Team:TzuChiU Formosa/Project/PhotoPaper

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<font color="#228B22" size=6>Photopaper</font>
<br><br><font color="#000080" size=5>Abstract</font>
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For most countries, paper-making has been a traditional but indispensable industry. Wood pulp is the major raw material for paper-making ,moreover,the complicated processes toward paper-making may contribute to environmental pollution. Acetobacter xylinum is a bacterium which produces bacterial cellulose. It has an acs operon, consisting of genes that called acsAB, acsC, and acsD. These genes interact with each other and synthesize cellulose synthase, an enzyme that transforms UDP-glucose into cellulose. What we want to do is to choose cyanobacteria which provides glucose through photosynthesis. Therefore, we want to use cyanobacteria as the host, then introduce the acs operon genes in it and produce bacterial cellulose by expressing this series of genes. With manufacturing processes, we believe this project can develop into a new and eco-friendly technology of papermaking.



<br><br><font color="#000080" size=5>Background</font>
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<br><font size=4><b>a. about cellulose biosynthesis</b></font>
<br>Bacterial cellulose is a form of cellulose which is produced by bacteria. It has the same molecular formula as green plants, which is a polysaccharide with thousands of β(1→4) linked D-glucose units. Cellulose biosynthesis is a carbohydrate metabolism with several enzyme regulations, and the key factor of this pathway is cellulose synthase, which participates in the transition from UDP-glucose to cellulose. The ligand of cellulose synthase is cyclic di-GMP, an effector forming from 2 molecules of GTP. The enzyme is activated by the binding of c-di-GMP with cellulose synthase, turning UDP-glucose into UDP, meanwhile form β-1,4-glucan chains, which are then used to synthesize cellulose.
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<br><font size=4><b>b.about acs operon</b></font>
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[[File:Screen shot 2011-10-06 at 上午5.45.47.png|right|350px]]
<i>Gluconacetobacter hansenii</i> ATCC23769 has been characterized as a model organism for cellulose biosynthesis. The cluster of genes which play the role of producing cellulose is acs operon. It contains three major genes, acsAB, acsC and acsD, and the final product is cellulose synthase. The acsAB catalyzes the formation of bacterial cellulose; acsA is the catalytic subunit which utilizes UDP-glucose to form the basic unit of cellulose; while acsB provide the regulatory subunit which has a cyclic di-GMP binding domain. The acsC gene is the main composite in the formation of the membrane complex of cellulose synthase and proposed to be involved in the export of the polymer across the bacterial cell wall.The acsD gene is involved in the crystallization of the mature cellulose by cleaves the intrastrand ß-1,4 linkages in the cellulose chain and is proposed to have a role in the release of the growing polymer from the cell.
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<br><br><font color="#000080" size=5>System Design</font><br>

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<font size = 4><b>1.Biobricks</b></font><br><br>

Because of the long sequence of complete acs operon, we designed several pairs of
primers to amplify acsAB and acsCD, the products are then purified and digested with
EcoRI and SpeI, next ligated with the pSB1C3 cut by EcoRI-SpeI, which pSB1C3 is the
iGEM 2011 standard backbone.
[[File:Screen shot 2011-10-06 at 上午10.32.16.png|center|600px]]
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<font size = 4><b>2. Expression</b></font><br><br>

The recombinant plasmids would be introduced into E. coli for testing and modelling
before transforming into R. rubrum. The IPTG-induced promoter is cloned into biobricks so
that the acs operon expression would be regulated by the addition of IPTG.
As to R. rubrum, the recombinant plasmids would be introduced by electroporation. The
glucose which produced by photosynthesis would be the raw material for cellulose
synthesis.
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<font size = 4><b>3. Modelling
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Observation of the performance of acs ABCD protein during PAGE can predict the
productivity of cellulose, run 2 SDS-PAGE, one according to the reaction time and another
according to the presence of promoter.
The bacterial culture which have been induced were collected and the bacteria is to
remove, the end product is added with cellulase until the cellulose is fully decomposed.
Benedict solution caused the formation of brick red precipitate, the concentration of
cellulose is then tested with OD645.
[[File:Cellulose.jpg|center|700px]]
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<br><br><font color="#000080" size=5>Result</font>
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<font size=3><b>Method 1 : SDS-PAGE</b></font>
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Observe the performance of acs ABCD protein during PAGE to predict the productivity of cellulose, run 2 SDS-PAGE respectively, one according to the reaction time and another according to the presence of promoter.
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The protein purification from <i>E.Coli</i>  with acsAB and with acsCD is use to run the SDS-PAGE in order to compare the expression of every protein sample. The expression is then use to predict and calculate the amount of protein produced by the <i>Gluconacetobacter hansenii</i>.
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'''-difference of reaction time'''
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0hr, 4hrs, 8hrs, 10hrs, and 12hrs of bacterial culture were collected. Compare the high-performance phase of the acs ABCD protein, calculate the productivity of cellulose.

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'''-difference of promoter'''
<br>[[File:Pro.jpg|center|800px]]
The SDS-PAGE is run twice. One is with promoter and another one without promoter. The difference of the protein produced is used to predict productivity of cellulose. At 0 hr, the <i>E. coli</i> which carries promoter ([http://partsregistry.org/wiki/index.php?title=Part:BBa_K571004 BBa_k571004]) + acsAB or promoter ([http://partsregistry.org/wiki/index.php?title=Part:BBa_K571004 BBa_k571004]) + acsCD all performed well. At 4hrs, the gene expression is shown as well, especially the gene which carries promoter+acsCD. The gene which carries promoter+acsCD expressed constantly until 10hrs. 
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The relative molecular mass of acsAB is about 168KDa, while the relative molecular mass of acsCD is about 155KDa. Therefore, we predict that the protein expression should be somewhere between this 2 bands. Therefore, we can conclude that the primer we designed is functional.
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1.	Compare the positive control with acsAB gene and acsCD gene
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2.	Calculate the amount of protein produced 
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3.	Predict the productivity of cellulose

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Every wanted gene is successfully cloned. Beside the anticipated parts, we also
constructed other biobricks which carry more insert genes. Transformation of every
biobricks in E. coli is accomplished too.


<br><br><font color="#000080" size=5>References</font>
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1.Rune Standal, Tore-geir Iversen, Dag H. Coucheron, Espen Fjaervik, Janet M. Blantny, Svein Valla. A New Gene Required for Cellulose Production and a Gen Encoding Cellulolytic Activity in Acetobacter xylinum Are Colocalized with the bcs operon. Journal of Bacteriology. Feb, 1994.
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2.Inder M. Saxena, Krystyna Kudlicka, Kazuo Okuda, R. Malcolm Brown, JR. Characterization of Genes in the Cellulose-Synthesizing Operon(acs operon) of Acetobacter xylinum: Implications for Cellulose Crystallization. Journal of Bacteriology. Sep,1994.
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3.Shin Kawano, Kenji Tajima, Yukako Uemori, Hitomi Yamashita, Tomoki Erata, Masanobu Munekata, Mitsuo Takai. DNA Research. October, 2002. 
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4.Joel Weadge, Wilfrid Laurier University.




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