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BioQUEST Evolution Modules Frank Price Scholar in Residence, Hamilton College (315) 853–5233 in collaboration with other members of.

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Presentation on theme: "BioQUEST Evolution Modules Frank Price Scholar in Residence, Hamilton College (315) 853–5233 in collaboration with other members of."— Presentation transcript:

1 BioQUEST Evolution Modules Frank Price Scholar in Residence, Hamilton College fprice@hamilton.edu (315) 853–5233 in collaboration with other members of the BioQUEST Curriculum Consortium

2 BioQUEST: Bio logy Q uality U ndergraduate E ducational S imulations & T ools Consortium of ≈150 active members & ≈5,000 fellow-travelers Dedicated to Biology Curriculum Reform

3 BioQUEST Philosophy 3 Peas: –P roblem Posing –P roblem Solving –P eer Persuasion Students need to do what professionals do: –Ask their own questions. –Find appropriate data. –Analyze data with appropriate professional tools. –Answer their questions. –Persuade peers of the value of their answers. They need opportunities to work in the context of the discipline

4 BioQUEST Philosophy Inquiry–oriented approach –Goals, assumptions, models, history become explicit –Promote interpretation of data –Effect-to-cause reasoning –Encourages multivariate approaches Encourage collaboration –Advantages of collaborative learning –Multiple modes of learning, –Multiple skills De-emphasize “content” relative to skills Emphasize Information Technology as a tool –Supplement, not replace, actual lab/field work

5 BioQUEST Funding Active –Howard Hughes Medical Institute, –National Science Foundation*, Division of Undergraduate Education –Partnership for Advanced Computing Infrastructure Previous : – Annenberg/CPB – Foundation for Microbiology – Beloit College – University of Chicago – Center for Biology Education, UW - Madison – Apple Computer – Pew Midstates Science & Mathematics Consortium * 24 Funded NSF grants cite BioQUEST Library resources

6 BioQUEST Modules: Disciplines Background & Pedagogy Behavior Biomathematics Botany Cell Biology Development Ecology EvolutionEvolution General Biology Genetics Microbiology Molecular Biology Molecular Visualization Mycology Zoology Physiology Statistics Tools Zoology

7 The Problems With Evolution Educaton: Evolution is widely misunderstood – We don’t teach it well Lack of Labs – Time and space – Variety of data & methods – Pedagogical models Lack of Data

8 Key Pedagogical Points: Goals for Students Understanding of products of evolutionary biology (state of the art) –Theory –History Learn assumptions that frame thinking Practice methods

9 Key Pedagogical Points: Evolutionary Biology Goals of Evolutionary Inquiry –Theory: models of processes/phenomena –History: phylogenies as historical hypotheses Shared assumptions, e.g.: –Species as gene pool w/ genetic variation –New variation continuous, random –Evolution: statistical change of population –Historical contingency Methodologies & Tools –Various

10 BioQUEST Modules: Evolution BIRDD Data Library(Mac, Win) EVOLVE Simulation: microevolution(Mac) Biology Student Workbench Analytical tool(Mac, Win) MacClade 2.1 Analytical tool(Mac) Phylogenetic Investigator Instructional tool(Mac) BeeVisit Simulation: pollination (Win) BGuILE: Galapagos Finches Simulation: ecology, selection(Mac) BGuILE: TB Lab Simulation : antibiotic selection(Mac) Bumpus Numeric Dataset(Mac, Win) Caminicules Visual dataset (Mac, Win) Dendrograminaceae Visual dataset (Mac, Win)

11 On–Line Info: BioQUEST Curriculum Consortium: http://bioquest.org/ BioQUEST Liberary purchase: http://www.apnet.com/bioquest/ (Academic Press)

12

13 Our Solution: BIRDD Digital library of raw data: – Realistic – Accessible – Exportable Open – ended Instructional Support : – Getting Started – Classroom Examples – Teaching Evolutionary Biology

14 Opportunities For students –Senior Projects –Database development (possible summer stipend) –Student teaching For faculty –Material for labs Evolution, Ecology, Intro. Biol., animal morphology, Statistics, etc. –Opportunities for student projects In courses Database development –“Publish” your data

15 BIRDD Has Been Tested At: Beloit College (small, liberal arts): –Zoology: non–major’s intro. (Paul Whittaker) –Biological Issues, Making Sense of Evolutionary Explanations: non–major’s (Sam Donovan) –Evolution: major’s (John Jungck) U. WI, Madison –Introductory Zoology: major’s intro., > 800 students/semester (Jean Heitz)

