BISC209/S12:Schedule

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(Weekly Planner)
(Weekly Planner)
Line 54: Line 54:
|--
|--
| 1
| 1
-
| Tues. 1/25-<br>Wed. 1/26
+
| Tues. 1/31-<br>Wed. 2/1
|Introduction to Microbiology Lab<br>
|Introduction to Microbiology Lab<br>
Lab Safety<br>
Lab Safety<br>
Tools and Techniques of Microbiologist: Aseptic Transfer,<br>  
Tools and Techniques of Microbiologist: Aseptic Transfer,<br>  
-
Intro to Microbial Diversity Project:Soil sampling in Greenhouse habitat;Begin culture of soil organisms: make soil extract and begin enrichment for ''Azotobacter'' and ''Hypomicrobia bacteria''; <BR> Start Plate Count of Culturable Soil Organisms<BR><br>
+
Intro to Soil Microbial Community Project:Soil sampling in Greenhouse habitat;Begin culture of soil organisms: make soil extract and begin enrichment for selected bacteria; <BR> Start Plate Count of Culturable Soil Organisms<BR><br>
| Visit the greenhouse and make notes on your selected habitat. Begin to research how to select/enrich for particular soil bacteria.
| Visit the greenhouse and make notes on your selected habitat. Begin to research how to select/enrich for particular soil bacteria.
-
| '''Homework''':  Read all of Lab 2 & outline or make flow diagrams of your lab work in your lab notebook. Check [[BISC209/S11:Resources | Resources]]  section of wiki for information about organizing your lab notebook.<BR>'''Graded Assignment''': .'''Discussion with References''' of how the enrichment culture techniques and media you will use will select soil bacteria of the specific groups we seek and differentiate them from other microbes in the community.  Be sure to read the directions for this assignment found at: [[BISC209/S11: Assignment_209_Lab1 | Assignment: Enrichment for culturable bacteria of specific groups]].
+
| '''Homework''':  Read all of Lab 2 & outline or make flow diagrams of your lab work in your lab notebook. Check [[BISC209/S12:Resources | Resources]]  section of wiki for information about organizing your lab notebook.<BR>'''Graded Assignment''': .'''Discussion with References''' of how the enrichment culture techniques and media you will use will select soil bacteria of the specific groups we seek and differentiate them from other microbes in the community.  Be sure to read the directions for this assignment found at: [[BISC209/S12: Assignment_209_Lab1 | Assignment: Enrichment for culturable bacteria of specific groups]].
|--
|--
| 2
| 2
-
| Tues. 2/1-<br>Wed. 2/2
+
| Tues. 2/7-<br>Wed. 2/8
-
|  Calibrate Micropipets; Genomic DNA isolation for Culture-Independent Bacteria ID;<BR> Finish Plate Count & quantify cultured microbes;<BR>Practice Streaking for Isolation: Make soil extract from dried soil and set up isolation of spore-forming bacteria; <BR>Continue enrichment & isolation of denitrifying and nitrogen cycling bacteria
+
|  Calibrate Micropipets; <BR> Finish Plate Count & quantify cultured microbes;<BR>Practice Streaking for Isolation: Make soil extract from dried soil and set up isolation of spore-forming bacteria; <BR>Continue enrichment & isolation of selected groups of bacteria
| 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; '''BRING TO LAB 3 A NEW SOIL SAMPLE Collected from your group's sampling site. (Materials available for pick up in the lab.) Do not collect it until the day of lab.'''
| 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; '''BRING TO LAB 3 A NEW SOIL SAMPLE Collected from your group's sampling site. (Materials available for pick up in the lab.) Do not collect it until the day of lab.'''
|'''Homework''' Search the web for photos of colonies of desired bacteria;<BR> Research likely bacterial members of your soil community, differentiating metabolic needs or capabilities, physicial differences, and other useful or differentiating characterisitics. <BR>
|'''Homework''' Search the web for photos of colonies of desired bacteria;<BR> Research likely bacterial members of your soil community, differentiating metabolic needs or capabilities, physicial differences, and other useful or differentiating characterisitics. <BR>
-
'''Graded Assignment: '''Make or Fill out a Table''' of the relevant morphologic, physical, and useful metabolic characteristics of expected genera of soil bacterial that you are attempting to find in your habitat. Be sure to read the directions for this assignment found at: Lab 2 Assignment: [[BISC209/S11: Assignment_209_Lab2 | Assignment: Table of Cultured Soil Bacteria Characteristics]].  
