Conspectus
Bioluminescence is widely used for real-time
imaging in living
organisms. This technology features a light-emitting reaction between
enzymes (luciferases) and small molecule substrates (luciferins).
Photons produced from luciferase–luciferin reactions can penetrate
through heterogeneous tissue, enabling readouts of physiological processes.
Dozens of bioluminescent probes are now available and many are routinely
used to monitor cell proliferation, migration, and gene expression
patterns in vivo.
Despite the ubiquity of bioluminescence,
traditional applications
have been largely limited to imaging one biological feature at a time.
Only a handful of luciferase–luciferin pairs can be easily
used in tandem, and most are poorly resolved in living animals. Efforts
to develop spectrally distinct reporters have been successful, but
multispectral imaging in large organisms remains a formidable challenge
due to interference from surrounding tissue. Consequently, a lack
of well-resolved probes has precluded multicomponent tracking. An
expanded collection of bioluminescent probes would provide insight
into processes where multiple cell types drive physiological tasks,
including immune function and organ development.
We aimed to
expand the bioluminescent toolkit by developing substrate-resolved imaging agents. The goal was to generate
multiple orthogonal (i.e., noncross-reactive) luciferases that are
responsive to unique scaffolds and could be used concurrently in living
animals. We adopted a parallel engineering approach to genetically
modify luciferases to accept chemically modified luciferins. When
the mutants and analogs are combined, light is produced only when
complementary enzyme–substrate partners interact. Thus, the
pairs can be distinguished based on substrate selectivity, regardless
of the color of light emitted. Sequential administration of the luciferins
enables the unique luciferases to be illuminated (and thus resolved)
within complex environments, including whole organisms.
This
Account describes our efforts to develop orthogonal bioluminescent
probes, crafting custom luciferases (or “biological flashlights”)
that can selectively process luciferin analogs (or “batteries”)
to produce light. In the first section, we describe synthetic methods
that were key to accessing diverse luciferin architectures. The second
section focuses on identifying complementary luciferase enzymes via
a combination of mutagenesis and screening. To expedite the search
for orthogonal enzymes and substrates, we developed a computational
algorithm to sift through large data sets. The third section features
examples of the parallel engineering approach. We identified orthogonal
enzyme–substrate pairs comprising two different classes of
luciferins. The probes were vetted both in cells and whole organisms.
This expanded collection of imaging agents is applicable to studies
of immune function and other multicomponent processes. The final section
of the Account highlights ongoing work toward building better bioluminescent
tools. As e...