User:Jlogan

Name: Jennifer Logan
Email: jlogan at mit dot edu

M13 phage re-engineering ideas:

Gene	Ideas
I	Modify such that it is able to interact with multiple p4s and see how phage secretion changes (this would affect the effectiveness of the channels).
II	modify such that it not only nicks the double stranded form of the genome to initiate replication of the + strand, but also nicks the - strand to impede the formation of dsDNA (this would also help g5). Care should be taken when modifying because this is also linked to g10.
III	Add myc or other tag to monitor how it affects time delay/progression of phage escape from host
IV	modify to increase its affinity for p1 and p11--this would possibly increase the effectiveness of the channels
V	Modify such that it is able to sequester the positive stranded DNA more effectively, thus reducing the competition with dsDNA formation
VI	As an accessory protein to p3, modify such that p3 is more effective in its interaction with TolA protein
VII	Modify in such a way to allow for phage secretion speed to increase so the phage-host interaction time is decreased.
VIII	Add myc or alternative tag to possibly aid in targeting various qualities of host
IX	Same principle as gene VII except that care must be taken with this modification because it overlaps with gene 8.
X	Modify such that + strands are not dependent on the presense of p10. This would work in conjuction with our modification of p2 (since they are linked).
XI	same as p1

M13.1 Section Design

Modification/Limitation	Description
gene VIII and promoter-g3	These two overlapped so I separated and added in ecoRI and XmaI restriction sites to create unique sticky ends
G3 ORF	simnd BclI restriction sites.
G7 F	like iction sites.
(d G7 ORF	lI restriction sites.
(G8	like triction sites.
G8	NarI restriction sites.

My Redesigned Phage Section