16 Jean Heitz’ Approach to Using BIRDD: Grant Proposals ( Used in Introductory Zoology, UWI, Madison) Week 1: –Acquaint students w/ BIRDD, Galapagos, finches –Find some preliminary questions Week 2: –Present ideas to whole lab for critique –Revise, develop preliminary answers –More thorough analysis of data, Week 3: –Present 2nd proposal draft to whole lab for critique –Write final propsal Week 4: Turn in proposal

17 Availability: BioQUEST Library CD–ROM indiv: $99 * ISBN: 0-12-099470-4 Site: $650 U/C * Macintosh: $350 HS – System 7, System 7.1+ suggested, 4 MB available RAM Windows: Windows 3.1+, Windows 95 + suggested, 8 MB available RAM. Both: 180 MB of free hard disk space, color monitor with 800 x 600+ resolution, QuickTime® 3+ to play panorama & sound files.

18 Data Resources: Islands Area Max. Elevation Age Vegetation zones Topographic map Breeding status of each finch species Number of species of: --------------------------------------------------------------------------------------- Ferns Flowering plants Land birds Darwin’s finches Archipelago maps & displays of island information.

19 Data Resources: Darwin’s Finch Species Information Pictures Plumage descriptions Foraging method Foraging habitat Breeding habitat Breeding status on islands Diagrams of ------------------------------------------------- Lateral view of skull, musculature Ventral views of skull, musculature Hard palate Beak cross–section Display of a species ’ information.

20 Data Resources: Molecular Sequences Sequence NameNo. Sequences ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 16S Ribosomal RNA gene (partial)16 Mitochondrial Control Region (short)12 Microsatellite Repeat Region16 Cytochrome b protein33 Cytochrome b gene (partial)40 Mitochondrial Control Region (partial)56 Major Histocompatibility C Class II gene40 Display of a GenBank sequence.

21 Data Resources: Specimen Morphology Snodgrass Lack& HellerSullowaySwarth --------------------------------------------------------------------------------------------------------------------------- No. specimens6,7585495175 Island, sex, orig. & modern taxon name Plumage Beak height Beak width Upper beak length Help screen showing measurements.

22 Data Resources: Specimen Morphology (cont.) Snodgrass Lack& HellerSullowaySwarth --------------------------------------------------------------------------------------------------------------------------- Nostril–upper beak l. Lower beak length Body length Tail length Wing length Tarsus length Middle toe & claw l. Display of measurements.

23 13 vocalizations --------------------------------------------------------------------- Playable sounds Sonograms Waveform diagrams Species descriptions Data Resources: Vocalizations Help screen describing graphic display of a vocalization Display of a vocalization (upper left), with expanded views of its components.

24 Data Resources: Weather Island, station location Elevation Monthly Averages (11 stations) --------------------------------------------------------------------------------------------------------------------------- Precipitation Temperature Maximum temperature Minimum temperature Sea temperature Hours of sunlight Monthly Data (one station, 1950–1989) ---------------------------------------------------------------------------------------------------------------------------------------------------------- Year Month Total precipitation Monthly weather data were exported to a statistics program to produce these graphs of rainfall over time and rainfall per month. El Nino events are readily visible..

25 Data Resources: Bibliography 320 References, searchable by Author Title Citation Type of reference (8 types)

26 Data Resources: Pictures & Panoramas 12 Habitat panoramas (all major habitat types) 16 Organisms/scenes Image of an organism. Panorama of a habitat.Help screen describing panorama displays and their controls.

27 Data Resources: Tourist Visits (1979–1997) Year Month Number of tourists

28 Archipelago Map

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30 BIRDD’s Main Table of Contents This is one of BIRDD ’ s help screen and describes the main table of contents.

31 Sample Help Screen

32 Example of Exported Data Opened with a Statistics Program

33 Example of Exported Data Scatterplot Matrix: All Species, All Islands

34 Scatterplots: Lack Species

35 Geospiza: Sample Densities

36 Example of Exported Data G. difficilis: Density Contour Plot for each Island Darwin, Wolf Santiago, St. Cruz Pinta, Genoveas

37 Example of Exported Data G. difficilis: Density Contour Plot for Samples All Islands

38 Example of Exported Data G. fuliginosa: Morphology Measures by Number of Species per Island


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