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All substrates were sequenced to verify insertion and orientation of the inserts.
Following PCR screening for correct insertion and orientation, the kanamycin resistance cassette was introduced into strain SL1344 by bacteriophage P22 transduction using standard protocols.
Moreover, palmitate groups are important for determining the interaction of H-Ras with specific membrane microdomains, its membrane insertion and orientation and its presence in internal membranes, which in turn may influence the engagement of various signaling pathways [8], [9].
Finally, one such positive colony was selected and used for additional PCR verification by amplifying both gene-intron junctions to ensure proper intron insertion and orientation.
The resulting clones obtained in E. coli cells were examined using colony PCR to determine the insertion and orientation of the coding sequence.
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The insertion site and orientation of IS 629 varied as well (Fig. 2a and Additional file 4: Table S3).
Here we present a rapid and robust tool for accurate detection of ISs, including insertion site and orientation, direct from short-read data.
For each mutant, the precise insertion site and orientation of the mini-Tn 5 was determined by PCR, combining the Oend and Iend primers with new specific primers (supplementary table S1, Supplementary Material online) designed around each probable insertion site.
The presence of an IS 6110 element in the promoter region of phoP in BCG-Russia, -Japan, and -Moreau has been described previously, but its insertion site and orientation were not determined until now [ 49].
Insertion and correct orientation was evaluated by digestion with Ppu 21I and automated DNA sequencing.
Such particular structure is resulted from the approach of tilted lamellae along the drawing direction, the insertion and the orientation of new lamellae.
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