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BIOLCHEM 415 Lecture Notes - Lecture 32: Phosphodiester Bond, Exonuclease, Trinucleotide Repeat Disorder

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purplebeaver856
21 Jul 2016
School
U of M
Department
Biological Chemistry
Course
BIOLCHEM 415
Professor
Raymond Trievel

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Document Summary

Other ways include things from environments such as chemicals, radiation, etc. Dna damage can cause a cell to growth arrest, undergo cell death, etc. Some mutations can cause normal cells to be turned into cancer cells. Varieties of errors can occur during replication, including substitution mutation. Can come in two different forms: transitions and transversions. Transition is a change from a purine to a purine or pyrimidine to pyrimidine. Transversions are changes from purine to pyrimidine or pyrimidine to purine. Other errors that can occur are insertions of one or more nucleotides. Can even great breaks in one or more strand. Once this happen, it can lead to the dna polymerase pausing and collapase the replication fork and cause a double stranded break. Within the cell, there are translesion polymerases which can replicate across the damage but produce a rough draft of the damage. Number of different genetic orders caused by repetitive sequences.

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Related Questions

1. In addition to identifying the genetic material, the experiments of Avery, MacLeod, and McCarty with different strains of Streptococcus pneumoniae demonstrated that
DNA is a double helix.
DNA may be taken up by bacterial cells and be active.
DNA is present in bacteriophage T2.
eukaryotic cells may be genetically transformed.
DNA binds to the cell wall of the bacterium.
2. In order to show that DNA in cell extracts is responsible for genetic transformation in Streptococcus pneumoniae, important corroborating evidence should indicate that _______ also destroy transforming activity.
temperatures high enough to kill cells
enzymes that hydrolyze proteins
enzymes that hydrolyze DNA
enzymes that hydrolyze polysaccharides
enzymes that hydrolyze RNA
3. Based on what you have learned about the experiments conducted by Griffith and Avery and colleagues with bacteria, which of the following would result in transformation of living R cells?
Pure RNA from S cells
Cell-membrane extracts from S cells
A mixture of pure RNA and protein from S cells
Cell-free extracts from S cells
Pure protein from S cells
4. A-T base pairs in a DNA double helix
form three hydrogen bonds with each other.
are more heat-stable than G-C base pairs.
are of a substantially different length than G-C base pairs.
are not accessible to DNA binding proteins.
are chemically distinct from G-C base pairs.
5. If 23 percent of the bases in a sample of double-stranded DNA are adenine, what percentage of the bases are uracil?
27
50
0
73
23
6. The uniform diameter of the DNA structure provides evidence for
antiparallel DNA strands.
a right-handed helix.
a double-stranded helix.
3′ end phosphorylation.
purine–pyrimidine pairing.
7. If a sequence of one strand of DNA is 5′-TGACTATC-3′, what is the complementary strand?
5′-ACTGATAG-3′
3′-TGACTATC-5′
3′-ACTGATAG-5′
3′-ACTGATAG-3′
5′-TGACTATC-3′
8. What structural aspect of the DNA facilitates dissociation of the two DNA strands for replication?
3′ end phosphorylation
Purine–pyrimidine pairing
Antiparallel DNA strands
Covalent bonds between sugars and phosphate groups
Hydrogen bonding between paired bases
9. If the Meselson–Stahl density gradient experiment had resulted in two bands of DNA molecules after only one round of replication, one containing only 15N and the second only 14N, this result would have indicated that replication was
unidirectional.
dispersive.
conservative.
bidirectional.

