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The pellet was washed twice in 100%acetone/200 mM HCl before the pellet was resuspended in 25 mM Tris, 2% SDS (1/5th original volume).
The procedure was repeated once before the pellet was washed first with 0.1 M phosphate buffer pH 7, then with water and finally acetone.
Each fraction containing presumptive viral particles was diluted in TN buffer and re-centrifuged at 300,000 g for 2 h before the pellet was re-suspended again after overnight incubation in TN buffer.
The supernatant was discarded and the pellet resuspended in 300 μl buffer A and left on ice for 10 min before the pellet was again homogenized and centrifuged at 3000 rpm for 30 min at 4 °C.
Shear treated broth was centrifuged and supernatant equal to two-thirds of the total volume was removed before the pellet was resuspended in the remaining supernatant to obtain USD heavy phase with a dewatering level of 66.7% (v/v) using equation: (3) where mHP and mF represent the mass or volume of the heavy phase and feed streams, respectively.
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Two to three days before inoculation the pellet was re-suspended to a concentration of 1 mg bwm/mL using PBS.
The cell lysates were centrifuged at 10,000 rpm for 2 min; the supernatant was saved and stored at –70°C before use and the pellet was discarded.
Before the assay, the pellet was resuspended anaerobically in 0.5 ml Assay Buffer (0.1 M Tris HCl, 0.1 mM Fe2+, 0.1 mM DTT, pH 7.5).
Before MS/MS analysis, the pellet was redissolved in 0.8 μL matrix solution [5 mg/mL α-cyano-4-hydroxy-cinnamic acid diluted in 0.1% trifluoroacetic acid (TFA), 50% (v/v) acetonitrile].
Samples taken before July 1988 were centrifuged and only the pellet was stored.
After this, the liquid was discarded and the pellet was air-dried before being resuspended in 100 uL TE buffer.
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