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BIOL 2111 Chapter Notes - Chapter 15: Chromosome, Cloning, Factor Viii

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raspberryfly921
22 Dec 2016
School
University of Windsor
Department
Biological Sciences
Course
BIOL 2111
Professor
Drandrewswan

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Document Summary

Chapter 15 genome wide analysis of genetic variation. Extensive allelic variation distinguishes individuals within a species. There is no such thing as a wild type human genome length. Polymorphic deletions, insertions, and duplications result in genome lengths that differ by as much as 1 percent in healthy individuals. A locus is now considered to be any location in the genome that is defined by chromosomal coordinates for the convenience of researchers, irrespective of biological function. A dna locus can contain multiple genes or no genes, it can be a single base pair or millions of base pairs, as long as it has a defined genomic location and length. Since a locus can be any defined segment of dna in the genome, an allele of the locus is any variation in the dna sequence itself, even if it has no impact on the expression of any trait.

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Related Questions

Expression vectors inprokaryotes do not make functional eukaryotic gene products inbacteria very well because

Answer Not sure which one ?!

· the codon sequence for prokaryotes is differentthan the codon sequence in eukaryotes

· there are no disulfide bridges formed in proteinsnormally made in prokaryotes

· prokaryotic expression vectors cannot translateeukarytic sequences

· eukaryotic genes have introns, and prokaryotesdon't

· eukaryotic genes have exons and prokaryotesdon't


I create a knockout mouseusing the agouti/black fur system \. When I cross the agoutioffspring of the originally engineered mouse, I find a ratio of 2agouti mice to 1 black furred mouse. What is the bestexplanation?

Answer not sure which one?!

· The gene knocked out was recessive.

· The gene knocked out was dominant.

· The gene knocked out was a lethalgene.

· The knockput was integrated into a random spot,and did not knockput the original gene.

A restriction enzyme cuts DNAand leaves the following end

xxCTGCA
xxG

Which of the following could be the sequence of the correspondingend of the other end of the cut DNA?

Answer

· xxG
xxCTGCA

· xxC
xxGTGCA

· xxCCGAT
xxG

· xxGGCTA
xxC


An SNP always occurs dueto

Answer

· a one base-pair change.

· a three base-pair change.

· a single restriction site change.

· a single amino acid change.

· None of these.


I PCR out a mutated gene in apatient with Lisenbee chorea (the inability to dance in acoordinated fashion) and I compare it to another patient with thatsame disease phenotype. One subject had a mutation on chromosome 4,and the other subject couldn't rock it because of a mutation onchromosome 5. This is an exampe of

Answer

· pleitropy

· locus heterogeneity

· allelic heterogeneity

· dominant negative mutation

· penetrance

In his experiments, Mendelnoted that when two traits are involved in a genetic cross, theyare inherited independently of each other. Though Mendel didn'tknow about chromosomes, this still holds true (mostly)because

Answer

· genes on the same chromosome are often mixedthrough meiotic crossover during the formation ofgametes.

· variant alleles of the same gene do not interferewith the phenotypic expression of the gentoype in different geneticloci.

· most higher organisms are diploid, making only twoalleles available for every genetic locus, and there is a 50/50chance of geting either allele from a single parent.

· expression of phenotypes can vary from thegenotypes because of encironmantal influences.

· chromosomes often recombine

Anticipation is caused by amutation that increases in expressivity over subsequentgenerations.

Answer

· True

· False

Question 44

I have a genotype that shouldproduce a specific phenotype, but some of the individuals with thegenotype do not demonstrate any evidence of the phenotype. I wouldconsider this an example of

Answer

· allelic heterogeneity.

· locus heterogeneity.

· penetrance.

· expressitivity.

· sheer luck.

Question

Which of the following doesnot occur during the PCR reactions?

Answer

· Changes in the reaction temperature by athermocycler

· Denaturation at high temperatures

· Synthesis of oligonucleotide primers

· Extension of primers by DNA polymerase

· Annealing of oligonucleotide primers

Question

DNA markers, or variantnon-coding regions of DNA, are DNA polymorphisms that are usefulfor genetic mapping.

