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Flashcards in Molecular Techniques Deck (64)
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1

What is a restriction enzyme?

An endonuclease produced by certain bacteria that cuts specific DNA sequences (restriction sites)

2

What do restriction sites usually contain?

Palindromes

3

What is a sticky end?

Where an endonuclease produces a staggered cut, leaving a few unpaired DNA nucleotides of one strand that extend beyond the other

4

What attribute does DNA gel electrophoresis separate fragments of DNA based on?

The size of the DNA fragment

5

In gel electrophoresis, what do DNA fragments move towards the positive or negative electrode? Why?

DNA fragments move towards the positive electrode, as they are negatively charged - DNA is negatively charged due to its phosphate groups

6

How will a small fragment of DNA move in comparison to a large fragment of DNA in gel electrophoresis?

A small fragment will move further, closer to the positive electrode, in comparison to a larger fragment

7

What is a plasmid? What specifically may a plasmid contain relevant to medicine?

A small circular double-stranded form of DNA found in bacteria - specifically, they may contain genes that infer antibiotic resistance

8

Describe the 4 basic steps of gene cloning.

- isolate the relevant gene of interest using restriction endonucleases
- insert this gene of interest into a plasmid vector, producing a recombinant DNA molecule
- introduce this recombinant DNA to a suitable host cell
- identify and clone the host cell containing the DNA of interest

9

Why would we clone human genes?

- to produce a protein of interest on a mass level
- find out what genes do
- screen for certain disorders (genetic screening)

10

What holds complemtary nuclear acids in a DNA sequence together?

Hydrogen bonds

11

Why is a primer needed in PCR?

Taq polymerase can only extend a double-stranded DNA sequence, so a primer must be used to provide the double-strand

12

In PCR, what temperature is the DNA first heated to? Why is this?

The temperature is raised to around 95C - this breaks the hydrogen bonds that hold the 2 complementary strands of DNA together

13

In PCR, once the double strands have been separated, what happens next? What does this allow?

The temperature is cooled to room temperature - this allows the primers (needed for Taq polymerase to begin double-strand synthesis) to anneal to the single stranded DNA sequences

14

What is special about Taq polymerase?

It is able to withstand extremely high temperatures (such as this that are enough to break DNA strands apart) without denaturing

15

What type of DNA changes is PCR used to investigate?

To investigate small insertions/deletions within a gene

16

In PCR, are the primers known beforehand?

Yes, in order to amplify the specific sequence that you want to mass produce (you therefore must also know the sequence you want to copy)

17

What 3 attributes can proteins be separated on in protein gel electrophoresis?

- size
- shape
- charge

18

How does protein gel electrophoresis separate proteins based on their size?

Larger molecules won't pass through the viscous gel as quickly as smaller molecules will

19

What is SDS-PAGE short for?

Sodium dodecyl sulphate polyacrylamide electrophoresis

20

What does sodium dodecyl sulphate (SDS) do?

SDS breaks down disulphide bonds, breaking a proteins secondary and tertiary structure and leaving only its primary structure (i.e. a linear polypeptide chain) - SDS also adds negative charge to this linear polypeptide chain

21

What does SDS-PAGE separate proteins based on?

It separates different proteins on the basis of their size

22

What does isoelectric focusing separate proteins based on?

It separates proteins based on their charge

23

Briefly explain how isoelectric focusing works.

A stable pH gradient is established within a gel after the application of an electric field - different proteins are added, and migrate to the point where they each a pH equal to their isoelectric point - the gel is then stained to show where the proteins are distributed

24

In isoelectric focusing, why do proteins stop migrating once they have reached the pH where they are at their isoelectric charge?

They have no net charge at their isoelectric point, and so will have no net charge at this pH, so will stop migrating

25

Briefly describe how 2D-PAGE works.

2D-PAGE firstly separates proteins by their isoelectric point - having done this it then separates proteins based on their size

26

When is 2D-PAGE particularly useful?

When diagnosing disease states in different tissues

27

What is proteomics?

The analysis of all proteins expressed in a genome

28

At which residues does trypsin cleave a protein?

Lysine & arginine

29

At which residues does chymotrypsin cleave a protein?

Tyrosine, phenylalanine, leucine, & tryptophan

30

How are polyclonal antibodies produced?

An antigen is first injected into an animal to initiate an immune response - after a series of time the animal should have developed antibodies against the antigen - blood is then extracted from the animal and purified to obtain the antibody