Fractional initiator hybridization chain reaction
The present disclosure relates to methods and compositions involving HCR reactions that involve initiators that are split into two or more parts. Effective HCR is dependent upon two or more of these split initiators being brought into proximity (e.g., via binding events mediated by a target) such that a full initiator is formed that is capable of triggering HCR signal amplification.
1. A composition, comprising:
a first hairpin monomer;
a second hairpin monomer;
a first fractional initiator probe comprising a first fractional initiator comprising a sequence capable of binding to the first or second hairpin monomer; and
a second fractional initiator probe comprising a second fractional initiator comprising a sequence capable of binding to the first or second hairpin monomer adjacent to the region where the first fractional initiator binds.
2. A composition, comprising:
a first hairpin monomer, comprising:
a first input domain, comprising a first toehold and a first stem section,
a first output domain, comprising a first hairpin loop and a complement to the first stem section, and
a first reporter molecule;
a second hairpin monomer, comprising:
a second input domain, comprising a second toehold and a second stem section,
a second output domain, comprising a second hairpin loop and a complement to the second stem section,
a second reporter molecule;
a first fractional initiator probe comprising a first fractional initiator comprising a sequence capable of binding to the first or second hairpin monomer; and
a second fractional initiator probe comprising a second fractional initiator comprising a sequence capable of binding to the first or second hairpin monomer adjacent to the region where the first fractional initiator binds.
3. The composition of claim 2 , wherein the first stem section can have a same sequence as the second stem section.
4. The composition of claim 2 , wherein the complement to the first stem section can have a same sequence as the complement to the second stem section.
5. The composition of claim 4 , wherein the first stem section can have a same sequence as the second stem section.
6. The composition of claim 2 , wherein the first toehold is complementary to the second hairpin loop.
7. The composition of claim 2 , wherein the second toehold is complementary to the first hairpin loop.
8. The composition of claim 2 , further comprising a target molecule comprising a first target section and a second target section.
9. The composition of claim 8 , wherein the first fractional initiator probe further comprises a first target binding section and the second fractional initiator probe further comprises a second target binding section, wherein the first target binding section is configured to bind to the first target section and the second target binding section is configured to bind to the second target section.