Difference between revisions of "Team:FSU/Design"

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Home Description Human Practices Design Judging Form ☰

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OVERVIEW

Our first system involves using sound as a mechanical force to open a mechanosensitive channel within the E. Coli membrane. This opening allows the transmission of our zinc ion signal to flow into the cell, activating our genetic response system. Particularly, zinc will enter the cytosol and bind to ZntR, a transcriptional activator protein for the gene zntA, which encodes a zinc exporter protein channel, ZntA.

The second system involves a protein-based stress response to sound. The protein BamE is responsible for outer membrane protein assembly, and is shown to be activated by RpoE, the sigma 24 factor of RNA polymerase, as RNA polymerase binds to the bamE promoter for the gene's transcription. RpoE is known for its response to stress that affects outer membrane proteins and membranous lipopolysaccharides.

The Rcs "Regulator Capsule Synthesis" signal transduction system is a two-component stress response that maintains the outer surface of the E. Coli cell. Proteins RscC and RcsD are inner membrane proteins that direct a signal to RcsB, a transcription factor that activates a number of genes that synthesize membrane proteins and capsules. More specifically, RcsC is a sensory histidine kinase that autophosphorylates in response to an environmental signal, and then transfers the phosphate group to RcsD, the response regulator, and then to RcsB.

The Psp "Phage Shock Protein" system involves an inner membrane protein pspA, which responds to membrane stresses and regulates the pspABCDE operon. The pspA protein suppresses the proton motive foce from extruding hydrogen protons through a damaged/leaky cell membrane due to cellular stress, and also have a likely role in protein export when conditions arise that block such activity.

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Explanation of the engineering principles your team used in your design
Sound as Stress The plasma membrane is the platform for conversion of environmental stimuli into biochemical signals that induce a genetic response within the cell. While there are few studies that focus on sound as an environmental stimulus on bacteria, there is a plethora of evidence for similar stimuli, such as osmotic shock, heat shock, and metal ion exposure. We hypothesize that sound may induce a similar "shock" response on the membrane. Osmotic shock, for example, can create turgor pressure upon the plasma membrane when extracellular solute concentration is low, we hypothesize that sound can cause a similar pressure on the plasma membrane, thus resulting in stress.
Mechanosensitive Channels for Transduction of Sound Since sound is ultimately a wave of pressure, it can be considered to be a mechanical stress. Within the plasma membrane of E. Coli cells exist various mechanosensitive protein channels, whose primary role is to protect the cell integrity from osmolarity transition. The most common "Msc" channels in E. Coli are MscM (mini-conductance), MscS (small conductance), and MscL (large conductance). They respond to mechanical stimuli by transmitting ions and electric flux via a gate-opening mechanism, changing the cell's membrane potential. Mechanical stimuli include changes in the tension of the lipid bilayer of the plasma membrane, created by a deformation of the lipid membrane that affects the membrane curvature and induces a bilayer-protein hydrophobic mismatch. We hypothesize that sound exertion can create such a tension, forcing the channel from a closed state to an open state. flex The general structure of the homoheptameric MscS channel consists of: three transmembrane helices, a C-terminus facing the selective and stable cytosolic domain and an N-terminus facing the periplasmic domain. Transmembrane 1 (TM1) and TM2 form a flexible paddle for tension-sensing, while the conserved TM3 forms a linked amphipathic helical pore structure. A channel pore connects the periplasm to the cytosolic vestibule, and a selectivity filter exists in the middle of the channel. The pore has a diameter for conductance values ranging from 14-16 amps, and opens and closes in a force-activated gating manner.
Our Sound-Induced Systems Two types of systems were tested in our experiments. The first type of system utilized ions as ligands whose signaling was activated by sound; and the second system involved a membrane stress response, in which the cell contains pre-existing protein systems that respond to external stress on the outer membrane. In this case, the stress is sound. For our ion ligand system, we were able to select ions based on factors that would induce a mechanoreceptive response. Bacteria are generally non-selective between the signaling molecules it selects, so long as they are within a certain atomic radius. Therefore, we searched for ions that tend to be exported from the cell and that have a relatively low intracellular concentration. With this tendency, sound could be utilized to open a channel and "pull" the ions back into the cell. Zinc was an ideal choice for this criteria, in addition to the fact that it has a slow exchange between its extracellular pool and intracellular binding.
Discussion of the design iterations your team went through
Experimental plan to test your designs

Inspiration

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 The general structure of the homoheptameric MscS channel consists of: three transmembrane helices, a C-terminus facing the selective and stable cytosolic domain and an N-terminus facing the periplasmic domain. Transmembrane 1 (TM1) and TM2 form a flexible paddle for tension-sensing, while the conserved TM3 forms a linked amphipathic helical pore structure. A channel pore connects the periplasm to the cytosolic vestibule, and a selectivity filter exists in the middle of the channel. The pore has a diameter for conductance values ranging from 14-16 amps, and opens and closes in a force-activated gating manner.
 <li> Our Sound-Induced Systems
-Two types of systems were tested in our experiments. The first type of system utilized ions as ligands whose signaling was activated by sound; and the second system involved a membrane stress response, in which the cell contains pre-existing protein systems that respond to external stress on the outer membrane. In this case, the stress is sound. For our ion ligand system, we were able to select ions based on factors that would induce a mechanoreceptive response. Bacteria are generally non-selective between the signaling molecules it selects, so long as they are within a certain atomic radius. Therefore, we searched for ions that tend to be exported from the cell and that have a relatively low intracellular concentration. With this tendency, sound could be utilized to open a channel and "pull" the ions back into the cell. Zinc was an ideal choice for our ion ligand system due to meeting this criteria, in addition to the fact that it has a slow exchange between its extracellular pool and intracellular binding.
+Two types of systems were tested in our experiments. The first type of system utilized ions as ligands whose signaling was activated by sound; and the second system involved a membrane stress response, in which the cell contains pre-existing protein systems that respond to external stress on the outer membrane. In this case, the stress is sound. For our ion ligand system, we were able to select ions based on factors that would induce a mechanoreceptive response. Bacteria are generally non-selective between the signaling molecules it selects, so long as they are within a certain atomic radius. Therefore, we searched for ions that tend to be exported from the cell and that have a relatively low intracellular concentration. With this tendency, sound could be utilized to open a channel and "pull" the ions back into the cell. Zinc was an ideal choice for this criteria, in addition to the fact that it has a slow exchange between its extracellular pool and intracellular binding.
 <li>Discussion of the design iterations your team went through</li>
 <li>Experimental plan to test your designs</li>