Quantitative proteome analysis of human plasma following in vivo lypopolysaccharide administration using 16O/18O labeling and the accurate mass and time tag approach

Wei Jun Qian, Matthew E. Monroe, Tao Liu, Jon M. Jacobs, Gordon A. Anderson, Yufeng Shen, Ronald J. Moore, David J. Anderson, Rui Zhang, Steve E. Calvano, Stephen F. Lowry, Wenzhong Xiao, Lyle L. Moldawer, Ronald W. Davis, Ronald G. Tompkins, David G. Camp, Richard D. Smith, Henry V. Baker, Paul Bankey, Timothy R. Billiar & 40 others Bernard H. Brownstein, Irshad H. Chaudry, J. Perren Cobb, Adrian Fay, Robert J. Feezor, Brad Freeman, Richard L. Gamelli, Nicole S. Gibran, Brian G. Harbrecht, Doug Hayden, David Herndon, Jureta W. Horton, John Lee Hunt, Jeffrey L. Johnson, Krzystof Laudanski, James A. Lederer, Tanya Logvinenko, Ronald V. Maier, John A. Mannick, Bruce McKinley, Carol L. Miller-Graziano, Joseph P. Minei, Michael Mindrinos, Ernest E. Moore, Fredrick A. Moore, Avery B. Nathens, Grant E. O'Keefe, Laurence G. Rahme, Daniel G. Remick, David Schoenfeld, Michael B. Shapiro, Robert L. Sheridan, Geoffrey M. Silver, Scott Somers, Mehmet Toner, H. Shaw Warren, Michael A. West, Steven Wolf, Martin Yarmush, Vernon R. Young

Research output: Contribution to journalArticle

140 Citations (Scopus)

Abstract

Identification of novel diagnostic or therapeutic biomarkers from human blood plasma would benefit significantly from quantitative measurements of the proteome constituents over a range of physiological conditions. Herein we describe an initial demonstration of proteome-wide quantitative analysis of human plasma. The approach utilizes postdigestion trypsin-catalyzed 16O/18O peptide labeling, two-dimensional LC-FTICR mass spectrometry, and the accurate mass and time (AMT) tag strategy to identify and quantify peptides/proteins from complex samples. A peptide accurate mass and LC elution time AMT tag data base was initially generated using MS/MS following extensive multidimensional LC separations to provide the basis for subsequent peptide identifications. The AMT tag data base contains >8,000 putative identified peptides, providing 938 confident plasma protein identifications. The quantitative approach was applied without depletion of high abundance proteins for comparative analyses of plasma samples from an individual prior to and 9 h after lipopolysaccharide (LPS) administration. Accurate quantification of changes in protein abundance was demonstrated by both 1:1 labeling of control plasma and the comparison between the plasma samples following LPS administration. A total of 429 distinct plasma proteins were quantified from the comparative analyses, and the protein abundances for 25 proteins, including several known inflammatory response mediators, were observed to change significantly following LPS administration.

Original languageEnglish (US)
Pages (from-to)700-709
Number of pages10
JournalMolecular and Cellular Proteomics
Volume4
Issue number5
DOIs
StatePublished - May 2005
Externally publishedYes

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Plasma (human)
Proteome
Labeling
Peptides
Lipopolysaccharides
Plasmas
Proteins
Blood Proteins
Databases
Biomarkers
Trypsin
Mass spectrometry
Mass Spectrometry
Blood
Demonstrations
Chemical analysis

ASJC Scopus subject areas

  • Biochemistry

Cite this

Quantitative proteome analysis of human plasma following in vivo lypopolysaccharide administration using 16O/18O labeling and the accurate mass and time tag approach. / Qian, Wei Jun; Monroe, Matthew E.; Liu, Tao; Jacobs, Jon M.; Anderson, Gordon A.; Shen, Yufeng; Moore, Ronald J.; Anderson, David J.; Zhang, Rui; Calvano, Steve E.; Lowry, Stephen F.; Xiao, Wenzhong; Moldawer, Lyle L.; Davis, Ronald W.; Tompkins, Ronald G.; Camp, David G.; Smith, Richard D.; Baker, Henry V.; Bankey, Paul; Billiar, Timothy R.; Brownstein, Bernard H.; Chaudry, Irshad H.; Cobb, J. Perren; Fay, Adrian; Feezor, Robert J.; Freeman, Brad; Gamelli, Richard L.; Gibran, Nicole S.; Harbrecht, Brian G.; Hayden, Doug; Herndon, David; Horton, Jureta W.; Hunt, John Lee; Johnson, Jeffrey L.; Laudanski, Krzystof; Lederer, James A.; Logvinenko, Tanya; Maier, Ronald V.; Mannick, John A.; McKinley, Bruce; Miller-Graziano, Carol L.; Minei, Joseph P.; Mindrinos, Michael; Moore, Ernest E.; Moore, Fredrick A.; Nathens, Avery B.; O'Keefe, Grant E.; Rahme, Laurence G.; Remick, Daniel G.; Schoenfeld, David; Shapiro, Michael B.; Sheridan, Robert L.; Silver, Geoffrey M.; Somers, Scott; Toner, Mehmet; Warren, H. Shaw; West, Michael A.; Wolf, Steven; Yarmush, Martin; Young, Vernon R.

