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13 protocols using steriflip unit

1

Assessing Pseudomonas Supernatant Survival Effects on Staphylococcus

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To prepare cell-free supernatant, P. aeruginosa was inoculated from an overnight culture at an OD600 of 0.05 and allowed to grow for 16 hours in medium with the indicated additives. The culture was centrifuged, and the supernatant was filtered with a Steriflip unit with a 0.2 μm polyethersulfone filter (MilliporeSigma). For the survival assay, S. aureus was inoculated from an overnight culture at an OD600 of 0.05 and grown to an OD600 of 0.5. Next, 500 μL of culture was added to 500 μL (50% v/v final concentration) of either P. aeruginosa cell-free supernatant or M63 salts control. After 16 hours, S. aureus was plated on LB agar plates and enumerated after growth.
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2

Exoprotein Isolation from S. aureus

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Overnight cultures of S. aureus strains were diluted to OD600 of 0.05 in fresh media and grown for 24 hours in flasks (or tubes or 96-well plates for NTML library supernatant preparation). Bacterial cultures grown in flasks were centrifuged at 4,000 rpm for 20 minutes. The supernatant was applied to a Steriflip unit with a 0.2 μm polyethersulfone filter (MilliporeSigma, Burlington, Massachusetts, USA). For the resuspension of S. aureus exoproducts shown in S2 Fig, 5 mL of frozen flask supernatant was lyophilized overnight and then resuspended in the same volume of either media or water. For supernatants prepared from the NTML library in 1-mL tube cultures or 96-well plates, culture was directly transferred to AcroPrep Advance 96-well 0.2 μm polyethersulfone filter plates (Pall, Port Washington, New York, USA) and centrifuged at 4,000 rpm for 10 minutes to collect the sterile-filtered flow through. Supernatants were stored at −30°C until use.
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3

Induction of Mutant Kir6.2 Expression in Mice

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In Rosa26mKir6.2NDM and Rosa26mKir6.2NDM-V108E mice, the expression of mutant Kir6.2 activity occurred in the pancreas upon the excision of the Neo/WSS cassette by the tamoxifen-dependent Cre recombinase (Remedi et al., 2009 (link)). Exposure to tamoxifen permitted the translocation of Cre recombinase from the cytoplasm to the nucleus in order to perform the excision between loxP sites within the targeted Rosa26 locus. To induce the expression of mutant Kir6.2 activity and consequently the diabetic phenotype in these mutant mice (8–12 weeks of age), corn oil containing tamoxifen (75 mg/kg body weight; prepared as described below) was injected intraperitoneally for five consecutive days. Injection sites were sealed with a tissue adhesive (3M Vetbond) to prevent leakage of the injected liquid.
To make a liquid stock of tamoxifen (20 mg/ml) for injection, tamoxifen solids (Millipore-Sigma, T5648) were added into corn oil (Millipore-Sigma, C8267) in a polypropylene tube wrapped with aluminum foil to protect tamoxifen from light. The stock was placed on a nutator to dissolve overnight at room temperature. The dissolved tamoxifen stock was filtered through a sterilized Steriflip unit (Millipore) then aseptically aliquoted, stored at 4°C, and used within 5 days.
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4

Immunophenotyping Hematopoietic Stem Cells

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Cells were pelleted and washed with wash buffer (HBSS + 1% BSA, filtered with a 50ml Steriflip unit (Millipore, Burlington, MA)) prior to 30m incubation in Fc Receptor Blocker (Innovex Biosciences, Richmond, CA) on ice in the dark. Cells were washed twice before resuspension in wash buffer containing conjugated antibodies for flow cytometry at their recommended concentrations (CD34-PE 555822, CD38-PE-Cy5 555461, Becton Dickinson, Franklin Lakes, NJ), and incubation for 30m on ice in the dark. Cells were washed three times and resuspended in 350uL wash buffer before measurement with flow cytometry at a flow rate of 9.0. Doublets were called based on gates drawn for FSC-A and FSC-W, and dead cells were counted based on gates drawn in FSC-A and SSC-A. All flow cytometry or FACS was performed on the Aria IIu in the Center for Advanced Technologies at UC San Francisco.
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5

