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4 protocols using glass slide cover

1

Brightfield and Fluorescence Microscopy of Microbubbles

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Brightfield and Fluorescence Microscopy were performed using a BX50 Upright Microscope (ACH 60X/0.80 ∞/0.17 objective) or a IX70 Inverted Microscope (ACH 60X/0.80 ∞/0.17 objective) with a 100 W HighPressure Mercury Burner, Olympus (Waltham, MA). A diluted sample of bubbles at 1 × 107 MB/mL was placed in a small well created by using high vacuum silicone grease, Dow Corning (Midland, MI), on a 25 × 75 × 1 mm microscope slide covered with a glass slide cover Fisher Scientific (Waltham, MA). Type A immersion oil (η = 150 cSt) was used for upright microscopy, and type FF immersion oil (η = 170 cSt) was used for inverted microscopy, Cargille Laboratories (Ceder Grove, NJ). The appropriate filters were used to separate DiO and DiD fluorescence. Images were acquired using a Rolera Bolt CMOS QImaging Camera (Surrey, British Columbia, Canada). Confocal microscopy was performed for select experiments using the UT Dallas Imaging Core Facility (Olympus FV3000RS).
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2

Characterization of Hemoglobin Microbubbles

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The protocol for synthesizing the novel hemoglobin microbubbles has been discussed in detail in the supplementary information. After preparing the microbubble solution, the Coulter Counter method was used to measure particle size distribution and concentrations of the microbubbles. A 2 μL sample of microbubbles was diluted in 10 mL of isotone II within a 25 mL cuvette and characterized using a Multisizer 4e Coulter Counter (MS4), Beckman Coulter (Brea, CA). The samples were measured three times, and the size distributions were averaged. A BX50 Upright Microscope (A.C.H. 40X/0.80 ∞/0.17 objective) was used to visualize the microbubbles for brightfield microscopy. A small square-shaped well was created using high vacuum silicone grease, Dow Corning (Midland, MI). 10 µL of the sample after dilution was placed in the well on a 25 × 75 × 1 mm microscope slide covered with a glass slide cover (Fisher Scientific, Waltham, MA).
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Measuring Bacterial Cell Length with Microscopy

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About 10 μl of cell samples were mounted on a number 1.5, 24 × 50 mm (thickness of 0.16–0.19 mm) cover glass slide (Fisher or VWR). Cells were cushioned with a 3% (w/v) agarose gel pad to restrict the movement of the live cells. Cells were optically imaged using a Nikon Eclipse Ti inverted microscope equipped with crossed polarizers and a Photometrics CoolSNAP HQ2 CCD camera using a Nikon 100X oil objective lens. Phase-contrast images of bacterial cells were recorded with an exposure time of 50 ms using Nikon NIS Elements software. Multiple snapshots were collected for each experiment. All images were analyzed to measure the cell length in Oufti (54 (link)) using one single optimized parameter set and manual verification. Confidence intervals of the fraction of elongated cells for each mutant were computed from 1000 replicates of bootstrap resampling (55 ).
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4

Fluorescent Fibrinogen Electrospinning Protocol

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100 mg/ml lyophilized bovine fibrinogen (Sigma-Aldrich Chemical Co.) was prepared with a solution of 9-part 1,1,1,3,3,3-hexafluoro-2-propanol (HFP, Sigma-Aldrich) and 1-part minimum essential medium (MEM, 10x MEM, Gibco, Invitrogen cell culture). 3.17 mg Rhodamine 6G fluorophore (Eastmen Kodak, Rochester, NY; molecular weight 479 g/mol) was then added to the mixture to get a final ratio of 15 fluorophores per fibrinogen molecule. The electrospun fibrinogen fibers were spun onto a cover glass slide (number 1.0, 24 mm × 60 mm, Fisherbrand, Pittsburgh, PA) as described in [34 (link)].
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