+
'''Graded Assignment: '''Make or Fill out a Table''' of the relevant morphologic, physical, and useful metabolic characteristics of expected genera of soil bacterial that you are attempting to find in your habitat. Be sure to read the directions for this assignment found at: Lab 2 Assignment: [[BISC209/S12: Assignment_209_Lab2 | Assignment: Table of Cultured Soil Bacteria Characteristics]].  
|--
|--
| 3
| 3
-
| Tues. 2/8-<br>Wed. 2/9
+
| Tues. 2/14-<br>Wed. 2/15
|  
|  
'''Isolation of Culturable Bacteria:''' Evaluate your success at streaking for isolation;<BR>'''Start CLPP: Community Level Physiological Profiling: Carbon source utilization & nitrogen cycling analysis;'''<BR>Make another soil extract and serial dilution to '''evaluate carbon source utilization;'''<BR> Continue selection & isolation, of desired bacterial groups; <BR> Start '''community exoexyzme profiling''' (starch & cellulose digesters, phosphate solubilizers).
'''Isolation of Culturable Bacteria:''' Evaluate your success at streaking for isolation;<BR>'''Start CLPP: Community Level Physiological Profiling: Carbon source utilization & nitrogen cycling analysis;'''<BR>Make another soil extract and serial dilution to '''evaluate carbon source utilization;'''<BR> Continue selection & isolation, of desired bacterial groups; <BR> Start '''community exoexyzme profiling''' (starch & cellulose digesters, phosphate solubilizers).
Line 78: Line 78:
|--
|--
| 4
| 4
-
| Tues. 2/14-<br>Wed. 2/15
+
| Tues. 2/21-<br>Wed. 2/22
-
| '''Identification of soil community bacteria by 16S rDNA sequencing:''' PCR Amplification of 16S rDNA with "universal" bacterial primers and proofreading polymerase<BR> PCR product clean-up <BR><BR> Run a gel of your cleaned-up pcr product to assess the success of your 16s rRNA gene amplification. Instructor will finish, photograph gel and post the labeled image to the data file;<BR>
+
| '''Isolation of Culturable Bacteria:'''  Examine enrichment and selective media and pick unique isolated colonies of your soil bacteria to acquire pure cultures for each organism<BR> Exoenzyme assessment; CLPP analysis and calculations of carbon source utilization  
-
'''Isolation of Culturable Bacteria:'''  Examine enrichment and selective media and pick unique isolated colonies of your soil bacteria to acquire pure cultures for each organism.<BR> Exoenzyme assessment; CLPP analysis and calculations of carbon source utilization and nitrogen cycling.
+
| Make sure you understand the CLPP analyses and calculations;<BR>  
| Make sure you understand the CLPP analyses and calculations;<BR>  
-
| '''Homework''':Turn in calculations and graphs for CLPP analyses of carbon source testing.'''Introduction section of final paper.''' Read over the [[BISC209/S11:Project1 | Introduction to the Project]] page in the wiki to identify the topic and experimental questions addressed. Include the history of the "Great Plate Count Anomaly" (the disparity between culturable and unculturable soil community bacteria). Use and cite references in journal ''Cell'' format.  A reference that may be helpful is :[http://www.springerlink.com/content/978-3-540-85464-7#section=183950&page=1&locus=2 | Uncultivated Microorganisms by Slava Epstein in Microbiology Monographs Vol. 10, 2009 DOI: 10.1007/978-3-540-85465-4 available as an e-book through Springerlink at the Wellesley College Library] or as a pdf file in the Resources section of the lab Sakai site.  
+
| '''Homework''':Turn in calculations and graphs for CLPP analyses of carbon source testing.'''Introduction section of final paper.''' Read over the [[BISC209/S12:Project1 | Introduction to the Project]] page in the wiki to identify the topic and experimental questions addressed. Include the history of the "Great Plate Count Anomaly" (the disparity between culturable and unculturable soil community bacteria). Use and cite references in journal ''Cell'' format.  A reference that may be helpful is :[http://www.springerlink.com/content/978-3-540-85464-7#section=183950&page=1&locus=2 | Uncultivated Microorganisms by Slava Epstein in Microbiology Monographs Vol. 10, 2009 DOI: 10.1007/978-3-540-85465-4 available as an e-book through Springerlink at the Wellesley College Library] or as a pdf file in the Resources section of the lab Sakai site.  
