Cloning Genes

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Lebanon Valley College *

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MISC

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Biology

Date

Nov 24, 2024

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pdf

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4

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Section Objectives Students will be able to summarize the procedure used to clone a specific gene. Introduction In this section we will describe how to clone a specific gene . In this section we’ll put all of these techniques together to describe how to clone a specific gene . Scientists use the word clone differently than how it is used in movies. In movies, a clone is usually an exact copy of a person or animal. When biologists talk about a clone, they usually mean a copy of a piece of DNA or a gene that has been taken from its original source and put into E. coli to do experiments with (Figure 1). When we talk about “cloning a gene,” we mean the process of isolating a gene from a DNA sample, inserting it into a plasmid and then into E. coli . In this section we’ll wa lk through each step of this process. PCR One way to cut out the gene NLB-1 from a DNA sample is to use the restriction enzyme EcoRI. In this approach, we run the DNA sample out on a gel and look for a DNA fragment that is the same length as NLB-1. One problem you may run into with this approach is that because the human genome is so big, there could possibly be other DNA fragments cut up by EcoRI that are also about 10,000 DNA bases long. This will make it impossible to isolate NBL-1. A better way to isolate NLB-1 is to use PCR. First, primers are made for NLB-1 that cover the same section of DNA that have the site where EcoRI cuts. Next, the PCR reaction is run to make thousands of copies of just the NLB-1 gene. You can then run out the PCR reaction on a gel. This way, you should only get two bands: one big band for the original DNA sample, and a 10,000 DNA base band of NLB-1. You can then cut out the band and be confident that you have the gene. You now need to prepare the DNA for pasting into a plasmid. You do this by cutting it with a restriction enzyme. If you remember, we made sure that our primers covered the region on each end of the gene that have an EcoRI site. By cutting the gene with the enzyme, we can make sticky ends on each end of the gene at the EcoRI site.
Preparing the Plasmid Figure 1: Bacteria can be used to clone genes. Next, you need to prepare a plasmid to insert the gene into. You can actually order these from companies that specialize in growing the bacteria that have these plasmids. Several thousand copies of the plasmid DNA get mixed with the EcoRI enzyme to cut open the circular ring of DNA. The plasmid now has two sticky ends where it was cut. Inserting the Gene Figure 2: Cloning a gene takes very careful work in the laboratory. To insert the gene into the plasmid, all you have to do is mix the gene from the PCR reaction with the plasmid that was cut with EcoRI (Figure 2). Because both the gene and the plasmid have been cut with EcoRI, they will have the sticky ends that are complimentary to each other. DNA is a flexible molecule, and if you mix the gene, the plasmid, and the enzyme DNA ligase , eventually the gene and the plasmid will link up. DNA ligase will then seal them together. This produces recombinant plasmids with the gene NLB-1.
Making Copies The final step is to use E. coli bacteria to make copies of the gene for you. All of this work in the test tube has made perhaps a few thousands copies of the plasmid with the gene. With E. coli , you can make millions of copies. You need this many copies for most experiments with cloned genes. First, the E. coli are treated so that they will absorb DNA into their cells. Next, the E. coli are mixed with the DNA and given time to take the plasmid into their cells. The E. coli are then added to a large test tube filled with nutrients to allow them to grow. E. coli reproduce very quickly, and in less than 24 hours you can have millions of E. coli in the test tube, each one with a copy of the plasmid with the NLB-1 gene. Each one of these E. coli is a clone because they all started from the same test tube, have the same plasmid, and have the same NLB-1 gene. You can now do many different experiments with the bacteria. You can study what the NLB-1 gene does to the E. coli . You can isolate the protein from the bacteria and study its structure. You can even cause the gene to mutate and learn what happens to the polypeptide when a different amino acid is present. Whatever experiment you do, you are on the cutting edge of science. Summary Cloning is used commonly in the laboratory and consists of taking a piece of DNA and putting it into E. coli for experimental purposes. PCR is the most common lab technique used for cloning DNA. Concept Reinforcement 1. Explain the difference between how the word “clone” is usually used in movies, and what biologists mean. 2. What could happen if you aren’t careful and somehow cut more than just the gene NLB-1 to from your gel? How could this effect the rest of your experiment? 3. Explain why E. coli with the NLB-1 gene are considered to be recombinant bacteria.
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