In: Molecular and Cellular Proteomics, Vol. 4, No. 5, 05.2005, p. 700-709.

Research output: Contribution to journalArticle

Qian, WJ, Monroe, ME, Liu, T, Jacobs, JM, Anderson, GA, Shen, Y, Moore, RJ, Anderson, DJ, Zhang, R, Calvano, SE, Lowry, SF, Xiao, W, Moldawer, LL, Davis, RW, Tompkins, RG, Camp, DG, Smith, RD, Baker, HV, Bankey, P, Billiar, TR, Brownstein, BH, Chaudry, IH, Cobb, JP, Fay, A, Feezor, RJ, Freeman, B, Gamelli, RL, Gibran, NS, Harbrecht, BG, Hayden, D, Herndon, D, Horton, JW, Hunt, JL, Johnson, JL, Laudanski, K, Lederer, JA, Logvinenko, T, Maier, RV, Mannick, JA, McKinley, B, Miller-Graziano, CL, Minei, JP, Mindrinos, M, Moore, EE, Moore, FA, Nathens, AB, O'Keefe, GE, Rahme, LG, Remick, DG, Schoenfeld, D, Shapiro, MB, Sheridan, RL, Silver, GM, Somers, S, Toner, M, Warren, HS, West, MA, Wolf, S, Yarmush, M & Young, VR 2005, 'Quantitative proteome analysis of human plasma following in vivo lypopolysaccharide administration using 16O/18O labeling and the accurate mass and time tag approach', Molecular and Cellular Proteomics, vol. 4, no. 5, pp. 700-709. https://doi.org/10.1074/mcp.M500045-MCP200
Qian, Wei Jun ; Monroe, Matthew E. ; Liu, Tao ; Jacobs, Jon M. ; Anderson, Gordon A. ; Shen, Yufeng ; Moore, Ronald J. ; Anderson, David J. ; Zhang, Rui ; Calvano, Steve E. ; Lowry, Stephen F. ; Xiao, Wenzhong ; Moldawer, Lyle L. ; Davis, Ronald W. ; Tompkins, Ronald G. ; Camp, David G. ; Smith, Richard D. ; Baker, Henry V. ; Bankey, Paul ; Billiar, Timothy R. ; Brownstein, Bernard H. ; Chaudry, Irshad H. ; Cobb, J. Perren ; Fay, Adrian ; Feezor, Robert J. ; Freeman, Brad ; Gamelli, Richard L. ; Gibran, Nicole S. ; Harbrecht, Brian G. ; Hayden, Doug ; Herndon, David ; Horton, Jureta W. ; Hunt, John Lee ; Johnson, Jeffrey L. ; Laudanski, Krzystof ; Lederer, James A. ; Logvinenko, Tanya ; Maier, Ronald V. ; Mannick, John A. ; McKinley, Bruce ; Miller-Graziano, Carol L. ; Minei, Joseph P. ; Mindrinos, Michael ; Moore, Ernest E. ; Moore, Fredrick A. ; Nathens, Avery B. ; O'Keefe, Grant E. ; Rahme, Laurence G. ; Remick, Daniel G. ; Schoenfeld, David ; Shapiro, Michael B. ; Sheridan, Robert L. ; Silver, Geoffrey M. ; Somers, Scott ; Toner, Mehmet ; Warren, H. Shaw ; West, Michael A. ; Wolf, Steven ; Yarmush, Martin ; Young, Vernon R. / Quantitative proteome analysis of human plasma following in vivo lypopolysaccharide administration using 16O/18O labeling and the accurate mass and time tag approach. In: Molecular and Cellular Proteomics. 2005 ; Vol. 4, No. 5. pp. 700-709.
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abstract = "Identification of novel diagnostic or therapeutic biomarkers from human blood plasma would benefit significantly from quantitative measurements of the proteome constituents over a range of physiological conditions. Herein we describe an initial demonstration of proteome-wide quantitative analysis of human plasma. The approach utilizes postdigestion trypsin-catalyzed 16O/18O peptide labeling, two-dimensional LC-FTICR mass spectrometry, and the accurate mass and time (AMT) tag strategy to identify and quantify peptides/proteins from complex samples. A peptide accurate mass and LC elution time AMT tag data base was initially generated using MS/MS following extensive multidimensional LC separations to provide the basis for subsequent peptide identifications. The AMT tag data base contains >8,000 putative identified peptides, providing 938 confident plasma protein identifications. The quantitative approach was applied without depletion of high abundance proteins for comparative analyses of plasma samples from an individual prior to and 9 h after lipopolysaccharide (LPS) administration. Accurate quantification of changes in protein abundance was demonstrated by both 1:1 labeling of control plasma and the comparison between the plasma samples following LPS administration. A total of 429 distinct plasma proteins were quantified from the comparative analyses, and the protein abundances for 25 proteins, including several known inflammatory response mediators, were observed to change significantly following LPS administration.",
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T1 - Quantitative proteome analysis of human plasma following in vivo lypopolysaccharide administration using 16O/18O labeling and the accurate mass and time tag approach

