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	intro to micro lab lab safety: BSL 2-concepts etc calibrate micro pipetts Boot camp: tools and techniques of microbiologist: epidemiology and aseptic technique transfer practice (flourescent powder?) streak technique Intro to microbial survey project: Form groups tour greenhouse		Homework:
2	Tues. 2/2- Wed. 2/3	environmental sampling (steubing for pop sticks or Jannsen for corers) and isolation streaking in different conditions, temps, media etc. NOTE: MEDIA -use Janssen media-dilute broth pg 2392 (Improved culturability of soil bacteria dn isolation: to enrich for soil groups. ENVIRONMENTAL SAMPLING: (steubing for pop sticks or Jannsen for corers) and isolation streaking in different conditions, temps, media etc. Sample dilution for single colonies techniques also? (Wagner-NABT paper) Plan on 4 students per site and each pair sampling from the site (so 6 samplesper lab)- most protocols the samples go into broth (see seifert) ON own- isolation streak a new plate. Each individual. DNA isolation- in pairs Isolating genomic DNA from soil samples (mo bio lab protocol): using mobio ultraclean soil dna purification kit Nano dropper procedure (using machine-on screen read out) dilute dna to proper concentration and freeze for DNA library process (PCR etc see MBL flow chart and diagram lab 12 OR for rDNA library steps) Discuss habitats and literature searches Freeze DNA		Homework
3	Tues. 2/9- Wed. 2/10	DNA diversity: complete prep for pyrosequencing? OR rDNA library steps: (Use soil DNA from lab 2) DNA library: Clean and PCR Amplify for rDNA using Irene's universal primers (Irene's notes)- 3 hours CULTURES: (Primary plates) observe-count, describe, select soil microbes for further culturing (compare anaerobic, aerobic, microaerophillic) - search web for pics of microbes. techniques: colony morphology, number (see mIcrobial safari= wagner) and problem solve to "discover" 2 isolation methods (serial dilution and pour plates vs streaking for isolation) Isolation to pure colony step: #1: How will they pick what/where on plate to isolate? (secondary plates) Each student picks different 4-6 colonies and restreaks on same media (4-6 different plates). Incubate room temp.grow 24 hours, move to CR. Microscopy introduced: select something that looks isolated and stain and compare to stock cultures. Control stocks for: gram pos, gram neg and capsule, acid fast and endospore Simple stain Gram stain What do you learn from this?		Homework:
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:
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