Team:UCL/Project/Developments

From 2013.igem.org

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<p class="major_title">OTHER PARTS OF OUR CIRCUIT</p>
<p class="major_title">OTHER PARTS OF OUR CIRCUIT</p>
<p class="minor_title">Avoiding Inflammation And Supporting Neurons</p>
<p class="minor_title">Avoiding Inflammation And Supporting Neurons</p>
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Unfortunately, we did not have time to attempt to create all the parts envisioned in our original potential. However, we believe that they are theoretically significant, and so here we explain what more could be done to improve this project of ours, as we work on these improvements after the ‘WikiFreeze’ for the Regional Jamboree of the iGEM competition.  
Unfortunately, we did not have time to attempt to create all the parts envisioned in our original potential. However, we believe that they are theoretically significant, and so here we explain what more could be done to improve this project of ours, as we work on these improvements after the ‘WikiFreeze’ for the Regional Jamboree of the iGEM competition.  
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It is also thought that AD may initiate due to cell-cycle re-entry on account of a disbalance in neurotrophin signalling [internal link to neuropathology]. Brain-derived neurotrophic factor (BDNF) is a signal that sustains neurons. If expressed by engineered microglia at plaque localities it could support dying neurons and stop other neurons progressing into an AD state.  
It is also thought that AD may initiate due to cell-cycle re-entry on account of a disbalance in neurotrophin signalling [internal link to neuropathology]. Brain-derived neurotrophic factor (BDNF) is a signal that sustains neurons. If expressed by engineered microglia at plaque localities it could support dying neurons and stop other neurons progressing into an AD state.  
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<p class="major_title">Zeocin Resistance</p>
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Zeocin is a glycopeptide antibiotic capable of killing most bacteria, fungi, yeast, plant, and animal cells by intercalating DNA and inducing double strand breakage. This makes zeocin resistance an ideal selective maker for our project, which involves both bacterial and mammalian chassis. The product of the ''Sh ble'' gene, isolated from the bacterium Streptoalloteichus hindustanus <a href="http://www.ncbi.nlm.nih.gov/pubmed/2450783" target="_blank">(Gatignol et al. 1988)</a>, confers zeocin resistance to transfected/transformed cells. Sh ble is a small binding protein with strong affinity for antibiotics on a one to one ratio. It prevents zeocin from being activated by ferrous ions and oxygen, meaning it cannot react in vitro with DNA.
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<p class="major_title">Oxidative Stress Promoter</p>
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Oxidative stress via free radical production increases with proximity to senile plaques <a href="http://www.ncbi.nlm.nih.gov/pubmed/10863548" target="_blank">(Colton et al., 2000)</a>. The microglia immune response around plaques also increases oxidative stress. Therefore, we have designed a promoter which will initiate transcription in response to oxidative stress to ensure the production of key proteins only in the plaques’ locales. This promoter is an improvement of a yeast minimal promoter (<a href="http://parts.igem.org/Part:BBa_K105027" target="_blank">cyc100</a>) already in the registry. NF-κB is a transcription factor which translocates to the nucleus under oxidative stress <a href="http://www.ncbi.nlm.nih.gov/pubmed/12730877" target="_blank">(Shi et al., 2003)</a>, and binds to the sequence GGGAATTT <a href="http://www.ncbi.nlm.nih.gov/pubmed/19435890" target="_blank">(Park et al., 2009)</a>. Thus, by placing this site upstream of the yeast minimal promoter, we created a novel mammalian promoter which initiates transcription in response to oxidative stress.
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<p class="major_title">Active MMP-9</p>
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MMP-9, also known as gelatinase B, is most commonly known for its role in breaking down the extracellular matrix. Naturally it is secreted in its inactive form and must be cleaved by other proteases, but our GEM are are meant to produce just the active form. It has been shown by Yan et al. that MMP-9 is the only known endogenous protease that degrades both fibrillar and soluble forms of amyloid-β peptide (Aβ). This satisfies the <a href="http://2013.igem.org/Team:UCL/Background/Neuropathology" target="_blank">'Amyloid Cascade Hypothesis'</a> as well as theories that see plaques as <a href="http://2013.igem.org/Team:UCL/Background/Neuropathology" target="_blank">neuroprotective</a>, and soluble Aβ as the real threat. MMP-9 is expressed at low basal levels in microglia and may keep plaque size in dynamic equilibrium <a href="http://www.ncbi.nlm.nih.gov/pubmed/16787929" target="_blank">(Yan et al. 2006)</a>. Over producing it in (inactive) GEM could greatly improve both soluble and insoluble Aβ clearance. MMP-9 must be delivered in GEM and expressed only in the vicinity of plaques, as otherwise it could cause damage to brain tissue if, for example, injected into the brain.
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Revision as of 14:13, 5 September 2013

OTHER PARTS OF OUR CIRCUIT

Avoiding Inflammation And Supporting Neurons

Unfortunately, we did not have time to attempt to create all the parts envisioned in our original potential. However, we believe that they are theoretically significant, and so here we explain what more could be done to improve this project of ours, as we work on these improvements after the ‘WikiFreeze’ for the Regional Jamboree of the iGEM competition.