AU - Qian, Wei Jun

AU - Monroe, Matthew E.

AU - Liu, Tao

AU - Jacobs, Jon M.

AU - Anderson, Gordon A.

AU - Shen, Yufeng

AU - Moore, Ronald J.

AU - Anderson, David J.

AU - Zhang, Rui

AU - Calvano, Steve E.

AU - Lowry, Stephen F.

AU - Xiao, Wenzhong

AU - Moldawer, Lyle L.

AU - Davis, Ronald W.

AU - Tompkins, Ronald G.

AU - Camp, David G.

AU - Smith, Richard D.

AU - Baker, Henry V.

AU - Bankey, Paul

AU - Billiar, Timothy R.

AU - Brownstein, Bernard H.

AU - Chaudry, Irshad H.

AU - Cobb, J. Perren

AU - Fay, Adrian

AU - Feezor, Robert J.

AU - Freeman, Brad

AU - Gamelli, Richard L.

AU - Gibran, Nicole S.

AU - Harbrecht, Brian G.

AU - Hayden, Doug

AU - Herndon, David

AU - Horton, Jureta W.

AU - Hunt, John Lee

AU - Johnson, Jeffrey L.

AU - Laudanski, Krzystof

AU - Lederer, James A.

AU - Logvinenko, Tanya

AU - Maier, Ronald V.

AU - Mannick, John A.

AU - McKinley, Bruce

AU - Miller-Graziano, Carol L.

AU - Minei, Joseph P.

AU - Mindrinos, Michael

AU - Moore, Ernest E.

AU - Moore, Fredrick A.

AU - Nathens, Avery B.

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AU - Sheridan, Robert L.

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AU - Somers, Scott

AU - Toner, Mehmet

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AU - Young, Vernon R.

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N2 - Identification of novel diagnostic or therapeutic biomarkers from human blood plasma would benefit significantly from quantitative measurements of the proteome constituents over a range of physiological conditions. Herein we describe an initial demonstration of proteome-wide quantitative analysis of human plasma. The approach utilizes postdigestion trypsin-catalyzed 16O/18O peptide labeling, two-dimensional LC-FTICR mass spectrometry, and the accurate mass and time (AMT) tag strategy to identify and quantify peptides/proteins from complex samples. A peptide accurate mass and LC elution time AMT tag data base was initially generated using MS/MS following extensive multidimensional LC separations to provide the basis for subsequent peptide identifications. The AMT tag data base contains >8,000 putative identified peptides, providing 938 confident plasma protein identifications. The quantitative approach was applied without depletion of high abundance proteins for comparative analyses of plasma samples from an individual prior to and 9 h after lipopolysaccharide (LPS) administration. Accurate quantification of changes in protein abundance was demonstrated by both 1:1 labeling of control plasma and the comparison between the plasma samples following LPS administration. A total of 429 distinct plasma proteins were quantified from the comparative analyses, and the protein abundances for 25 proteins, including several known inflammatory response mediators, were observed to change significantly following LPS administration.

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