Cardiosphere-Derived Cell Isolation and Culture

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CDCs were prepared as described previously (Smith et al., 2007 (link)). Briefly, atria and ventricular septum were obtained from the healthy hearts of deceased tissue donors. Tissue was chopped, mixed in 1:4 atria to septum ratio, washed, and seeded on CellBIND flasks (Corning). Explants were incubated at 37°C, 5% CO2, 5% O2 in IMDM media supplemented with 20% FBS, for 2–3 weeks until outgrowth reached 80% confluence. Cells were then harvested using TrypLE Select (Thermo Fisher), filtered through a 100 μm Steriflip unit (Millipore) to remove explants, and resuspended in CryoStore CS10 (Stemcell Technologies) before freezing in liquid nitrogen. When needed, the frozen vial was removed from liquid nitrogen and seeded on Ultra‐Low Attachment flasks to form cardiospheres. CDCs were formed by seeding cardiospheres on fibronectin‐coated flasks and culturing at 37°C, 5% CO2, 5% O2 in IMDM supplemented with 10% FBS. Cells were conditioned at passage five or subjected to a second cardiosphere step and conditioned two passages after culturing on fibronectin‐coated plates.
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6

Generating Envelope Pseudoviruses

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Envelope pseudoviruses were generated through the co-transfection of the pSG3ΔEnv backbone plasmid (obtained from the National Institutes of Health (NIH) AIDS Research and Reference Reagent Program, Division of AIDS, NIAID, NIH)47 (link),48 (link) and a plasmid encoding the full Env gp160 in a 3:1 ratio in HEK293T cells (American Type Culture Collection) using the PEIMAX transfection reagent (Polysciences). Following 48 h, the medium was filtered through a 0.45-µm Steriflip unit (EMD Millipore), aliquoted, frozen and titrated.
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7

Generating Envelope Pseudoviruses

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Envelope pseudoviruses were generated through the cotransfection of
the pSG3ΔEnv backbone plasmid (obtained from the NIH AIDS Research
and Reference Reagent Program, Division of AIDS, NIAID, NIH) and a plasmid
encoding the full Env gp160 in a 3:1 ratio in HEK293T cells (ATCC) using the
PEIMAX transfection reagent (Polysciences). Following 48 hours, the media
was filtered through a 0.45 μm Steriflip unit (EMD Millipore),
aliquoted, frozen and titrated.
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8

Generating Envelope Pseudoviruses

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Envelope pseudoviruses were generated through the cotransfection of the pSG3ΔEnv backbone plasmid (obtained from the NIH AIDS Research and Reference Reagent Program, Division of AIDS, NIAID, NIH)47 ,48 and a plasmid encoding the full Env gp160 in a 3:1 ratio in HEK293T cells (ATCC) using the PEIMAX transfection reagent (Polysciences). Following 48 hours, the media was filtered through a 0.45 μm Steriflip unit (EMD Millipore), aliquoted, frozen and titrated.
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9

Generating Envelope Pseudoviruses

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Envelope pseudoviruses were generated through the cotransfection of
the pSG3ΔEnv backbone plasmid (obtained from the NIH AIDS Research
and Reference Reagent Program, Division of AIDS, NIAID, NIH) and a plasmid
encoding the full Env gp160 in a 3:1 ratio in HEK293T cells (ATCC) using the
PEIMAX transfection reagent (Polysciences). Following 48 hours, the media
was filtered through a 0.45 μm Steriflip unit (EMD Millipore),
aliquoted, frozen and titrated.
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10

Generating Envelope Pseudoviruses for Research

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Envelope pseudoviruses were generated through the cotransfection of the pSG3ΔEnv backbone plasmid (obtained from the NIH AIDS Research and Reference Reagent Program, Division of AIDS, NIAID, NIH)67 (link),70 (link) and a plasmid encoding the full Env gp160 in a 3:1 ratio in HEK293T cells (ATCC) using the PEIMAX transfection reagent (Polysciences). Following 48 hours, the media was filtered through a 0.45 μm Steriflip unit (EMD Millipore), aliquoted, frozen and titrated. Mutations were introduced into Env plasmids by site-directed mutagenesis and confirmed by full-length Env sequencing by Sanger Sequencing, using Geneious Prime v8 for sequence analyses.
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