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Research data in support of "A synthetic signalling network imitating the action of immune cells in response to bacterial metabolism"


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Authors

Walczak, Michal 
Mancini, Leonardo 
Jiayi, Xu 
Raguseo, Federica 
Kotar, Jurij 

Description

This repository contains raw data in support of the publication 10.1002/adma.202301562. Please refer to the published paper, available open access, for full information and context.

Figure 2 data

  • Panel b: Confocal image of core-shell particle
  • Panel d: Absorbance data to probe pH responsiveness of the DNA constructs
  • Panel c: CD data to probe pH responsiveness of the DNA constructs
  • Panel g: Representative epifluorescence and bright field images and bright field videos to demonstrate pH-induced particle aggregation

Figure 3 data

  • Panel b: pH and OD data vs E. coli growth time in various glucose concentrations
  • Panels d, e; Representative epifluorescence images and bright field videos to demonstrate E. coli induced particle aggregation and bacteria trapping
  • Panel f: OD data vs E. coli growth time

Figure 4 data

  • Panel b: OD data vs E. coli growth time showing effect of netosis-like synthetic pathway
  • Panel e: Representative bright field and epifluorescence images showing effect of netosis-like synthetic pathway

Supplementary Figure 1: Agarose gel demonstrating DNA construct assembly

Supplementary Figure 2: DLS data showing pH responsiveness of DNA nanostructures

Supplementary Figure 3: UV melting curve data for DNA constructs

Supplementary Figure 4: DLS data underpinning pH response curve

Supplementary Figure 5: Representative data provided in Figure 2, Panel g folder

Supplementary Figure 6: Representative microscopy videos used to generate hydrodynamic radius data with DDM

Supplementary Figure 7: OD data vs E. coli growth time at various glucose concentrations

Supplementary Figure 8: FITC dextran fluorescence intensity data (used to determine pH) vs E. coli growth time at various glucose concentrations

Supplementary Figure 9: Calibration data (FITC dextran fluorescence vs pH) used in Figure 3f and Supplementary Figures 8 and 12

Supplementary Figure 10: FITC dextran fluorescence intensity data (used to determine pH in Figure 3f) vs E. coli growth time at various glucose concentrations

Supplementary Figure 11: Representative data provided in Figure 3, Panel d, e folder

Supplementary Figure 12: FITC dextran fluorescence intensity data (used to determine pH) vs E. coli growth time Supplementary Figure 13: Calibration data (Fluorescein dT fluorescence vs pH) for fluorescent pH probe linked to DNA particles

Supplementary Figure 14: Fluorescent data for pH-induced de-quenching on DNA particles

Supplementary Figure 15: OD vs E. coli growth time at various antibiotic concentrations

Supplementary Figure 16: Representative data provided in Figure 4, Panel c, folder

Version

Software / Usage instructions

TIFF and PNG files can be opened and analysed using most of the available image visualisation / analysis software programs (examples include ImageJ and Matlab). XLSX files can be directly opened with Microsoft Excel or imported into any text data analysis software program (for example, Matlab or Jupyter Notebook). TXT files including detailed description of the data can be opened using Notepad. Some videos are further compressed as RAR files. These can be extracted with several tools (WinRAR, WinZIP, The Unarchiver...)

Keywords

Antimicrobials, Bacteria, DNA nanotechnology, Synthetic cells, Synthetic cellular consortia

Publisher

Sponsorship
Royal Society (RF\ERE\210029)
Royal Society (UF160152)
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