BEN      BioQUEST Curriculum Consortium       Numbers Count Project   SELECTION project
 
Lactase evolution problem space
  
 
Authors          Audiences          Overview           Materials          Resources           Future Directions
  

 


Authors


Karen Klyczek
University of Wisconsin-River Falls


Mark Bergland
University of Wisconsin-River Falls


Catherine Dinitra White
North Carolina A&T State University


Chi-Cheng Lin
Winona State University


Arlin Toro
Universidad Interamericana de Puerto Rico
 
 
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Possible Audiences:

undergraduate students and faculty  

 
 


Brief Overview:

We are contributing to the problem space for the lactase persistence case study presented in the mini-workshop by Waterman, Stanley, and Jenkins. We are also using this as an example case for modifications to the Case It software that will run microarray simulations using published data, and allow students to connect directly to online bioinformatics tools and databases. After reviewing the case scenario and research articles, students will run the microarray simulation and use the results to formulate questions regarding molecular evolution of lactase and related genes.  

 
 
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Project Materials:

Case scenario
lactase (lct) and mcm6 sequences from a variety of organisms
Images of organisms from which sequences are derived
Case It software
Research articles describing SNPs associated with lactase persistance
Biology Workbench
Split Decomposition ESTEEM module  

 
 


Resources and References:

Case It home page, caseit.uwrf.edu (software download)
Biology Workbench, workbench.sdsc.edu
Bersaglieri, T. et al. Genetic signatures of strong recent positive selection at the lactase gene. Am. J. Hum. Genet. 74, 1111–1120 (2004)
Williamson, H. et al. Localizing recent adaptive evolution in the human genome. PLOS Genetics 3(6):e90
Tishkoff, S.H. et al. Convergent evolution of human lactase persistence in Africa and Europe. Nature Genetics 39(1):31
SNPTools, http://birc.au.dk/snptools/
Affymetrix, source of probe sequences and dChip SNP analyzing software, www.affymetrix.com  

 
 
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Future Directions:

  • continue modification of Case It software
  • work on formatting microarray data so it can be imported into case it software and analyzed via Excel  

 
 


Attachments


- lactase_case_study1.pdf
- organisms_lactase.doc
- archaebacteria_images.doc
- bacterial_images.doc
- fungi_images.doc
- invertebrates_images.doc
- mammals_images.doc
- plants_images.doc
- lactase_and_evol2.ppt
- large_subunit_bacterial lactase.doc
- small_subunit_bacterial lactase.doc
- lactase_persistance_Nature_gen.pdf
- Localizing_Recent_Adaptive_Evolution.pdf  

 
 
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