The strength of our system [internal link to circuit overview] is that the microglial chassis [internal link to microglia page in background] already detect and engage [internal link to chassis page] amyloid plaques [internal link to neuropathology].

This means that our systems can create proteins in situ to improve the Alzheimer’s disease [link to Alzheimer’s disease in background] state. However, amyloid proteases such as MMP-9 [internal link to ‘degradation’] would only have a positive impact on the pathology if the ‘Amyloid Hypothesis’ [internal link to neuropathology] is correct, and there is some evidence to suggest that it may not be.

It is thought that Alzheimer’s disease (AD) may be exacerbated into a neurodegenerative condition by the action of microglia themselves, the custodians of the brain. They can inflame the plaque area, and this damages neurons. Therefore, we propose producing a de-activating agent, such as vasoactive intestinal peptide (VIP), BioBrick with an oxidative stress promoter [internal link to detection]. This mean that our engineered microglia would activate when it detects a plaque and move towards that plaque. As it approaches, oxidative stress increases so that once near the plaque the de-activating agent would return the engineered cell and wild-type cells surrounding the plaque into their resting state, avoiding neuroinflammation. This would stop them from producing amyloid proteases such as neprilysin. However, our MMP-9 BioBrick can ensure that amyloid degradation continues (the positive action of microglia in AD) without inflammation (the negative action of microglia in AD).

It is also thought that AD may initiate due to cell-cycle re-entry on account of a disbalance in neurotrophin signalling [internal link to neuropathology]. Brain-derived neurotrophic factor (BDNF) is a signal that sustains neurons. If expressed by engineered microglia at plaque localities it could support dying neurons and stop other neurons progressing into an AD state.

Zeocin Resistance

Zeocin is a glycopeptide antibiotic capable of killing most bacteria, fungi, yeast, plant, and animal cells by intercalating DNA and inducing double strand breakage. This makes zeocin resistance an ideal selective maker for our project, which involves both bacterial and mammalian chassis. The product of the ''Sh ble'' gene, isolated from the bacterium Streptoalloteichus hindustanus (Gatignol et al. 1988), confers zeocin resistance to transfected/transformed cells. Sh ble is a small binding protein with strong affinity for antibiotics on a one to one ratio. It prevents zeocin from being activated by ferrous ions and oxygen, meaning it cannot react in vitro with DNA.

Oxidative Stress Promoter

Oxidative stress via free radical production increases with proximity to senile plaques (Colton et al., 2000). The microglia immune response around plaques also increases oxidative stress. Therefore, we have designed a promoter which will initiate transcription in response to oxidative stress to ensure the production of key proteins only in the plaques’ locales. This promoter is an improvement of a yeast minimal promoter (cyc100) already in the registry. NF-κB is a transcription factor which translocates to the nucleus under oxidative stress (Shi et al., 2003), and binds to the sequence GGGAATTT (Park et al., 2009). Thus, by placing this site upstream of the yeast minimal promoter, we created a novel mammalian promoter which initiates transcription in response to oxidative stress.

Active MMP-9

MMP-9, also known as gelatinase B, is most commonly known for its role in breaking down the extracellular matrix. Naturally it is secreted in its inactive form and must be cleaved by other proteases, but our GEM are are meant to produce just the active form. It has been shown by Yan et al. that MMP-9 is the only known endogenous protease that degrades both fibrillar and soluble forms of amyloid-β peptide (Aβ). This satisfies the 'Amyloid Cascade Hypothesis' as well as theories that see plaques as neuroprotective, and soluble Aβ as the real threat. MMP-9 is expressed at low basal levels in microglia and may keep plaque size in dynamic equilibrium (Yan et al. 2006). Over producing it in (inactive) GEM could greatly improve both soluble and insoluble Aβ clearance. MMP-9 must be delivered in GEM and expressed only in the vicinity of plaques, as otherwise it could cause damage to brain tissue if, for example, injected into the brain.

IP-10

This is a small non-inflammatory chemokine that induces chemotaxis [internal link to chemotaxis page] in macrophages. Microglia originate from a macrophage lineage. It elicits its effect through cell surface chemokine receptor CXCR3. Plaques already attract microglia, but this is partly due to local microglial activation. De-activated GEM will not produce many chemokines, so in order attract more GEM (as well as native microglia) to the plaque site, in order to speed up Aβ clearance.