Team:Virginia Commonwealth/Internal/Experimentation

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==Synthesis==
==Synthesis==
[[Image:Genetic engineering work flow.png|left|450px|Genetic engineering work flow]]
[[Image:Genetic engineering work flow.png|left|450px|Genetic engineering work flow]]
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Lorem ipsum dolor sit amet, consectetuer adipiscing elit. Duis tellus. Donec ante dolor, iaculis nec, gravida ac, cursus in, eros. Mauris vestibulum, felis et egestas ullamcorper, purus nibh vehicula sem, eu egestas ante nisl non justo. Fusce tincidunt, lorem nec dapibus consectetuer, leo orci mollis ipsum, eget suscipit eros purus in ante. Mauris at ipsum vitae est lacinia tincidunt. Maecenas elit orci, gravida ut, molestie non, venenatis vel, lorem. Sed lacinia. Suspendisse potenti. Sed ultricies cursus lectus. In id magna sit amet nibh suscipit euismod. Integer enim. Donec sapien ante, accumsan ut, sodales commodo, auctor quis, lacus. Maecenas a elit lacinia urna posuere sodales. Curabitur pede pede, molestie id, blandit vitae, varius ac, purus.
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The substrate we're working with is DNA, which we can isolate and clone from a natural source, find within a repository such as the Registry of Standard Biological Parts, or have fabricated (i.e., chemically synthesized) by a DNA synthesis company such as DNA2.0 or GENEART.
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Morbi dictum. Vestibulum adipiscing pulvinar quam. In aliquam rhoncus sem. In mi erat, sodales eget, pretium interdum, malesuada ac, augue. Aliquam sollicitudin, massa ut vestibulum posuere, massa arcu elementum purus, eget vehicula lorem metus vel libero. Sed in dui id lectus commodo elementum. Etiam rhoncus tortor. Proin a lorem. Ut nec velit. Quisque varius. Proin nonummy justo dictum sapien tincidunt iaculis.
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Once you have your DNA, you're ready to get started with the realization of your design. Usually, the first step is the bacterial amplification of your starting material, DNA, which is usually housed on a plasmid.  Therefore, first transform ''E. coli'' with the appropriate DNA and allow the bacteria to propagate, thereby amplifying the amount of your DNA. The properly transformed bacteria can be selected for by including the appropriate antibiotic in the growth medium.
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*Really? Latin?  come on now I was going to try to learn something from this.  -[[User:Bussingkm|Bussingkm]] 14:34, 16 June 2009 (UTC)
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Specifically, you should spread out the (hopefully) transformed cells on an LB-agar dish and culture overnight. After selecting 5 colonies from the dish the next day, you should grow up 5 overnight liquid cultures (5mL volume is good).
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*The current song stuck in my head:
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oh susanna
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ne fleas propter me
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qui relinqui Alabamum
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cum viola propter te
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*Now this one is sweet:
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Catullus 5
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*Vivamus mea Lesbia, atque amemus,
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rumoresque senum severiorum
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omnes unius aestimemus assis!
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soles occidere et redire possunt:
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nobis cum semel occidit brevis lux,
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nox est perpetua una dormienda.
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da mi basia mille, deinde centum,
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dein mille altera, dein secunda centum,
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deinde usque altera mille, deinde centum.
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dein, cum milia multa fecerimus,
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conturbabimus illa, ne sciamus,
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aut ne quis malus inuidere possit,
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cum tantum sciat esse basiorum.
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*And:
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Horace 1.23
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Vitas inuleo me similis, Chloe,
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quaerenti pavidam montibus aviis
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matrem non sine vano
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aurarum et siluae metu.
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nam seu mobilibus veris inhorruit
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adventus foliis, seu virides rubum
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dimovere lacertae,
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et corde et genibus tremit.
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atqui non ego te tigris ut aspera
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Gaetulusve leo frangere persequor:
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tandem desine matrem
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tempestiva sequi viro.
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The first is genuinely sweet at least I think so. The second... make sure you get a good translation =)
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[[User:MandM|MandM]] 06:18, 18 June 2009 (UTC)
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Latest revision as of 19:40, 9 July 2009

Experimental (wetlab) planning

Biological engineering work flow

The figure above depicts the work flow involved with biological engineering projects. The design and synthesis phases are dependent on product specifications, components to build with and tools to put them together - these phases are synthetic biology-driven. The systems biology-driven steps are the analysis and model steps, which take advantage of high-throughput omics measurement technologies, bioinformatic approaches to organizing the generated data and computational biology methods to simulate biological systems. The design and model stages are largely carried out computationally whereas the synthesis and analysis steps require the use of the laboratory (i.e., wetlab).

Synthesis

Genetic engineering work flow

The substrate we're working with is DNA, which we can isolate and clone from a natural source, find within a repository such as the Registry of Standard Biological Parts, or have fabricated (i.e., chemically synthesized) by a DNA synthesis company such as DNA2.0 or GENEART.

Once you have your DNA, you're ready to get started with the realization of your design. Usually, the first step is the bacterial amplification of your starting material, DNA, which is usually housed on a plasmid. Therefore, first transform E. coli with the appropriate DNA and allow the bacteria to propagate, thereby amplifying the amount of your DNA. The properly transformed bacteria can be selected for by including the appropriate antibiotic in the growth medium.

Specifically, you should spread out the (hopefully) transformed cells on an LB-agar dish and culture overnight. After selecting 5 colonies from the dish the next day, you should grow up 5 overnight liquid cultures (5mL volume is good).