L3W10_MIC105_ZenPhylo1

L3W10_MIC105_ZenPhylo1 - Zen and the Art of Molecular...

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Unformatted text preview: Zen and the Art of Molecular Phylogeny MIC105 W 2010 Lecture 3 Steps on the Road to Evolutionary Enlightenment * = material to know Thursday, January 7, 2010 Molecular Phylogeny Workshop 3. Print out trees - we will discuss results and answers to questions on 1/20/10 2. Phylogeny using PhyloWin* of 3 datasets Cytochrome C Eftu/EfG rRNA 1. Sequence alignment (manual)--> do alone (print and save PDF)--> do in a small group (2-3) submit alignment and questions online by midnight 1/19/10 Thursday, January 7, 2010 Build trees on your own but feel free to discuss answers with others. Not all trees will be the same (why?) Not doing the trees or alignment exercise means youre not going to do well on the exams Thursday, January 7, 2010 Molecular phylogeny workshop rules Part 1. Multiple sequence alignment Submit alignment (SmartSite Assignments) - as and attachment by 11pm on 1/19/10 ALSO: Print alignment and bring to class on 1/20/10 Part 2. Tree building and analysis Print trees, bring trees to class on 1/20/10 for points Part 3. MolPhylo and Tree-thinking Problem Sets work through problems, submit answers as attachment (SmartSite Assignments) by Jan 19 (11 pm) * Thursday, January 7, 2010 Science is as much about the search for the right questions as it is about Fnding the right answers Thursday, January 7, 2010 Questions we will consider: What is the genetic basis of microbial diversity? How can we determine evolutionary relationships among microbes? How can you read and build a tree? How do genes evolve? Can we deFne a microbial species? How do we use genomes to study microbial diversity and function? Thursday, January 7, 2010 Thursday, January 7, 2010 Microbes have traditionally been classifed on physiology (phenotype), not on evolutionary relatedness (genotype) This is still the case somewhat (see Bergeys Manual in MIC105L) * Thursday, January 7, 2010 9 Thursday, January 7, 2010 Taxonomy or phylogeny? Thursday, January 7, 2010 Family genealogy (up to your grandparents) Thursday, January 7, 2010 Family genealogy (up to your grandparents) Develop a way to classify your relatives (place of birth, physical characteristics, behavior, whatever) Should have only 2-5 kinds of possibilities (profession not good, age or gender not great) Mark characteristic by person on tree Ok now do another one if you have time Thursday, January 7, 2010 Who are you more closely related to: your siblings? your aunts and uncles? your grandparents? Your siblings? Or your cousins? Your aunts and uncles? Or your cousins? Thursday, January 7, 2010 Who are you more closely related to: your siblings? your aunts and uncles? your grandparents?...
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L3W10_MIC105_ZenPhylo1 - Zen and the Art of Molecular...

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