Answer

· True

· False

A mosaic is an organismwith

Answer

· multiple genotypes within one organism

· multiple alleles within one genotype

· more than one color of fur

· transgenes added to the zygote beforedevelopement

· a wt phenotype but a mutated genotype

Question

Genotype causesphenotype.

Answer

· No, gentoype just influences phenotype.

· Yes, genotype is the DNA sequence that createsphenotype.

Question

A true genetic chimera can becreated by

Answer

· mutating a gene early on in the development of anorganism resulting in different alleles being present in theadult

· multiple fertilized eggs or zygotes fusing to formone embryo

· adding a transgene to the genome of an organismduring fetal development only

· adding cells of a different species to an adultorganism

· adding a transgene to the genome of an animal atany stage in development

Question

The ABO blood group can bestbe explained by the concept of _______.

Answer

· dominant traits

· recessive traits

· allelic heterogeneity

· locus heterogeneity

· vampirism

If a loss of functionmutation creates a dominant phenotype, it may be becauseof

Answer

· haploinsufficiency

· penetrance

· expressivity

· allelic heterogeneity

· locus heterogeneity

Please select the best matchfor each.

Answer

· PCR: Technique used to generatecopies of a DNA fragment

· Southern blot : Screeningprocedure used to assay DNA fragments

· RFLPs : DNA fragments generatedby restriction enzymes that vary in length betweenindividuals

· Northern blot : Screeningprocedure used to assay mRNA fragments

· Electrophoresis Movement ofmacromolecules in an electrical field

Answer

A.

Screening procedure used toassay DNA fragments

B.

Movement ofmacromolecules in an electrical field

C.

Screening procedure used toassay mRNA fragments

D.

DNA fragments generated byrestriction enzymes that vary in length betweenindividuals

E.

Technique used to generatecopies of a DNA fragment

A gene mutates, and theprotein produced has a novel way of interacting with the cell, andcreates a new phenotype because of this new functionality. This iscalled

Answer

· pleitropy

· locus heterogeneity

· allelic heterogeneity

· dominant negative mutation

· gain of function dominant mutation

Question 62

Mutations in the somaticchromosomes may be inherited by the next generation.

Answer

· True

· False


A degenerate PCR primer withmany variant sequences must be used to make multiple copies of agene

Answer

· if only the protein sequence of the gene productis known to construct the primers

· if the DNA you are using is cDNA to constructthe primers

· if the DNA you are using is genomic DNA to becopied

· if the DNA you are trying to copy iscDNA

· if the vector is prokaryotic and the transformedcell is eukarytotic

Question

Please select the best matchfor each term.

Answer

· Restriction enzyme


· PCR C

· Plasmid

· YAC A

· Dideoxynucleotide

Answer

A.

Endonuclease isolated frombacteria

B.

Eukaryotic cloningvector

C.

Method for amplification ofDNA sequences

D.

Small circular fragment ofDNA

E.

Molecule used in DNAsequencing

Question

A couple goes on MauryPovitch, and the results are in: you are not the father. But noother man impregnated the female (granted, unlikely for a MauryPovitch guest, but work with me here) and he must be the father.DNA analysis claims otherwise, though the child definitely wasmom's (poor thing). What may be going on here?

Answer

· the child is parthenogenic because the motheractually impregnated herself like a shark, and the child's DNA isall mom's

· the child had a mutation that changed the genethat is used to trace paternity

· the child is a mosaic because he is actually a setof twins fused early during fetal development, and therefore camefrom 2 eggs and 2 sperm

· the dad may have germ-line mosaicism, meaning thatthe genotype of his sperm is different from his somaticgenotype

· mitochondrial DNA only comes from mom, so there isno way to tell whobthe baby's father is




Question 1

1 pts

Cystic fibrosis is caused by nonsense and missense mutations in the CFTR gene, which encodes for a chloride channel. You are studying cystic fibrosis patients to determine what mutation they possess in the CFTR gene. The difference between the mutant and wild type CFTR genes can be uncovered by examining the CFTR:

DNA

mRNA

protein

tRNA

Question 2

1 pts

You decide to identify the CFTR mutation by analyzing the genomic DNA of your patients compared to healthy individuals. You specifically are looking to see whether a specific 3' gene truncation has occurred in the patients. You will determine this using hybridization techniques with samples from healthy and CF patients. Which of the following will allow you to accomplish this?

