Research Profile

Ruslan Dmitriev

Biography

EDUCATION :

2008 - Ph.D. (Bioorganic Chemistry), Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, Russia. Supervisor: Dr. N.B. Pestov. Thesis title: “Structure-functional analysis of the novel protein hampin as a component of the nuclear interactome”.

2004 - M.Sc. (with distinction), Moscow State Academy of Fine Chemical Technology, Moscow, Russia. Thesis title: “Gene engineering and immunochemical studies of the Secretory Pathway Calcium ATPase”.

2002 - B.Sc. (with distinction), Moscow State Academy of Fine Chemical Technology, Moscow, Russia. Thesis title: “Molecular cloning of 5’-cDNA ends of Secretory Pathway Calcium ATPase isoforms. Production and purification of corresponding polypeptides”.

EMPLOYMENT:

2014- present – SFI SIRG Investigator (Research Fellow), School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland

2013-2014 - Senior Postdoctoral researcher, School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland. Work on I-PIC project (with Tyndall).

2008-2012 – Postdoctoral researcher, Biochemistry Department, University College Cork, Cork, Ireland  

2004-2008– Analyst (part time), Newcastle Technical Center of Procter & Gamble, Moscow, Russia (Affiliate lab) 

2004-2008 - Junior scientist (part time), Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Moscow, Russia 

2001-2004– Technician (part time), Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Moscow, Russia

Research Interests

Biochemist, microscopist, developer and tester of novel high-performance bioconjugate and nanoparticle-based biosensors for live cell imaging. I have strong interest in FLIM, PLIM, and metabolic and O2 imaging of 3D tissue models such as ex vivo tissues, tumour spheroids and intestinal organoids. 
Google Scholar page: http://scholar.google.com/citations?user=fAYmtSUAAAAJ
Website: http://photobiolabcork.blogspot.ie
Twitter: https://twitter.com/PhotoBioLab

Research Grants

 ProjectFunding
Body
Start DateEnd DateAward
Novel High Performance phosphoresent probes for imaging cellular oxygen.Science Foundation of Ireland01-JAN-1331-DEC-13€99,809.00
SFI - 18/IF/6238 - Industry Fellowship - Ruslan DmitrievScience Foundation of Ireland01-MAY-1930-APR-20€95,470.00
Development of Bionic Sensor materials for metabolic imaging in regenerative medicine.Science Foundation of Ireland01-SEP-1430-NOV-18€516,801.00

Publications

Books

 YearPublication
(2012)Phosphorescent Oxygen-Sensitive Probes.
Papkovsky DB, Zhdanov AV, Fercher A, Dmitriev RI, Hynes J (2012) Phosphorescent Oxygen-Sensitive Probes. Basel: Springer.   [DOI] [Details]

