Difference between revisions of "Team:Paris Bettencourt/Project/VitaminB2"
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+ | <div id="overview" style="text-align: center"> | ||
+ | <table> | ||
+ | <tr> | ||
+ | <th class="noBottom"><h3>Background</h3></td> | ||
+ | <th class="noBottom"><h3>Aims</h3></td> | ||
+ | <th class="noBottom"><h3>Results</h3></td> | ||
+ | </tr> | ||
+ | <div id="overview" style="text-align: justify"> | ||
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+ | <tr> | ||
+ | <td class="noTop">Some microorganisms (e.g. <i>B. subtilis</i>) naturally produce riboflavin in high amount. | ||
+ | </td> | ||
+ | <td class="noTop">Make Idli batter microorganisms produce high amount of riboflavin during fermentation to increase the vitamin B2 content of the batter. | ||
+ | </td> | ||
+ | <td class="noTop"> | ||
+ | <ul><li>Successfully cloned the full riboflavin biosynthesis pathway of <i>B. subtilis</i> in <i>E. coli</i> and made it over-produce vitamin B2 and proceeded to chromosomaly integrate the full pathway in <i>Lactococcus lactis</i></li> | ||
+ | <li>BioBrick submitted to the BioBrick Registry: <a href="http://parts.igem.org/Part:BBa_K1678001"> BBa_K1678001</a>, <a href="http://parts.igem.org/Part:BBa_K1678002"> BBa_K1678002</a>, <a href="http://parts.igem.org/Part:BBa_K1678003"> BBa_K1678003</a>, <a href="http://parts.igem.org/Part:BBa_K1678004"> BBa_K1678004</a></li></ul> | ||
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+ | </td> | ||
+ | </div> | ||
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+ | </tr> | ||
+ | </table> | ||
+ | </div> | ||
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+ | </div> | ||
+ | <div class="textContent"> | ||
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+ | <h2>Introduction</h2> | ||
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<div class="column-left" align="justify"> | <div class="column-left" align="justify"> | ||
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<p>Riboflavin derived coenzymes (FMN and FAD) are the cofactors of numerous oxydo-reduction enzymes and are also used in the energy transduction process. It is also used in antioxidative reactions and is required for the metabolism of several other vitamins.</p> | <p>Riboflavin derived coenzymes (FMN and FAD) are the cofactors of numerous oxydo-reduction enzymes and are also used in the energy transduction process. It is also used in antioxidative reactions and is required for the metabolism of several other vitamins.</p> | ||
− | <p>Riboflavin deficiency is a | + | <p>Riboflavin deficiency is a devastating problem in India. For socio-economic reasons, indians are not consuming riboflavin-rich food (dairy products, offal, eggs, almonds...). |
Only 13% of the households meet the riboflavin dietary requirements and more than 70% of women and children of low-income groups (2009 Indian Council of Medical Research report) and 66% of children from middle-income groups have biochemical evidence of riboflavin deficiency (S. Swaminathan & al., European J. Clin. Nut., 2013).</p> | Only 13% of the households meet the riboflavin dietary requirements and more than 70% of women and children of low-income groups (2009 Indian Council of Medical Research report) and 66% of children from middle-income groups have biochemical evidence of riboflavin deficiency (S. Swaminathan & al., European J. Clin. Nut., 2013).</p> | ||
<p>The most recognizable manifestation of advanced riboflavin deficiency are orolingual, dermal, corneal and hematological. | <p>The most recognizable manifestation of advanced riboflavin deficiency are orolingual, dermal, corneal and hematological. | ||
− | In earlier stages, riboflavin deficiency decreases psychomotor abilities, induces fatigue as well as itching and burning in the eyes.During pregnancy, a riboflavin deficiency can lead to limb-reduction in infants (M. S. Bamji et al., Bulletin of Nutrition Foundation of India, 1993).</p> | + | In earlier stages, riboflavin deficiency decreases psychomotor abilities, induces fatigue as well as itching and burning in the eyes. As it is involved in iron absorbtion, B2 deficiency often results in anemia. During pregnancy, a riboflavin deficiency can lead to limb-reduction in infants (M. S. Bamji et al., Bulletin of Nutrition Foundation of India, 1993).</p> |