semiconservative.
10. The nucleoside analogue acyclovir, which is used to treat herpes simplex virus (HSV) infections, lacks a 3′ hydroxyl group (–OH). Predict what will happen if the host cell DNA polymerase incorporates a molecule of acyclovir into an elongating strand of HSV DNA.
The replication complex will no longer bind to origins of replication.
The DNA polymerase will only incorporate acyclovir molecules.
Acyclovir will bind single-strand binding proteins.
DNA polymerase will not be able to link a successive nucleotide.
Acyclovir will block the activity of the DNA helicase.
11. Which of the following does not demonstrate the stability of the DNA double helix?
Single-strand binding proteins are required to keep the strands apart.
Paired bases form hydrogen bonds.
High temperatures are required to denature it.
DNA synthesis requires energy.
DNA helicases require ATP.
12. What effect would a primase inhibitor have on DNA replication?
DNA polymerase would not be able to add bases to the DNA.
Primase would be blocked from joining the DNA replication complex.
Primase would not be able to provide primers for DNA polymerases.
DNA polymerase would not be able to use DNA as a template.
There would be no effect on DNA replication.
13. To replicate their DNA in a timely manner, most eukaryotic chromosomes
normally have uncoiled DNA.
have multiple origins of replication.
contain linear molecules of single-stranded DNA.
have two replication forks that move in the same direction.
are composed entirely of DNA.
14. Which statement about DNA replication is false?
Okazaki fragments are synthesized as parts of the leading strand.
Error rates for DNA replication are reduced by proofreading of the DNA polymerase.
The sliding clamp increases the rate of DNA synthesis.
Replication forks represent areas of active DNA synthesis on the chromosomes.
Ligases and polymerases function in the vicinity of replication forks.
15. In many eukaryotes, there are repetitive sequences called telomeres at the ends of chromosomes. After successive rounds of DNA replication, the _______ strand becomes shorter. In some cells, an enzyme called _______ repairs the shortened strand.
leading; telomerase
lagging; telomerase
lagging; DNA polymerase I
leading; DNA polymerase I
leading; replicase
16. A researcher studies normal human fibroblast cells. They can be maintained in culture but die off after about 30 cell generations. Unexpectedly, a colony of cells continues to survive and divide past 30 generations. Which scenario is most likely true for these cells?
DNA polymerase is constantly active.
Primase is able to extend the telomeres.
The mismatch repair system is extra efficient.
The telomerase gene is being expressed.
The cells do not need the ends of their chromosomes.
17. If DNA polymerase III introduces an incorrect nucleotide, what is the first corrective action made by the DNA repair system?
The replication complex excises the incorrect nucleotide.
The excision repair proteins remove the incorrect nucleotide.
The mismatch repair system scans for base-pairing mismatches.
There is no correction, because nucleotide errors by DNA polymerases are not repaired.
DNA ligase connects the correct nucleotide.
18. Choose the correct order of the following four events in the excision repair of DNA:
(1) Base-paired DNA is made complementary to the template.
(2) Damaged bases are recognized.
(3) DNA ligase seals the new strand to existing DNA.
(4) Part of a single strand is excised.
1, 2, 3, 4
2, 1, 3, 4
3, 4, 2, 1
2, 4, 1, 3
4, 2, 3, 1
19. Six complete cycles of PCR should result in a _______-fold increase in the amount of DNA.
64
32
12
128
6
20. When double-stranded DNA is heated to temperatures above 90°C, it denatures. Denaturation is a process that
breaks covalent bonds.
hydrolyzes DNA.
separates double-stranded DNA into two single strands.
causes new hydrogen bonds to form.
irreversibly destroys the double helical structure.

13. The arms of a human and the wing of a bat are _________________ structures, composed of the same bones that have been modified for different functions.

a. analogous
b. vestigial
c. homologous
d. convergent

14. Xeroderma pigmentosum is an autosomal recessive genetic disorder. People who are homozygous for the disease-causing allele have skin that is damaged by exposure to ultraviolet radiation; this can lead to skin cancer at an early age. The mutation that causes this disorder is in a gene that functions:

a. to repair DNA by excising (removing) nucleotides damaged by UV light.
b. in lysosomes, to break down lipids that otherwise accumulate in the nervous system.
c. to produce the UV blocking pigment melanin in the skin cells
d. in red blood cells to carry oxygen to the skin.

15. The Amish are a religious sect descended from a small group of colonists who came to the United States over 200 years ago. Their religious beliefs have kept them isolated from society. The Amish have a much higher than average incidence of both polydactyly (extra fingers and toes) and dwarfism in their communities. This is most likely explained by:

a. inheritance of acquired characters.
b. the founder effect.
c. disruptive selection.
d. natural selection.

16. In the structure of DNA that Watson and Crick proposed, the sides of the "ladder" of the DNA molecule are always the same distance apart, making the molecule a constant width. This occurs because when the bases hydrogen bond to form the rungs of the "ladder", a:

a. purine always pairs with a pyrimidine.
b. purine always pairs with a purine.
c. pyrimidine always pairs with a pyrmidine.
d. The structure of the double helix is not determined by how the bases pair.

17. The RNA transcript of DNA that travels to the cytoplasm, carrying the instructions to make a protein, is called:

a. rRNA.
b. tRNA.
c. mRNA.
d. RNA polymerase.

18. When DNA is replicated, the error rate is approximately one error for every 10,000 nucleotides copied. However, that error rate is reduced to only 1 error for every 1 billion nucleotides. The DNA sequence is "corrected" by:

a. repeating S phase to see if the error rate is lower the second time around.
b. enzymes that proofread the DNA and repair errors.
c. messenger RNA during the process of transcription.
d. Any errors made during DNA replication cannot be corrected. If errors are detected after S phase, the cell is destroyed.

