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Collaborative Case-based Study of Genetic and Infectious Diseases Using Protein and DNA Simulations
Mark Bergland and Karen Klyczek, University of Wisconsin-River FallsMark Bergland and Karen Klyczek, University of Wisconsin-River Falls
OverviewOverview
•Description of Case It project Description of Case It project •DNA analysis toolsDNA analysis tools
• Genetic disease case studiesGenetic disease case studies• Huntington’s disease exampleHuntington’s disease example
•Protein analysis toolsProtein analysis tools• Infectious disease case studiesInfectious disease case studies• HIV example HIV example
•Web editor/conferencing systemWeb editor/conferencing system
Case It! ProjectCase It! Project
URL for URL for Case It! Home Page:Case It! Home Page:http://caseit.uwrf.edu
Contact: [email protected]: [email protected]
Supported by the CCLI program of the Supported by the CCLI program of the National Science Foundation National Science Foundation
Case It! ProjectCase It! Project
Electronic framework for analyzing and Electronic framework for analyzing and discussing case studies in molecular discussing case studies in molecular biologybiology
•Genetic and infectious diseases and associated Genetic and infectious diseases and associated ethical ethical issuesissues
•Students gather background information on Students gather background information on cases cases
•Analyze DNA and/or protein sequences using Analyze DNA and/or protein sequences using Case It! Version 5.03Case It! Version 5.03
•Prepare web-page poster using automated Prepare web-page poster using automated systemsystem
•Poster session via Internet conferencing Poster session via Internet conferencing
•Role-playingRole-playing
Case It! SimulationCase It! Simulation
Features of Case It! Version 5.03Features of Case It! Version 5.03
• DNA and protein electrophoresisDNA and protein electrophoresis• Restriction enzyme digestion and mapping Restriction enzyme digestion and mapping • Southern blottingSouthern blotting• Dot blotting Dot blotting • Polymerase Chain Reaction (single and 96-well)Polymerase Chain Reaction (single and 96-well)• ELISAELISA• Western blottingWestern blotting
• Add simulations of microarrays, RT-PCRAdd simulations of microarrays, RT-PCR• Connect simulations to bioinformatics tools and Connect simulations to bioinformatics tools and databasesdatabases• Facilitate open-ended research questionsFacilitate open-ended research questions
New grant project:New grant project:
Case It! web editorCase It! web editor
Features of the Case It! web editorFeatures of the Case It! web editor
• Web page constructionWeb page construction• Conferencing/discussion board Conferencing/discussion board • Collaborate with classes at other Collaborate with classes at other
institutionsinstitutions• Instructors can add classes Instructors can add classes • Upload class roster, organize teamsUpload class roster, organize teams
Sample case: Huntington’s Sample case: Huntington’s DiseaseDisease
Susan is a 23-year-old whose father, age 55, and Susan is a 23-year-old whose father, age 55, and paternal aunt, age 61, have been diagnosed with paternal aunt, age 61, have been diagnosed with Huntington’s chorea. A paternal uncle, age 66, Huntington’s chorea. A paternal uncle, age 66, appears to be unaffected by the disease. Susan appears to be unaffected by the disease. Susan wants to know if she inherited the mutated gene from wants to know if she inherited the mutated gene from her father so that she can prepare for that future if her father so that she can prepare for that future if necessary. She arranges to undergo DNA testing for necessary. She arranges to undergo DNA testing for Huntington’s. Her 17-year old brother, John, also Huntington’s. Her 17-year old brother, John, also decides to be tested after talking with Susan.decides to be tested after talking with Susan.
Ethical issues raised by the caseEthical issues raised by the case
Should someone with a family history of HD be Should someone with a family history of HD be required to undergo testing? Should they have required to undergo testing? Should they have children if they test positive, or if they have not children if they test positive, or if they have not been tested?been tested?
Should someone as young as John be tested?Should someone as young as John be tested?
Should the results of such tests be made available Should the results of such tests be made available to insurance companies? to potential employers? to insurance companies? to potential employers? to potential mates?to potential mates?