|--
|--
| 5
| 5
-
| Tues. 2/22-<br> Wed. 2/23
+
| Tues. 2/28-<br> Wed. 2/29
-
| '''Identification of culture-independent soil community bacteria by 16S rDNA sequencing:''' Clone 16s rDNA from successful pcr products into cloning vector<BR> Transform cloning vector into ''E. coli'' and select for transformants on selective media.<BR>
+
| '''Isolation & of Culturable Bacteria:''' Make new cultures from each of your pure cultures of your soil bacteria isolates.   
-
'''Isolation & of Culturable Bacteria:''' Make new cultures from each of your pure cultures of your soil bacteria isolates.   
+
|  
-
| Check to see if you have ''E. coli'' transformants on your selection plates. If not, contact your instructor. <BR>
+
| '''Homework''': Write the M&M section (what you've done so far) for your final paper. Refer to the assignment directions in the [[BISC209/S12:Assignments]] section.
-
| '''Homework''': Write the M&M section (what you've done so far) for your final paper. Refer to the assignment directions in the [[BISC209/S11:Assignments]] section.
+
|--
|--
| 6
| 6
-
| Tues.3/1. - <br> Wed. 3/2
+
| Tues.3/6 - <br> Wed. 3/7
-
| '''Identification of culture-independent soil community bacteria by 16S rDNA sequencing:'''Select 48/per pair (96 per soil habitat) well-isolated, transformants from selective media and grow in broth overnight. <BR>
+
| '''Identification of soil community bacteria by 16S rDNA sequencing:'''Select 48/per pair (96 per soil habitat) well-isolated, transformants from selective media and grow in broth overnight. <BR>
'''Isolation & of Cultured Bacteria:''' Perform physical characteristics tests: smear slide, Gram stain, Confirm Gram stain with selective media, start an antibiotic production test.<BR>
'''Isolation & of Cultured Bacteria:''' Perform physical characteristics tests: smear slide, Gram stain, Confirm Gram stain with selective media, start an antibiotic production test.<BR>
-
|  Send away frozen glycerol stocks of overnight cultures of transformed bacteria for 16S rDNA sequencing. Results should be back within 2 weeks.  
+
|  Send away pcr products (amplified 16s rRNA gene) from pure cultures of bacteria isolated from your soil community for 16S rDNA sequencing and identification. Results should be back within 2 weeks.  
-
| '''Homework''': Write a brief summary of the theory behind the following techniques that we used to identify our bacterial species by molecular tools: genomic DNA isolation, polymerase chain amplification of part of the 16s rRNA genes, use of the Zero Blunt® TOPO® PCR Cloning Kit to create a library of unique plasmid vector with our 16S rRNA gene inserts and then select, One Shot® TOP10 Competent E. coli Cells that allowed us to select and separate our 16S rRNA genes for sequencing, and DNA sequencing by the Sanger method.  
+
| '''Homework''': Write a brief summary of the theory behind using the 16s rRNA gene to identify our bacterial isolates. Your instructor will post appropriate reference papers to Resources in Sakai.  
|--
|--
|--
|--
| 7
| 7
-
| Tues. 3/8- <br> Wed. 3/9
+
| Tues. 3/13- <br> Wed. 3/14
-
| '''Cultured bacteria assessment''': Start SIMs test; Continue antibiotic production test; Read Gram stain confirmation by selective media, Start Quorum Sensing & Bacterial interactions tests.
+
| '''Cultured bacteria assessment''': Start SIMs test; Continue antibiotic production test; Read Gram stain confirmation by selective media, Start Bacterial interactions tests.
| Complete, read, or set up fresh cultures as needed.
| Complete, read, or set up fresh cultures as needed.
-
| '''Homework''': Write a partial Results section with figures/tables: Read more about this assignment at: [[BISC209/S11: Assignment_209_Lab7 | Assignment: Partial Results section with Fig/Tables]]. Refer to the Results section (including the information on effective figure design and how to write figure legends in the "Guidelines for Science Writing" found in the [[BISC209/S11:Resources| Resources]] section of the wiki. Using other published journal articles as models is also an effective way to learn to write a good results analysis.
+
| '''Homework''': Write a partial Results section with figures/tables: Read more about this assignment at: [[BISC209/S12: Assignment_209_Lab7 | Assignment: Partial Results section with Fig/Tables]]. Refer to the Results section (including the information on effective figure design and how to write figure legends in the "Guidelines for Science Writing" found in the [[BISC209/S12:Resources| Resources]] section of the wiki. Using other published journal articles as models is also an effective way to learn to write a good results analysis.
