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4 protocols using dmapp

1

Enzymatic Assays of Isoprenoid Precursors

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DMAPP, IPP, GPP (trans isomer) and FPP (trans,trans isomer) were all purchased from Sigma-Aldrich. When came as a methanol/ammonia solution, the solvent was removed from the sample by desiccating in a centrifugal evaporator. The compounds were dissolved in appropriate buffers for different experiments as described below.
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2

Characterization of Isoprenoid Biosynthesis

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Oligonucleotide primers were obtained from Integrated DNA Technologies (IDT). Taq DNA polymerases were from Denville Scientific Inc. and Invitrogen. TRIzol reagent, SuperScript III Reverse Transcriptase, TOPO TA cloning kit, and GeneRacer Advanced RACE kit were from Invitrogen and dNTP were from New England BioLab Inc. Restriction enzymes were from New England BioLab Inc. and Promega. Plasmid miniprep kit, gel extraction kit, and DNA purification kit were from Zymo Research. Secondary antibodies with fluorescence for the Western blots were from Licor. IPP, DMAPP, GPP, FPP, and GGPP were from Sigma. [4-14C]isopentenyl diphosphate triammonimum salt (55.0 mCi/mml) was from PerkinElmer Life Sciences. Ubiquinone Q6 (UQ6) and Q8 (UQ8) were from Avanti Polar Lipids. Ubiquinone Q10 (UQ10) was from Sigma-Aldrich. Silica gels HPTLC were from Analtech. All other reagents were analytical grade or better.
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3

Flavonoid Standards Acquisition for Research

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Flavonoid standards, such as genistein, 2'-hydroxygenistein, daidzein, apigenin, kaempferol, 3'-methylkaempferol, quercetin, myricetin, 3-hydroxyflavone, naringenin, liquiritigenin, and isoliquiritigenin, were purchased from Shanghai Tongtian Biotechnology Company Ltd. (Shanghai, China), and catechin, 5-deoxyquercetin, galangin, morin, and kaempferol-3-O-glucoside were obtained from Chemfaces Biochemical Co. Ltd. (Wuhan, China), and 8-prenylated kaempferol was obtained from Yuanye Biotechnology Company Ltd. (Shanghai, China). DMAPP, farnesyl diphosphate (FPP), and geranyl diphosphate (GPP) were purchased from Sigma-Aldrich (St. Louis, MO, United States).
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4

Radioactive Enzyme Assay for FPPS

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We used a radioactive-based enzyme assay to characterize the activity of FPPS 19 (link), 31 (link). The reaction mixture contained 50 mM Tris pH 8, 10 mM MgCl2, 1 mM TCEP, 50 μM DMAPP (Sigma-Aldrich), 100 μM 14C-IPP (PerkinElmer) and 140 μg of LmFPPS in a total volume of 500 μl. The reaction was incubated at 37 °C for 3 hours followed with the addition of 1 μl of bacterial alkaline phosphatase (150 U/μl) and overnight incubation at 37 °C to hydrolyze prenyl diphosphates into corresponding alcohols. The alcohols were then extracted with 2 ml of hexane and the volumes were concentrated to 100 μl. The concentrated extracts were analyzed using thin layer chromatography (TLC) by blotting them onto a TLC silica-gel plate (Fisher Scientific) along with the product standards, geraniol and farnesol. Radiolabeled substrates and products were separated by benzene:ethyl acetate (4:1) as the developing solvent. The positions of the standards were revealed with iodine vapor and the radiolabeled solution was blotted onto these spots to further visualize these spots by autoradiography. The plate was then exposed to storage phosphor screen (Molecular Dynamics) overnight and subsequently scanned on a phosphorimager (Amersham).
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