User:Nikolai Slavov

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Contact Info

Nikolai Slavov
Nikolai Slavov


Education

  • 2010, PhD, Botstein Lab, Princeton University
  • 2006, MS, Princeton University
  • 2004, BS, Massachusetts Institute of Technology

Research interests

I am interested in the dynamics of cell growth, metabolic and regulatory processes during the eukaryotic cell division cycle (CDC), across a wide range of CDC periods. In particular, I study how the growth rate signal - which is function of the availability of nutrients and growth factors - regulates the switch between respiration and fermentation and changes the duration of phases of the cell growth and division cycles.


Publications

  1. Slavov, N., Carey, J., Linse S. (2013) Calmodulin transduces Ca+2 oscillations into differential regulation of its target proteins ACS Chemical Neuroscience, vol. 4, issue 2 PDF [paper9]
    The molecular and network properties of the calmodulin signaling network, combined with its lignad-binding dynamics, can transduce a common signal (calcium levels) through a common signaling hub (calmodulin) and yet send different signals to many downstream proteins.

  2. Slavov N. and Botstein D. (2012) Decoupling Nutrient Signaling from Growth Rate Causes Aerobic Glycolysis and Deregulation of Cell Size and Gene Expression Mol. Biol. Cell, vol. 24, no. 2 PDF

    [Paper8]

    The nutrition and the growth rate of a cell are two interacting factors with pervasive physiological effects. Our experiments decouple these factors and demonstrate the role of a growth rate signal, independent of the actual rate of biomass increase, on gene regulation, the cell division cycle, and the switch to a respiro-fermentative metabolism.

  3. Slavov N., van Oudenaarden A.*(2012) How to Regulate a Gene: To Repress or to Activate? Mol. Cell, vol. 46, issue 5, 551-552 PDF

    [Paper7]

  4. Slavov N., Airoldi E., van Oudenaarden A., and Botstein D. (2012) A Conserved Cell Growth Cycle Can Account for the Environmental Stress Responses of Divergent Eukaryotes Mol. Biol. Cell, vol. 23, no. 10, 1986-1997 PDF

    [Paper6]

    We find that transitions between the two phases of the cell growth cycle can account for the environmental stress response, the growth-rate response, and the cross protection between slow growth and various types of stress factors. We suggest that this mechanism is conserved across budding and fission yeast, and normal human cells.

  5. Slavov N., Macinskas J., Caudy A., Botstein D. (2011) Metabolic Cycling without Cell Division Cycling in Respiring Yeast PNAS, vol. 108, no. 47, 19090-19095 PDF

    [Paper5]

  6. Slavov N. and Botstein D. (2011) Coupling among Growth Rate Response, Metabolic Cycle and Cell Division Cycle in Yeast Mol. Biol. Cell, vol. 22, 1997-2009 PDF

    [Paper4]

    We discovered that the relative durations of the phases of the yeast metabolic cycle change with the growth rate. These changes can explain mechanistically the transcriptional growth-rate responses of all yeast genes (25% of the genome) that we find to be the same across all studied nutrient limitations in either ethanol or glucose carbon source.

  7. Slavov N. (2010) Inference of Sparse Networks with Unobserved Variables. Application to Gene Regulatory Networks, JMLR, vol. 9 PDF

    [Paper3]

  8. Silverman SJ, Petti AA, Slavov N, Parsons L, Briehof R, Thiberge SY, Zenklusen D, Gandhi SJ, Larson DR, Singer RH, and Botstein D. . pmid:20335538. PubMed HubMed [Paper2]
    F1000 Review

  9. Slavov N and Dawson KA. . pmid:19246374. PubMed HubMed [Paper1]
All Medline abstracts: PubMed HubMed

Protocols

  • Phosphate-Limited Medium with Ethanol as a Sole Source of Carbon and Energy[1]
  • Glucose-Limited Mineral Medium[2]
  • Ethanol-Limited Mineral Medium[3]


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