UofFloridaTutorial

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Welcome to the SEED tutorial

Examine this page and follow the links for all you need to know and do to get ready:

• Assignment description and contact information Introduction_assignment.pdf
• Sample of subsystem background materials to be prepared in advance Sample_folder.zip
• Draft of the Subsystem Paper for your orientation SubsystemPaper_draft.pdf

Proceed to claiming a subsystem that you will be developing during the tutorial

• Make sure that a subsystem is not claimed yet (column “Claimed by”)
• Explore the links provided in the table to assess the tasks (column "Subsystem")
• Send an e.mail to organizers with three acceptable choices
• For contact information and details of the assignment, see the materials above

	Subsystem	Classification	Scope	Challenge	Suggested by	Claimed by	Comments
1	Lysine biosynthesis AAA pathway	Amino Acids and Derivatives/Lysine, threonine, methionine, and cysteine	NEW	High	AO	Benjamin Sloniker**	Consult with Andrei Osterman
2	3-hydroxypropionate cycle of CO2-fixation	Carbohydrates/Central carbohydrate metabolism	NEW	Medium	VC
3	Carboxysome	Carbohydrates/CO2 fixation	NEW	Basic	SG	Malgorzata Gil (*6:45AM)
4	Acetyl-CoA pathway of CO2 fixation	Carbohydrates/CO2 fixation	NEW	Basic	SG	Heather Tyler (*11:36AM)
5	Reductive TCA cycle of CO2 fixation	Carbohydrates/CO2 fixation	NEW	Medium	SG	Lilian Waiboci (*8:08AM)	Coordinate with TCA SS
6	Pectin Degradation	Carbohydrates/Polysaccharide Metabolism	NEW	Medium	DR	Shengde Zhou
7	Isocitrate Lyase independent glyoxylate cycle	Carbohydrates/Central carbohydrate metabolism	NEW	Medium	VC	Phi Minh Do (*8:48PM)
8	Poly-beta-hydroxybutanoate metabolism	Carbohydrates/Organic acid metabolism	NEW	Medium	SG	Youngyun Kim
9	Cellulosome of bacteria	Carbohydrates/Polysaccharide Metabolism	NEW	High	VC	Franz St. John (*2:08PM)
10	D-alanyl-lipoteichoic acid biosynthesis	Cell Wall and Capsule/Gram-Positive cell wall components	NEW	Basic	OZ	Elliot Miller (*7:08AM)	Coordinate with Teichoic acid biosynthesis SS
11	Teichoic acid biosynthesis	Cell Wall and Capsule Gram-Positive cell wall components	NEW	Medium	OZ	Cindy Capestany (*7:08PM)	Coordinate with D-alanyl-lipoteichoic acid biosynthesis SS
12	Pyridoxine biosynthesis	Cofactors, Vitamins, Prosthetic Groups, Pigments	NEW	High	DR	Eunmin Cho
13	Cobalamin (vitamin B12) biosynthesis	Cofactors, Vitamins, Prosthetic Groups, Pigments	NEW	High	DR
14	Molybdenium cofactor biosynthesis	Cofactors, Vitamins, Prosthetic Groups, Pigments/Folate and pterins	NEW	Basic	VC	Diane Holder (*7:53AM)
15	F420 cofactor biosynthesis	Cofactors, Vitamins, Prosthetic Groups, Pigments/Folate and pterins	NEW	Basic	VC	Amy Wright (*8:58AM)
16	Folate biosynthesis v.2	Cofactors, Vitamins, Prosthetic Groups, Pigments/Folate and pterins	UPGRADE	High	VC		Consult with Dr. de Crecy Lagard
17	Tetrahydrobiopterin biosynthesis, and regeneration	Cofactors, Vitamins, Prosthetic Groups, Pigments/Folate and pterins	UPGRADE	Medium	VC	Dr.Madeline Rasche	Consult with Dr. de Crecy Lagard
18	Pyrroloquinoline quinone biosynthesis	Cofactors, Vitamins, Prosthetic Groups, Pigments/Protein derived cofactor	NEW	High	OZ	Jonathan Moore (*6:45AM)
19	Anaerobic_benzoate_metabolism	Degradation of Xenobiotics	NEW	Medium	OV	Matthew Humbard**
20	Benzoate degradation	Metabolism of aromatic compounds	NEW	Basic	OV	Changhao Bi
21	Biphenyl degradation	Metabolism of aromatic compounds	NEW	Basic	OV	Guang Nong
22	Hydroxyphenylpropionate catabolism	Metabolism of aromatic compounds	NEW	Basic	OV	Dr.Brett Kirkland
23	Phenylpropanoid biosynthesis in bacteria	Metabolism of aromatic compounds	NEW	Medium	OV	Jian Song
24	Proteolysis, ATP-dependent in bacteria	Protein Metabolism/Protein Degradation	NEW	Basic	VC	Johnny Davis (*8:27AM)
25	Queuosine and Archaeosine biosynthesis	RNA metabolism/RNA processing and modification	UPGRADE	High	VC	Carol Bonner	Consult with Dr. de Crecy Lagard
26	Envelope stress response in E.coli	Stress response	NEW	High	VC	Dr.Julie Maupin	Consult with Dr. de Crecy Lagard
27	Aliphatic sulfonate utilization in bacteria	Sulfur metabolism	NEW	Medium	OV
28	CcrM and cell cycle regulation in bacteria	Cell Division and Cell Cycle	NEW	High	PP	Priscilla Phillips

* - PST of the e.mail request was applied as one of the priority factors ** - automatic assignment, renegotiation is possible