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Agarose is a polysaccharide extracted from red seaweed. It is commonly used as a gel matrix for electrophoresis, a technique used to separate and analyze biomolecules such as DNA, RNA, and proteins. Agarose forms a stable, inert gel that allows for the migration and separation of these molecules based on their size and charge.

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3 protocols using agarose

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Hydrogel Scaffold Preparation Protocols

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Sodium alginate solution was made by dissolving 1% (w/v) Sodium alginate (Sigma-Aldrich, UK) in deionized (DI) water. calcium chloride solution was prepared by dissolving 4% (w/v) calcium chloride (CaCl2) (Sigma-Aldrich, St. Louis, MO) in DI water. For constructing fibrin scaffolds, fibrinogen (6 mg/ml) (Sigma-Aldrich) and thrombin (2.4 U/ml) (Sigma-Aldrich) were prepared for microvalve bioprinting. For bioprinting of electrocytes, agarose (A20070-100, Research Products International, IL) was dissolved in DI water to obtain a solution of 1% (w/v) agarose at 90°C. COL I was extracted from rat tails according to a published protocol (54 (link)). GelMA was synthesized according to an established protocol (55 (link)). Detailed preparation methods of both materials can be found in the Supplementary Materials.
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SARS-CoV-2 Neutralization Assay

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Sera from immunized mice were tested for neutralizing activity against authentic SARS-CoV-2 infection using plaque reduction neutralization assay as described below.25 (link),26 (link) Specifically, serially diluted sera were incubated with the SARS-CoV-2 original strain, Delta (B.1.617.2) or Omicron (B.1.1.529) variant (40–80 plaque-forming unit (PFU)/well) at 37°C for 1 h. The virus-serum mixture was then added to Vero E6 (for original strain and Delta variant) or Vero E6 cells in the presence of ACE2 and TMPRSS2 (for Omicron variant) at 37°C for 45 min. The inoculum was removed, followed by overlaying the cells with 0.6% agarose (Research Products International) and culturing them for three days. The plaques were stained with 0.1% crystal violet (Fisher Scientific). The neutralizing antibody titer was calculated as NT50 (representing highest serum dilution that reduced the number of virus plaques by 50%).
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Enzymatic Synthesis of GDP-Glycero-Manno-Heptose

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Unless otherwise noted, all chemicals used in this study were obtained from Sigma-Aldrich, Carbosynth, or GE Healthcare Biosciences. The bacterial growth medium, agarose and isopropyl-β-d-thiogalactopyranoside (IPTG) were purchased from Research Products International (RPI). Escherichia coli strain BL21-Gold (DE3) and the restriction enzyme DpnI were obtained from New England Biolabs. PfuTurbo DNA polymerase was purchased from Agilent. DNA sequencing was conducted by Eton Biosciences Inc. GDP-d-glycero-α-d-manno-heptose (1) was enzymatically synthesized and purified as described previously (9 (link)).
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