|--
|--
| 8
| 8
-
| Tues. 3/15- <br> Wed. 3/16
+
| Tues. 3/27- <br> Wed. 3/28
| Cont. '''Cultured bacteria assessment:''' Complete and read antibiotic production test, quorum sensing, interactions, SIMS tests. Confirm results with special stains or other motility tests as needed.  
| Cont. '''Cultured bacteria assessment:''' Complete and read antibiotic production test, quorum sensing, interactions, SIMS tests. Confirm results with special stains or other motility tests as needed.  
-
| Make sure you have signed up for an account on the RDB and received a username and password before you come to RDP Lab (9). Link to the RDB:<BR>
+
| Make sure you have signed up for an account on the RDB and received a username and password. Link to the RDB:<BR>
-
[http://rdp.cme.msu.edu/index.jsp].
+
[https://rdp.cme.msu.edu/index.jsp].
| '''Homework''': Results section on isolates work and Graphical Abstract.  
| '''Homework''': Results section on isolates work and Graphical Abstract.  
|--
|--
| 9
| 9
-
| Tues. 3/28- <br> Wed. 3/29
+
| Tues. 4/3- <br> Wed. 4/4
-
| Meet in a computer lab (TBA) for data analysis of your 16S rDNA sequencing results.  
+
| '''Lab Practical'''<BR>  
-
| Complete all work on cultured bacterial isolates to provide evidence for functional co-operation and/or competition in your soil community
+
|  
-
| '''Homework''': Study for your Lab Practical that will be given in Lab 10. Your instructor will give you more instructions about what that test will include and how to study.<BR>Analyze your sequencing data from 16S rDNA sequencing of the soil genomic DNA sequences and start preparing phylogenic trees with identification information for the bacteria in your soil community. Make figures or other displays of these data to supply evidence for the diversity and evolutionary relationships of some of the bacteria in your soil community .
+
| '''Homework''': Study for your Lab Practical. Your instructor will give you more instructions about what that test will include and how to study.<BR>Analyze your 16S rDNA sequences and identify as narrowly as possible the bacteria that you isolated from your soil community. Make a table/figures or other displays of these data.
|--
|--
| 10
| 10
-
| Tues. 4/5- <br> Wed. 4/6
+
| Tues. 4/10- <br> Wed. 4/11
-
| '''Lab Practical'''<BR>
+
|  
-
| Conference with your instructor to discuss your data analysis& poster presentation.
+
|  
-
| '''Homework''': Prepare your group (4 students- 1 soil community) "virtual" poster presentation to be presented in LAB 11
+
| '''Homework''': Prepare your group (4 students- 1 soil community) "virtual" poster presentation
|--
|--
| 11
| 11
-
| Tues. 4/12-<br> Wed. 4/13
+
| Tues. 4/17-<br> Wed. 4/18
-
| "Virtual" Poster presentation in groups by habitat
+
| Science Writing WorkshopII
|  
|  
-
| '''Homework''': Write your final paper in the form of a scientific paper. See the [[BISC209/S11:Resources |Resources]] section for an extensive handout on How to Write in Scientific Style and a link to Wellesley Library information
+
| '''Homework''': Write your final paper in the form of a scientific paper. See the [[BISC209/S12:Resources |Resources]] section for an extensive handout on How to Write in Scientific Style. <BR> Information on your final paper found at: [[BISC209/S12: Assignment_209_Final_Paper | Assignment: Final Paper]]
|--
|--
-
| Conferences
+
| NO LAB PAPER DUE
-
| Wed. 4/20-<br> Tues. 4/26
+
| Tues. 4/24-<br> Wed. 4/25
-
| Meet with your instructor to discuss your final paper.<BR> When & where at discretion<BR> of your instructor.
+
| Final Paper Due by 4pm uploaded to Sakai AND in hard copy to your instructor's office.
 +
|
 +
| Information on your final paper found at: [[BISC209/S12: Assignment_209_Final_Paper | Assignment: Final Paper]]
|--
|--
| 12
| 12
-
| Tues. 5/3-<br> Wed. 5/4
+
| Tues. 5/1-<br> Wed. 5/2
-
| Final Paper due on your lab day.<BR> When & where at discretion<BR> of your instructor.
+
| Group "Virtual" Poster presentation
-
| Information on your final paper found at: [[BISC209/S11: Assignment_209_Lab12 | Assignment: Final Paper]]
+
|  
| End of lab
| End of lab
|--
|--

