P1 L1 Flashcards

1
Q

What does forward/classical genetics seek to find?

A

The genetic basis of a phenotype or trait

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2
Q

How is phenotype defined in classical genetics?

A

It is the appearance of an individual or the manifestation of a particular genotype

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3
Q

What is the definition of genotype?

A

It is the specific composition of the genetic information

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4
Q

What is the main goal of classical genetics?

A

To isolate and analyze mutants to understand changes in DNA

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5
Q

What does reverse/molecular genetics seek to find?

A

What phenotypes arise from particular genetic sequences

Gene mutated -> Returned to Organism -> Observe Phenotype

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6
Q

What are the advantages of working with bacteria?

A
  1. easy to grow and manipulate
  2. haploid
  3. asexual reproduction
  4. clones can be isolated on agar plates
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7
Q

Define haploid and explain the advantage

A

one copy or allele of each gene - easier to identify mutations

only have one chromosome, also called a nucleoid.

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8
Q

Screening vs selection

A

Screening: shows different phenotypes
Selection: allows only one specific phenotype to grow.

Screening identifies resistant bacteria, while selection isolates rare mutants

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9
Q

What are bacteriophages?

A

Viruses that infect bacteria
This makes it possible to move DNA between bacteria

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10
Q

Gregor Mendel has:

A

a) showed that hereditary traits do not occur in random proportions in the offspring
b) carried out crossing experiments on pea plants

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11
Q

Johannes Friedrich Miescher

A

The chemistry of the nucleus.
He isolated phosphate-rich structures (nuclein) that are known today as nucleic acids.

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12
Q

Phoebus Levene

A

-> The chemical composition of nucleic acid.
“DNA is too simple to code genes”
He assumed that the proteins carry the genetic information

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13
Q

What are the 3 components of DNA?

A

Base + sugar + phosphate
(genetic information + structure and backbone)

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14
Q

DNA vs RNA

A

clockwise double helix

Sugar:
Desoxyribose vs Ribose

Bases:
[Adenine, Guanine, (purine)] [Thymin, Cystosin (pyramine)] vs
[Adenine, Guanine,] [Uracil, Cytosin]

Nucleoside:
dAdenosine, dGuanosine, dThymidine, dCytodine vs
aenosine, guanosine, uridine, cytadine

Nucleotide: (sugar + base)
dAMP, dGMP, dTMP, dCMP vs
AMP, GMP, UMP, TMP

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15
Q

DNA/RNA Pairing

A

A-T/U
C-G

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16
Q

What is the difference between DNA and RNA?

A

DNA contains thymine, while RNA contains uracil; DNA has deoxyribose, RNA has ribose

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17
Q

What is the significance of the 5’ and 3’ ends of a nucleotide chain?

A

They indicate the polarity of the strand, with 5’ being the phosphate end and 3’ being the hydroxyl end

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18
Q

Frederick Griffith’s research?


A

He studied/demonstrated bacterial transformation and the epidemiology of bacterial pneumonia with mice

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19
Q

What characteristic does the S-strain and R-strain of Streptococcus pneumoniae have?

A

S-strain: It has a polysaccharide capsule and is virulent
R-strain: strain has no capsule and is non-virulent

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20
Q

What did Griffith conclude about the transformation factor?

A

It was passed from the heat-inactivated S-strain to the living R-strain - mouse died

r - lives
s - dies
s inactivated - lives
s inactivated + r - dies ^^

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21
Q

Oswald Avery Findings

A

If the DNA is destroyed, the S-strain cannot be reactivated and the mouse remains alive. He discovered this through selection and tested this with other destroyed parts of the cell (e.g. proteins, RNA, lipids, etc.).

DNA = genetic information

22
Q

Erwin Chargaff contributions to the understanding of DNA?

A

He discovered the base pairing rules in DNA

23
Q

What is the structure of DNA as proposed by Watson and Crick?

A

A double helix with antiparallel complimentary strands

24
Q

What are the dimensions of a DNA in nm and per 10 base pairs?

A

Diameter: 2 nm
One turn: 3.4 nm (10 base pairs)
minor groove: 1.2 nm
major groove: 2.2 nm

1A = 0.1nm

25
Why are the major and minor grooves in DNA important?
They provide access for proteins to interact with specific DNA sequences
26
How must the bases be on the inside and the phosphate group on the outside?
Because of the repulsion / hydrophobic interactions between bases
27
What is the significance of the complementary nature of DNA strands?
The sequence of one strand provides information about the other strand
28
What is the importance of the antiparallel nature of DNA strands in replication and transcription?
It allows for the proper base pairing and directionality during replication and transcription
29
What are the predictions made by Watson and Crick regarding DNA?
-Duplication of DNA (Replication) -Coding of genetic information by meaningful sequences (genetic code) -Formation of mutations due to incorrect base pairing (tautomeric forms)
30
Why is it important that the hydrogen bonds of the base pairing are so weak?
So that the double strand can be split more easily into the 2 single strands for both reading and replication of DNA
31
What is a chromosome?
A chromosome is a long continuous strand of DNA that is wound as a double helix and contains all essential genetic information
32
What are the 2 functions of the genome?
1. replication -> It serves as a template 2. expression -> It serves as storage
33
What is the average length of a bacterial gene?
About 1000 bp long
34
What are the mechanisms to compact DNA?
-(Negative) supercoils -Histone proteins -SMC proteins (Structural Maintenance of Chromosomes) The DNA is either wrapped around itself or around the proteins. -> Supercoils
35
What is the relaxed state of double-stranded DNA?
Two strands are wrapped around each other once every 10.5 bp
36
How are supercoils created?
Through over- and under winding the DNA
37
Positive supercoiled
> 1 turn per 10.5 bp < 10 base pairs per turn - through the activation of the replication fork
38
Negative supercoiled
< 1 turn per 10.5 bp > 10 base pairs per turn - through Gyrase
39
What happens to DNA during replication in terms of supercoiling?
Positive supercoiling occurs in non-replicated regions negative supercoiling occurs in region that was just replicated
40
What is the function of topoisomerases?
To regulate the overwinding or underwinding of DNA
41
DNA>Process
Becomes overwound / positively supercoiled
42
DNA
underwound / negatively supercoiled
43
What type of DNA break does Topoisomerase I create?
Single-strand breaks - removes negative supercoils
44
What type of DNA break does Topoisomerase II create?
Double-strand breaks, energy dependant - ATP introduces superhelical structures removes the positive supercoil
45
How does negative supercoiling by gyrase work (5 steps)
A) Gyrase consists of the two subunits A and B B. The DNA binds to the gyrase. The DNA is now in subunit B and binds 2 ATP molecules C. The G segment of the DNA is cut off and the T segment is transported through the gap. An ATP molecule is hydrolysed in the process. D. The broken G segment is ligated and the 2nd ATP molecule is hydrolysed. The system returns to the initial situation.
46
What needs to be considered for supercoiling by gyrase?
The process consumes ATP. It is a type 2 toposiomerase. It removes positive supercoils and introduces negative supercoiling
47
How do quinolones affect gyrase activity?
Quinolones block the binding reaction of the gyrase. This leads to a lot of cells with double-strand breaks. These cells then die due to DNA damage.
48
What is the primary, secondary and tertiary structure of DNA?
a) Primary: The sequence of bases b) Secondary: The double helix c) The condensed loop structure
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