IGEM:Harvard/2006/Cyanobacteria/Contacts

DNA Synthesis Companies

 * 1) Blue Heron Biotechnology, Inc.
 * 2) *Advertised as 2-4 weeks, but teams have had problems getting sequences on time in the past.
 * 3) Codon Devices, Inc.
 * 4) DNA 2.0, Inc.
 * 5) GENEART
 * 6) CODA Genomics Synthetic Expression

Add more links here. Additional information would be useful.

Important people to contact

 * 1) Prof. Alexander van Oudenaarden MIT
 * 2) * Emailed, we can meet up with him when he gets back from Woods Hole first week of July
 * 3) * May have many of the genes we want already on plasmids
 * 4) Jeffrey Chabot
 * 5) * Post Doc who wrote the PhD thesis on cyanobacteria
 * 6) * We have his email address
 * 7) Prof. Susan Golden Texas A&M
 * 8) * Is working on pretty much the same stuff we are looking at
 * 9) * Have emailed
 * 10) * Have talked to on phone-- see here
 * 11) Peter Weigele MIT
 * 12) * Post Doc who works with cyanobacteria
 * 13) * Have emailed correspondance (see Peng); can get PCC7942 strains
 * 14) * Have contacted and obtained PCC7942 and PCC6803 (a glucose-digesting strain)
 * 15) Prof. Andrew Knoll Harvard OEB
 * 16) * Worked with evolutionary cyanobacteria
 * 17) * Called; gave references to other experts around the area
 * 18) Prof. Stjepko Golubic BU
 * 19) * Prof. Knoll said he knew a lot about cyanobacteria
 * 20) Prof. Colleen Cavanaugh Harvard OEB
 * 21) Prof. Woodland Hastings Harvard OEB
 * 22) * Corresponded with a Japanese lab group which works with cyanobacteria
 * 23) * Specializes in circadian rhythms

Questions that we need to ask

 * 1) If we put a reporter downstream of kaiBC what happens to it
 * 2) *It oscillates in cyanobacteria, but won't in E. coli b/c transcription isn't controlled
 * 3) What happens when we put a plasmid in cyanobacteria? Does it replicate?
 * 4) *Only if it is based on an endogenous plasmid. Paper from 20 yrs back...
 * 5) *There are endogenous plasmids (2)
 * 6) *PCC7942 has homologous recombination
 * 7) **But we don't know if a plasmid will be maintained
 * 8) **new: hybrid plasmid possible on this paper
 * 9) **Another hybrid plasmid developed by Professor Golden in 1983: link here
 * 10) Do we know what the sigma factor is in Kondo et al
 * 11) * We can put in alot
 * 12) Possible ways for reporting if oscillation works
 * 13) Any other mechanisms?
 * 14) How bad is the codon bias problem / would we need to actually mutate parts of the genome to move to E. coli?
 * 15) Is there any feasible reporter we can have in E. coli?
 * 16) How to grow WH8102?
 * 17) Difference in circadian clock b/t PCC7942 and PCC6903?
 * 18) Growth conditions in liquid: use thiiosulfate? Hours light/dark? General streaking?
 * Ask Professor Golden about the plasmids pAM1579 and pAM1303.


 * Recognizing phosphorylation in e. coli; i.e. synchronization
 * Article on synchronization
 * IGEM:Harvard/2006/Cyanobacteria/Notebook/2006-6-30