Revision as of 09:39, 20 May 2011

Wellesley College-BISC 209 Microbiology -Spring 2012

Welcome To Microbiology Lab        Read Me: Lab Safety        Calendar/Weekly Planner        Resources        OWW Basics
       LABS 1-12: Soil Communities & Diversity Project      Graded Assignments     Protocols    


BISC209 S12 Lab Calendar

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

Weekly Planner

BISC209 Weekly Lab Planner

Lab # LAB DATES__ IN LAB WORK________ OUTSIDE OF LAB WORK________ Assignment/Notes
1 Tues. 1/31-
Wed. 2/1
Introduction to Microbiology Lab

Lab Safety
Tools and Techniques of Microbiologist: Aseptic Transfer,
Intro to Soil Microbial Community Project:Soil sampling in Greenhouse habitat;Begin culture of soil organisms: make soil extract and begin enrichment for selected bacteria;
Start Plate Count of Culturable Soil Organisms

Visit the greenhouse and make notes on your selected habitat. Begin to research how to select/enrich for particular soil bacteria. Homework: Read all of Lab 2 & outline or make flow diagrams of your lab work in your lab notebook. Check Resources section of wiki for information about organizing your lab notebook.
Graded Assignment: .Discussion with References of how the enrichment culture techniques and media you will use will select soil bacteria of the specific groups we seek and differentiate them from other microbes in the community. Be sure to read the directions for this assignment found at: Assignment: Enrichment for culturable bacteria of specific groups.
2 Tues. 2/7-
Wed. 2/8
Calibrate Micropipets;
Finish Plate Count & quantify cultured microbes;
Practice Streaking for Isolation: Make soil extract from dried soil and set up isolation of spore-forming bacteria;
Continue enrichment & isolation of selected groups of bacteria
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; BRING TO LAB 3 A NEW SOIL SAMPLE Collected from your group's sampling site. (Materials available for pick up in the lab.) Do not collect it until the day of lab. Homework Search the web for photos of colonies of desired bacteria;
Research likely bacterial members of your soil community, differentiating metabolic needs or capabilities, physicial differences, and other useful or differentiating characterisitics.

Graded Assignment: Make or Fill out a Table of the relevant morphologic, physical, and useful metabolic characteristics of expected genera of soil bacterial that you are attempting to find in your habitat. Be sure to read the directions for this assignment found at: Lab 2 Assignment: Assignment: Table of Cultured Soil Bacteria Characteristics.

3 Tues. 2/14-
Wed. 2/15

Isolation of Culturable Bacteria: Evaluate your success at streaking for isolation;
Start CLPP: Community Level Physiological Profiling: Carbon source utilization & nitrogen cycling analysis;
Make another soil extract and serial dilution to evaluate carbon source utilization;
Continue selection & isolation, of desired bacterial groups;
Start community exoexyzme profiling (starch & cellulose digesters, phosphate solubilizers).

