Diversity of Bioenergetic Mechanisms (CH 564)

Course plan

Wk

Dates

Tuesday

Thursday

1

1/11

 

Syllabus
Get to know you stuff

Start review of respiration & oxygenic photosynthesis

Play with equipment

2

1/16, 18

Continue review of respiration

Play with Schizosaccharomyces

Review of oxygenic photosynthesis

Play with Chlamydomonas

How to read a scientific paper

3

1/23, 25

Review of ATP synthase

Assign papers on Paracoccus

Start playing with Paracoccus denitrificans (aerobic)

Intro: alternate respiration with nitrate (and others)

How to give a presentation

Play with Paracoccus: aerobic & anaerobic

4

1/30, 2/1

Presentations on Paracoccus: respiratory electron transport chain

Finish playing with Paracoccus

Finish presentations on Paracoccus: N-oxide respiration

CO2 fixation via the Calvin cycle

How to find papers.
Assign topics on anoxygenic photosynthesis.

Play with Synechocystis

5

2/6, 8

Anoxygenic photosynthesis:
type 2: type 2 RCs and chlorosomes

Presentations:
Hydroxyproprionate pathway (Yarlagadda)
Use of glyoxylate (Wargo)

Play with Chloroflexus auranticus

Anoxygenic photosynthesis:
type 1 RCs & reverse TCA cycle

Presentations:
Citrate lyase (Luthra)

Role of ferredoxin (Hough)

Play with Chloroflexus aurantiacus & Chlorobium tepidum

6

2/15

 

(Instructor out)

Anoxygenic photosynthesis:
type 2 (revisited)

Presentations:
Delayed

Play with Rhodobacter sphaeroides

7

2/20, 22

Bacterial phylogeny

Dissimilatory sulfur & iron metabolism

Presentations:
Sulfide:quinone oxidoreductase (Bullock)

Play with Acidithiobacillus ferrooxidans

Dissimilatory sulfur & iron metabolism (contıd)

Introduction to proposals

Presentations:
none...


Play with Acidithiobacillus ferrooxidans

8

2/27, 3/1

Dissimilatory sulfur & iron metabolism

Presentations:
Sulfur oxidation (Yarlagadda)

Hydrogenases (Reifschneider)

 

Play with Acidithiobacillus

 

Finish up iron oxidation experiment.

 

Rest canceled due to inclement weatherŠ

9

3/6, 8

Desulfobacterium (sulfate reduction) and Geobacter (Ferric iron reduction)

Nitrifying bacteria

Presentations:
Ferredoxin:NAD(P) oxidoreductase (Manolakis)

Sulfite reductase (Manolakis)


How to prepare a proposal

 

Play with Nitrobacter winogradskyi

Presentations:
Ammonia Monooxygenase (Wargo)

Hydroxylamine oxidase (Luthra)

Nitrite oxidoreductase (Hough)

How to write a proposal

 

Play with Nitrobacter winogradskyi

 

[Final approval of proposal topics]

10

3/13, 15

Spring Break!

Spring Break!

11

3/20, 22

1-carbon metabolism: methanotrophs & methylotrophs

Presentations:
Methane monooxygenase (Bullock)

Formaldehyde dehydrogenase (Yarlagadda)

 

Play with Desulfobacterium autotrophicum

1-carbon metabolism

Presentations:

Formylmethanofuran dehydrogenase (Reifschneider)

Methenyl(methylene)-tetrahydromethanopterin reductase(s) (Wargo)

 

Guest speaker: Prof. Eduardus Duin (Auburn) – Methyl-Coenzyme M reductase

 

Play with Methanothermobacter marburgensis

12

3/27, 29

Instructor out

 

(Work on your proposals!)

1-carbon metabolism: methylotrophic methanogens

Presentations:

Formate dehydrogenase (Yarlagadda)

 

Discuss proposals & study sections

Play with Methanosarcina barkeri

13

4/3, 5

Other archaea: Archeoglobus & Halobacterium

Presentations:

Methyltransferases involved in moving methyl group from methanol to Coenzyme M (Luthra)

CO dehydrogenase in methanogens (Hough)

Play with Archeoglobus fulgidus?

[4/2 @ 6PM: Submission deadline for proposals by email as PDF. Bring 1 hard copy to class.]

Study panels 1 & 2

 

14

4/10, 12

Pick best experiments & start

Also pick presentation topics

Do experiments

WH absent

15

4/17, 19

Acidithiobacillus (Bullock)

Do experiments

Do experiments

RL & KTR absent
(Redding at NSF)

 

16

4/24, 26

Hydrogenases (Manolakis)

Do experiments

Lab reports due by 6PM of April 24.

Heliobacteria (Reifschneider)

RL absent

Finish experiments &
start to write paper

17

5/1, 5/3

Finish experiments & write paper

Finish paper

18

5/7-11

Submit paper

No final exam!