Bogdanov, Alexey M.

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https://hdl.handle.net/11147/16579
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Main Affiliation
04.04. Department of Photonics
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Current Staff
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Scholarly Output

2

Articles

2

Views / Downloads

151/6

Supervised MSc Theses

0

Supervised PhD Theses

0

WoS Citation Count

1

Scopus Citation Count

1

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0

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0

WoS Citations per Publication

0.50

Scopus Citations per Publication

0.50

Open Access Source

0

Supervised Theses

0

JournalCount
Archives of Biochemistry and Biophysics1
International Journal of Molecular Sciences1
Current Page: 1 / 1

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Author of Publication: search.filters.isAuthorOfPublication.9acd77d0-09dd-4acf-a74a-be6f341754c7

Scholarly Output Search Results

Now showing 1 - 2 of 2
  • Article
    Fluorescent Protein With Environmentally-Sensitive Fluorescence Lifetime for Quantitative Ph Measurement
    (Elsevier Science inc, 2025) Bogdanov, Alexey M.; Protasova, Elena A.; Mamontova, Anastasia, V; Shakhov, Aleksander M.; Bodunova, Daria, V; Sidorenko, Svetlana, V; Bogdanov, Alexey M.; 04.04. Department of Photonics; 04. Faculty of Science; 01. Izmir Institute of Technology
    Intracellular pH is a key factor in cell homeostasis, regulated within specific compartments, and changes in pH can result from or affect biochemical pathways. This study explores a yellow fluorescent protein EYFP-G65T as a core for a time-resolved pH-indicator. Among the tested designs-a circular permutant, a chimeric SypHer3s-like construct, and an unmodified protein-the unmodified EYFP-G65T performed best for live-cell imaging. Upon two-photon excitation, purified EYFP-G65T exhibited a 4.5-fold increase in mean fluorescence lifetime across pH 5.5-7 and a 7-fold change in its major component's lifetime from pH 6.5-8. Using this indicator, we measured pH values ranging from 6 to 8 in various organelles, and mapped pH shifts in mitochondria and the Golgi apparatus in response to stimuli.
  • Article
    Citation - WoS: 1
    Citation - Scopus: 1
    Calcium Indicators With Fluorescence Lifetime-Based Signal Readout: a Structure-Function Study
    (MDPI, 2024) Simonyan, Tatiana R.; Bogdanov, Alexey M.; Varfolomeeva, Larisa A.; Mamontova, Anastasia V.; Kotlobay, Alexey A.; Gorokhovatsky, Andrey Y.; Bogdanov, Alexey M.; Boyko, Konstantin M.; 04.04. Department of Photonics; 04. Faculty of Science; 01. Izmir Institute of Technology
    The calcium cation is a crucial signaling molecule involved in numerous cellular pathways. Beyond its role as a messenger or modulator in intracellular cascades, calcium's function in excitable cells, including nerve impulse transmission, is remarkable. The central role of calcium in nervous activity has driven the rapid development of fluorescent techniques for monitoring this cation in living cells. Specifically, genetically encoded calcium indicators (GECIs) are the most in-demand molecular tools in their class. In this work, we address two issues of calcium imaging by designing indicators based on the successful GCaMP6 backbone and the fluorescent protein BrUSLEE. The first indicator variant (GCaMP6s-BrUS), with a reduced, calcium-insensitive fluorescence lifetime, has potential in monitoring calcium dynamics with a high temporal resolution in combination with advanced microscopy techniques, such as light beads microscopy, where the fluorescence lifetime limits acquisition speed. Conversely, the second variant (GCaMP6s-BrUS-145), with a flexible, calcium-sensitive fluorescence lifetime, is relevant for static measurements, particularly for determining absolute calcium concentration values using fluorescence lifetime imaging microscopy (FLIM). To identify the structural determinants of calcium sensitivity in these indicator variants, we determine their spatial structures. A comparative structural analysis allowed the optimization of the GCaMP6s-BrUS construct, resulting in an indicator variant combining calcium-sensitive behavior in the time domain and enhanced molecular brightness. Our data may serve as a starting point for further engineering efforts towards improved GECI variants with fine-tuned fluorescence lifetimes.