19. Mendel's principle of segregation says that:

a. when gametes are formed, each gamete receives only one allele for a particular gene.
b. some genes are dominant to others.
c. a testcross must be used to determine the genotype of an organism with a dominant phenotype.
d. all of the above

20. Tay-Sachs disease is lethal before reproductive age, but the allele persists in Louisiana French Canadians because:

a. it is a dominant allele.
b. new mutations causing this disease are common in that population.
c. it is not expressed in the phenotype of heterozygous individuals.
d. the disease is contagious and can be transmitted by nonheritable means.

21. Physical features that are similar in organisms which are not closely related to each other are most likely a result of ____________. A good example of this is the similarities seen between some marsupial and placental mammals.

a. natural selection.
b. adaptation to similar environments
c. convergent evolution
d. All of the above phrases can be used to correctly fill this blank.

22. In humans, which of the following sex chromosome compliments could be found in males?

a. XY
b. XX
c. Y

23. The proteins that are associated with eukaryotic chromosomes:

a. help to package the DNA within the nucleus.
b. are involved in gene expression, through binding with the DNA.
c. may be replicating or transcribing the DNA.
d. All of these are true of proteins that are associated with eukaryotic chromosomes.

24. A sequence of DNA nucleotides that contains the information to produce a single protein is a(n):

a. codon.
b. gene.
c. polypeptide.
d. anticodon.

___1. Nationally, the most common cause of Down Syndrome is
a. nondisjunction of Chromosome 21 during meiosis
b. translocation of Chromosome 21 onto another chromosome
c. inversion of a large section of Chromosome 21
d. deletion of the Down Syndrome gene
___2. In humans, sex is determined by
a. The presence or absence of the Y chromosome
b. The ratio of X chromosomes to sets of autosomes
c. The temperature during fetal development
d. Which parent is stronger at the time of conception
___3. A translocation is
a. a chromosomal abnormality in which a piece of one chromosome breaks off and attaches to a different chromosome
b. an abnormality in which the chromosomes are translocated out of the nucleus
c. a condition in which the chromosome has broken in two places and come back together with the middle segment backward
d. an abnormality in which there is an extra copy of one chromosome
___ 4. In snapdragons, a red-flowered plant crossed with a white-flowered plant produces all pink-flowered offspring. But crossing two pink-flowered plants produces red, pink, and white in a 1:2:1 ratio. This is a good example of
a. Incomplete dominance
b. Dominance of the red allele over the white allele
c. Lethal effects of the pink allele
d. Sex-linkage of the flower-color alleles
___ 5. If a person with type AB blood marries a person with Type O blood, what blood types are possible in their children? (Assume this trait is a single-gene trait, not complicated by interaction with other genes).
a. A, B, AB, or O
b. A or B only
c. AB or O only
d. AB only 2
___6. In what phase of meiosis are haploid nuclei first formed? a. Anaphase I b. Metaphase II c. Telophase II d. Metaphase I e. Telophase I
___7. What is the phenotype of a heterozygous tall pea plant? a. tall b. Tt c. TT d. tt e. dominant
___ 8. If genes A and B are far apart on a chromosome, and A and C are close together, which of the following observations is expected?
a. Crossing over will occur more often between A and C than between A and B
b. Crossing over will occur at equal frequencies between A and C, and between A and B
c. Crossing over will occur more often between A and B than between A and C
___9. Sometimes an organism’s genotype for one gene masks the effect of a different gene. This phenomenon is called
a. Dominance
b. Incomplete dominance
c. Co-dominance
d. Epistasis
e. Variable expressivity
___10. The dominant allele of a gene is
a. The one that is expressed most often in a population
b. The one that is expressed most often in any particular cross
c. The one that is expressed in an individual that has two different alleles
d. The one that is most healthy to have, that gives the greatest fitness
___11. In human cells, DNA replication occurs
a. In S phase of interphase
b. In G1 phase of interphase
c. In G2 phase of interphase
d. In prophase of mitosis
e. Whenever the cell needs to read the DNA to make proteins
___ 12. A process in which recipient cells take up genes from DNA molecules floating free in the surrounding medium is called
a. conjugation
b. specialized transduction
c. generalized transduction
d. transformation 3
___ 13. Most calico cats are female. However, a few rare males are observed. What is the genotype of a male calico cat?
a. X BX 0
b. X OY
c. X BY
d. X BYY
e. X BX OY
___ 14. A type of red-green color-blindness is a sex-linked (X-linked) recessive trait in humans. Can a woman have this type of color-blindness?
a. Yes, a woman could be color-blind if her mother and father were both heterozygous.
b. Yes, a woman could be color-blind but only if she has an abnormal number of sex chromosomes.
c. No, women can't show sex-linked traits because they lack a Y chromosome.
d. No, women can't show sex-linked traits because they have two X chromosomes.
e. Yes, a woman could be color-blind if her father was color-blind and her mother was a carrier (heterozygous).