Difference between revisions of "Team:BIT-China/Description"
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<!--Problem we aim to solve--> | <!--Problem we aim to solve--> | ||
| − | <div id="to_solve" class="block-title col-sm-12"> | + | <div id="to_solve" class="block-title col-sm-12">Problem we aim to solve</div> |
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research and large-scale industry production for plasmid-based expression system. | research and large-scale industry production for plasmid-based expression system. | ||
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So, what’s the plasmid segregational instability? | So, what’s the plasmid segregational instability? | ||
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It’s known that uneven cell division arises frequently which is bound to | It’s known that uneven cell division arises frequently which is bound to | ||
produce two daughter cells with different plasmid numbers. The cell with | produce two daughter cells with different plasmid numbers. The cell with | ||
less plasmids will produce cells with much less plasmids. | less plasmids will produce cells with much less plasmids. | ||
</div> | </div> | ||
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| − | In our project, those cells with not enough plasmid number | + | In our project, those cells with not enough plasmid number are called |
<b>"Slacker"</b>, on the contrary, <b>"Worker"</b> is the name for cells with enough plasmid. | <b>"Slacker"</b>, on the contrary, <b>"Worker"</b> is the name for cells with enough plasmid. | ||
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alt="fig1" class="col-sm-4"> | alt="fig1" class="col-sm-4"> | ||
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The existence of slackers will sharply decrease the efficiency and profit due to the slacker’s | The existence of slackers will sharply decrease the efficiency and profit due to the slacker’s | ||
increasing proliferation ability while producing no target substances. | increasing proliferation ability while producing no target substances. | ||
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There is no efficient way to prevent the birth of the slackers. Can we make | There is no efficient way to prevent the birth of the slackers. Can we make | ||
the bacteria themselves monitor the plasmid losing situation and eliminate these slackers? | the bacteria themselves monitor the plasmid losing situation and eliminate these slackers? | ||
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</b> | </b> | ||
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In our project, the inhibitor protein’s concentration is used as a signal to indicate the | In our project, the inhibitor protein’s concentration is used as a signal to indicate the | ||
intracellular plasmid numbers. The sketch map of our basic circuit is shown in Fig.1. | intracellular plasmid numbers. The sketch map of our basic circuit is shown in Fig.1. | ||
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<img src="https://static.igem.org/mediawiki/2016/2/2e/T--BIT-China--Project--Description--fig7.png" | <img src="https://static.igem.org/mediawiki/2016/2/2e/T--BIT-China--Project--Description--fig7.png" | ||
| − | alt="fig1" class="center-block" style="width: | + | alt="fig1" class="center-block" style="width:80%"> |
| + | <div class="center-block" style="font-size:0.9em;text-align:center"><b>Fig.1</b> The basic circuit of P-SLACKiller.</div> | ||
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| − | We choose a constitutive promoter to express inhibitor gene, and an "in-promoter" which | + | <br>We choose a constitutive promoter to express inhibitor gene, and an "in-promoter" which |
is repressed by inhibitor to express killer gene. Under normal circumstances, for | is repressed by inhibitor to express killer gene. Under normal circumstances, for | ||
plasmid concentration being high enough, our killer is repressed by inhibitor whose | plasmid concentration being high enough, our killer is repressed by inhibitor whose | ||
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through making the plasmid encode essential factors for the host. | through making the plasmid encode essential factors for the host. | ||
</div> | </div> | ||
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| − | Resistance screening and auxotrophic bacteria are | + | Resistance screening and auxotrophic bacteria are depended on the selecting process <sup>[1]</sup>. |
The plasmid-free bacteria cannot survive under specific selections, such as antibiotics. | The plasmid-free bacteria cannot survive under specific selections, such as antibiotics. | ||
However, it’s not applicable for industrial fermentation. What’s worse, the unlimited | However, it’s not applicable for industrial fermentation. What’s worse, the unlimited | ||
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degrade the capacity of the immune system and finally develop to a big social problem. | degrade the capacity of the immune system and finally develop to a big social problem. | ||
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According to the natural mechanisms for plasmid maintenance, many new strategies are | According to the natural mechanisms for plasmid maintenance, many new strategies are | ||
developed, so called plasmid addiction system (PAS) or post-segregational killing | developed, so called plasmid addiction system (PAS) or post-segregational killing | ||
system (PSK) <sup>[2]</sup>. However, these mechanisms are still under exploration and the | system (PSK) <sup>[2]</sup>. However, these mechanisms are still under exploration and the | ||
capacity of plasmid maintenance is not ideal since most of them can only ensure | capacity of plasmid maintenance is not ideal since most of them can only ensure | ||
| − | + | one plasmid remains, can’t truly realize the quantitative control as we hope. | |
</div> | </div> | ||
</div> | </div> | ||
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Most existing methods for enhancing biosynthetic performance are stuck | Most existing methods for enhancing biosynthetic performance are stuck | ||
| − | at the level of resistance screening or | + | at the level of resistance screening or rely on natural mechanisms |
| − | for plasmid maintenance. These | + | for plasmid maintenance. These methods have the same problem: there is |
no clear definition for high- and low-performance variants, or said differently, | no clear definition for high- and low-performance variants, or said differently, | ||
those methods can’t define a number or a range as the threshold of plasmids’ concentration. | those methods can’t define a number or a range as the threshold of plasmids’ concentration. | ||
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In our project, we can not only set a threshold to control the number of plasmids, but also | In our project, we can not only set a threshold to control the number of plasmids, but also | ||
regulate it as we need by using the different biobricks. That is what we say—quantitative control. | regulate it as we need by using the different biobricks. That is what we say—quantitative control. | ||
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It’s useful to maintain the microbial population structure, but costs plenty of time and money. | It’s useful to maintain the microbial population structure, but costs plenty of time and money. | ||
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Our design has great potential to simplify the process of spawn rejuvenation | Our design has great potential to simplify the process of spawn rejuvenation | ||
as well as increase the profit for companies. We use an intracellular signal | as well as increase the profit for companies. We use an intracellular signal | ||
| − | correlated with the plasmid numbers and realize the selection process without | + | correlated with the plasmid numbers, and realize the selection process without |
any human interference. Through keeping the plasmid numbers above a threshold, | any human interference. Through keeping the plasmid numbers above a threshold, | ||
we can realize the population quality control and improve the production efficiency. | we can realize the population quality control and improve the production efficiency. | ||
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processes and it’s not an applicable option in industrial fermentation. | processes and it’s not an applicable option in industrial fermentation. | ||
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As an antibiotics-free project, we can improve the previous approaches by | As an antibiotics-free project, we can improve the previous approaches by | ||
making the process of plasmid-control more environment-friendly. | making the process of plasmid-control more environment-friendly. | ||
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Latest revision as of 16:14, 9 November 2016
Problem we aim to solve
Genetic engineered bacteria which use plasmid as expression vector are widely
employed in many social domains and developed rapidly these years. However,
the plasmid segregational instability has been the limitation of scientific
research and large-scale industry production for plasmid-based expression system.