Case analysisCase analysis
Case It! InvestigatorCase It! Investigator can be used to gather can be used to gather background information on casebackground information on case
Case It! Version 5.03Case It! Version 5.03 is used to analyze DNA is used to analyze DNA sequences associated with casesequences associated with case
Case It! Launch PadCase It! Launch Pad gives access to a web gives access to a web editor/conferencing system editor/conferencing system
--electronic poster sessionselectronic poster sessions-role playing-role playing
Online tutorialOnline tutorial gives detailed instructions gives detailed instructions
Protein moduleProtein module
• ELISA (Enzyme immunoassay)ELISA (Enzyme immunoassay)
• Protein gel electrophoresis/ Western blotProtein gel electrophoresis/ Western blot
• Infectious disease cases Infectious disease cases » HIVHIV» SARSSARS» West Nile virusWest Nile virus» InfluenzaInfluenza» EbolaEbola
ELISA test results
HIV viral proteinsHIV viral proteins
gp16gp1600
Precursor of Precursor of envelope protein envelope protein (env)(env)
gp12gp1200
Outer envelope Outer envelope proteinprotein
(env)(env)
p55p55 Precursor of core Precursor of core proteins (gag)proteins (gag)
p41p41 Transmembrane Transmembrane envelope protein envelope protein (env)(env)
p32p32 Integrase (pol)Integrase (pol)
p24p24 Inner core protein Inner core protein (gag)(gag)
Western BlotWestern BlotBand pattern interpretationBand pattern interpretation
Lane 1, HIV+ serum (positive control) Lane 2, HIV- serum (negative control) Lane A, Patient A Lane B, Patient B Lane C, Patient C
No bandsNo bands NegativeNegative
Bands for two of Bands for two of these three proteins: these three proteins: gp120, gp41, p24gp120, gp41, p24
PositivePositive
Any other band Any other band patternpattern
IndeterminaIndeterminatete
Band interpretation:
from www.biology.arizona.edu
HIV Case studiesHIV Case studies Case scenario - Case scenario - videovideo and text (HIV – Anna), and text (HIV – Anna),
using using Case It web siteCase It web site
ELISAELISA test - initial screening test - initial screening
Western blotWestern blot to follow up ELISA results to follow up ELISA results
PCRPCR to measure viral load to measure viral load
Upload graphical results to Upload graphical results to Case It web editorCase It web editor
Comments from Zimbabwe Comments from Zimbabwe studentsstudents
“To me it was an eye opener… Since Zimbabwe is hard hit by HIV it is important to have this project CASE IT since it affects the students’ lives at large. The videos shown are touching. These can help students feel it.”
“It was also interesting to network with international students via conferencing. Indeed, the world is a global village.”
“(I) was able to get an understanding of how American families react to their family members when they have tested HIV positive”
Comments from Zimbabwe Comments from Zimbabwe studentsstudents
“I had no idea how I could do practicals on H.I.V testing given the limited apparatus and financial limitations in my school.”
“I found the use of the computer very useful in simulations because it enables the carrying out of experiments which would otherwise be impossible due to the costs involved”
Comments from Zimbabwe Comments from Zimbabwe studentsstudents
“The programme was also very interesting because it had cases of real people that got infected in different ways and situations … and the counselling they were given and how some observed the advice and some ignored this advice got themselves into worse trouble.”
Comments from Zimbabwe Comments from Zimbabwe studentsstudents
“The subject still remains every teacher’s concern. Of particular concern however, is the increase in the number of orphans. It is estimated that by the year 2005 approximately 910000 children will have lost their parents to AIDS. Poverty, depression, and stigma will haunt most of these children. They will most likely expose themselves to HIV infections in pursuit of basic need and will painfully erode their basic right to family, protection health and food. Our challenge is therefore to intensify awareness education to these children.”
Invitation to participateInvitation to participate
• We welcome participation in the Case It! We welcome participation in the Case It! ProjectProject
• No cost to educatorsNo cost to educators• High school and university educators are High school and university educators are
invitedinvited• Contact [email protected] [email protected]
