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Using Synthetic Biology and pClone Red for Authentic Research on Promoter Function: Genetics (analyzing mutant...Learning Objectives
- Describe how cells can produce proteins at the right time and correct amount.
- Diagram a bacterial promoter with −35 and −10 elements and the transcription start site.
- Describe how mutational analysis can be used to study promoter sequence requirements.
- Develop a promoter mutation hypothesis and design an experiment to test it.
- Successfully and safely manipulate DNA and Escherichia coli for ligation and transformation experiments.
- Design an experiment to verify a mutated promoter has been cloned into a destination vector.
- Design an experiment to measure the strength of a promoter.
- Analyze data showing reporter protein produced and use the data to assess promoter strength.
- Define type IIs restriction enzymes.
- Distinguish between type II and type IIs restriction enzymes.
- Explain how Golden Gate Assembly (GGA) works.
- Measure the relative strength of a promoter compared to a standard promoter.
Out of Your Seat and on Your Feet! An adaptable course-based research project in plant ecology for advanced studentsLearning ObjectivesStudents will:
- Articulate testable hypotheses. (Lab 8, final presentation/paper, in-class exercises)
- Analyze data to determine the level of support for articulated hypotheses. (Labs 4-7, final presentation/paper)
- Identify multiple species of plants in the field quickly and accurately. (Labs 2-3, field trip)
- Measure environmental variables and sample vegetation in the field. (Labs 2-3, field trip)
- Analyze soil samples using a variety of low-tech lab techniques. (Open labs after field trip)
- Use multiple statistical techniques to analyze data for patterns. (Labs 4-8, final presentation/paper)
- Interpret statistical analyses to distinguish between strong and weak interactions in a biological system. (Labs 4-7, final presentation/paper)
- Develop and present a conference-style presentation in a public forum. (Lab 8, final presentation/paper)
- Write a publication-ready research paper communicating findings and displaying data. (Lab 8, final presentation/paper)
Investigating the Function of a Transport Protein: Where is ABCB6 Located in Human Cells?Learning ObjectivesAt the end of this activity students will be able to:
- describe the use of two common research techniques for studying proteins: SDS-PAGE and immunoblot analysis.
- determine a protein’s subcellular location based on results from: 1) immunoblotting after differential centrifugation, and 2) immunofluorescence microscopy.
- analyze protein localization data based on the limitations of differential centrifugation and immunofluorescence microscopy.
Cutthroat trout in Colorado: A case study connecting evolution and conservationLearning ObjectivesStudents will be able to:
- interpret figures such as maps, phylogenies, STRUCTURE plots, and networks for species delimitation
- identify sources of uncertainty and disagreement in real data sets
- propose research to address or remedy uncertainty
- construct an evidence-based argument for the management of a rare taxon
Using Place-Based Economically Relevant Organisms to Improve Student Understanding of the Roles of Carbon Dioxide,...Learning ObjectivesAt the end of this lesson, students will be able to:
- Describe the roles of light energy and carbon dioxide in photosynthetic organisms.
- Identify the effect of nutrients on the growth of photosynthetic organisms.
- Describe global cycles in atmospheric carbon dioxide levels and how they relate to photosynthetic organisms.
Serotonin in the Pocket: Non-covalent interactions and neurotransmitter bindingLearning Objectives
- Students will design a binding site for the neurotransmitter serotonin.
- Students will be able to determine the effect of a change in molecular orientation on the affinity of the molecule for the binding site.
- Students will be able to determine the effect of a change in molecular charge on the affinity of the molecule for the binding site.
- Students will be able to better differentiate between hydrogen bond donors and acceptors.
- Students can use this knowledge to design binding sites for other metabolites.
Investigating Cell Signaling with Gene Expression DatasetsLearning ObjectivesStudents will be able to:
- Explain the hierarchical organization of signal transduction pathways.
- Explain the role of enzymes in signal propagation and amplification.
- Recognize the centrality of signaling pathways in cellular processes, such as metabolism, cell division, or cell motility.
- Rationalize the etiologic basis of disease in terms of deranged signaling pathways.
- Use software to analyze and interpret gene expression data.
- Use an appropriate statistical method for hypotheses testing.
- Produce reports that are written in scientific style.
Cell Signaling Pathways - a Case Study ApproachLearning Objectives
- Use knowledge of positive and negative regulation of signaling pathways to predict the outcome of genetic modifications or pharmaceutical manipulation.
- From phenotypic data, predict whether a mutation is in a coding or a regulatory region of a gene involved in signaling.
- Use data, combined with knowledge of pathways, to make reasonable predictions about the genetic basis of altered signaling pathways.
- Interpret and use pathway diagrams.
- Synthesize information by applying prior knowledge on gene expression when considering congenital syndromes.
Tackling "Big Data" with Biology Undergrads: A Simple RNA-seq Data Analysis Tutorial Using GalaxyLearning Objectives
- Students will locate and download high-throughput sequence data and genome annotation files from publically available data repositories.
- Students will use Galaxy to create an automated computational workflow that performs sequence quality assessment, trimming, and mapping of RNA-seq data.
- Students will analyze and interpret the outputs of RNA-seq analysis programs.
- Students will identify a group of genes that is differentially expressed between treatment and control samples, and interpret the biological significance of this list of differentially expressed genes.
Building Trees: Introducing evolutionary concepts by exploring Crassulaceae phylogeny and biogeographyLearning ObjectivesStudents will be able to:
- Estimate phylogenetic trees using diverse data types and phylogenetic models.
- Correctly make inferences about evolutionary history and relatedness from the tree diagrams obtained.
- Use selected computer programs for phylogenetic analysis.
- Use bootstrapping to assess the statistical support for a phylogeny.
- Use phylogenetic data to construct, compare, and evaluate the role of geologic processes in shaping the historical and current geographic distributions of a group of organisms.