Quantitative LC-MS/MS Analysis of Proteins Involved in Metastasis of Breast Cancer

Overview

Journal PLoS One

Specialties General Medicine
Science

Date 2015 Jul 16

PMID 26176947

Citations 14

Authors

Rieko Goto

Yasushi Nakamura

Tomonori Takami

Tokio Sanke

Zenzaburo Tozuka

Affiliations

Soon will be listed here.

Abstract

The purpose of this study was to develop quantitative liquid chromatography-tandem mass spectrometry (LC-MS/MS) methods for the analysis of proteins involved in metastasis of breast cancer for diagnosis and determining disease prognosis, as well as to further our understand of metastatic mechanisms. We have previously demonstrated that the protein type XIV collagen may be specifically expressed in metastatic tissues by two dimensional LC-MS/MS. In this study, we developed quantitative LC-MS/MS methods for type XIV collagen. Type XIV collagen was quantified by analyzing 2 peptides generated by digesting type XIV collagen using stable isotope-labeled peptides. The individual concentrations were equivalent between 2 different peptides of type XIV collagen by evaluation of imprecise transitions and using the best transition for the peptide concentration. The results indicated that type XIV collagen is highly expressed in metastatic tissues of patients with massive lymph node involvement compared to non-metastatic tissues. These findings were validated by quantitative real-time RT-PCR. Further studies on type XIV collagen are desired to verify its role as a prognostic factor and diagnosis marker for metastasis.

Citing Articles

Primary breast tumor induced extracellular matrix remodeling in premetastatic lungs.

Cai R, Tressler C, Cheng M, Sonkar K, Tan Z, Paidi S Sci Rep. 2023; 13(1):18566.

PMID: 37903851 PMC: 10616170. DOI: 10.1038/s41598-023-45832-7.

Identification of immune biomarkers associated with basement membranes in idiopathic pulmonary fibrosis and their pan-cancer analysis.

Fu C, Chen L, Cheng Y, Yang W, Zhu H, Wu X Front Genet. 2023; 14:1114601.

PMID: 36936416 PMC: 10017543. DOI: 10.3389/fgene.2023.1114601.

Bile Acids: Physiological Activity and Perspectives of Using in Clinical and Laboratory Diagnostics.

Shansky Y, Bespyatykh J Molecules. 2022; 27(22).

PMID: 36431930 PMC: 9692537. DOI: 10.3390/molecules27227830.

Proteomics-Based Identification of Dysregulated Proteins in Breast Cancer.

Neagu A, Jayathirtha M, Whitham D, Mutsengi P, Sullivan I, Petre B Proteomes. 2022; 10(4).

PMID: 36278695 PMC: 9590004. DOI: 10.3390/proteomes10040035.

Collagen Remodeling along Cancer Progression Providing a Novel Opportunity for Cancer Diagnosis and Treatment.

Song K, Yu Z, Zu X, Li G, Hu Z, Xue Y Int J Mol Sci. 2022; 23(18).

PMID: 36142424 PMC: 9502421. DOI: 10.3390/ijms231810509.

References

Wells C, Fawcett J, Traweger A, Yamanaka Y, Goudreault M, Elder K . A Rich1/Amot complex regulates the Cdc42 GTPase and apical-polarity proteins in epithelial cells. Cell. 2006; 125(3):535-48. DOI: 10.1016/j.cell.2006.02.045. View

Rifai N, Gillette M, Carr S . Protein biomarker discovery and validation: the long and uncertain path to clinical utility. Nat Biotechnol. 2006; 24(8):971-83. DOI: 10.1038/nbt1235. View

Elias J, Gygi S . Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry. Nat Methods. 2007; 4(3):207-14. DOI: 10.1038/nmeth1019. View

Prakash C, Shaffer C, Nedderman A . Analytical strategies for identifying drug metabolites. Mass Spectrom Rev. 2007; 26(3):340-69. DOI: 10.1002/mas.20128. View

Keshishian H, Addona T, Burgess M, Kuhn E, Carr S . Quantitative, multiplexed assays for low abundance proteins in plasma by targeted mass spectrometry and stable isotope dilution. Mol Cell Proteomics. 2007; 6(12):2212-29. PMC: 2435059. DOI: 10.1074/mcp.M700354-MCP200. View

Kamiie J, Ohtsuki S, Iwase R, Ohmine K, Katsukura Y, Yanai K . Quantitative atlas of membrane transporter proteins: development and application of a highly sensitive simultaneous LC/MS/MS method combined with novel in-silico peptide selection criteria. Pharm Res. 2008; 25(6):1469-83. DOI: 10.1007/s11095-008-9532-4. View

