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4 protocols using mouse α ha

1

Antibody Sources and Inhibitor Use

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α-CD8 and rabbit α-HA were obtained from Sigma, α-BAP31, α-Actin and α-tubulin from AbCam, α-ERGIC53 from Alexis, mouse α-HA from Santa Cruz, α-EEA1 from Cell signalling and α-GM130 from BD biosciences. IRDye 800 CW and IRDye 680 RD antibodies were from LI-COR, and fluorescently conjugated secondary antibodies for microscopy were from Jackson Laboratories (Stratech Scientific). The inhibitors leupeptin (Enzo Life Sciences), pepstatin A (Sigma), Z-LLF-CHO (PSII, Calbiochem), and cycloheximide (CHX, Sigma) were used at a final concentration of 0.5 mM, 1 μg/ml, 10 μM, and 100 μg/ml respectively.
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2

Co-immunoprecipitation Assay Protocol

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For co-immunoprecipitation, cell lysates were prepared in the lysis buffer (50mM Tris-HCl, pH7.5; 150mM NaCl, 1mM EDTA, 1mM EGTA, 5mM Na4P2O7, 25mM NaF, 1% Triton X-100) with protease inhibitors (cocktail) on ice for 30min. After clarification by centrifugation, the lysates were incubated for 2-6h at 4 °C with antibodies pre-bound to protein A/G agarose beads. Beads were washed four times with washing buffer (50mM Tris-HCl, pH7.5; 150mM NaCl, 1mM EDTA, 1mM EGTA, 5mM Na4P2O7, 25mM NaF, 0.5% Triton X-100), and eluted in 1x SDS loading buffer. Eluted samples were analyzed by western blotting. Antibodies used for immunoprecipitation were: mouse α-Myc (MBL International), mouse α-V5 (Thermo Fisher Scientific), mouse α-TEAD1 (BD Biosciences), EZview™ Red Anti-HA Affinity Gel (Sigma-Aldrich) and EZview™ Red Anti-Flag Affinity Gel (Sigma-Aldrich). Primary antibodies used for western blot were: rabbit α-E2F1 (X. Bi, 1:2000), mouse α-Flag (Sigma-Aldrich, 1:10000), rabbit α-Yki (L. Zhang, 1:5000), mouse α-TEAD1 (BD Biosciences, 1:500), mouse α-HA (Santa Cruz Biotechnology, 1:1000), mouse α-V5 (Thermo Fisher Scientific, 1:20000), mouse α-Myc (MBL International, 1:2000), rabbit α-hE2F1 (CST, 1:1000), mouse α-GAPDH (CWBiotech, 1:1000) and mouse α-β-actin (Proteintech Group, 1:5000).
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3

Lipophorin Visualization in Drosophila

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The following antibodies were used in this work: rabbit α-ApoLTPI and α-ApoLTP II [4 (link)], rabbit α-LpFL and rabbit α-LpII [5 (link)], rat α-HA (Roche), mouse α-HA (Santa Cruz Biotechnology) and mouse α-Myc (DSHB). Immunostaining of imaginal discs and ovaries as well as immunostaining of extracellular proteins was performed as described [13 (link)]. To examine the stability of lipophorin association to Lpr2E in vivo (Fig 7), wing imaginal discs were dissected in Sf-900 II SFM culture media (gibco) at 4°C and incubated in the same media for 30 minutes or 60 minutes, also at 4°C. They were subsequently fixed and processed following standard protocols. Lipids were visualized by Nile red or by oil red O stains. For Nile red, fixed imaginal discs or ovaries were incubated with 0.002% Nile red dye diluted in PBS and 0.3% triton X-100 for 60 minutes and washed for 10 minutes in the same buffer without the dye. For oil red O stain, fixed imaginal discs were incubated in a 0.5% solution of oil red O in propylene glycol at 60°C for one hour and then washed twice in 85% propylene glycol and three times in PBS, essentially as described in [56 (link)].
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4

Immunostaining of Dissected Tissues

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We performed immunostaining as previously described99 (link), by fixing dissected tissues in PBS containing 4% formaldehyde and incubating with the following primary antibodies: mouse α-HA (1:1000, Santa Cruz), and guinea pig α-Mettl3 (1:2000, gift of Cintia Hongay, Clarkson University). Alexa Fluor-488, and -568 secondary antibodies were from Molecular Probes and used at 1:1000. Tissues were mounted in Vectashield mounting buffer with DAPI (Vector Laboratories). Images were captured with a Leica SP5 confocal microscope; endogenous GFP signals were monitored.
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