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- . Use the following sequence data to assign haplotypes and build a haplotype network for a 200 bp variable region that is sequenced from eight individuals. Polymorphic nucleotide positions are shown. Δ is a 1 bp deletion. Explain the logic supporting the network. If there are different nucleotide changes at one position, indicate the different changes on your network. Individual 24 56 92 119 146 172 haplotype 1 A C A T G G A 2 T C Δ C G G 3 A G A T A T 4 A G A T G T 5 A C Δ C G G 6 A G A T G G 7 A G A T A T 8 C C Δ C G G3 (a). The S-s antigen system in human is controlled by two codominant alleles, S and s. In a group of 3146 individuals, the following genotypic frequencies were found: 188 SS, 717 Ss, and 2241 ss. Calculate the frequency of S. O p = 0.3474 O p = 0.2877 O p = 0.1737 O p = 0.14383 (b). The S-s antigen system in human is controlled by two codominant alleles, S and s. In a group of 3146 individuals, the following genotypic frequencies were found: 188 SS, 717 Ss, and 2241 ss. Calculate the frequency of s. O q = 0.8263 O q = 0.9402 O q = 0.4701 O q = 0.1438
- . Discuss how Genome-wide association studies (GWAS) can be used to identify genetic risk loci for (a) diseases with complex inheritance and (b) pharmacogenomic genotype-phenotype associations. Draw on specific examples and experimental evidence in your discussion.. An Hfr+ strain is used to map three genes: ala, leu, and thr in an interrupted mating experiment. Hfr/ala+, leu+, thr+, camS x F-/ala-, leu-, thr-, camR The cross is initiated at time = 0, and at various times, the mating mixture is plated on three types of medium. Each plate contains minimal medium with chloramphenicol and the amino acids as listed in the table. The data represents the number of colonies growing on each plate. Time of interruption Nutrients added 5 min 10 min 15 min 20 min alanine, leucine 8 21 58 85 leucine, threonine 0 3 19 46 alanine, threonine 0 0 7 16 Based on these data, what is the order of gene transfer relative to one another and to the F-factor.#2.) Mary wants to further confirm if she is a carrier for this lethal gene. She was told that a new SNP marker was identified RFPL marker. She requested to do SNP test for all the DNA samples. The results are: her parents are heterozygous for SNPs (that is to say, one chromosome is wild-type and another one contains the SNP). The sister who passed away is homozygous for the SNP. Mary does not have this SNP. So now what is the probability of Mary as a carrier of the death gene?
- 1) Using the diagram below, sketch in the pattern of bands you would expect to see after digesting the DNA of the TT, Tt and tt genotypes of the TAS2R38 gene. Use the Base Pair Standards on the left of the diagram as a reference in drawing the positions of the bands. Base Pair TASTER GENO TYPE Standards (Base Pairs) TT Tt tt 500 400 300 200 100 501. What advantages do anonymous DNA markers afford for genetic mapping as opposed to traditional allelic markers associated with visible phenotypes? What are the disadvantages of anonymous DNA markers for mapping? 2. Would you be more likely to find SNPs in the protein-coding or in the noncoding DNA of the human genome?. A gene called Q has two alleles, QFand QG, that encode alternative forms of a red blood cell protein thatallows blood group typing. A different, independentlysegregating gene called R has two alleles, RC and RD,permitting a different kind of blood group typing. Arandom, representative population of football fanswas examined, and on the basis of their blood typing,the following distribution of genotypes was inferred(all genotypes were distributed equally betweenmales and females):QFQFRCRC 202QFQG RCRC 101QGQG RCRC 101QFQFRCRD 372QFQG RCRD 186QGQG RCRD 186QFQFRDRD 166QFQG RDRD 83QGQG RDRD 83This sample contains 1480 fans in total.a. Is the population at Hardy-Weinberg equilibriumwith respect to either or both of the Q andR genes?b. After one generation of random mating within thisgroup, what fraction of the next generation of football fans will be QFQF(independent of their Rgenotype)?c. After one generation of random mating, what fraction of the next generation of football fans will…
- 4e. You also study the expression of 3 different mutants for this gene. For each mutant answer the following: Does this mutation change the sequence of the protein produced? Why or why not? If it does change the sequence of protein be sure to write out the new sequence. If it does not change the protein sequence, what effect (if any) would you expect it to have on expression of the gene? 1 20 ORI 40 60 5'...TTCGAGCTCTCGTCGTCGAGATACGCGATGATATTACTGGTAATATGGGGATGCACTATC...3' 3' ...AAGCTCGAGAGCAGCAGCTCTATGCGCTACTATAATGACCATTATACCCCTACGTGATAG...5' * promoter4e. You also study the expression of 3 different mutants for this gene. For each mutant answer the following: Does this mutation change the sequence of the protein produced? Why or why not? If it does change the sequence of protein be sure to write out the new sequence. If it does not change the protein sequence, what effect (if any) would you expect it to have on expression of the gene? 1 20 ORI 40 60 5'..TTCGAGCTCTCGTCGTCGAGATACGCGATGATATTACTGGTAATATGGGGATGCACTATC...3’ 3'...AAGCTCGAGAGCAGCAGCTCTATGCGCTACTATAATGACCATTATACCCCTACGTGATAG...5’ promoter i. Mutant A has a single base pair substitution with the T/A being replaced with C/G base pair at position 35 (position denoted by the * in the sequence above). ii. Mutant B has a 2 G/C pairs inserted between position 19 and 20 (position denoted by the ^ in the sequence above).Associated SNPs outside of gene no effect on protein production or function. T G Associated SNPs within gene no effect on protein production or function Regulatory sequences A Coding region с T Noncoding SNP: changes amount of protein produced www.Biolnteractive.org Causative SNPs within gene Unassociated SNP far from gene on same chromosome or different chromosome Protein Coding SNP: changes amino acid sequence b. Which types of SNPs might be identified in a GWAS? 4. Consider the different types of SNPs shown in Figure 3: associated, unassociated, and causative (including both noncoding and coding). a. Which types of SNPs affect protein production or function for the gene of interest? Figure 3. A diagram showing various ways in which a SNP could be associated with a certain gene and its trait. GWAS in the News Read the following news release, which describes a GWAS study with dogs. Note that a dog's coat refers to its fur or hair. Variants in Three Genes Account for Most Dog Coat…