BISC209/S10:Schedule

BISC209 S10 Lab Calendar

Monday	Tuesday	Wednesday	Thursday	Friday
Jan.25	Jan. 26 Lab 1	Jan. 27 Lab 1	Jan. 28	Jan. 29
Feb. 1	Feb. 2 Lab 2	Feb. 3 Lab 2	Feb. 4	Feb. 5
Feb. 8	Feb. 9 Lab 3	Feb. 10 Lab 3	Feb. 11	Feb. 12
Feb. 15 President's Day	Feb. 16 Monday schedule NO LAB	Feb. 17 NO LAB	Feb. 18	Feb. 19
Feb. 22	Feb. 23 Lab 4	Feb. 24 Lab 4	Feb. 25	Feb. 26
Mar. 1	Mar. 2 Lab 5	Mar. 3 Lab 5	Mar. 4	Mar. 5
Mar. 8	Mar. 9 Lab 6	Mar. 10 Lab 6	Mar. 11	Mar. 12
Mar. 15	Mar. 16 Lab 7	Mar. 17 Lab 7	Mar. 18	Mar. 19
Mar. 22 Spring Break	Mar. 23 Spring Break	Mar. 24 Spring Break	Mar. 25 Spring Break	Mar. 26 Spring Break
Mar. 29	Mar. 30 Lab 8 Lab Practical	Mar. 31 Lab 8 Lab Practical	Apr. 1	Apr. 2
Apr. 5	Apr. 6 Lab 9 Data analysis	Apr. 6 Lab 9 Data Analysis	Apr. 7	Apr. 8
Apr. 12	Apr. 13 Lab 10 Conference	Apr. 14 Lab 10 Conference	Apr. 15	Apr. 16
Apr. 19 Patriots' Day NO LAB	Apr. 20 Lab 11 Presentations	Apr. 21 Lab 11 Presentations	Apr. 22 Monday Schedule	Apr. 23
Apr. 26	Apr. 27 NO Lab	Apr. 28 Rhulman NO Lab	Apr. 29	April 30
May 3	May 4 Lab 12 Paper Due	May 5 Lab 12 Paper Due	May 6 Last day of classes	April 30

Assignments

BISC110 Assignments/ Weekly Lab Planner

Lab #	LAB DATES__	IN LAB WORK________	OUTSIDE OF LAB WORK________	Assignment/Notes
1	Tues. 1/26- Wed. 1/27	Introduction to Microbiology Lab Lab Safety Boot camp: Tools and Techniques of Microbiologist: Aseptic Transfer, Streaking for Isolation, Making a bacterial Smear, Gram Stain, Microscopy Intro to Microbial Diversity Project: Tour greenhouse, pick habitat		Homework: Read reference articles on selecting/enriching for particular soil bacteria & on soil bacteria in your habitat. References posted to the Lab First Class conference (Reference Folder) Read all of Lab 2 & outline or make flow diagrams for your lab work Answer the Questions found at the end of LAB 1 and turn them in at the beginning of Lab 2
2	Tues. 2/2- Wed. 2/3	Soil sampling in Greenhouse habitat Begin culture of soil organisms on selective, differential and enrichment media Standard Plate Count of Culturable Soil Organisms Genomic DNA isolation for Non-Culturable Bacterial ID	Check on your soil bacterial enrichment and selection cultures; Assess your isolation streaking; check on your plate count plates and move any in danger of overgrowing to cold room	Homework Search the web for photos of colonies of desired bacteria; Research morphology of likely members found in your soil community, differentiating metabolic needs or capabilities used for culture, habitat range, and role in the soil or in the environment of these desired groups of bacteria: cellulolytic, Actinomycetes such as the Streptomyces, Bacillus species, Fruiting myxobacteria, Gliding bacteria such as Beggiotoa, Azotobacter, Aerobic methanol oxidizers, Sulfur oxidizers, Nitrosomonas, and Nitrobacter
3	Tues. 2/9- Wed. 2/10	Identification of Unculturable Bacterial by 16S rDNA sequencing: Assess success of soil DNA isolation using Nanodropper to measure DNA conc.; Dilute or conc. DNA isolate to 100ng/μL; PCR Amplification of 16S rDNA with "universal" bacterial primers and proofreading polymerase PCR product clean-up Isolation of Culturable Bacteria: Complete Standard Plate Count counting & calculation Continue selection, isolation, identification of desired bacteria	Check on cultures and continue isolation	Homework: Write up your procedure for genomic DNA isolation and amplification of 16S rDNA from a soil sample as a Materials & Methods section for your final scientific paper. Use the information in the Methods section in the "How to Write a Paper in Scientific Style" handout found in the Resources section of the wiki and/or model your protocol descriptions like those in the journal articles in the References folder on the First Class Lab Conference.
4	Tues. 2/23- Wed. 2/24	Run gel on PCR from last time Clone 16s rDNA using TOPO dna cloning kit and MBL lab 12 to complete transformation incubate overnight in plates (see mbl protocol) Cultures: Examine and pick 3 isolated colonies (if needed) additional technniques: ID from secondary cultures (Steubing protocol): on real unknown Techniques: repeat all stains from week before: at least - simple stain (3 pure colonies) gram stain etc (and be sure all stains from week 3 are performed). make stocks from (3) isolated cultures- make 2 fresh slants per organism (each person) Introduce: stains and microscopy: on control stock orgs. -negative stain (for capsules) -acid fast -endospore		Homework: Write the Introduction section of your final paper. Use the Introduction section of the "How to Write a Scientific Paper" handout found in the Resources section of the wiki and model your protocol descriptions like those in the journal articles in the References folder on the First Class Lab Conference. You will need to cite sources in the Name/Year style of the journal Cell. See the Wellesley library e-data base for recent issues of this journal to use as models for your citations.
5	Tues. 3/2- Wed. 3/3	Select 2 clones and put in 96 well plates (how? protocol ends here) and send them out? where? How long? UNKNOWN - using stock (1-2 or 3 made) make 2 more stock slants Techniques: all stains: on unknowns (2-3) capsule endospore acid fast etc		Homework:
6	Tues.3/9. - Wed. 3/10	Unknown: Physical: Sterbing lab (9-15) soft agar deeps for motility wet mounts for motility oxygen requirements Thioglyocallate and TSA Selective and differential medial Temp optimum osmotic effect and ph optimum		Homework:
7	Tues. 3/16- Wed. 3/17	Metabolic tests (Steubing 16-27)		Homework:
8	Tues. 3/30- Wed. 3/31	Metabolic tests Antibiotic sensitivity		Homework:
9	Tues. 4/6- Wed. 4/7	analysis of rDNA: practice exercise in lab Optional complete/redo any tests not completed		Homework:
10	Tues. 4/13- Wed. 4/14	lab practical		Homework: .
11	Tues. 4/20- Wed. 4/22	Poster presentation in groups by habitat sampled		Homework:
12	Tues. 5/4- Wed. 5/5	individual data analysis/writing conferences		End of lab

Links to Labs

Lab 1
Lab 2
Lab 3
Lab 4
Lab 5
Lab 6
Lab 7
Lab 8
Lab 9
Lab 10
Lab11
Lab 12