Molecular robotic agents that survey molecular landscapes for information retrieval.
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
17 Apr 2024
17 Apr 2024
Historique:
received:
23
02
2023
accepted:
14
03
2024
medline:
19
4
2024
pubmed:
18
4
2024
entrez:
17
4
2024
Statut:
epublish
Résumé
DNA-based artificial motors have allowed the recapitulation of biological functions and the creation of new features. Here, we present a molecular robotic system that surveys molecular environments and reports spatial information in an autonomous and repeated manner. A group of molecular agents, termed 'crawlers', roam around and copy information from DNA-labeled targets, generating records that reflect their trajectories. Based on a mechanism that allows random crawling, we show that our system is capable of counting the number of subunits in example molecular complexes. Our system can also detect multivalent proximities by generating concatenated records from multiple local interactions. We demonstrate this capability by distinguishing colocalization patterns of three proteins inside fixed cells under different conditions. These mechanisms for examining molecular landscapes may serve as a basis towards creating large-scale detailed molecular interaction maps inside the cell with nanoscale resolution.
Identifiants
pubmed: 38632239
doi: 10.1038/s41467-024-46978-2
pii: 10.1038/s41467-024-46978-2
pmc: PMC11024175
doi:
Substances chimiques
DNA
9007-49-2
Proteins
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
3293Subventions
Organisme : NIGMS NIH HHS
ID : DP1 GM133052
Pays : United States
Organisme : NIGMS NIH HHS
ID : R01 GM124401
Pays : United States
Informations de copyright
© 2024. The Author(s).
Références
Nat Protoc. 2021 Jul;16(7):3522-3546
pubmed: 34089021
Chembiochem. 2016 Jun 16;17(12):1138-41
pubmed: 27059426
Science. 2017 Sep 15;357(6356):
pubmed: 28912216
Science. 1994 Nov 11;266(5187):1021-4
pubmed: 7973651
Nature. 2010 May 13;465(7295):206-10
pubmed: 20463735
Mol Syst Biol. 2011 Feb 1;7:466
pubmed: 21283142
Nature. 2012 May 30;485(7400):623-6
pubmed: 22660323
Proc Natl Acad Sci U S A. 2019 Sep 24;116(39):19282-19287
pubmed: 31484777
Nat Nanotechnol. 2014 Jan;9(1):39-43
pubmed: 24317284
Nat Chem. 2018 Feb;10(2):155-164
pubmed: 29359755
Science. 2015 Mar 27;347(6229):1446-52
pubmed: 25814577
J Am Chem Soc. 2020 Jul 15;142(28):12069-12078
pubmed: 32551615
Nature. 2015 Jul 23;523(7561):441-4
pubmed: 26201596
J Comput Chem. 2004 Oct;25(13):1605-12
pubmed: 15264254
Nat Methods. 2006 Dec;3(12):995-1000
pubmed: 17072308
Methods. 2014 May 15;67(2):234-49
pubmed: 24495737
Nature. 2010 May 13;465(7295):202-5
pubmed: 20463734
Cell. 2019 Jun 27;178(1):229-241.e16
pubmed: 31230717
Nat Nanotechnol. 2017 May;12(4):351-359
pubmed: 28135261
Nat Methods. 2019 Jun;16(6):533-544
pubmed: 31110282
Nature. 2009 Sep 3;461(7260):74-7
pubmed: 19727196
Nucleic Acids Res. 2011 Aug;39(15):e102
pubmed: 21646338
Nat Biotechnol. 2019 Sep;37(9):1080-1090
pubmed: 31427819
J Cell Sci. 2014 Dec 1;127(Pt 23):4995-5005
pubmed: 25453114
Nano Lett. 2017 Sep 13;17(9):5368-5374
pubmed: 28750513
Nat Biotechnol. 2022 Mar;40(3):308-318
pubmed: 35132261
Nat Biotechnol. 2002 May;20(5):473-7
pubmed: 11981560
Cell. 2012 Apr 13;149(2):371-82
pubmed: 22500803
Nature. 1994 Aug 25;370(6491):621-8
pubmed: 8065448
Nature. 2006 Mar 16;440(7082):297-302
pubmed: 16541064
Science. 2011 Jun 3;332(6034):1196-201
pubmed: 21636773
Science. 2006 Dec 8;314(5805):1585-8
pubmed: 17158324
Nature. 1999 Jan 14;397(6715):144-6
pubmed: 9923675
Science. 2012 Feb 17;335(6070):831-4
pubmed: 22344439
Science. 2009 Apr 3;324(5923):67-71
pubmed: 19342582
Nature. 2000 Aug 10;406(6796):605-8
pubmed: 10949296
Nat Nanotechnol. 2018 Jun;13(6):496-503
pubmed: 29632399
Science. 2012 Nov 30;338(6111):1177-83
pubmed: 23197527
Phys Rev Lett. 2008 Dec 5;101(23):238101
pubmed: 19113596
Nat Commun. 2015 Jun 12;6:7294
pubmed: 26065580
Nat Nanotechnol. 2021 Jan;16(1):85-95
pubmed: 33139936
Nat Protoc. 2016 Apr;11(4):813-33
pubmed: 27010758
J Theor Biol. 1982 Nov 21;99(2):237-47
pubmed: 6188926
Nat Methods. 2021 Jan;18(1):9-14
pubmed: 33408395
Nature. 2009 May 21;459(7245):414-8
pubmed: 19458720
Nature. 1998 Aug 6;394(6693):539-44
pubmed: 9707114
Nat Commun. 2017 Sep 25;8(1):696
pubmed: 28947733
Annu Rev Biochem. 1981;50:681-714
pubmed: 6455964
J Am Chem Soc. 2004 Sep 8;126(35):10834-5
pubmed: 15339155
Nat Nanotechnol. 2010 Nov;5(11):778-82
pubmed: 20935654
Cell. 1998 Feb 6;92(3):291-4
pubmed: 9476889
Nat Commun. 2021 Mar 30;12(1):1965
pubmed: 33785750