A new method of utilizing
decoy molecules instead of genetic engineering, which is often restricted, can
degrade persistent pollutants without alteration of the degrading agent
(genetic modification). Researchers at Nagoya University in Japan developed the
technique, which can be effective for degrading stable aromatic compounds such
as dioxin and benzene, both very dangerous to health and the ecosystem. The
researchers utilized cytochrome P450, a widely distributed group of enzymes
that degrade and convert substances in living organisms. The graphic below shows the general hydroxylation reaction.
According to Phys.org:
“Cytochrome P450BM3, derived from the soil bacterium
Priestia megaterium, naturally hydroxylates fatty acids but does not interact
with pollutants such as dioxins. This substrate selectivity arises from the
lock-and-key mechanism, which allows only molecules with a specific shape to
bind to the enzyme.”
As explained below, the
target molecules are hydroxylated, but the enzyme agents are not hydroxylated,
which means they can be reused, or rather continuously used in reactions:
“Decoy molecules bind to enzymes in a manner similar to
fatty acids; however, their shorter chain length prevents them from reaching
the active site. This configuration creates a confined reaction space that
allows molecules to enter and undergo hydroxylation. Because decoy molecules
are not themselves hydroxylated, they maintain their function and continue to
facilitate the enzymatic reaction.”
The researchers evaluated the
biochemical effects of ten different strains of soil bacteria. The decoy
molecules were found to successfully hydroxylate other toxic aromatic
compounds, including benzene, toluene, xylene (BTX), and naphthalene.
“The results showed that benzene hydroxylation occurred
only with particular strain-decoy combinations. The tested strains included P.
megaterium, which contains cytochrome P450BM3, as well as other common soil
bacteria, such as Bacillus subtilis, which possess closely related enzymes.”
It is explained below that
the method proved especially successful at degrading dioxin molecules and could
be used in the bioremediation of soils contaminated with dioxin.
“Surprisingly, in the presence of decoy molecules, B.
subtilis completely degraded dioxin model compounds within two hours at 45
degrees Celsius. Computational simulations demonstrated that cytochrome P450 in
B. subtilis has sufficient binding capacity to accommodate both a decoy
molecule and dioxin, which is a larger pollutant than benzene.”
“The findings indicate that the decoy molecule-induced
hydroxylation activity in these bacteria increases the solubility of pollutants
and facilitates their degradation. This mechanism could accelerate the removal
of soil pollutants by supporting faster and more efficient microbial
degradation.”
The results suggest that the
method could be used with many different soil bacterial strains and can be
widely utilized for different pollutants after the best combinations are found.
Shoji concluded, "Our study provides a generalizable
chemical strategy to unlock latent catalytic potential in ubiquitous
environmental microbes, establishing a new paradigm for scalable,
regulation-compatible bioremediation technologies."
The result is that these
decoy molecules can act as biocatalysts in induced biodegradation chemical
reactions with contaminants via hydroxylation.
According to the paper
published in the Journal of Materials Chemistry A:
“Future studies should evaluate the environmental
stability, bioavailability, and practical deployability of decoy molecules in
real soil matrices, as well as their environmental fate during field
applications, to determine whether this strategy can be safely implemented in
contaminated environments.”
References:
Decoy
molecules trick soil bacteria into attacking persistent pollutants without
genetic engineering. Science X staff. Phys.org. April 9, 2026. Decoy
molecules trick soil bacteria into attacking persistent pollutants without
genetic engineering
Chemical
activation of native cytochrome P450s in soil-derived bacteria by external
molecules enables biodegradation of aromatic pollutants. Fumiya Ito, Masayuki
Karasawa, and Osami Shoji. Journal of
Materials Chemistry A. Issue 21, 2026. Chemical
activation of native cytochrome P450s in soil-derived bacteria by external
molecules enables biodegradation of aromatic pollutants - Journal of Materials
Chemistry A (RSC Publishing)































