Skip to main content
Article thumbnail
Location of Repository

Novel mass spectrometry-based approaches for the characterisation of systems of biological interest

By Vibhuti J. Patel


Originally established as an analytical technique in the fields of physics and chemistry, mass spectrometry has now also become an essential tool in biology. Advances in ionisation methods and novel types of instrumentation have led to the development of mass spectrometry for the analysis of a wide variety of biological samples. The work presented here describes the use mass spectrometry for the study of a number of biological systems. A new family of techniques has been developed allowing ions to be created under ambient conditions. Three of these ambient ionisation techniques, coupled to different mass analysers, were employed for the rapid screening of pharmaceutical formulations. Active ingredients were identified and subjected to collisionally induced dissociation, enabling the elucidation of potential fragmentation pathways. Drug metabolites were also successfully identified from biological samples. \ud Inorganic mass spectrometry was employed to probe the metal centres of the enzyme, particulate methane monooxygenase, a methane-oxidising complex found in certain bacteria. This protein has been extensively studied, but questions remain regarding its catalytic mechanism, particularly the involvement of indigenous metal ions. Inductively-coupled plasma mass spectrometry experiments have indicated the presence of copper and iron within the enzyme. \ud Protein cross-sections, obtained using ion mobility mass spectrometry, can be used to probe the conformation of molecules in the gas phase. A commercial instrument was used to investigate human hemoglobin from clinical samples. A complex assembly mechanism was deduced, resolving previous disputes in the literature, and conformational differences were observed between healthy and sickle molecules. \ud The field of proteomics is rapidly evolving; as described, techniques are constantly being developed and improved to deal with the enormous complexity that proteomes present. Three proteomics approaches were used to study a recently identified bacterium under two growth conditions. Differences in protein expression were observed and correlated to relevant biological pathways

Topics: QH301
OAI identifier:

Suggested articles


  1. (2000). Proteomics to study genes and genomes.
  2. (2006). Mass spectrometry and protein analysis. Science doi
  3. (2006). Guidelines for the next 10 years of proteomics. Proteomics doi
  4. (2001). An evaluation of the use of two-dimensional gel electrophoresis in proteomics. doi
  5. (2001). Large-scale analysis of the yeast proteome by multidimensional protein identification technology.
  6. (1997). Difference gel electrophoresis. A single gel method for detecting changes in protein extracts. Electrophoresis doi
  7. (2002). Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. doi
  8. (1970). Sequence analysis of complex protein mixtures by isotope dilution and mass spectrometry. Biochemistry doi
  9. (2004). Quantification of C-reactive protein in the serum of patients with rheumatoid arthritis using multiple reaction monitoring mass spectrometry and 13C-labeled peptide standards. Proteomics doi
  10. (1958). On the incorporation of methionine 35S into proteins detectable by autoradiography. doi
  11. (2003). Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS. doi
  12. (2003). Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS. doi
  13. (1999). Quantitative analysis of complex protein mixtures using isotope-coded affinity tags.
  14. (2004). Multiplexed protein quantitation in saccharomyces cerevisiae using amine-reactive isobaric tagging reagents. doi
  15. Quantitative shotgun proteomics of enriched heterocysts from Nostoc sp. PCC 7120 using 8-plex isobaric peptide tags. doi
  16. (2006). Quantitative proteomic approach to study subcellular localization of membrane proteins. doi
  17. (2008). Experimental and computational approaches to quantitative proteomics: Status quo and outlook. doi
  18. (2004). In vitro and in silico processes to identify differentially expressed proteins. Proteomics doi
  19. (2004). A model for random sampling and estimation of relative protein abundance in shotgun proteomics. doi
  20. (2005). Differential proteomics via probabilistic peptide identification scores. doi
  21. (2002). Large-scale proteomic analysis of the human spliceosome. Genome Res. doi
  22. Exponentially modified protein abundance index doi
  23. (2005). for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein. doi
  24. Quantitative profiling of proteins in complex mixtures using liquid chromatography and mass spectrometry. doi
  25. Ion suppression effects in liquid chromatographyelectrospray-ionisation transport-region collision induced dissociation mass spectrometry with different serum extraction methods for systematic toxicological analysis with mass spectra libraries. doi
  26. Quantification of proteins and metabolites by mass spectrometry without isotopic labeling or spiked standards. doi
  27. (2004). Informatics platform for global proteomic profiling and biomarker discovery using liquid chromatography-tandem mass spectrometry. doi
  28. (2005). Quantitative proteomic analysis by accurate mass retention time pairs. doi
  29. (2006). Absolute quantification of proteins by LCMSE: A virtue of parallel MS acquisition. doi
  30. (2006). Simultaneous qualitative and quantitative analysis of the Escherichia coli proteome: a sweet tale. doi
  31. Absolute protein quantification by LC/MSE for global analysis of salicylic acid-induced plant protein secretion responses. doi
  32. (2005). Regulation of methane oxidation in the facultative methanotroph Methylocella silvestris BL2. doi
  33. (1999). Direct analysis of protein complexes using mass spectrometry. doi
  34. (2009). The detection, correlation, and comparison of peptide precursor and product ions from data independent LCMS with data dependant LC-MS/MS. Proteomics doi
  35. (2009). Database searching and accounting of multiplexed precursor and product ion spectra from the data independent analysis of simple and complex peptide mixtures. Proteomics doi
  36. (2004). What to do with onehit wonders? Electrophoresis doi
  37. (2005). Comprehensive proteomics in yeast using chromatographic fractionation, gas phase fractionation, protein gel electrophoresis, and isoelectric focusing. Proteomics doi
  38. (1976). Some properties of a soluble methane monooxygenase from Methylococcus capsulatus strain doi
  39. (2007). Analysis and quantification of diagnostic serum markers and protein signatures for gaucher disease. doi
  40. Qualitative and quantitative proteomic profiling of embryonic stem cells by means of accurate mass LC-MS analysis. doi
  41. Characterization of global yeast quantitative proteome data generated from the wild-type and glucose repression Saccharomyces cerevisiae strains: the comparison of two quantitative methods. doi
  42. (2007). Design and analysis issues in quantitative proteomics studies. Proteomics doi
  43. Direct proteomic mapping of the lung microvascular endothelial cell surface in vivo and in cell culture. doi
  44. (2008). Metabolic Aspects of Aerobic Obligate Methanotrophy. In Advances in Applied Microbiology; doi

To submit an update or takedown request for this paper, please submit an Update/Correction/Removal Request.