BISC 219/F10:Assignments

Graded Assignments

Lab Assigned	Lab Due	Assignment description	Point Value (Total 200)
Lab 1	Lab 2	Complete entry assessment (2.5pts); Submit preliminary cross results Day 3 (1 pt); Summarize experimental question, design; Diagram crosses; Explain data interpretation (9 pts) BISC_219/F10: Assignment_1_Lab1	12.5
Lab 2	Lab 3	Submit statement of Series 2 experimental question & goals. Outline our experimental process including : Mutant Hunt, Linkage Analysis, Mapping the Mutation to a chromosome and to a particular location, Complementation Analysis, Determining whether or not the mutation has been previously characterized, & Defining the gene sequence and protein change through DNA sequence analysis and Wormbase work. Write 1-2 page summary of how you will determine the exact location of the gene and the sequence change likely to be associated with a phenotypic anomally BISC_219/F10: Assignment_Series2_Outline_Summary; Read the journal article, Indentification of Genes that Regulate a Left-Right Aymmetric Neuronal Migration in Caenorhabditis elegans published in Genetics 164: 1355-1367 (August 2003), for discussion in lab next time. Full text of article found at: [1]; See BISC_219/F10:Questions to Guide Your Reading1 for information on how to prepare for this discussion	10
Lab 2	Lab 4	Results Section BISC 219/F10: Assignment Help- Data Analysis 1 Autosomal vs. Sex linked inheritance	25
Lab 3	Lab 4	Diagram the expected results (genotype and phenotype)for the crosses and self-fertilization progeny in the Linkage Testing work that you will do over the next several weeks. Highlight the progeny that will be used to continue each step of the process. Include a narrative description of the rational for the crosses and summarize the interpretation of the results that will allow determination of the linkage group to which your mutated gene of interest belongs. Assignment information and rubric found at BISC_219/F10: Assignment_Series2_Linkage Testing Crosses	5
Lab 4	Lab 5	Diagram the expected results (genotype and phenotype)for the crosses and self-fertilization progeny in the Mapping work that you will do over the next several weeks. Make sure you highlight the progeny that will be used to continue each step of the process. Assignment information and rubric found at: BISC_219/F10: Assignment_Series2_Mapping Crosses. Read the journal article by Davis at al.,Rapid single nucleotide polymorphism mapping in C. elegans, found at BMC Genomics 2005, 6:118 doi:10.1186/1471-2164-6-118 and compare their mapping strategy to yours.	5
Lab 5	Lab 6	Explain complementation analysis in general and then explain specifically how you will use it to confirm and expand your linkage and mapping work. Assignment informaiton and rubric found at: BISC_219/F10: Assignment_Series2_Complementation	5
Lab 6	Lab 7	Analyze your mutant gene's DNA sequence and write a 1-2 page summary describing briefly and generally how chain-termination sequencing is accomplished and then specifically describe the mutation most likely to be responsible for your phenotype change by comparing the wild type sequence to the mutant's gene. Include the resulting protein or regulatory product change and its likely significance in the worm and, if possible, in other species. Assignment information and rubric found at: BISC_219/F10: Assignment_Series2_DNA Sequencing	10
Lab 6	Week of Nov. 1	Scientific Research Report on Series2 work Classical (Forward) Genetics. Assignment information found at BISC 219/F10: Assignment_ Series2_Classical Genetics Paper	50
Lab 7	Week of Nov. 1	Work on Series2 Paper
Lab 8	Lab 9	Convert all the lab protocols performed so far for Series 3: Reverse Genetics Using RNAi to M&M. Assignment information found at: BISC_219/F10: Assignment_Series3_ Materials and Methods; Read the original 1998 paper by Fire and Mello published in Nature 391: 806-811 (Feb.19 1998) at doi:10.1038/35888 ; read a 2006 review on RNAi by Yigit et.al found at doi:10.1016/j.cell.2006.09.033, and the associated perspective, doi:10.1016/j.cell.2006.11.004], both published in Cell. These articles provide background information on how the mechanism of RNAi was worked out experimentally. Also read a published journal article by Green et al. (2009) Impact of Cigarette Smoke Exposure on Innate Immunity: A Caenorhabditis elegans Model. PLoS ONE 4(8): e6860, found at doi:10.1371/journal.pone.0006860, that uses reverse genetics to figure out gene function. There are questions to guide your reading found at:BISC_219:Questions to Guide Your Reading 2 . Please be prepared to discuss those questions in Lab 9.	10
Lab 9	Lab 10	Write a draft introduction section (including properly formatted Literature Cited page) of your next paper on our Reverse Genetics Project. Refer to BISC_219/F10:Resources Guide to Scientific Writing.	10
Lab 10	Nov. 24 for all students	Construct figures/tables with properly formatted legends to illustrate the main findings of the RNAi part of your Series3:Reverse Genetics project. These figures are a draft of those that will be part of the results section of the research report you will write for Series3.	5
Lab 11	Lab 12	Full scientific research report due Fri. Dec 10 at 4pm for all students. Assignment information found at BISC_219/F10: Assignment_Series3_Reverse Genetics Paper using RNAi	50
Other		Exit Survey participation	2.5

Assignments

Lab 1 Assignment: BISC_219/F10: Assignment_1_Lab1
Lab 2 Assignment: BISC_219/F10: Assignment_Series2_Outline_Summary
Lab 2-3 Assignment: BISC 219/F10: Assignment Help- Data Analysis 1 Autosomal vs. Sex linked inheritance
Lab 3 Assignment: BISC_219/F10: Assignment_Series2_Linkage Testing Crosses
Lab 4 Assignment: BISC_219/F10: Assignment_Series2_Mapping Crosses
Lab 5 Assignment: BISC_219/F10: Assignment_Series2_Complementation
Lab 6 Assignment: BISC_219/F10: Assignment_Series2_DNA Sequencing
Lab 6 Assignment: BISC 219/F10: Assignment_ Series2_Classical Genetics Paper Scientific Paper on Forward Genetics Project
Lab 8 Assignment: BISC_219/F10: Assignment_Series3_ Materials and Methods Convert all the lab protocols performed for Series 3 so far into Materials & Methods
Lab 11 Assignment: BISC_219/F10: Assignment_Series3_Reverse Genetics Paper using RNAi Full Scientific Paper on Reverse Genetics Project using RNAi