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| | {{Kyoto_WikiDesign}} | | {{Kyoto_WikiDesign}} |
| - | = '''Project Digestion''' =
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| - | == '''Introduction''' ==
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| - | Streptomyces is a kind of prokaryotic bacteria which decompose bodies in nature. We extract protease and chitinase genes from this bacterium and introduce into Escherichia coli. Secretion-signal sequences are included in these genes so that the proteins coded by them will go out without occurring cell lysis. After assembling all genes, we examined the activity of these two enzymes in both of qualitative and quantitative ways.
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| - | == '''Method''' ==
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| - | ===Construction===
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| - | We created following constructions to allow secretion of Serine protease, SAM-P20 and chitinase, chiA1. These genes are regulated by lactose promoter, BBa_R0011. We used Streptmyces’s RBS into these constructions, because reference article [1] used them to allow E.coli to secrete these proteins.
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| - | [[File:Kyoto-digestion-costruction3.jpg]]<br/>
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| - | [[File:Kyoto-digestion-costruction4.jpg]]<br/>
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| - | ===Assay===
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| - | :Experiment 2 : <html><a href="https://2011.igem.org/Team:Kyoto/Digestion/DNS method">3,5-Dinitrosalicylic acid assay (DNS method)</a></html>
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| - | :This assay is based on this fact: 3,5-dinitorosalicylic acid (DNS) is changed into 3-amino- 5-nitorosalicylic acid by reducing saccharide in reaction solution and the absorbance of this liquid increase in direct proportion to the amount of reducing sugar.
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| - | [[File:Kyoto-digestion-DNSassay1.jpg]]<br/>
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| - | ===Procedure===
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| - | DNS method
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| - | We examined the quantitative relation between absorbance and the volume of sugar and then expressed it onto a straight line graph (result fig 1:リンク).
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| - | :We led E.coli introduced chitinase gene had secreted disassemble chitin into N-acetylglucosamine and other sugar derivatives in water.
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| - | :After passing enough time (_min), we added this liquid 0.2 ml into DNS reagent 0.6 ml (<html><a href="https://2011.igem.org/Team:Kyoto/Protocol">How to prepare</a></html>) and boiled this solution for 5 min. After cooling this soluion, We diluted with water to 5 ml and assay the absorbance in 550 nm.
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| - | :The results of this measurement and the fig 1 graph enabled us to calculate the amount of digested chitin, showing the relative activity of chitinase. We did same examination about commercial chitinase derived from Streptomyces and exhibited in result fig 2:リンク
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| - | :: '''２－１：Evaluate the accidental change of absorbance''' (<-- Evaluate the influence of ''E.coli'' on DNS method.)
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| - | ::Even though we use the centrifugal supernatant, there is still some ''E.coli''. So we examined errors in absorbance as the following way before conducting DNS assay. Since the growth of ''E.coli'' affect the glucose concentration in medium during the incubation, the evaluation of this influence was done.
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| - | ::・cultured E.coli overnight in medium<br>
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| - | ::・poured the medium (above 1ｍｌ) into each three microcentritube and measured OD<br>
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| - | ::Following operations were conducted to all tubes.<br>
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| - | ::・centrifuge for 5 min at 5,000 rpm and move 1ｍｌ the supernatant to new microcentritube. (It was ::incubated at 37℃ until this experiment was finished.)<br>
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| - | ::・measured absorbance <br>
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| - | ::・one hour after, we measured absorbance and took 200㎕ the solution to new tube and heated it ::for 3 min in boiling water and then cooled it in water.<br>
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| - | ::・applied 200㎕ DNS reagent and heated it for 5 min in boiling water and then cooled it in water.<br>
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| - | ::・two, three, five hours after, we did above operation, taking supernatant, measured absorbance,heating and cooling, applying DNS reagent and heating and cooling again.<br>
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| - | == '''Result''''' ==
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| - | ===Chitinase A1===
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| - | 1. Standard Measurement for ChiA1.
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| - | [[File:Kyoto-ChiA1Standard0925.png|thumb|center|500px|Fig.1: Absorbance550 vs. glucose concentration. ''r''<sup>''2''</sup>=0.98936.]]
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| - | :From the result, a strong correlation between glucose concentration and its A<sub>550</sub> was observed.
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| - | 2. Consideration of medium and growth of ''E.coli''.
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| - | == '''Discussion''' ==
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| - | == '''Reference''' ==
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| - | [1] Molecular Characterization of a Gene Encoding Extracellular Serine Protease Isolated from a Subtilisin Inhibitor-Deficient Mutant of Streptmyces albogriseolus S-3253
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| - | [2]Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis
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| - | [3]Genome sequence of an industrial microorganism Streptomyces avermitilis: deducing the ability of producing secondary metabolites
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| - | [4]還元糖の定量法 (生物化学実験法)福井 作蔵
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| - | [5]Quantitative Analysis of Cellulose-Reducing Ends
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