− | <p>Here | + | <p>Here we present how we readapted the riboflavin biosynthesis pathway from a natural riboflavin overproducer, <i>Bacillus subtilis</i> to engineer lactic acid bacteria (LAB) in order to make them produce high quantities of riboflavin while fermenting Idli batter.</p> |
<h1 class="date one" id="design">Design</h1> | <h1 class="date one" id="design">Design</h1> | ||
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A broad range of micro-organisms have been characterized in Idli batter, mainly, Gram positive bacteria such as <i>Leuconostoc, Weissella, Pediococcus, Lactobacillus</i> (C. Saravanan & <i>al</i>, J Food Sci Technol, 2015) and also <i>Lactococcus</i> ('Applied Microbiology', Sanjai Saxena).<br> | A broad range of micro-organisms have been characterized in Idli batter, mainly, Gram positive bacteria such as <i>Leuconostoc, Weissella, Pediococcus, Lactobacillus</i> (C. Saravanan & <i>al</i>, J Food Sci Technol, 2015) and also <i>Lactococcus</i> ('Applied Microbiology', Sanjai Saxena).<br> | ||
− | + | These bacteria producing neglectable amounts of riboflavin, far from meeting nutritional requirements.</p> | |
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+ | <p>LAB, such as <i>Lactococcus</i> and <i>Lactobacillus</i>, are used worldwide to ferment food. As both are present in Idli batter, we choose to work on <i>Lactobacillus plantarum</i>.<br> | ||
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Also, to prevent most of the horizontal gene transfer events and to make the insertion more stable and resilient, we decided to integrate the genes coding for the enzymes of the pathway into the chromosome.</p> | Also, to prevent most of the horizontal gene transfer events and to make the insertion more stable and resilient, we decided to integrate the genes coding for the enzymes of the pathway into the chromosome.</p> | ||
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The chromosome integration plasmid pKV6 was first altered to allow the insertion of the four genes by Golden Gate Assembly. This new plasmid was called p15.01.<br> | The chromosome integration plasmid pKV6 was first altered to allow the insertion of the four genes by Golden Gate Assembly. This new plasmid was called p15.01.<br> | ||
Then, the four genes were successfully inserted in p15.01 and cloned in <i>E. coli</i>.<br> | Then, the four genes were successfully inserted in p15.01 and cloned in <i>E. coli</i>.<br> | ||
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− | </ | + | <img width="350px" src="https://static.igem.org/mediawiki/2015/6/61/PkV6_Map.jpg"/><br> |
− | < | + | <b>Figure 1: </b><i>pKV6 is an integrative plasmid we got from Christian Solem for repetitive marker free chromosomal integration. </i><br> |
− | < | + | <img width="350px" src="https://static.igem.org/mediawiki/2015/6/6b/P15.01_Map.jpg"/><br> |
− | + | <b>Figure 2: </b><i>p15.01 is a derivative plasmid from pKV6, where a pair of BbsI restriction enzyme sites were introduced for Golden gate assembly. </i><br> | |
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<img width="350px" src="https://static.igem.org/mediawiki/2015/0/0c/P15_06_Map.jpg"/><br> | <img width="350px" src="https://static.igem.org/mediawiki/2015/0/0c/P15_06_Map.jpg"/><br> | ||
+ | <b>Figure 3: </b><i>p15.06 is a derivative plasmid from p15.01 after golden gate assembly of Vitamin B2 pathway. Here RibA cassette has P48 synthetic promoter and all the other cassettes RibD, RibE, RibT have P25 synthetic promoter. </i><br> | ||
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<img width="350px" src="https://static.igem.org/mediawiki/2015/2/20/P15_07_Map.jpg"/><br> | <img width="350px" src="https://static.igem.org/mediawiki/2015/2/20/P15_07_Map.jpg"/><br> | ||
+ | <b>Figure 4: </b><i>p15.07 is a derivative plasmid from p15.01 after golden gate assembly of Vitamin B2 pathway. Here RibA and RibT cassettes have P48 synthetic promoter and rest two cassettes RibD, RibE have P25 synthetic promoter.</i><br><br> | ||
+ | </div> | ||
+ | <div class="column-right" align="justify"> | ||
