Hydrogels with Tethered Transcription Circuit Elements for Chemical Communication and Collective Computation
Source abstract
Abstract
Tissues, robots, and other distributed systems must communicate to make decisions about information originating from different physical locations and then orchestrate the responses. In tissues, for example, cell-cell communication is essential for morphogenesis, immune response, and wound healing. However, devising methods for programming distributed communication in synthetic materials to program behaviors such as multiscale pattern formation, motion, and self-assembly remains a challenge. Here, we devise a design principle for reliable distributed chemical computation and communication and then construct a library of transcription circuit elements, termed tethered genelets (TGs), that implement this design principle within networks of 50 μm hydrogel nodes (HNs). TGs exhibit digital behavior in the form of a "distance-response curve"─they switch off in response to signals emanating from HNs within a specific distance, but are unaffected by faraway signals. In experiments, we verify that TGs send and receive signals as designed and validate the function and modularity of a library of 15 TG circuit elements. The principle of "digital distance-response" and the library of circuit elements we construct together will allow a diverse range of distributed chemical behaviors, communication, and dynamics to be programmed into materials such as soft robots and responsive surfaces.
Source: openalex_inverted_index · Quality: baseline
Research context
OpenAlex topics: Modular Robots and Swarm Intelligence · Micro and Nano Robotics · Advanced biosensing and bioanalysis techniques
SciVX discovery tags are terminology-based. OpenAlex topics are source-provided classifications.
Affiliations
Department of Chemical and Biomolecular Engineering
Johns Hopkins University
Department of Physics and Astronomy
Department of Bioengineering
University of Maryland
Department of Computer Science
Department of Chemistry
Funding
Division of Computing and Communication Foundations · Division of Emerging Frontiers and Multidisciplinary Activities · Army Research Office · Basic Energy Sciences
References (100+)
Show source-provided references
1. 10.1002/aisy.20190016610.1002/aisy.201900166 ↗
2. 10.1038/nature1454310.1038/nature14543 ↗
3. 10.1002/aisy.20210016510.1002/aisy.202100165 ↗
4. 10.1007/s00114-012-0988-z10.1007/s00114-012-0988-z ↗
5. 10.1007/s00018-010-0479-310.1007/s00018-010-0479-3 ↗
6. 10.1038/s41576-020-00292-x10.1038/s41576-020-00292-x ↗
7. 10.1016/S0092-8674(00)81282-910.1016/S0092-8674(00)81282-9 ↗
8. 10.1016/j.biotechadv.2017.12.00210.1016/j.biotechadv.2017.12.002 ↗
9. 10.1159/00036297810.1159/000362978 ↗
10. 10.2741/A27510.2741/A275 ↗
11. Nguyen L. L. · 2001 · 204 · 1
12. 10.1016/S0925-4773(02)00331-310.1016/S0925-4773(02)00331-3 ↗
13. 10.1126/science.640398610.1126/science.6403986 ↗
14. 10.1146/annurev.micro.55.1.16510.1146/annurev.micro.55.1.165 ↗
15. 10.1146/annurev.cellbio.21.012704.13100110.1146/annurev.cellbio.21.012704.131001 ↗
16. 10.1146/annurev-genet-102108-13430410.1146/annurev-genet-102108-134304 ↗
17. 10.1002/wnan.168510.1002/wnan.1685 ↗
18. 10.1038/nchem.264410.1038/nchem.2644 ↗
19. 10.1021/acscentsci.6b0033010.1021/acscentsci.6b00330 ↗
20. 10.1021/acssynbio.7b0030610.1021/acssynbio.7b00306 ↗
21. 10.1002/chem.20190172610.1002/chem.201901726 ↗
22. 10.1038/s41570-024-00606-110.1038/s41570-024-00606-1 ↗
23. 10.1038/nature0346110.1038/nature03461 ↗
24. 10.1186/s40643-014-0024-610.1186/s40643-014-0024-6 ↗
25. 10.1038/s41565-019-0399-910.1038/s41565-019-0399-9 ↗
26. 10.3390/act1103009210.3390/act11030092 ↗
27. 10.3390/act901000310.3390/act9010003 ↗
28. 10.1016/j.cub.2013.04.07010.1016/j.cub.2013.04.070 ↗
29. 10.1038/s41467-018-06218-w10.1038/s41467-018-06218-w ↗
30. 10.1038/2161910.1038/21619 ↗
31. 10.1016/j.cell.2021.03.00710.1016/j.cell.2021.03.007 ↗
32. 10.1021/acssensors.9b0245910.1021/acssensors.9b02459 ↗
33. 10.1126/science.aat506210.1126/science.aat5062 ↗
34. 10.1021/acs.accounts.6b0054210.1021/acs.accounts.6b00542 ↗
35. 10.1038/s41467-019-12697-210.1038/s41467-019-12697-2 ↗