Using an RNA probe complementary to the region not removed by the truncation.

Using an RNA probe complementary to the region removed by the truncation.

Using an DNA probe complementary to the region not removed by the truncation.

Using an DNA probe complementary to the region removed by the truncation.

Question 3

1 pts

You would like to ensure that this experiment (to determine whether patients have a specific CFTR gene truncation using hybridization) is properly controlled. Which of the following samples must you test?

The genomic DNA of a healthy individual who does not have cystic fibrosis.

The genome of a CFTR patient known to have the specific truncation you are trying to identify.

The genome of a CFTR patient with a missense mutation but full length gene.

The genome of a healthy individual married to a CFTR patient with the specific truncation you are trying to identify.

The genome of a patient with muscular dystrophy, which can be due to a trucation in the dystrophin gene.

Question 4

1 pts

To conduct the hybridization experiment, you are trying to decide between using a DNA or RNA probe. Which would be ideal to use and why?

As both are composed of nucleic acids, using either would result in identical results.

An RNA probe because RNA has uracil bases.

An RNA probe because it could also be used in a translation experiment.

A DNA probe because it is more stable than RNA.

A DNA probe because RNA cannot bind to DNA.

Question 5

1 pts

Which of the following will lower the Tm of a given DNA strand?

Increasing the percentage of GC base pairs.

Raising the pH of the solution from neutral to basic.

Decreasing the buffer concentration from 50mM NaCl to 5mM NaCl.

None of the above.

Question 6

1 pts

One step of the Hershey/Chase experiment involved blending the virus/cell mixture before centrifugation and probing the pellet for radioactivity. Why was the blending step necessary?

To collect the bacteria at the bottom of the tube.

To break open the bacteria to release the genome.

To separate the bacteria from the bacteriophages.

To be able to detect the radioactivity.

Question 7

1 pts

Imagine Hershey/Chase had used an RNA virus (genome composed of RNA) instead of a DNA virus in their experiment. Would radioactivity still have been found in the pellet?

No, because only DNA can be labeled with radioactivity.

No, because the RNA genome would not enter the bacteria upon infection.

No, because while DNA and RNA nucleotides are similar, they are not identical.

Yes, because DNA and RNA nucleotides are similar.

Yes, because genome in any form (DNA, RNA, protein) would be labeled similarly.

Question 8

1 pts

Griffith and Avery's transformation experiments allowed us to identify that DNA is our genetic information. Which of the following scenarios would result in bacterial cells that are capable of killing mice upon injection?

Heat killed non-virulent bacteria is added to a live virulent bacteria strain.

Heat killed virulent bacteria is added to a heat killed non-virulent bacteria strain.

A heat killed virulent bacteria that is treated with a nuclease, is then added to a non-virulent bacteria strain.

Heat killed mouse cells are added to a non-virulent bacteria.

Question 9

1 pts

The human genome consists mostly of non-coding DNA. Which of the following are benefits of this?

Random DNA mutations generally won't affect RNA and protein function.

It is faster to duplicate the genome when these are present.

The existence of introns can lead to multiple variations of proteins encoded by a single gene.

It is unlikely transposons would exist in the genome if there was too much protein coding DNA.

Question 10

1 pts

Andrew Murray's sister, Andrea, is adding to her brother's work on chromosomes. She is using cells that are unable to synthesize adenine (∆ade) and histidine (∆his). The plasmid she is currently working with consists of an origin of replication and the Ade gene.

Following her transformation of the plasmid into her yeast, what media will the cells be plated on to select for cells that have picked up the plasmid?

Media containing histidine

Media containing adenine

Media lacking adenine

Media lacking histidine

1). Thyroid hormone (TH) has been identified as one of the factors promoting phenotype development in the Mexican axolotl salamander. Which of the following statements regarding the impact of TH is FALSE?

A). Axolotls maturing in water with high concentration of TH (thyroxine; T4) metamorphose into a terrestrial form.

B). A genome-wide scan of both the axolotl and its sister species found a large reduction in the number of mRNA transcripts that regulate the production of TH.

