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Prior to inhibition and mixing experiments, all strains other than D. discoideum were scraped from cleared agar plates and washed free of bacteria by centrifugation at 750×g for 5 min. They were washed at least three times in SorC buffer (Sorensen's buffer containing 50 µM CaCl2: 17 mM KH2/Na2HPO4, 50 µM CaCl2, pH 6.0).
Similar(59)
A minor change in frameshifting efficiencies can be detected and clearly shown phenotypically in terms of zones of clearing on an agar plate.
Three of these measurements were taken per image and the average ratio across plot profiles was calculated to determine, for each strain, the percentage of the tube cleared at 60 min. The agar invasion assay measures a strain's ability to invade solid agar media, quantified by the density of cells remaining in the media when colonies are washed off the surface.
The plates were incubated at 37 °C and observed daily for signs of clearing of agar around the colonies during incubation.
The appropriate number of spores was used to allow the agar plates to be cleared of Klebsiella pneumoniae by 48 hours.
Washed sections were mounted onto coverslips in agar, dehydrated through alcohols, cleared with methylsalicylate and embedded in slides with DPX (VWR International PBI, Milano, Italy).
Cells were post-fixed in 1% aqueous osmium tetroxide (OsO4) and 1.5% potassium ferrocyanide (Sigma-Aldrich) in cacodylate buffer, dehydrated in a graded ethanol water series, cleared in propylene oxide and infiltrated with Agar 100 resin.
The growth of nîmes373 on 0.7% calcium carbonate agar plates with 7% ethanol (pH 3.5) cleared calcium carbonate.
The plates were incubated and observed for clearing zones in the agar.
The agar blocks were then rinsed in PBS, dehydrated to absolute ethanol, cleared in Histoclear and embedded in Paraplast Xtra following standard histological schedules.
Microorganisms capable of degrading a polymeric material are determined by looking for zones of clearing around microbial colonies on agar media that are opaque due to the presence of powdered polymer (Pettigrew and Johanson 1996; Ten et al. 2004).
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