Book Chapters

 YearPublication
(2017)'Fabrication and Handling of 3D Scaffolds Based on Polymers and Decellularized Tissues'
Anastasia Shpichka, Anastasia Koroleva, Daria Kuznetsova, Ruslan I. Dmitriev, Peter Timashev (2017) 'Fabrication and Handling of 3D Scaffolds Based on Polymers and Decellularized Tissues' In: Dr. R. Dmitriev (eds). Multi-Parametric Live Cell Microscopy of 3D Tissue Models. Springer, Cham: Springer International Publishing AG 2017.   [DOI] [Details]
(2017)'Multi-Parametric Imaging of Hypoxia and Cell Cycle in Intestinal Organoid Culture'
Irina A. Okkelman, Tara Foley, Dmitri B. Papkovsky, Ruslan I. Dmitriev (2017) 'Multi-Parametric Imaging of Hypoxia and Cell Cycle in Intestinal Organoid Culture' In: Dr. R. Dmitriev (eds). Multi-Parametric Live Cell Microscopy of 3D Tissue Models. Springer, Cham: Springer International Publishing AG 2017.   [DOI] [Details]
(2017)'Three-Dimensional Tissue Models and Available Probes for Multi-Parametric Live Cell Microscopy: A Brief Overview'
Neil O’Donnell, Ruslan I. Dmitriev (2017) 'Three-Dimensional Tissue Models and Available Probes for Multi-Parametric Live Cell Microscopy: A Brief Overview' In: Dr. R. Dmitriev (eds). Multi-Parametric Live Cell Microscopy of 3D Tissue Models. springer, Cham: Springer International Publishing AG 2017.   [DOI] [Details]
(2015)'Multi-parametric O2 Imaging in Three-Dimensional Neural Cell Models with the Phosphorescent Probes'
Ruslan I. Dmitriev, Dmitri B. Papkovsky (2015) 'Multi-parametric O2 Imaging in Three-Dimensional Neural Cell Models with the Phosphorescent Probes' In: Laura Lossi, Adalberto Merighi (eds). Neuronal Cell Death: Methods and protocols. New York: Springer.   [DOI] [Details]
(2014)'Kinetic analysis of local oxygenation and respiratory responses of Mammalian cells using intracellular oxygen-sensitive probes and time-resolved fluorometry'
Zhdanov AV, Dmitriev RI, Hynes J, Papkovsky DB (2014) 'Kinetic analysis of local oxygenation and respiratory responses of Mammalian cells using intracellular oxygen-sensitive probes and time-resolved fluorometry' In: Methods in Enzymology, V. 542. Conceptual Background and Bioenergetic/Mitochondrial Aspects of Oncometabolism. USA: Academic Press. [DOI] [Details]
(2012)'O2-Sensitive Probes Based on Phosphorescent Metalloporphyrins'
Dmitriev, Ruslan I and Papkovsky, Dmitri B (2012) 'O2-Sensitive Probes Based on Phosphorescent Metalloporphyrins' In: Springer Basel. [Details]
(2012)'O2 Analysis on a Fluorescence Spectrometer or Plate Reader'
Zhdanov, Alexander V and Hynes, James and Dmitriev, Ruslan I and Papkovsky, Dmitri B (2012) 'O2 Analysis on a Fluorescence Spectrometer or Plate Reader' In: Springer Basel. [Details]
(2012)'O2 Imaging in Biological Specimens'
Fercher, Andreas and Zhdanov, Alexander V and Papkovsky, Dmitri B (2012) 'O2 Imaging in Biological Specimens' In: Springer Basel. [Details]
(2010)'Imaging of cellular oxygen and analysis of metabolic responses of mammalian cells'
Fercher A, O'Riordan TC, Zhdanov AV, Dmitriev RI, Papkovsky DB; (2010) 'Imaging of cellular oxygen and analysis of metabolic responses of mammalian cells' In: Live cell imaging. Methods and protocols. New York: Humana Press.   [Details]

Edited Books

 YearPublication
(2018)Quenched-phosphorescence Detection of Molecular Oxygen: Applications in Life Sciences
D. Papkovsky, R. Dmitriev (Ed.). (2018) Quenched-phosphorescence Detection of Molecular Oxygen: Applications in Life Sciences UK: Royal Society of Chemistry.   [DOI] [Details]
(2017)Multi-Parametric Live Cell Microscopy of 3D Tissue Models
Dr. R. Dmitriev (Ed.). (2017) Multi-Parametric Live Cell Microscopy of 3D Tissue Models Springer, Cham: Springer International Publishing AG 2017.   [DOI] [Details]

