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2 protocols using ammonium bicarbonate ambic

1

Quantitative Proteomic Analysis of ApoA1

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HPLC grade isopropyl alcohol, acetonitrile, methanol, and water, laboratory grade formic acid (FA), and ammonium bicarbonate (AmBic) were purchased from Fisher Scientific (Waltham, MA). Pierce Peptide Retention Time Calibration Mixture (PRTC) was from ThermoFisher Scientific (San Jose, CA). Human apolipoprotein A1 (ApoA1) uniformly 15N-labeled and enriched (isotopic enrichment >98% 15N by LC/MS, purity > 90% by SDS-PAGE) was purchased from Cambridge Isotope Laboratories (Tewksbury, MA). Trifluoroethanol (TFE), dithiothreitol (DTT), iodoacetamide (IAA), and ammonium hydroxide were purchased from Sigma Aldrich (St. Louis, MO). Hydrochloric acid was from JT Baker (Phillipsburg, NJ). Worthington trypsin was used for proteolytic digestion (Lakewood, NJ).
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2

Purification and Characterization of WPTP from T. fortunei

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WPTP was isolated and purified from T. fortunei leaves as previously described.15 (link) Trypsin (MS grade) was purchased from Promega (Madison,
WI). Bovine serum albumin (BSA; 98% purity), used as a protein standard,
was from Sigma (St. Louis, MO). The MALDI matrix 2,5-dihydroxybenzoic
acid (DHB), peptide calibration standard II, and protein calibration
standard II were from Bruker (Billerica, MA). C4 ziptips
were from EMD Millipore (Darmstadt, Germany). Other reagents, including
HPLC grade acetonitrile (ACN), trifluoroacetic acid (TFA), and ammonium
bicarbonate (AMBIC) were from Fisher Scientific (Waltham, MA). Water
was purified on a Milli-Q Advantage A10 system (EMD Millipore). Dithiothreitol
was from Acros Organics (New Jersey) and iodoacetamide was from BioRad
(Hercules, CA). For gene cloning, an RNeasy Plant Mini Kit (Qiagen,
Venlo, Limburg), a SMARTer RACE cDNA Amplification kit, and an Advantage
2 PCR kit from Clontech (Mountain View, CA), a pGEM-T vector (Promega),
and Escherichia coli strain JM109 were used.
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