Technical University of Denmark
Browse

Supporting data for "Genetic memory devices to detect specialized metabolites in plant and soil microbiomes"

dataset
posted on 2025-01-29, 13:08 authored by Morten Lindqvist HansenMorten Lindqvist Hansen, Kristoffer Ioannis Tang Kordatos, Jens-Jakob Nørgaard, Johan Bredal Jørgensen, Mikael Lenz StrubeMikael Lenz Strube, Morten Dencker SchostagMorten Dencker Schostag, Lei YangLei Yang, Lars JelsbakLars Jelsbak

In this study, we developed a catalogue of five orthogonal biosensors using genetic memory as output to allow for non-disruptive in situ spatiotemporal detection of biologically relevant specialized metabolites found in soil and rhizosphere environments. The biosensors were tuned and optimized in E. coli and shown to respond to nano- to micromolar concentrations of the five metabolites: DAPG, pyoluteorin, tetracycline, salicylic acid, and naringenin. The sensory and reporter units of four of the biosensors, except the naringenin sensor, were chromosomally integrated into the root-colonizing P. putida KT2440 Δall-Φ to enable long duration in situ experiments without requiring antibiotic selection. Lastly, we demonstrated that the four sensors, after a final optimization step, functioned in a non-sterile soil extract medium containing the diverse microbiome found in soil.

The repository contains the following folders and files:

ReadMe.txt

Plasmid_maps

SESOM_species_table.xlsx

SOIL_species_table.xlsx


Explanation:

The "ReadMe.txt" file can be downloaded along the folder and .xlsx files for description of the study and explanation of the files.

The directory "Plasmid_maps" contains plasmid maps of cloned plasmids used in the present study in .gb format.

The two .xlsx files contain data of four biological replicates describing the relative species abundance in SESOM and Soil used to construct Figure 3.C.


Funding

Villum Foundation (40964)

Danish National Research Foundation (DNRF137)

Novo Nordisk Foundation (NNF19OC0055625)

History

ORCID for corresponding depositor

Usage metrics

    DTU Bioengineering

    Licence

    Exports

    RefWorks
    BibTeX
    Ref. manager
    Endnote
    DataCite
    NLM
    DC