Device

Part:BBa_K1585351:Experience

Designed by: Michael Osthege, Sarah Lubjuhn, Laura Helleckes   Group: iGEM15_Aachen   (2015-09-06)


This experience page is provided so that any user may enter their experience using this part.
Please enter how you used this part and how it worked out.

Applications of BBa_K1585351

The construct is part of a two-plasmid knockout system published by [http://aem.asm.org/content/81/7/2506.long| Jiang et al]. This part, the pTargetT, contains the sgRNA to target the glgP coding sequence. Additionally, the construct consists of a repair template with two 400 bp homology arms for homology-directed repair. To succesfully knock out the glgP, you need a second plasmid, pCas. It contains the pCas gene as well as a temperature-sensitive repA101ts ori. To increase recombination efficiency in E. coli, it also expresses lambda-Red genes behind an inducible arabinose-promoter. Upon induction with IPTG, a sgRNA is transcribed to cut the pMB1 ori of the pTargetT. After cloning both the targeting plasmid and the pCas plasmid in BL21 Gold (DE3) and inducing with arabinose, the Cas9 gene is expressed. Guided by the sgRNA, it cleaves the double strand at the beginning of the glgX gene. The succesful genome editing could be verified by sequencing.

Sequencings of the respective genomic region have shown that glgP was successfully cut out. In further experiments, the effect of this gene knockout was characterized. The expected consequence was an accumulation of glycogen due to the absense of a glycogen phosphorylase degrading alpha-1,4-linked glucose. We confirmed this by iodine staining with Lugol's iodine, which dyes glycogen in a brown color. If more glycogen is present, the color of stainend cultures is darker. In the picture below, the BL21 Gold (DE3) ∆glgP strain is much darker than the wild type.

glgP gene knockout
The knockout was achieved cutting out most of the coding sequence of glgP, thereby inserting a short coding sequence that contains multiple stop codons in both frames.



Iodine staining of BL21 Gold (DE3) glgP knockout compared to BL21 Gold (DE3) wild type
Iodine staining was performed with overnight cultures in M9 medium which were adjusted to the same OD. The darker color of the glgP knockout strain shows that more glycogen is present. Thus, the effectivity of the targeting plasmid is shown.


User Reviews

UNIQ705ce787e9f74cc2-partinfo-00000004-QINU UNIQ705ce787e9f74cc2-partinfo-00000005-QINU