Chapter 10 - The Chemical Nature of the Gene Flashcards

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1
Q

Before the chemical nature of genetic material was known, scientists knew that genetic material must be capable of doing what 3 things? ___ large amounts of ___; ____ faithfully; and ____ the ____.

A

(1) Encode (store) lots of complex info; (2) replicate w/ high fidelity (faithfully); (3) encode the phenotype

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2
Q

According to Chargaff’s rules, if a genome is 25% adenine, what is the percentage of each of the other three nucleotides? If 22% adenine?

A

25% each.

22% thymine; 28% cytosine; 28% guanine

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3
Q

If Avery, MacLeod, and McCarty had found that samples of heat-killed bacteria treated with DNase or RNase transformed bacteria, but samples treated with protease did not, what conclusion would they have made?

A

Genetic material must be composed of protein.

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4
Q

Suppose Hershey and Chase found that phage ghosts contained 32P label but the label was absent from infected E. coli. Furthermore, suppose they found 35S lacking in the ghosts and present in the infected E. coli. They would have concluded:
A. that protein was the genetic material in phage.
B. that DNA was the genetic material in phage.
C. that somehow the radioactivity prevented DNA from getting into E. coli.
D. that protein and DNA together made up the genetic material.

A

A. that protein was the genetic material in phage.

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5
Q

How do the sugars of RNA and DNA differ?

A

The sugar of RNA has a hydroxyl group on C 2’ that is not found in the sugar of DNA

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6
Q

A new virus has been discovered in a species of bacteria that inhabit hot springs. The viral genome is found to consist of four ribonucleotides in the following ratios: 8% A, 42% C, 42% G, and 8% U. The genome is most likely ___________, but it could be ____________.
A. double-stranded DNA; double-stranded DNA
B. double-stranded RNA.; single-stranded RNA
C. single-stranded DNA; single-stranded RNA
D. single-stranded RNA; double-stranded DNA

A

B. double-stranded RNA.; single-stranded RNA

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6
Q
A new virus has been discovered in a species of bacteria that inhabit hot springs. The viral genome is found to consist of four ribonucleotides in the following ratios: 8% A, 42% C, 42% G, and 8% U. The genome is most likely \_\_\_\_\_\_\_\_\_\_\_, but it could be \_\_\_\_\_\_\_\_\_\_\_\_.
A. dsDNA; dsDNA
B. dsRNA.; ssRNA
C. ssDNA; ssRNA
D. ssRNA; dsDNA
A

B. dsRNA.; ssRNA

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7
Q

A new virus has been discovered in a species of bacteria that inhabit hot springs. The viral genome is in the following ratios: 8% A, 52% C, 30% G, and 10% U. The genome is most likely ___________.

A

ssRNA

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8
Q

By the late 1800s, DNA was discovered, and it was known that it contained ____ and ____ (50%/50%), and four ___ ____.

A

DNA; protein; nitrogenous bases

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9
Q

Until the mid 1900s, it was thought that genes were made of _____ because DNA seemed to be too simple.
Additionally, Levene incorrectly theorized the ____ hypothesis (where bases repeated in ___ amounts), mainly because of the ___ he used and the lack of ____ in his samples.

A

protein.

tetranucleotide; equal; technology; diversity

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10
Q

In the 40s and 50s, Chargaff was able to overcome 2 of Leven’s problems by using ___ technology and with increased sample ____. He was able to conclude that the percent of __ and __ bases varied greatly depending on the source of DNA, and were not ___/___ as Levene’s tetranucleotide theory stated.

A

TLC; diversity

G + C; 50/50

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11
Q

Griffith’s experiment with S. pneumoniae serotypes IIR and IIIS lead to the discovery of the _____ principle. In his experiment, he mixed __-__ strains of IIIS with IIR, and after infecting mice, he recovered ___. This is how ____ got its name.

A

transforming.

heat-killed; IIIS.

transformation

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12
Q

In an experiment by Avery, MacLeod, and McCarthy, the ___ Principle was identified by creating a ____ from IIIS (only ___ molecules are needed), adding RNase, protease, and DNase to each of 3 aliquots, and added an aliquot to each of 3 cultures of IIR. IIIS was recovered in all but the ___-treated culture. They were able to conclude that ___ is the ___ factor.

A

Transforming; filtrate; soluble

DNase-treated

DNA; transforming

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13
Q

The Hershey-Chase experiment further cemented DNA as the genetic material by preparing 2 cultures of T2 with E. coli: one with a ___ label (binds to protein); and one with a ___ label (binds to DNA). The T2 were isolated, and new batches of E. coli were infected. Aliquots of each culture were centrifuged, and the supernate and pellet were tested. ___ was found in the supernate; ___ was found in the pellet indicating that ___ was the molecule being injected by T2 and passed to progeny.

A

35S; 32P.

35S; 32P; DNA

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14
Q

Watson & Crick were able to elucidate the 3D structure of DNA from X-ray ____; the work was done by ____ and ____.

A

diffraction

Wilkins; Franklin

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15
Q

The primary structure of DNA is the ___ ____; secondary is the ___ ___; tertiary is ___ ___.

A

nucleotide sequence; helical structure; chromatin organization.

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16
Q

DNA is a polymer of ____, and is the largest ____ in the cell.

A

Nucleotides; macromolecules

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17
Q

Name the 3 components of nucleotides.

A

Nitrogenous base, pentose sugar, and a phosphate (1, 2, or 3).

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18
Q

Regarding nucleotide structure: the carbons joined to the oxygen found in pentose are __ and __, and the __ carbon is joined to the __ carbon.

