Signal propagation biomolecules, devices and methods

摘要

This disclosure describes a structured polynucleotide, devices that include the structured polynucleotide, and methods involving the structured polynucleotide and/or devices. Generally, the structured polynucleotide includes five domains. A first domain acts as a toehold for an input DNA logic gate to initiate binding to an SCS biomolecule. A second domain acts as a substrate recognition sequence for an upstream DNA logic gate. A third domain acts as a toehold for a output DNA logic gate to initiate binding of the SCS biomolecule to the gate. A fourth domain acts as an effector sequence to alter the state of the output logic gate. A fifth domain acts as a cage sequence to lock the effector sequence in an inactive state until an input gate binds to the structured polynucleotide.

主权项

1. A structured chimeric substrate (SCS) polynucleotide comprising:
a first domain comprising a first single-stranded overhang that enables an upstream DNA logic gate to initiate binding to the SCS polynucleotide; a second domain that is partially complementary to the upstream DNA logic gate, thereby providing a substrate recognition sequence for the upstream DNA logic gate; a third domain comprising a second single-stranded overhang that enables a portion of the SCS polynucleotide to bind to a downstream DNA logic gate; a fourth domain comprising an effector sequence to alter the state of the downstream DNA logic gate; a fifth domain that locks the second single-stranded overhang and the effector sequence in an inactive state; and a sixth domain comprising a cleavage site that is only accessible for binding after the upstream DNA logic gate has bound to the substrate recognition sequence; and wherein the second single-stranded overhang and effector sequence are unlocked from the inactive state and thus accessible for binding with the downstream DNA logic gate only when the SCS polynucleotide is cleaved at the cleavage site.