C). Adding TH (thyroxine; T4) to the water in which axolotl individuals are reared causes them to remain in a larval stage.

D). Most salamander species produce a burst of TH when they move from water to land.

2).What would be an appropriate evolutionary explanation of the fact that the ordering of some homeotic genes (such as Hox genes) on vertebrate chromosomes parallels the ordering of homeotic genes on fruit fly chromosomes?

A). The similarity is a coincidence, not documented in other invertebrates and largely a result of random mutations.

B). Homeotic genes show that insects and vertebrates are closer relatives than the traditional classification system indicates.

C). Homeotic genes of different animal lineages might be ordered in a similar fashion, yet their sequences are completely different.

D). The similar ordering of homeotic genes in animals, both vertebrate and insect, is due to ancient homology.

3). Which of the following correctly defines "homeotic genes"?

A). Homeotic genes encode proteins that control the cellular environment in a differentiated cell tissue.

B). Homeotic genes are DNA sequences that turn off, but not on, the expression of other genes and are controlled by "master-switch" genes.

C). Homeotic genes are "master-switch" genes that control other genes in a set sequence and thereby affect cell size, shape, division, and the positioning of the cells within the organism.

D). Homeotic genes are DNA sequences that turn on, but not off, the expression of other genes and are controlled by "master-switch" genes.

4). Which of the following is NOT considered a type of heterochrony (change in the rate and timing of development)?

A). hypermorphosis

B). acceleration

C). neoteny

D). ontogeny

5). How does the dominance theory explain why the heterogametic sex is at a disadvantage in Haldane's rule?

A). Beneficial dominant alleles will never be fully expressed in hybrids as they only carry one copy of the sex chromosome that carries the allele.

B). If a dominant allele has a negative effect on the fitness of hybrids, it will always be expressed in the heterogametic hybrids that possess that allele because they only need one copy of the respective sex chromosome.

C). If a recessive allele linked to a sex chromosome has a negative effect on the fitness of hybrids, that allele will always be expressed in the heterogametic hybrids that possess that allele because they only have one copy of the sex chromosome that carries the allele.

D). If a recessive allele linked to a sex chromosome has a positive effect on the fitness of hybrids, that allele will never be expressed in the heterogametic hybrids that possess that allele because they only have one copy of the sex chromosome that carries the allele.

6). In a hypothetical flowering plant species, one population evolves a different response to environmental stimuli and begins to bloom significantly later in the season than nearby populations. What type of reproductive isolating mechanism would this be?

A). hybrid sterility

B). postzygotic

C). prezygotic

D). gametic incompatibility

7). In a study of red spruce trees and black spruce trees, scientists found that the red spruce was living in a smaller geographic area and had much less genetic variation than the black spruce. They proposed that the red spruce might have arisen from a southern population of black spruce, which became geographically isolated from other black spruce populations at some point during the Pleistocene glaciations. What is this an example of?

A). allopatric speciation with the vicariance model

B). sympatric speciation

C). allopatric speciation with the peripheral isolate model

D). sympatric speciation with the ring species model

8). Which of the following defines Haldane's rule and its predictions?

A). If among hybrid offspring one sex is absent, rare, or sterile, that sex is always male.

B). If among hybrid offspring one sex is absent, rare, or sterile, that sex is always female.

C). If among hybrid offspring one sex is absent, rare, or sterile, that sex is heterogametic (has two different sex chromosomes).

D). If among hybrid offspring one sex is absent, rare, or sterile, that sex is homogametic (has two of the same sex chromosomes).

8.) Which of the following statements best explains secondary reinforcement?

A). If the reproductive isolating mechanisms that developed during the geographic isolation are strong but the hybrids have higher fitness than the parent species, then the speciation process will cease.

B). If the reproductive isolating mechanisms that developed during the geographic isolation are somewhat weak but the hybrids between two populations have lower fitness, then the speciation process may continue.

C). If the reproductive isolating mechanisms that developed during the geographic isolation are sufficiently weak as to allow free interbreeding across reunited populations, then the speciation process will halt and a single species will remain.

D). When geographic isolation comes to an end, two populations always complete the divergence process and become separate species.