CIFR (Clone-Integrate-Flip-out-Repeat): A toolset for iterative genome and pathway engineering of Gram-negative bacteria.

Federici F, Luppino F, Aguilar-Vilar C, Mazaraki ME, Petersen LB, Ahonen L, Nikel PI
Metab Eng. 2025 Jan 6;88:180-195. doi: 10.1016/j.ymben.2025.01.001. (Link opens in a new window) PubMed (Link opens in a new window) Article

Plasmids from Article

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ID	Plasmid	Purpose
227670	pFNC-8	Plasmid encoding the BxbI phage integrase. It can be used to remove the antibiotic resistance cassette integrated with pCIFR. AmR, easily curable via sucrose counterselection.
227669	pFNC-6	Plasmid encoding the BxbI phage integrase. It can be used to remove the antibiotic resistance cassette integrated with pCIFR. GmR, easily curable via sucrose counterselection.
227668	pFNC-4	Plasmid encoding the BxbI phage integrase. It can be used to remove the antibiotic resistance cassette integrated with pCIFR. SmR, easily curable via sucrose counterselection.
227666	pCIFR-8	Integration of msfGFP (or your Module Of Interest) in a random fashion via Tn5 insertion. The antibiotic cassette (Am) used for selecting for the integration can be removed in a later stage with pFNC.
227665	pCIFR-6	Integration of msfGFP (or your Module Of Interest) in a random fashion via Tn5 insertion. The antibiotic cassette (Gm) used for selecting for the integration can be removed in a later stage with pFNC.
227664	pCIFR-4	Integration of msfGFP (or your Module Of Interest) in a random fashion via Tn5 insertion. The antibiotic cassette (Sm) used for selecting for the integration can be removed in a later stage with pFNC.
227663	pCIFR-2	Integration of msfGFP (or your Module Of Interest) in a random fashion via Tn5 insertion. The antibiotic cassette (Km) used for selecting for the integration can be removed in a later stage with pFNC.