The document discusses determining the size of linear and relaxed plasmid DNA bands separated by gel electrophoresis.
It describes measuring a linear plasmid band at 32mm, corresponding to a size of 2.5kb. The relaxed plasmid band moves more slowly, indicating it is larger than the supercoiled plasmid band.
It recommends using the size standard curve to determine if an unknown linear band matches the expected size of pUC18 or a different plasmid by comparing migration distances on repeated runs. A higher percentage gel will slow DNA migration more, so band sizes may appear smaller than calculated. GelRed stains DNA for UV detection due to structural similarities between the dye and nucleic acids.
The document discusses determining the size of linear and relaxed plasmid DNA bands separated by gel electrophoresis.
It describes measuring a linear plasmid band at 32mm, corresponding to a size of 2.5kb. The relaxed plasmid band moves more slowly, indicating it is larger than the supercoiled plasmid band.
It recommends using the size standard curve to determine if an unknown linear band matches the expected size of pUC18 or a different plasmid by comparing migration distances on repeated runs. A higher percentage gel will slow DNA migration more, so band sizes may appear smaller than calculated. GelRed stains DNA for UV detection due to structural similarities between the dye and nucleic acids.
The document discusses determining the size of linear and relaxed plasmid DNA bands separated by gel electrophoresis.
It describes measuring a linear plasmid band at 32mm, corresponding to a size of 2.5kb. The relaxed plasmid band moves more slowly, indicating it is larger than the supercoiled plasmid band.
It recommends using the size standard curve to determine if an unknown linear band matches the expected size of pUC18 or a different plasmid by comparing migration distances on repeated runs. A higher percentage gel will slow DNA migration more, so band sizes may appear smaller than calculated. GelRed stains DNA for UV detection due to structural similarities between the dye and nucleic acids.
Determining the molecular size for the linear plasmid:
Measurement of plasmid: 32mm.
Therefore, gaining a size of 100.4 = 2.5Kb
Question 2: The plasmid that is larger is the relaxed plasmid as it is placed behind the Super- coiled plasmid within the lane, indicating that it is much slower in movement. This slow movement will result in the observation that it is much larger in comparison to the supercoiled plasmid hence the slow movement. Question 3: A simple of on deciding if the linear band is from pUC18 or from a different plasmid is by using the method within question 1, using the standard curve in over to determine the mass or the molecular size. Knowing this, repeating the experiment again to now where the plasmid will travel to and compare. Question 4: A higher percentage gel will just make the pore size smaller, hence the larger bands of the DNA will not travel as far compared to a smaller percentage. Hence to go about this, will be taking into account a ratio of 0.8:1.5 so the ratio of the gel is kept within the calculations of determining the molecular size. The plasmid size within calculation or theoretically will be the same size, but in reality, the size will be smaller in comparison. Question 5: Gel red binds to DNA due to sharing a similar structure and staining process for the ultraviolet light detection of the DNA and RNA bands.