Peer Reviewed Journals

 YearPublication
(2020)'Multiparametric Optical Bioimaging Reveals the Fate of Epoxy Crosslinked Biomeshes in the Mouse Subcutaneous Implantation Model'
Elagin V, Kuznetsova D, Grebenik E, Zolotov DA, Istranov L, Zharikova T, Istranova E, Polozova A, Reunov D, Kurkov A, Shekhter A, Gafarova ER, Asadchikov V, Borisov SM, Dmitriev RI, Zagaynova E, Timashev P (2020) 'Multiparametric Optical Bioimaging Reveals the Fate of Epoxy Crosslinked Biomeshes in the Mouse Subcutaneous Implantation Model'. Frontiers In Bioengineering And Biotechnology,   [DOI] [Details]
(2020)'A deeper understanding of intestinal organoid metabolism revealed by combining fluorescence lifetime imaging microscopy (FLIM) and extracellular flux analyses'
Okkelman IA, Neto N, Papkovsky DB, Monaghan M, Dmitriev RI (2020) 'A deeper understanding of intestinal organoid metabolism revealed by combining fluorescence lifetime imaging microscopy (FLIM) and extracellular flux analyses'. Redox Biology,   [DOI] [Details]
(2020)'Evaluation of Ebselen-azadioxatriangulenium as redox-sensitive fluorescent intracellular probe and as indicator within a planar redox optode'
Koren, K;Salinas, NKG;Santella, M;Mosshammer, M;Muller, MC;Dmitriev, RI;Borisov, SM;Kuhl, M;Laursen, BW (2020) 'Evaluation of Ebselen-azadioxatriangulenium as redox-sensitive fluorescent intracellular probe and as indicator within a planar redox optode'. Dyes And Pigments, 173 [DOI] [Details]
(2019)'Estimation of the Mitochondrial Membrane Potential Using Fluorescence Lifetime Imaging Microscopy'
Okkelman, Irina A.; Papkovsky, Dmitri B.; Dmitriev, Ruslan I. (2019) 'Estimation of the Mitochondrial Membrane Potential Using Fluorescence Lifetime Imaging Microscopy'. Cytometry Part A, 0 (0)   [DOI] [Full Text] [Details]
(2019)'Chemical cross-linking of xenopericardial biomeshes: A bottom-up study of structural and functional correlations'
Grebenik, EA;Istranov, LP;Istranova, EV;Churbanov, SN;Shavkuta, BS;Dmitriev, RI;Veryasova, NN;Kotova, SL;Kurkov, AV;Shekhter, AB;Timashev, PS (2019) 'Chemical cross-linking of xenopericardial biomeshes: A bottom-up study of structural and functional correlations'. Xenotransplantation, 26 [DOI] [Details]
(2018)'Background-free fluorescence decay time sensing and imaging of pH with highly photostable diazaoxotriangulenium dyes'
Dalfen, Irene; Dmitriev, Ruslan I.; Holst, Gerhard; Klimant, Ingo; Borisov, Sergey M. (2018) 'Background-free fluorescence decay time sensing and imaging of pH with highly photostable diazaoxotriangulenium dyes'. Analytical Chemistry,   [DOI] [Full Text] [Details]
(2016)'Systematic analysis of the PTEN 5 ' leader identifies a major AUU initiated proteoform'
Tzani, I,Ivanov, IP,Andreev, DE,Dmitriev, RI,Dean, KA,Baranov, PV,Atkins, JF,Loughran, G (2016) 'Systematic analysis of the PTEN 5 ' leader identifies a major AUU initiated proteoform'. Open Biology, 6 [DOI] [Details]
(2018)'Cellulose-based scaffolds for fluorescence lifetime imaging-assisted tissue engineering'
O'Donnell, Neil; Okkelman, Irina A.; Timashev, Peter; Gromovykh, Tatyana I.; Papkovsky, Dmitri B.; Dmitriev, Ruslan I. (2018) 'Cellulose-based scaffolds for fluorescence lifetime imaging-assisted tissue engineering'. Acta Biomaterialia, 80 :85-96   [DOI] [Full Text] [Details]