36. 10.1056/NEJM19950105332010810.1056/NEJM199501053320108 ↗
37. 10.3892/wasj.2020.3210.3892/wasj.2020.32 ↗
38. 10.1101/gad.83100010.1101/gad.831000 ↗
39. 10.1038/nature1977610.1038/nature19776 ↗
40. 10.1039/c0cs00035c10.1039/c0cs00035c ↗
41. 10.1021/cr020452p10.1021/cr020452p ↗
42. 10.1073/pnas.040267410110.1073/pnas.0402674101 ↗
43. 10.1021/ja046745c10.1021/ja046745c ↗
44. 10.1126/science.113249310.1126/science.1132493 ↗
45. 10.1021/ja071014910.1021/ja0710149 ↗
46. 10.1098/rsif.2010.072910.1098/rsif.2010.0729 ↗
47. 10.1038/s41586-018-0289-610.1038/s41586-018-0289-6 ↗
48. 10.1021/acssynbio.8b0050310.1021/acssynbio.8b00503 ↗
49. 10.1098/rsif.2013.021210.1098/rsif.2013.0212 ↗
50. 10.1146/annurev-bioeng-060418-05235710.1146/annurev-bioeng-060418-052357 ↗
51. 10.1038/nchem.176410.1038/nchem.1764 ↗
52. 10.1021/acs.chemrev.8b0058010.1021/acs.chemrev.8b00580 ↗
53. 10.1038/s41589-021-00962-910.1038/s41589-021-00962-9 ↗
54. 10.1073/pnas.131116611010.1073/pnas.1311166110 ↗
55. 10.1038/msb.2010.11910.1038/msb.2010.119 ↗
56. 10.1073/pnas.110006010810.1073/pnas.1100060108 ↗
57. 10.1038/s41557-019-0292-z10.1038/s41557-019-0292-z ↗
58. 10.1038/ncomms1347410.1038/ncomms13474 ↗
59. 10.1038/s41557-022-01001-310.1038/s41557-022-01001-3 ↗
60. 10.1002/smll.20160024310.1002/smll.201600243 ↗
61. 10.1016/j.tibtech.2012.03.00610.1016/j.tibtech.2012.03.006 ↗
62. 10.1038/s41467-020-19098-w10.1038/s41467-020-19098-w ↗
63. 10.1038/s41467-020-14739-610.1038/s41467-020-14739-6 ↗
64. 10.1038/nnano.2016.29910.1038/nnano.2016.299 ↗
65. 10.1098/rsos.22020010.1098/rsos.220200 ↗
66. Gines, G.; Genot, A. J.; Rondelez, Y. Visions of DNA Nanotechnology at 40 for the Next 40: A Tribute to Nadrian C. Seeman ; Springer, 2023; pp 349–369.10.1007/978-981-19-9891-1_19 ↗
67. 10.1126/science.113577410.1126/science.1135774 ↗
68. 10.4161/trns.1973410.4161/trns.19734 ↗
69. 10.1021/acssynbio.8b0017210.1021/acssynbio.8b00172 ↗
70. 10.1016/j.dnarep.2019.10267210.1016/j.dnarep.2019.102672 ↗
71. 10.1021/cr960427h10.1021/cr960427h ↗
72. 10.1073/pnas.95.2.51510.1073/pnas.95.2.515 ↗
73. 10.1002/0471142727.mb1602s1110.1002/0471142727.mb1602s11 ↗
74. 10.1021/ja906987s10.1021/ja906987s ↗
75. Wang, W. A Digital Maskless Photolithographic Patterning Method for DNA Based UV Photocleavable PEGDA Hydrogels with A Camphorquinone-Triethanolamine Photoinitiator, Ph.D. Thesis; Johns Hopkins University: Baltimore, MD, 2019.
76. 10.1002/prot.34005040310.1002/prot.340050403 ↗
77. 10.1111/j.1742-4658.2009.06908.x10.1111/j.1742-4658.2009.06908.x ↗
78. 10.1021/ar500108210.1021/ar5001082 ↗
79. 10.1126/science.aan392510.1126/science.aan3925 ↗
80. 10.1038/am.2014.13110.1038/am.2014.131 ↗
81. 10.1016/j.bbamem.2012.07.00210.1016/j.bbamem.2012.07.002 ↗
82. 10.1002/bies.20140012210.1002/bies.201400122 ↗
83. 10.1101/gad.181370910.1101/gad.1813709 ↗
84. Alon U. · 201910.1201/9780429283321 ↗
85. Agarwal A. · 2005
86. 10.1126/science.120052010.1126/science.1200520 ↗
87. COMSOL Multiphysics. Introduction to COMSOL multiphysics COMSOL Multiphysics, Burlington, MA 1998; Vol. 9, p 32.
88. 10.1002/ange.20200975610.1002/ange.202009756 ↗
89. Dorsey, P. J.; Scalise, D.; Schulman, R. Enabling spatiotemporal regulation within biomaterials using DNA reaction-diffusion waveguides bioRxiv 2022 10.1101/2022.02.26.482105 (accessed July 2, 2025).10.1101/2022.02.26.482105 ↗
90. 10.1021/acssynbio.8b0049310.1021/acssynbio.8b00493 ↗
91. 10.1016/j.molcel.2009.11.01810.1016/j.molcel.2009.11.018 ↗
92. 10.1073/pnas.213384110010.1073/pnas.2133841100 ↗
93. 10.7554/eLife.0977110.7554/eLife.09771 ↗
94. 10.1093/nar/gkaa55710.1093/nar/gkaa557 ↗
95. Rubanov, M.; Cole, J.; Lee, H.J.; Schulman, R. MAPDH Patterning Protocol PLOS ONE Lab Protocols 2023.10.17504/protocols.io.j8nlkw2ywl5r/v1 ↗
96. 10.1093/embo-reports/kvd00110.1093/embo-reports/kvd001 ↗
97. 10.1002/jcc.2163310.1002/jcc.21633 ↗
98. Fornace, M. E.; Huang, J.; Newman, C. T.; Porubsky, N. J.; Pierce, M. B.; Pierce, N. A. NUPACK: analysis and design of nucleic acid structures, devices, and systems ChemRxiv 2022 10.26434/chemrxiv-2022-xv98l. (accessed July 3, 2025).10.26434/chemrxiv-2022-xv98l ↗
99. 10.1002/jcc.2159610.1002/jcc.21596 ↗
100. 10.1038/nature1910010.1038/nature19100 ↗