Amelinckx A, Castello M, Arrieta-Quintero E, Lee T, Salas N, Hernandez E . Laser trabeculoplasty induces changes in the trabecular meshwork glycoproteome: a pilot study. J Proteome Res. 2009; 8(7):3727-36. PMC: 2732437. DOI: 10.1021/pr900294g. View

Addona T, Abbatiello S, Schilling B, Skates S, Mani D, Bunk D . Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma. Nat Biotechnol. 2009; 27(7):633-41. PMC: 2855883. DOI: 10.1038/nbt.1546. View

Abbatiello S, Mani D, Keshishian H, Carr S . Automated detection of inaccurate and imprecise transitions in peptide quantification by multiple reaction monitoring mass spectrometry. Clin Chem. 2009; 56(2):291-305. PMC: 2851178. DOI: 10.1373/clinchem.2009.138420. View

10.

Mathupala S, Ko Y, Pedersen P . The pivotal roles of mitochondria in cancer: Warburg and beyond and encouraging prospects for effective therapies. Biochim Biophys Acta. 2010; 1797(6-7):1225-30. PMC: 2890051. DOI: 10.1016/j.bbabio.2010.03.025. View

11.

Remane D, Meyer M, Wissenbach D, Maurer H . Ion suppression and enhancement effects of co-eluting analytes in multi-analyte approaches: systematic investigation using ultra-high-performance liquid chromatography/mass spectrometry with atmospheric-pressure chemical ionization or electrospray.... Rapid Commun Mass Spectrom. 2010; 24(21):3103-8. DOI: 10.1002/rcm.4736. View

12.

Kiyonami R, Schoen A, Prakash A, Peterman S, Zabrouskov V, Picotti P . Increased selectivity, analytical precision, and throughput in targeted proteomics. Mol Cell Proteomics. 2010; 10(2):M110.002931. PMC: 3033677. DOI: 10.1074/mcp.M110.002931. View

13.

Reiter L, Rinner O, Picotti P, Huttenhain R, Beck M, Brusniak M . mProphet: automated data processing and statistical validation for large-scale SRM experiments. Nat Methods. 2011; 8(5):430-5. DOI: 10.1038/nmeth.1584. View

14.

Dings P, Elferink M, Strobbe L, de Wilt J . The prognostic value of lymph node ratio in node-positive breast cancer: a Dutch nationwide population-based study. Ann Surg Oncol. 2013; 20(8):2607-14. DOI: 10.1245/s10434-013-2932-7. View

15.

Rosano C, Sabini E, Rizzi M, Deriu D, Murshudov G, Bianchi M . Binding of non-catalytic ATP to human hexokinase I highlights the structural components for enzyme-membrane association control. Structure. 1999; 7(11):1427-37. DOI: 10.1016/s0969-2126(00)80032-5. View

16.

Savitski M, Nielsen M, Zubarev R . New data base-independent, sequence tag-based scoring of peptide MS/MS data validates Mowse scores, recovers below threshold data, singles out modified peptides, and assesses the quality of MS/MS techniques. Mol Cell Proteomics. 2005; 4(8):1180-8. DOI: 10.1074/mcp.T500009-MCP200. View

17.

Lopez-Ferrer D, Martinez-Bartolome S, Villar M, Campillos M, Martin-Maroto F, Vazquez J . Statistical model for large-scale peptide identification in databases from tandem mass spectra using SEQUEST. Anal Chem. 2004; 76(23):6853-60. DOI: 10.1021/ac049305c. View

18.

Ehnis T, Dieterich W, Bauer M, Lampe B, Schuppan D . A chondroitin/dermatan sulfate form of CD44 is a receptor for collagen XIV (undulin). Exp Cell Res. 1996; 229(2):388-97. DOI: 10.1006/excr.1996.0384. View

19.

Lohr M, Trautmann B, Gottler M, Peters S, Zauner I, Maillet B . Human ductal adenocarcinomas of the pancreas express extracellular matrix proteins. Br J Cancer. 1994; 69(1):144-51. PMC: 1968784. DOI: 10.1038/bjc.1994.24. View

20.

Gerecke D, FOLEY J, Castagnola P, Gennari M, Dublet B, Cancedda R . Type XIV collagen is encoded by alternative transcripts with distinct 5' regions and is a multidomain protein with homologies to von Willebrand's factor, fibronectin, and other matrix proteins. J Biol Chem. 1993; 268(16):12177-84. View