Q exactive plus hybrid quadrupole orbitrap ms

Manufactured by Thermo Fisher Scientific

Sourced in United States, Germany

The Q-Exactive Plus hybrid quadrupole-Orbitrap MS is a high-resolution mass spectrometer that combines the advantages of a quadrupole and an Orbitrap analyzer. It provides accurate mass measurements and high-resolution capabilities for a wide range of applications in analytical chemistry and life sciences.

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Q-Exactive Hybrid Quadrupole-Orbitrap MS Q Exactive Plus Hybrid Quadrupole-Orbitrap Q Exactive Hybrid Quadrupole-Orbitrap Q-Exactive Plus Quadrupole-Orbitrap Q-Exactive Plus Orbitrap MS Q Exactive Quadrupole-Orbitrap Q Exactive Orbitrap MS Q ExactiveTM Q-Orbitrap MS Q-Exactive Plus hybrid Q Exactive Plus Orbitrap

5 protocols using q exactive plus hybrid quadrupole orbitrap ms

Quantitative LC-MS/MS Proteomics Analysis

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The LC-MS/MS analysis was carried out according to the procedure described previously [17 (link)]. Peptides were dissolved in 0.1% formic acid, directly loaded onto a reversed-phase pre-treated Acclaim PepMap 100 column (Thermo scientific, Shanghai, China). Peptide separation was carried out using a reversed-phase analytical Acclaim PepMap RSLC column (Thermo scientific, Shanghai, China). The resulting peptides were analyzed by Q Exactive™ plus hybrid quadrupole-Orbitrap MS (Thermo scientific, Shanghai, China).
The peptides were subjected to NSI source followed MS/MS in Q Exactive™ plus coupled online to the UPLC system (Thermo scientific, Shanghai, China). Intact peptides were detected in the Orbitrap at a high resolution of 70,000 and ion fragments were detected in the Orbitrap at a low resolution of 17,500. For MS scans, the m/z scan range was 350 to 1800, and the first mass was set as 100 m/z. The mass spectrometry proteomics data have already been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the dataset identifier PXD009584 (http://proteomecentral.proteomexchange.org/cgi/GetDataset?ID=PXD009584).

Yuan H., Chen J., Yang Y., Shen C., Xu D., Wang J., Yan D., He Y, & Zheng B. (2019). Quantitative succinyl-proteome profiling of Chinese hickory (Carya cathayensis) during the grafting process. BMC Plant Biology, 19, 467.

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Reverse-phase nLC-MS/MS Proteomics Analysis

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Reverse-phase nLC-MS/MS was performed on control and acrylamide-treated HILIC fractions (12 from each seminal vesicle) (supplemental Fig. S1, A and B) using a Q-Exactive Plus hybrid quadrupole-Orbitrap MS coupled to a Dionex Ultimate 3000RSLC nanoflow high-performance LC system (Thermo Fisher Scientific). Samples were loaded onto an Acclaim PepMap 100 C18 75 μm × 20 mm trap column (Thermo Fisher Scientific) for preconcentration and online desalting. Separation was then achieved using an EASY-Spray PepMap C18 75 μm × 250 mm column (Thermo Fisher Scientific), employing a linear gradient of acetonitrile (2–40%, 300 nl/min, 120 min). The MS was operated in data-dependent acquisition (DDA) mode. The Orbitrap mass analyzer was used at a resolution of 35,000, to acquire full MS with an m/z range of 380 to 2000, incorporating a target automatic gain control value of 1 × 10⁶ and maximum fill times of 50 ms. The 20 most intense multiple charged precursors were selected for higher-energy collision dissociation fragmentation with stepped collisional energies of 25%, 28%, and 30%. MS/MS fragments were measured at an Orbitrap resolution of 17,500 using an automatic gain control target of 5 × 10⁵ and maximum fill time of 120 ms.

