.202508136</a>","ieee":"K. Hacker, E. Juricke, C. Münch, A. Suma, A. C. Keller, and Y. Zhang, “Global Quantitative Analysis of Ligation Reactions in Self‐Assembled DNA Nanostructures at the Single‐Nick Level,” <i>Small</i>, Art. no. e08136, 2026, doi: <a href=\"https://doi.org/10.1002/smll.202508136\">10.1002/smll.202508136</a>.","apa":"Hacker, K., Juricke, E., Münch, C., Suma, A., Keller, A. C., &#38; Zhang, Y. (2026). Global Quantitative Analysis of Ligation Reactions in Self‐Assembled DNA Nanostructures at the Single‐Nick Level. <i>Small</i>, Article e08136. <a href=\"https://doi.org/10.1002/smll.202508136\">https://doi.org/10.1002/smll.202508136</a>","chicago":"Hacker, Konrad, Emilia Juricke, Carolin Münch, Antonio Suma, Adrian Clemens Keller, and Yixin Zhang. “Global Quantitative Analysis of Ligation Reactions in Self‐Assembled DNA Nanostructures at the Single‐Nick Level.” <i>Small</i>, 2026. <a href=\"https://doi.org/10.1002/smll.202508136\">https://doi.org/10.1002/smll.202508136</a>.","short":"K. Hacker, E. Juricke, C. Münch, A. Suma, A.C. Keller, Y. Zhang, Small (2026)."},"type":"journal_article","department":[{"_id":"302"}],"date_created":"2026-05-02T10:20:10Z"},{"language":[{"iso":"eng"}],"_id":"60507","publisher":"Royal Society of Chemistry (RSC)","doi":"10.1039/d5nr01435b","user_id":"48864","year":"2025","status":"public","title":"Cost-efficient folding of functionalized DNA origami nanostructures via staple recycling","publication_identifier":{"issn":["2040-3364","2040-3372"]},"author":[{"id":"68157","full_name":"Tomm, Emilia","last_name":"Tomm","first_name":"Emilia"},{"id":"194","last_name":"Grundmeier","first_name":"Guido","full_name":"Grundmeier, Guido"},{"id":"48864","first_name":"Adrian","orcid":"0000-0001-7139-3110","last_name":"Keller","full_name":"Keller, Adrian"}],"date_updated":"2025-07-03T11:27:19Z","publication_status":"published","date_created":"2025-07-03T11:26:30Z","type":"journal_article","department":[{"_id":"302"}],"publication":"Nanoscale","citation":{"mla":"Tomm, Emilia, et al. “Cost-Efficient Folding of Functionalized DNA Origami Nanostructures via Staple Recycling.” <i>Nanoscale</i>, Royal Society of Chemistry (RSC), 2025, doi:<a href=\"https://doi.org/10.1039/d5nr01435b\">10.1039/d5nr01435b</a>.","bibtex":"@article{Tomm_Grundmeier_Keller_2025, title={Cost-efficient folding of functionalized DNA origami nanostructures via staple recycling}, DOI={<a href=\"https://doi.org/10.1039/d5nr01435b\">10.1039/d5nr01435b</a>}, journal={Nanoscale}, publisher={Royal Society of Chemistry (RSC)}, author={Tomm, Emilia and Grundmeier, Guido and Keller, Adrian}, year={2025} }","ama":"Tomm E, Grundmeier G, Keller A. Cost-efficient folding of functionalized DNA origami nanostructures via staple recycling. <i>Nanoscale</i>. Published online 2025. doi:<a href=\"https://doi.org/10.1039/d5nr01435b\">10.1039/d5nr01435b</a>","ieee":"E. Tomm, G. Grundmeier, and A. Keller, “Cost-efficient folding of functionalized DNA origami nanostructures via staple recycling,” <i>Nanoscale</i>, 2025, doi: <a href=\"https://doi.org/10.1039/d5nr01435b\">10.1039/d5nr01435b</a>.","apa":"Tomm, E., Grundmeier, G., &#38; Keller, A. (2025). Cost-efficient folding of functionalized DNA origami nanostructures via staple recycling. <i>Nanoscale</i>. <a href=\"https://doi.org/10.1039/d5nr01435b\">https://doi.org/10.1039/d5nr01435b</a>","chicago":"Tomm, Emilia, Guido Grundmeier, and Adrian Keller. “Cost-Efficient Folding of Functionalized DNA Origami Nanostructures via Staple Recycling.” <i>Nanoscale</i>, 2025. <a href=\"https://doi.org/10.1039/d5nr01435b\">https://doi.org/10.1039/d5nr01435b</a>.","short":"E. Tomm, G. Grundmeier, A. Keller, Nanoscale (2025)."