Collect data from BIOLOG ECO plates. Check on cultures and continue isolation. View stained total soil community photomicrographs (provided by your instructor) and do calculations. Homework: Quantify the number microorganisms in your soil community from the photomicrographs prepared and stained by your instructors from your Lab 3 soil extract. Compare this estimation to the CFU/gram of soil (dry wt) calculated in LAB 2 and try to explain the disparity, WITHOUT criticizing your execution of the plate count protocols or other procedures involved.
4 Tues. 2/21-
Wed. 2/22
Isolation of Culturable Bacteria: Examine enrichment and selective media and pick unique isolated colonies of your soil bacteria to acquire pure cultures for each organism
Exoenzyme assessment; CLPP analysis and calculations of carbon source utilization
Make sure you understand the CLPP analyses and calculations;
Homework:Turn in calculations and graphs for CLPP analyses of carbon source testing.Introduction section of final paper. Read over the Introduction to the Project page in the wiki to identify the topic and experimental questions addressed. Include the history of the "Great Plate Count Anomaly" (the disparity between culturable and unculturable soil community bacteria). Use and cite references in journal Cell format. A reference that may be helpful is :| Uncultivated Microorganisms by Slava Epstein in Microbiology Monographs Vol. 10, 2009 DOI: 10.1007/978-3-540-85465-4 available as an e-book through Springerlink at the Wellesley College Library or as a pdf file in the Resources section of the lab Sakai site.
5 Tues. 2/28-
Wed. 2/29
Isolation & of Culturable Bacteria: Make new cultures from each of your pure cultures of your soil bacteria isolates. Homework: Write the M&M section (what you've done so far) for your final paper. Refer to the assignment directions in the BISC209/S12:Assignments section.
6 Tues.3/6 -
Wed. 3/7
Identification of soil community bacteria by 16S rDNA sequencing:Select 48/per pair (96 per soil habitat) well-isolated, transformants from selective media and grow in broth overnight.

Isolation & of Cultured Bacteria: Perform physical characteristics tests: smear slide, Gram stain, Confirm Gram stain with selective media, start an antibiotic production test.

Send away pcr products (amplified 16s rRNA gene) from pure cultures of bacteria isolated from your soil community for 16S rDNA sequencing and identification. Results should be back within 2 weeks. Homework: Write a brief summary of the theory behind using the 16s rRNA gene to identify our bacterial isolates. Your instructor will post appropriate reference papers to Resources in Sakai.
7 Tues. 3/13-
Wed. 3/14
Cultured bacteria assessment: Start SIMs test; Continue antibiotic production test; Read Gram stain confirmation by selective media, Start Bacterial interactions tests. Complete, read, or set up fresh cultures as needed. Homework: Write a partial Results section with figures/tables: Read more about this assignment at: Assignment: Partial Results section with Fig/Tables. Refer to the Results section (including the information on effective figure design and how to write figure legends in the "Guidelines for Science Writing" found in the Resources section of the wiki. Using other published journal articles as models is also an effective way to learn to write a good results analysis.
8 Tues. 3/27-
Wed. 3/28
Cont. Cultured bacteria assessment: Complete and read antibiotic production test, quorum sensing, interactions, SIMS tests. Confirm results with special stains or other motility tests as needed. Make sure you have signed up for an account on the RDB and received a username and password. Link to the RDB:

[1].

Homework: Results section on isolates work and Graphical Abstract.
9 Tues. 4/3-
Wed. 4/4
Lab Practical
Homework: Study for your Lab Practical. Your instructor will give you more instructions about what that test will include and how to study.
Analyze your 16S rDNA sequences and identify as narrowly as possible the bacteria that you isolated from your soil community. Make a table/figures or other displays of these data.
10 Tues. 4/10-
Wed. 4/11
Homework: Prepare your group (4 students- 1 soil community) "virtual" poster presentation
11 Tues. 4/17-
Wed. 4/18
Science Writing WorkshopII Homework: Write your final paper in the form of a scientific paper. See the Resources section for an extensive handout on How to Write in Scientific Style.
Information on your final paper found at: Assignment: Final Paper
NO LAB PAPER DUE Tues. 4/24-
Wed. 4/25
Final Paper Due by 4pm uploaded to Sakai AND in hard copy to your instructor's office. Information on your final paper found at: Assignment: Final Paper
12 Tues. 5/1-
Wed. 5/2
Group "Virtual" Poster presentation End of lab


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