1. Agenda: 1/2 Welcome back Final project overview and schedule – Clarification & questions Restriction analysis challenge Samples – gene cloning Homework: Review your lab notebook and find lab procedures that you can apply to this project. Draft 1 of lab procedure & materials in your lab notebook.

2. Biotechnology Final Project Restriction Analysis: To determine the presence of the amylase gene in a plasmid

3. Final Project Individual project – no partners or teams Replaces the final exam 25% of your course grade – Same as final exam

4. Restriction Analysis Extension of your project on rDNA Use of biotechnology procedures already practiced in the lab. Demonstrate that you can understand and summarize technical information that provides background to your laboratory work.

5. Components Literature Research to provide background to the laboratory work Designing an experiment – Writing a lab experiment with procedures that you will follow Conducting the experiment Analyzing the results and making conclusions

6. Gene cloning Steps in Cloning a Gene

7. Schedule: 1/3: Explore the sources on the Internet – Credible sources – Understandable to you as a high school student – Provides useful information for the topic Laboratory Work Defined: due 1/4 Hypothesis, materials & equipment & lab procedures must be submitted prior to lab work This will be peer reviewed on Friday, 1/4 Revised lab procedure due Monday, 1/7

8. Schedule Laboratory Work - 2 – 3 days (1/7?, 1/8; 1/9; 1/10?) Background research paper due 1/9/13 Completed Laboratory Report due: 1/11/13 Final Exam Day – Short Presentations – Reflection of your learning

9. What questions could someone have on the project? Read the project description Write questions & hand-in: Literature Research to provide background to the laboratory work Designing an experiment Conducting the experiment Analyzing the results and making conclusions

10. Restriction Analysis Restriction Analysis Challenge 2013.ppt

11. Research Paper – Background information Components – Amylase enzymes for function and possible size – Process of incorporating desired genes into plasmids & then bacteria – Detection of successful take-up of desired DNA fragment by plasmids & then into bacteria Requires documented notes from each source Starting point: gene cloning description on assignment paper

12. Research Paper Rubric 4321 Content and Focus Exceptionally clear, focused, interesting thesis. Strong, rich supporting details and examples that prove thesis. A meaningful conclusion explaining the importance of the research and how it can be used.  Clear thesis which maintains a consistent focus from beginning to end.  Specific supporting details are present.  A clear conclusion as to why the research is important.   Contains thesis but with inconsistent focus.  Generalized supporting details that prove thesis.  Conclusion tends to summarize research.  Thesis statement lacks clarity and focus.  Inadequate or missing supporting details.  Missing a summarizing conclusion Organization  Strong introduction and conclusion.  Consistent and coherent logical progression.  Uses clear and skillful transitions.  Clear introduction and conclusion.  Illustrates some consistency and shows some logical progression.  Uses clear transitions.  Introduction and conclusion is present but not clear  Show some attempt of consistency and order. Paper shows attempt of transitions between paragraphs.  Unable to clearly identify introduction and conclusion.  Lack of consistency and order.  Paper shows little or no attempt of transitions between paragraphs. Style Written in formal language (avoids slang completely). Elaborate and colorful language. Consistently strong and varied sentence structure. Direct quotes support student’s ideas. Paper written in student’s own words. Majority of paper written in formal language. Language appropriate to topic. Words convey intended message. Direct quotes support student’s ideas. Majority of paper written in student’s own words. Some use of formal language recognized; informal language is dominant. Most language is appropriate to topic. Able to get vague idea of message. Some parts of paper written in student’s own words. Paper frequently uses informal language.  Language is not appropriate to topic.  Message is unclear.  Majority of paper is plagiarized.

13. Rubric continued Sources/Format Follows MLA guidelines:  Uses 5 or more cited sources.  Sources meet the guidelines for types of sources.  All parenthetical documentation is MLA correct (author’s name, pg. #).  Works Cited page is MLA correct.  All researched info is documented. Follows MLA Guidelines with few exceptions:  3-4 cited sources used.  Sources meet the guidelines for types of sources.  Few errors noted in parenthetical documentation  Majority of Works Cited page is MLA correct.  Most research info is Documented.  Inconsistent use of MLA style guidelines.  Less than 3 cited sources used.  Majority of parenthetical documentation done incorrectly.  Random MLA documentation.  Rarely documents sources.  Fails to follow MLA style Guidelines.  Less than 3 cited sources used little or no parenthetical  documentation.  Works Cited page is not  understandable. Conventions Superior editing. Rarely makes errors in the following areas:  Spelling and mechanics.  Correct usage and grammar. Careful editing. Makes few errors in the following areas:  Spelling and mechanics  Correct usage and grammar Some evidence of editing:  Extensive spelling and grammatical errors. Poor editing:  Spelling and grammatical errors make it difficult to read paper.

14. Lab procedure – 2 copies By Friday, typed for peer review – use ID number (no name) – Purpose – Hypothesis: prediction of what DNA fragments that you are looking for – Materials – Equipment list – Detailed procedure – Identified controls – Data table

15. Peer Review Blind review – no names on papers Purpose: to optimize the lab procedures to ensure useable results – Provide feedback to another student to improve her/his lab procedure – Gain perspective on good/poor lab procedures to revise your lab procedure

16. Lab work Shared equipment – Water bath, Gel electrophoresis, etc. Waiting time: come prepared to work – Lab report – Presentation Analysis process and conclusions – How did you use your results and research in your analysis What learned in doing this final project

17. How rDNA samples are made How is DNA cloned.ppt