},"abstract":[{"lang":"eng","text":"<jats:p>DNA origami nanostructures are powerful molecular tools for the controlled arrangement of functional molecules and thus have important applications in biomedicine, sensing, and materials science. The fabrication of DNA origami...</jats:p>"}]},{"status":"public","user_id":"48864","volume":15,"page":"24536-24543","_id":"60606","publisher":"Royal Society of Chemistry (RSC)","citation":{"mla":"Rabbe, Lukas, et al. “Toward High-Density Streptavidin Arrays on DNA Origami Nanostructures.” <i>RSC Advances</i>, vol. 15, no. 30, Royal Society of Chemistry (RSC), 2025, pp. 24536–43, doi:<a href=\"https://doi.org/10.1039/d5ra03393d\">10.1039/d5ra03393d</a>.","apa":"Rabbe, L., Tomm, E., Grundmeier, G., &#38; Keller, A. (2025). Toward high-density streptavidin arrays on DNA origami nanostructures. <i>RSC Advances</i>, <i>15</i>(30), 24536–24543. <a href=\"https://doi.org/10.1039/d5ra03393d\">https://doi.org/10.1039/d5ra03393d</a>","ieee":"L. Rabbe, E. Tomm, G. Grundmeier, and A. Keller, “Toward high-density streptavidin arrays on DNA origami nanostructures,” <i>RSC Advances</i>, vol. 15, no. 30, pp. 24536–24543, 2025, doi: <a href=\"https://doi.org/10.1039/d5ra03393d\">10.1039/d5ra03393d</a>.","ama":"Rabbe L, Tomm E, Grundmeier G, Keller A. Toward high-density streptavidin arrays on DNA origami nanostructures. <i>RSC Advances</i>. 2025;15(30):24536-24543. doi:<a href=\"https://doi.org/10.1039/d5ra03393d\">10.1039/d5ra03393d</a>","short":"L. Rabbe, E. Tomm, G. Grundmeier, A. Keller, RSC Advances 15 (2025) 24536–24543.","chicago":"Rabbe, Lukas, Emilia Tomm, Guido Grundmeier, and Adrian Keller. “Toward High-Density Streptavidin Arrays on DNA Origami Nanostructures.” <i>RSC Advances</i> 15, no. 30 (2025): 24536–43. <a href=\"https://doi.org/10.1039/d5ra03393d\">https://doi.org/10.1039/d5ra03393d</a>.","bibtex":"@article{Rabbe_Tomm_Grundmeier_Keller_2025, title={Toward high-density streptavidin arrays on DNA origami nanostructures}, volume={15}, DOI={<a href=\"https://doi.org/10.1039/d5ra03393d\">10.1039/d5ra03393d</a>}, number={30}, journal={RSC Advances}, publisher={Royal Society of Chemistry (RSC)}, author={Rabbe, Lukas and Tomm, Emilia and Grundmeier, Guido and Keller, Adrian}, year={2025}, pages={24536–24543} }"},"date_updated":"2025-07-15T06:07:16Z","publication_status":"published","intvolume":"        15","year":"2025","title":"Toward high-density streptavidin arrays on DNA origami nanostructures","publication_identifier":{"issn":["2046-2069"]},"author":[{"last_name":"Rabbe","first_name":"Lukas","full_name":"Rabbe, Lukas"},{"first_name":"Emilia","last_name":"Tomm","full_name":"Tomm, Emilia","id":"68157"},{"first_name":"Guido","last_name":"Grundmeier","full_name":"Grundmeier, Guido","id":"194"},{"id":"48864","last_name":"Keller","orcid":"0000-0001-7139-3110","first_name":"Adrian","full_name":"Keller, Adrian"}],"doi":"10.1039/d5ra03393d","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"<jats:p>Streptavidin binding to DNA origami-supported high-density biotin arrays is investigated for selected experimental parameters. While bidentate binding and steric hindrance can be minimized, molecular crowding limits the binding yields in 2D arrays.