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Experimental estimation of proteome size for cells and human plasma

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Abstract

Huge range of concentrations of different proteoforms and insufficient sensitivity of methods for detection of proteins at a single molecule level does not yet allow obtaining the whole image of the human proteome. In our investigations, we tried to evaluate the size of different proteomes (cells and plasma). The approach used is based on detection of protein spots in two-dimensional electrophoresis (2-DE) after protein staining by dyes with different sensitivities. The functional dependence of the number of detected protein spots from sensitivity of protein dyes was generated. Next, by extrapolation of this function curve to theoretical point of the maximum sensitivity (detection of a single smallest polypeptide) it was calculated that a single human cell (HepG2) may contain minimum 70000 proteoforms, human plasma—1.5 million. Utilization of this approach to other, smaller proteomes, showed the competency of this extrapolation. For instance, the size of mycoplasma (Acholeplasma laidlawii) was estimated in 1100 proteoforms, yeast (Saccharomyces cerevisiae)—40000, Escherichia coli—6200, Pyrococcus furiosus—3400. In hepatocytes, the amount of proteoforms was the same as in HepG2–70000. Significance of obtained data is in possibilities to estimating the proteome organization and planning next steps in its study.

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Authors and Affiliations

  1. Institute of Biomedical Chemistry, ul. Pogodinskaya 10, Moscow, 119121, Russia

    S. N. Naryzhny, V. G. Zgoda, M. A. Maynskova & A. I. Archakov

  2. Konstantinov Petersburg Nuclear Physics Institute, Gatchina, Leningrad oblast, 188300, Russia

    S. N. Naryzhny, N. L. Ronzhina, N. V. Belyakova & O. K. Legina

Authors
  1. S. N. Naryzhny
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  2. V. G. Zgoda
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  3. M. A. Maynskova
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  4. N. L. Ronzhina
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  5. N. V. Belyakova
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  6. O. K. Legina
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  7. A. I. Archakov
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Correspondence to S. N. Naryzhny.

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Original Russian Text © S.N. Naryzhny, V.G. Zgoda, M.A. Maynskova, N.L. Ronzhina, N.V. Belyakova, O.K. Legina, A.I. Archakov, 2015, published in Biomeditsinskaya Khimiya.

The article was translated by the author (S.N. Naryzhny).

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Naryzhny, S.N., Zgoda, V.G., Maynskova, M.A. et al. Experimental estimation of proteome size for cells and human plasma. Biochem. Moscow Suppl. Ser. B 9, 305–311 (2015). https://doi.org/10.1134/S1990750815040034

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  • DOI: https://doi.org/10.1134/S1990750815040034

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