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Point Mutations Mutations involving a few nucleotides, sometimes as few as a single one (SNPs) 04/19/10
SNPs ,[object Object],[object Object],04/19/10
A Reminder ,[object Object],04/19/10
Shape and AA Sequence 04/19/10 Genistein, bound to estrogen receptor-b. Only two amino acids (shown) differ between the two estrogen receptors.  ( purple : ER-a)  ( yellow:  ER-b)
Point Mutations ,[object Object],[object Object],[object Object],[object Object],04/19/10
Links ,[object Object],04/19/10
Point Mutation ,[object Object],04/19/10
Point Mutations:  Mutating a codon – SNP Effects  ,[object Object],[object Object],[object Object],[object Object],[object Object],04/19/10
Point Mutations  Mutating a codon – SNP Effects: ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],04/19/10 mutation 1 1 AA difference
Point Mutations  Mutating a codon – SNP Effects:  ,[object Object],[object Object],[object Object],[object Object],[object Object],04/19/10 mutation 1 ,[object Object],[object Object],1 AA difference
Point Mutations  Mutating a codon – SNP Effects: ,[object Object],[object Object],[object Object],04/19/10 mutation 1 mutation 2 1 AA difference ,[object Object],[object Object],[object Object],Sequence unchanged
Point Mutations:  Mutating a codon – Effects of SNPs ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],04/19/10 mutation 2 mutation 1
Point Mutations:  Mutating a codon ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],04/19/10 2 1 ,[object Object],[object Object],[object Object],[object Object]
Point Mutations Can Happen During  DNA Repair 04/19/10
SNP Effects – e.g. Frame Shift ,[object Object],[object Object],[object Object],04/19/10
How Mutations May Happen ,[object Object],[object Object],[object Object],[object Object],[object Object],04/19/10
Point Mutation Types - Overview ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],04/19/10 G
Silent Mutations – Not Always Silent ,[object Object],04/19/10
Mutations in PIK3CA Where is this gene mutated? 04/19/10
Structure of phosphoinositide 3-kinase gamma   ,[object Object],[object Object],04/19/10 A kinase is an enzyme that places a phosphate onto another protein. More specifically, kinases take the gamma (= 3 rd ) phosphate from ATP and place it on a serine, threonine, or tyrosine amino acid of the target substrate.
Mutations in PIK3CA ,[object Object],[object Object],04/19/10
Why Might Anyone Want to Know This? 04/19/10
PIK3CA A Possible Cancer Treatment? ,[object Object],04/19/10
Genes and Environment 04/19/10
Gene Expression And The Environment ,[object Object],[object Object],[object Object],04/19/10
Genes and Environment ,[object Object],04/19/10
Genes & Environment ,[object Object],04/19/10 Cuttings from the 7 different plants on the left, grown at different altitudes:
Gene, Smoking Combo Boosts Risk of Elderly Vision Loss ,[object Object],[object Object],[object Object],[object Object],04/19/10
Without the Presence of the Environmental Factor, These Genes Do Not Lead to Disease 04/19/10 Read about:  Genetics, race, ethnicity, and health   A SAMPLING OF ENVIRONMENTAL GENES Polymorphism Function Environmental exposure Associated disease CYP1A1 Activation Smoking Lung cancer NAT2 Detoxification Smoking Bladder, breast cancer GSTT1 Detoxification Chlorinated solvents Cancer, toxicity Paraoxonase Detoxification Nerve agents, pesticides Nervous system damage HLA-H Nutritional factors Iron in diet Hemochromatosis TGF-alpha Growth factor Maternal smoking Cleft lip & palate Locus on chrom. 17 in mice Immune/inflammatory response Ozone Lung inflammation HLA-DP bet1 marker Immune response Beryllium Chronic beryllium disease (lung disorder) ALAD Biosynthesis Lead Lead poisoning