</jats:p>"}],"publication":"RSC Advances","issue":"30","type":"journal_article","department":[{"_id":"302"}],"date_created":"2025-07-15T06:06:48Z"},{"date_updated":"2024-04-23T08:21:05Z","publication_status":"published","author":[{"last_name":"Dornbusch","first_name":"Daniel","full_name":"Dornbusch, Daniel"},{"full_name":"Hanke, Marcel","first_name":"Marcel","last_name":"Hanke"},{"id":"68157","full_name":"Tomm, Emilia","first_name":"Emilia","last_name":"Tomm"},{"full_name":"Kielar, Charlotte","first_name":"Charlotte","last_name":"Kielar"},{"id":"194","full_name":"Grundmeier, Guido","last_name":"Grundmeier","first_name":"Guido"},{"orcid":"0000-0001-7139-3110","last_name":"Keller","first_name":"Adrian","full_name":"Keller, Adrian","id":"48864"},{"first_name":"Karim","last_name":"Fahmy","full_name":"Fahmy, Karim"}],"publication_identifier":{"issn":["1359-7345","1364-548X"]},"title":"Cold denaturation of DNA origami nanostructures","year":"2024","status":"public","doi":"10.1039/d3cc05985e","user_id":"48864","_id":"53621","language":[{"iso":"eng"}],"publisher":"Royal Society of Chemistry (RSC)","abstract":[{"lang":"eng","text":"<jats:p>The coupling of structural transitions to heat capacity changes leads to destabilization of macromolecules at both, elevated and lowered temperatures. DNA origami not only exhibit this property but also provide...</jats:p>"}],"citation":{"ama":"Dornbusch D, Hanke M, Tomm E, et al. Cold denaturation of DNA origami nanostructures. <i>Chemical Communications</i>. Published online 2024. doi:<a href=\"https://doi.org/10.1039/d3cc05985e\">10.1039/d3cc05985e</a>","bibtex":"@article{Dornbusch_Hanke_Tomm_Kielar_Grundmeier_Keller_Fahmy_2024, title={Cold denaturation of DNA origami nanostructures}, DOI={<a href=\"https://doi.org/10.1039/d3cc05985e\">10.1039/d3cc05985e</a>}, journal={Chemical Communications}, publisher={Royal Society of Chemistry (RSC)}, author={Dornbusch, Daniel and Hanke, Marcel and Tomm, Emilia and Kielar, Charlotte and Grundmeier, Guido and Keller, Adrian and Fahmy, Karim}, year={2024} }","mla":"Dornbusch, Daniel, et al. “Cold Denaturation of DNA Origami Nanostructures.” <i>Chemical Communications</i>, Royal Society of Chemistry (RSC), 2024, doi:<a href=\"https://doi.org/10.1039/d3cc05985e\">10.1039/d3cc05985e</a>.","chicago":"Dornbusch, Daniel, Marcel Hanke, Emilia Tomm, Charlotte Kielar, Guido Grundmeier, Adrian Keller, and Karim Fahmy. “Cold Denaturation of DNA Origami Nanostructures.” <i>Chemical Communications</i>, 2024. <a href=\"https://doi.org/10.1039/d3cc05985e\">https://doi.org/10.1039/d3cc05985e</a>.","short":"D. Dornbusch, M. Hanke, E. Tomm, C. Kielar, G. Grundmeier, A. Keller, K. Fahmy, Chemical Communications (2024).","apa":"Dornbusch, D., Hanke, M., Tomm, E., Kielar, C., Grundmeier, G., Keller, A., &#38; Fahmy, K. (2024). Cold denaturation of DNA origami nanostructures. <i>Chemical Communications</i>. <a href=\"https://doi.org/10.1039/d3cc05985e\">https://doi.org/10.1039/d3cc05985e</a>","ieee":"D. Dornbusch <i>et al.</i>, “Cold denaturation of DNA origami nanostructures,” <i>Chemical Communications</i>, 2024, doi: <a href=\"https://doi.org/10.1039/d3cc05985e\">10.1039/d3cc05985e</a>."},"publication":"Chemical Communications","department":[{"_id":"302"}],"type":"journal_article","keyword":["Materials Chemistry","Metals and Alloys","Surfaces","Coatings and Films","General Chemistry","Ceramics and Composites","Electronic","Optical and Magnetic Materials","Catalysis"],"date_created":"2024-04-23T08:20:05Z"}]