Skerrett-Byrne D.A., Trigg N.A., Bromfield E.G., Dun M.D., Bernstein I.R., Anderson A.L., Stanger S.J., MacDougall L.A., Lord T., Aitken R.J., Roman S.D., Robertson S.A., Nixon B, & Schjenken J.E. (2021). Proteomic Dissection of the Impact of Environmental Exposures on Mouse Seminal Vesicle Function. Molecular & Cellular Proteomics : MCP, 20, 100107.

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Proteomic Analysis of Peanut Allergens

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In brief, PPE was resuspended in PBS, precipitated, reduced, alkylated and digested with trypsin. After C18 clean-up, the resultant peptides were separated by reverse phase HPLC and data-dependent acquisition was carried out by a Q Exactive Plus™ Hybrid Quadrupole-Orbitrap™ MS (Thermo Scientific, Waltham, MA, US). Peaks version 8.5 software was used to process all data-dependent acquisition mass spectral data, using a database of peanut allergens and isoforms [outlined in Apostolovic et al. (29 (link))] and the downloaded reference proteome of peanut. Supplementary Material details the methodology.

Sztuk T.K., Rigby N.M., Nørskov-Nielsen L., Koppelman S.J., Sancho A.I., Knudsen N.P., Marsh J., Johnson P., Gupta S., Mackie A.R., Larsen J.M, & Bøgh K.L. (2023). Dose and route of administration determine the efficacy of prophylactic immunotherapy for peanut allergy in a Brown Norway rat model. Frontiers in Immunology, 14, 1121497.

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Quantitative Proteomics by nLC-MS/MS

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Reverse phase nLC-MS/MS was performed on 9-11 HILIC enriched fractions (Figure S1 in the Supporting Information) for each 8plex, using a Q-Exactive Plus hybrid quadrupole-Orbitrap MS coupled to a Dionex Ultimate 3000RSLC nanoflow high-performance liquid chromatography system (Thermo Fisher Scientific). Samples were loaded onto an Acclaim PepMap100 C18 75 μmx20 mm trap column (Thermo Fisher Scientific) for pre-concentration and online de-salting.
Separation was then achieved using an EASY-Spray PepMap C18 75 μmx500 mm column (Thermo Fisher Scientific), employing a linear gradient of acetonitrile (2-25%, 300 nl/min, 125 min). A Q-Exactive Plus MS System was operated in full MS/data dependent acquisition MS/MS mode (data-dependent acquisition). The Orbitrap mass analyser was used at a resolution of 70,000, to acquire full MS with an m/z range of 370-1750, incorporating a target automatic gain control value of 3x10 6 and maximum fill times of 100ms. The 20 most intense multiply charged precursors were selected for higher-energy collision dissociation fragmentation with a normalized collisional energy of 32. MS/MS fragments were measured at an Orbitrap resolution of 35,000 using an automatic gain control target of 5x10 5 and maximum fill times of 120ms.

Skerrett-Byrne D.A., Bromfield E.G., Murray H.C., Jamaluddin M.F.B., Jarnicki A.G., Fricker M., Essilfie A.T., Jones B., Haw T.J., Hampsey D., Anderson A.L., Nixon B., Scott R.J., Wark P.A.B., Dun M.D, & Hansbro P.M. (2021). Time-resolved proteomic profiling of cigarette smoke-induced experimental chronic obstructive pulmonary disease. Respirology (Carlton, Vic.), 26(10).

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Vanquish Flex Duo UHPLC-Q-Exactive Plus MS

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All liquid chromatography-mass spectrometry (LC-MS) analyses were performed using a Vanquish™ Flex Duo UHPLC system (Thermo Scientific, Germering, Germany) and Q-Exactive™ Plus Hybrid Quadrupole Orbitrap MS with extended mass BioPharma Option utilising intact protein mode, equipped with an Ion Max source with HESI-II probe (Thermo Scientific, Bremen, Germany). All data was acquired using Thermo Scientific™ Chromeleon™ software 7.2.10.

Morgan T.E., Jakes C., Brouwer H.J., Millán-Martín S., Chervet J.P., Cook K., Carillo S, & Bones J. (2021). Inline electrochemical reduction of NISTmAb for middle-up subunit liquid chromatography-mass spectrometry analysis. The Analyst, 146(21).

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