More about diseases (heart, cancer, diabetes) and environment  here  (very informative!) 04/19/10
Genes and Skin Color 04/19/10
Genes And Skin Color Findings From Golden Zebra Fish ,[object Object],[object Object],04/19/10
Two Primary Alleles for Skin Color Gene ,[object Object],04/19/10
A SNP Determines Skin Color in Many People ,[object Object],[object Object],[object Object],04/19/10
Gene SLC24A5 ,[object Object],[object Object],[object Object],[object Object],04/19/10
04/19/10 Published by AAAS R. L.  Lamason et al.,  Science  310, 1782 -1786 (2005)  Fig. 6. Effect of SLC24A5 Genotype on Pigmentation in Admixed Populations
Genes and the  Size of a Dog A SNIP in the IGF-1 Gene Determines Dog Size 04/19/10
[object Object],[object Object],[object Object],[object Object],04/19/10 Published by AAAS N. B.  Sutter et al.,  Science  316, 112 -115 (2007)  Relationships of skeletal size, SNP markers, IGF1 haplotype, and serum levels of the IGF1 protein in dogs ,[object Object]
This Rabbit Must Have The Large Version 04/19/10
Last Not Least Genes and HIV Progression 04/19/10
Effect of a Single Amino Acid Change in MHC Class I Molecules on the Rate of Progression to AIDS ,[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],[object Object],04/19/10
On the Up-Side Eternal Life? 04/19/10
Boosting Gene Extends Mouse Life Span   ,[object Object],[object Object],[object Object],04/19/10
The End 04/19/10

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Point mutations ppt

  • 1. Point Mutations Mutations involving a few nucleotides, sometimes as few as a single one (SNPs) 04/19/10
  • 2.
  • 3.
  • 4. Shape and AA Sequence 04/19/10 Genistein, bound to estrogen receptor-b. Only two amino acids (shown) differ between the two estrogen receptors. ( purple : ER-a) ( yellow: ER-b)
  • 5.
  • 6.
  • 7.
  • 8.
  • 9.
  • 10.
  • 11.
  • 12.
  • 13.
  • 14. Point Mutations Can Happen During DNA Repair 04/19/10
  • 15.
  • 16.
  • 17.
  • 18.
  • 19. Mutations in PIK3CA Where is this gene mutated? 04/19/10
  • 20.
  • 21.
  • 22. Why Might Anyone Want to Know This? 04/19/10
  • 23.
  • 25.
  • 26.
  • 27.
  • 28.
  • 29. Without the Presence of the Environmental Factor, These Genes Do Not Lead to Disease 04/19/10 Read about: Genetics, race, ethnicity, and health A SAMPLING OF ENVIRONMENTAL GENES Polymorphism Function Environmental exposure Associated disease CYP1A1 Activation Smoking Lung cancer NAT2 Detoxification Smoking Bladder, breast cancer GSTT1 Detoxification Chlorinated solvents Cancer, toxicity Paraoxonase Detoxification Nerve agents, pesticides Nervous system damage HLA-H Nutritional factors Iron in diet Hemochromatosis TGF-alpha Growth factor Maternal smoking Cleft lip & palate Locus on chrom. 17 in mice Immune/inflammatory response Ozone Lung inflammation HLA-DP bet1 marker Immune response Beryllium Chronic beryllium disease (lung disorder) ALAD Biosynthesis Lead Lead poisoning
  • 30. More about diseases (heart, cancer, diabetes) and environment here (very informative!) 04/19/10
  • 31. Genes and Skin Color 04/19/10
  • 32.
  • 33.
  • 34.
  • 35.
  • 36. 04/19/10 Published by AAAS R. L. Lamason et al., Science 310, 1782 -1786 (2005) Fig. 6. Effect of SLC24A5 Genotype on Pigmentation in Admixed Populations
  • 37. Genes and the Size of a Dog A SNIP in the IGF-1 Gene Determines Dog Size 04/19/10
  • 38.
  • 39. This Rabbit Must Have The Large Version 04/19/10
  • 40. Last Not Least Genes and HIV Progression 04/19/10
  • 41.
  • 42. On the Up-Side Eternal Life? 04/19/10
  • 43.