A

1’ and 4’; 5’ joined to 4’

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19
Q

Phosphates form a __ bond with the __ and __ carbons; and the bases bond to the __ carbon to form a __ bond.

A

Covalent; 5’ and 3’; 1’; glycosidic.

20
Q

If the hydroxyl group is missing from the _’ carbon, ___ stops. This has been exploited in development of anti-__ and anti-__ drugs.

A

3’; synthesis.

anti-cancer and anti-viral

21
Q

Purine v. pyrimidine? Which bases belong to each category?

A

Purines have 2 rings, pyrimidines have 1.

Adenine and guanine are purines; cytosine and thymine/uracil are pyrimidines.

22
Q

Nitrogenous bases - factoids:
The __’ carbon of ___ is sometimes methylated in bacteria.
Thymine and Uracil are almost identical, but thymine is __ at the __’ carbon.

A

7’; adenine

methylated; 5’ C

23
Q

Deoxyadenosine 5’-monophosphate (dAMP) has what major molecules attached where?

A

Pentose with an adenine attached to 1’ and phosphate attached to 5’.

24
Q

Why is RNA limited by the number of 3D configurations it can assume (relative to DNA)? What does that cause?

A

Steric hinderance of hydroxyl on 2’ C.

Causes RNA to be more reactive.

25
Q

Each nucleotide (RNA or DNA) is joined by a __ bond (covalent). During synthesis, the __’ phosphate of the nucleotide forms the ___ bond with the __ group on the __’ carbon.

A

phosphodiester.

5’; phosphodiester; -OH; 3’

26
Q

The strong negative charge of a nucleotide is usually neutralized by ___ proteins in eukaryotes.

A

histone

27
Q

The 3’ C end of a nucleotide usually ends with a __.

A

-OH

28
Q

Considering the secondary structure of DNA, two ____ chains wrap around each other (__ ___); the __-__ backbone is outside, and the ___ are stacked on the inside. Both strands run ___ to each other.

A

polynucleotide; double helix; phosphate-sugar; bases.

Antiparallel

29
Q

DNA interior: a __ and __ pair together with __ H bonds between A-T and __ H bonds between G-C.

A

purine and pyrimidine; 2; 3

30
Q

When denaturing DNA, it’s the ___ bonds that are broken, not the ___ bonds.

A

hydrogen; phosphodiester

31
Q

Hydrogen bonds only work over ___ distances (only __% of a covalent bond); however, they are critical for ___ and ___ because separating the strands is done with greater ease.

A

short; 5%; replication; transcription

32
Q

A hydrogen bond is a weak ____ interaction between a hydrogen that is ___ bonded to one electronegative atom, but pulled by the ___ of another atom. Although weak, multiple hydrogen bonds are ___.

A

electrostatic; covalently; electronegativity.

stabilizing

33
Q

__-__ sequence of nucleotides will be found where separation is important.

A

A-T

34
Q

One strand of DNA is ____ to the other strand.

A

complementary

35
Q

__-DNA is most likely the structure of DNA in a cell. It rotates in a ____ direction (___-handed helix), and has a __nm diameter with the bases nearly ___ to the long axis.

A

B-DNA

Clockwise; right-handed; 2nm; perpendicular

36
Q

Why are major and minor grooves different? What role to they play in replication and transcription?

A

The bases are almost perpendicular, but not completely.

Proteins can fit in the grooves to scan for promoter sequences.

37
Q

A-form DNA is likely due to ____. Z-DNA can form with repeating __-__ sequences and rotates ___ (__-handed), but may or may not play a __ role.

A

dehydration.

G-C; counterclockwise; left-handed; biological

38
Q

Subtle changes in the secondary structure of DNA (its ___) may be important for ___ ____ (not just the sequence). These variations can be influence by the DNA ___ and by the ____.

A

topology; gene regulation.

sequence; environment.

39
Q

The ___ of the ___ met the first requirement for encoding of complex information; and the ____ nature of the strands met the second requirement for faithful replication of genetic information.

A

sequence of the bases; complimentary

40
Q

The ___ information pathway of DNA is equivalent to the ___ ___ that Crick proposed. The ___ information pathway was the first contradiction to this proposal because transcription was ____.

A

major; central dogma

special; reversible / bidirectional

41
Q

On what molecule would one find an inverted repeat? Why do they form? What two forms can they assume?

A

usually ssDNA or ssRNA

to stabilize the molecule.

Hairpin loops and stem structures.

42
Q

Given 3’-AAAG, find the inversion (all answers are 5’ to 3’):

a) AAAG…CTTT
b) TTTC…AAAG
c) CTTT…AAAG
d) TTTC…GAAA

A

d) TTTC…GAAA

43
Q

A ___ structure is an inverted repeat with a ___ and a stem. The loop lacks its ____ pair.

A

hairpin; loop.

complimentary

44
Q

A ____ is an inverted structure that has no loop.

A

stem

45
Q

The secondary structure of ssDNA/ssRNA includes __ and __ inversions. Their configuration enables ___ activity.

A

loop and stem inversions.

biological

46
Q

DNA methylation is the addition of a methyl group ____ synthesis has occurred. It’s important in DNA ____, DNA ____ and gene ____ (impacts ____ and genetic ____).

A

after.

replication; repair; regulation; (epigenetics; imprinting)

47
Q

What is the “rate-limiting step” for DNA replication and transcription?

A

The amount of time it takes to open the complex (pull it open).

48
Q

- pairing can facilitate opening the helix due to the ___ H bonds; however, ___ also play a vital role - they can bend or distort the ____ structure to expose ____ for transcription.

A

A-T; double; proteins; helical; sequences