So, what’s the plasmid segregational instability?
It’s known that uneven cell division arises frequently which is bound to
produce two daughter cells with different plasmid numbers. The cell with
less plasmids will produce cells with much less plasmids.
In our project, those cells with not enough plasmid number are called
"Slacker", on the contrary, "Worker" is the name for cells with enough plasmid.
The existence of slackers will sharply decrease the efficiency and profit due to the slacker’s
increasing proliferation ability while producing no target substances.
There is no efficient way to prevent the birth of the slackers. Can we make
the bacteria themselves monitor the plasmid losing situation and eliminate these slackers?
In this way, we can enhance the plasmid stability,
stabilize the microbial population structure and finally improve the production efficiency.
Project overview
We decide to equip the bacteria with a
plasmid-sensing logically adjustable cell killer (P-SLACKiller)
In our project, the inhibitor protein’s concentration is used as a signal to indicate the
intracellular plasmid numbers. The sketch map of our basic circuit is shown in Fig.1.
Fig.1 The basic circuit of P-SLACKiller.
We choose a constitutive promoter to express inhibitor gene, and an "in-promoter" which is repressed by inhibitor to express killer gene. Under normal circumstances, for plasmid concentration being high enough, our killer is repressed by inhibitor whose concentration is connected with plasmid numbers. However, considering the effect of plasmid segregational instability, the plasmid numbers will decrease, so as the intracellular inhibitor protein. The inadequate inhibitor cannot completely repress the expression of downstream killer gene, and all those slackers will be killed.
Previous work done by others
Previous work realize the plasmid maintenance
through making the plasmid encode essential factors for the host.
Resistance screening and auxotrophic bacteria are depended on the selecting process [1].
The plasmid-free bacteria cannot survive under specific selections, such as antibiotics.
However, it’s not applicable for industrial fermentation. What’s worse, the unlimited
use of antibiotics has raised worldwide concern due to its potential risk which
may cause antibiotic resistance,
degrade the capacity of the immune system and finally develop to a big social problem.
According to the natural mechanisms for plasmid maintenance, many new strategies are
developed, so called plasmid addiction system (PAS) or post-segregational killing
system (PSK) [2]. However, these mechanisms are still under exploration and the
capacity of plasmid maintenance is not ideal since most of them can only ensure
one plasmid remains, can’t truly realize the quantitative control as we hope.
What’s the difference
Quantitative control
Most existing methods for enhancing biosynthetic performance are stuck
at the level of resistance screening or rely on natural mechanisms
for plasmid maintenance. These methods have the same problem: there is
no clear definition for high- and low-performance variants, or said differently,
those methods can’t define a number or a range as the threshold of plasmids’ concentration.
In our project, we can not only set a threshold to control the number of plasmids, but also
regulate it as we need by using the different biobricks. That is what we say—quantitative control.
No human intervention
There is a step called spawn rejuvenation in the existing large-scale
industrial production procedure.
It’s useful to maintain the microbial population structure, but costs plenty of time and money.
Our design has great potential to simplify the process of spawn rejuvenation
as well as increase the profit for companies. We use an intracellular signal
correlated with the plasmid numbers, and realize the selection process without
any human interference. Through keeping the plasmid numbers above a threshold,
we can realize the population quality control and improve the production efficiency.
No antibiotics
As we know, the employed antibiotics must be removed in pharmaceutical or GMP-based fermentation
processes and it’s not an applicable option in industrial fermentation.
As an antibiotics-free project, we can improve the previous approaches by
making the process of plasmid-control more environment-friendly.
Reference:
[1] Kroll J, Klinter S, Schneider C, et al. Plasmid addiction systems:
perspectives and applications in biotechnology. [J]. Microbial Biotechnology, 2010, 3(6):634-57.
perspectives and applications in biotechnology. [J]. Microbial Biotechnology, 2010, 3(6):634-57.
[2] Friehs K. Plasmid copy number and plasmid stability. [J]. Advances
in Biochemical Engineering/biotechnology, 2004, 86:47-82.