+ | After cloning, cells began to release riboflavin in their surrounding media, suggesting that the expression system was functioning in E. coli as well. <br> | ||
+ | Riboflavin concentration corresponding to the fluorescence (at 565nm) of the supernatant was estimated on a standard curve.<br> | ||
+ | <img width="450px" src="https://static.igem.org/mediawiki/2015/6/6f/Riboflavin_standard_curve.png"><br> | ||
+ | <b>Figure 5: </b><i>Standard curve of riboflavin fluorescence</i><br><br> | ||
+ | From the standard curve, we derived a linear equation mapping riboflavin concentration to fluorescence (fluorescence = 16344*x + 418).<br> | ||
+ | <img width="500px" src="https://static.igem.org/mediawiki/2015/8/80/PB_overproduction_riboflavin.png"><br> | ||
+ | <b>Figure 6: </b><i>Over-production of riboflavin by E.coli </i><br><br> | ||
+ | <i>E. coli</i> strains over-produce riboflavin up to 6µg/mL of media.<br><br> | ||
+ | <img width="300px" src="https://static.igem.org/mediawiki/parts/d/d2/B2_plate_riboflavin_diffusing_m9.png"><br> | ||
+ | <b>Figure 7: </b><i>E. coli strain diffusing riboflavin in plate</i><br><br> | ||
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+ | <img width="400px" src="https://static.igem.org/mediawiki/2015/9/92/PB_projetB2_pic7.jpg"><br> | ||
+ | <b>Figure 8: </b><i>Riboflavin revelation by fluorescence</i><br><br> | ||
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+ | We characterized the functioning of promoter p48 in <i>E. coli</i> and BioBrick it (<a href="http://parts.igem.org/Part:BBa_K1678004">BBa_K1678004</a>).<br> | ||
+ | Activity of p48 was shown by the expression of the fluorescent protein mCerulean.<br> | ||
+ | <img width="400px" src="https://static.igem.org/mediawiki/parts/b/bb/BB_fluorescence_chart_BB_04.png"><br> | ||
+ | <b>Figure 9: </b><i>Fluorescence of mCerulean promoted by p48</i><br><br> | ||
</div> | </div> | ||
<div style="clear:both"></div> | <div style="clear:both"></div> | ||
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+ | <h2 id="line"></h2> | ||
+ | <div class="column-left" align="left"> | ||
+ | <h1 class="date one" id="discussion">Discussion</h1> | ||
+ | Though successfully we managed to produce Riboflavin (Vitamin B2) in <i>E. coli</i>, which was the vital obstacle to overcome but due to time constraints this project could have proceeded to introduce this B2 producing plasmid into <i>Lactococcus lactis</i> as mentioned by Christian Solem et al, 2013 and integrate the whole pathway into <i>L. lactis</i> chromosome. We used the same plasmid used by them for repetitive, marker-free, site specific chromosomal integration of foreign DNA, in this case vitamin B2. So for the further development of the project we can proceed to chromosomal integration of the vitamin B2 in <i>Lactococcus</i> and as once the plasmid is integrated, the site can be used for repetitive chromosomal integration. We can integrate Vitamin A and Vitamin B12 pathways in the same way thus probably creating a single cell with multiple vitamins producing capability. | ||
+ | <br> | ||
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+ | </div> | ||
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+ | <div class="column-right" align="left"> | ||
+ | <h1 class="date one" id="attribution">Attributions</h1> | ||
+ | This project was designed and accomplished by Barthelemy Caron and Shazzad Hossain Mukit in consultation with Jason Bland, Ihab Boulas, Jake Wintermute and Antoine Decrulle. Most of the strains (DH5alpha, Top10, NEB turbo, STABLE) were kindly provided by Inserm U1001. Plasmids pKV6, PKV7 and pLB65 were provided by Christian Solem and Jianming Liu of National Food Institute, DTU (Denmark). Plasmid pNZ5319 for L.plantarum chromosomal integration was provided by Michiel Kleerebezem and Ingrid van Alen of NIZO food research, The Netherlands. pL2 backbone and two inserts, pele1 and eYFP, for positive control of Golden Gate assembly were provided by Antoine Decrulle. Special thanks to all the people for their important advice, and all the Paris Bettencourt team members for making this adventure such an amazing experience. | ||
+ | <br> | ||
+ | </div> | ||
+ | <div style="clear:both"></div> | ||
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Latest revision as of 23:45, 19 November 2015