Editor's Notes

  1. 1: particle that binds (ligere = to bind, as in liaison) HORMONAL CHALLENGE: An X-ray structure of genistein bound to the Estrogen Receptor-b ligand1-binding domain demonstrates the difficulty that faced ER-b drug developers:
  2. 1 – insertion  frame shift 2 deletion  frame shift
  3. Source: http://www.sciencemag.org/cgi/content/full/315/5811/466/F1
  4. Walker et al. (1999) Nature 402, 313-320
  5. 1: cancer
  6. Temperature affects expression of the gene for black fur pigment. This gene is expressed only below a certain temperature threshold
  7. 1: genes for making dark pigment are switched on at cold temperatures and switched off at warm temperatures. That explains the color pattern of the rabbit.
  8. Campbell p. 437, fig. 23.8
  9. Source: http://www.sciencemag.org/cgi/content/full/310/5755/1754a
  10. Quoted from: http://www.gnxp.com/blog/2005/12/race-is-skin-deep.php
  11. Source: http://www.sciencemag.org/cgi/content/full/310/5755/1754a
  12. Source: http://www.sciencemag.org/cgi/content/full/310/5755/1754a
  13. It’s a giant German grey
  14. Xiaojiang Gao, Ph.D., George W. Nelson, Ph.D., Peter Karacki, B.A., Maureen P. Martin, M.D., John Phair, M.D., Richard Kaslow, M.D., James J. Goedert, M.D., Susan Buchbinder, M.D., Keith Hoots, M.D., David Vlahov, Ph.D., Stephen J. O'Brien, Ph.D., and Mary Carrington, Ph.D. ABSTRACT Background From studies of genetic polymorphisms and the rate of progression from human immunodeficiency virus type 1 (HIV-1) infection to the acquired immunodeficiency syndrome (AIDS), it appears that the strongest susceptibility is conferred by the major-histocompatibility-complex (MHC) class I type HLA-B*35,Cw*04 allele. However, cytotoxic T-lymphocyte responses have been observed against HIV-1 epitopes presented by HLA-B*3501, the most common HLA-B*35 subtype. We examined subtypes of HLA-B*35 in five cohorts and analyzed the relation of structural differences between HLA-B*35 subtypes to the risk of progression to AIDS. Methods Genotyping of HLA class I loci was performed for 850 patients who seroconverted and had known dates of HIV-1 infection. Survival analyses with respect to the rate of progression to AIDS were performed to identify the effects of closely related HLA-B*35 subtypes with different peptide-binding specificities. Results HLA-B*35 subtypes were divided into two groups according to peptide-binding specificity: the HLA-B*35-PY group, which consists primarily of HLA-B*3501 and binds epitopes with proline in position 2 and tyrosine in position 9; and the more broadly reactive HLA-B*35-Px group, which also binds epitopes with proline in position 2 but can bind several different amino acids (not including tyrosine) in position 9. The influence of HLA-B*35 in accelerating progression to AIDS was completely attributable to HLA-B*35-Px alleles, some of which differ from HLA-B*35-PY alleles by only one amino acid residue. Conclusions: This analysis shows that, in patients with HIV-1 infection, a single amino acid change in HLA molecules has a substantial effect on the rate of progression to AIDS. The different consequences of HLA-B*35-PY and HLA-B*35-Px in terms of disease progression highlight the importance of the epitope specificities of closely related class I molecules in the immune defense against HIV-1. And J Virol. 2002 December; 76(24): 12603–12610. doi: 10.1128/JVI.76.24.12603-12610.2002. Copyright © 2002, American Society for Microbiology Human Immunodeficiency Virus Type 1 (HIV-1)-Specific CD8+-T-Cell Responses for Groups of HIV-1-Infected Individuals with Different HLA-B*35 Genotypes Xia Jin,1* Xiaojiang Gao,2 Murugappan Ramanathan, Jr.,3 Geoffrey R. Deschenes,3 George W. Nelson,2 Stephen J. O'Brien,4 James J. Goedert,5 David D. Ho,3 Thomas R. O'Brien,5 and Mary Carrington2