(2018)'Nanoparticle-Based Fluoroionophore for Analysis of Potassium Ion Dynamics in 3D Tissue Models and In Vivo'
Bernhard J. Müller, Alexander V. Zhdanov, Sergey M. Borisov, Tara Foley, Irina A. Okkelman, Vassiliy Tsytsarev, Qinggong Tang, Reha S. Erzurumlu, Yu Chen, Haijiang Zhang, Claudio Toncelli, Ingo Klimant, Dmitri B. Papkovsky, Ruslan I. Dmitriev (2018) 'Nanoparticle-Based Fluoroionophore for Analysis of Potassium Ion Dynamics in 3D Tissue Models and In Vivo'. Advanced Functional Materials,   [DOI] [Details]
(2017)'Live cell imaging of mouse intestinal organoids reveals heterogeneity in their oxygenation'
Irina A. Okkelman, Tara Foley, Dmitri B. Papkovsky, Ruslan I. Dmitriev (2017) 'Live cell imaging of mouse intestinal organoids reveals heterogeneity in their oxygenation'. Biomaterials, [DOI] [Details]
(2014)'Two Distinct Nuclear Localization Signals in Mammalian MSL1 Regulate Its Function'
Dmitriev, RI;Pestov, NB;Shakhparonov, MI;Okkelman, IA (2014) 'Two Distinct Nuclear Localization Signals in Mammalian MSL1 Regulate Its Function'. Journal of Cellular Biochemistry, 115 :1967-1973 [DOI] [Details]
(2013)'Genome-wide investigation of cellular targets and mode of action of the antifungal bacterial metabolite 2,4-diacetylphloroglucinol in Saccharomyces cerevisiae'
Troppens, DM;Dmitriev, RI;Papkovsky, DB;O'Gara, F;Morrissey, JP (2013) 'Genome-wide investigation of cellular targets and mode of action of the antifungal bacterial metabolite 2,4-diacetylphloroglucinol in Saccharomyces cerevisiae'. FEMS yeast research, 13 :322-334 [DOI] [Details]
(2017)'Steering surface topographies of electrospun fibers: understanding the mechanisms'
Yazgan, G.; Dmitriev, R. I.; Tyagi, V.; Jenkins, J.; Rotaru, G.-M.; Rottmar, M.;Rossi, R.M.; Toncelli, C.; Papkovsky, D.B.; Maniura-Weber, K.; Fortunato, G. (2017) 'Steering surface topographies of electrospun fibers: understanding the mechanisms'. Scientific Reports, 7 (158):1-13   [DOI] [Full Text] [Details]
(2016)'Two-Acceptor Cyanine-Based Fluorescent Indicator for NAD(P)H in Tumor Cell Models'
Fomin, MA,Dmitriev, RI,Jenkins, J,Papkovsky, DB,Heindl, D,Konig, B (2016) 'Two-Acceptor Cyanine-Based Fluorescent Indicator for NAD(P)H in Tumor Cell Models'. Acs Sensors, 1 :702-709 [DOI] [Details]
(2016)'Use of fluorescence lifetime imaging microscopy (FLIM) as a timer of cell cycle S phase'
Okkelman,Irina A.; Dmitriev, Ruslan I.; Foley,Tara; Papkovsky, Dmitri B. (2016) 'Use of fluorescence lifetime imaging microscopy (FLIM) as a timer of cell cycle S phase'. Plos One, 11 (12)   [DOI] [Full Text] [Details]
(2016)'Evolutionary diversification of the BetaM interactome acquired through co-option of the ATP1B4 gene in placental mammals'
Tatyana V. Korneenko, Nikolay B. Pestov, Nisar Ahmad, Irina A. Okkelman, Ruslan I. Dmitriev, Mikhail I. Shakhparonov & Nikolai N. Modyanov (2016) 'Evolutionary diversification of the BetaM interactome acquired through co-option of the ATP1B4 gene in placental mammals'. Scientific Reports, 6   [DOI] [Details]
(2016)'Sulforhodamine Nanothermometer for Multiparametric Fluorescence Lifetime Imaging Microscopy'
James Jenkins, Sergey M. Borisov, Dmitri B. Papkovsky, and Ruslan I. Dmitriev (2016) 'Sulforhodamine Nanothermometer for Multiparametric Fluorescence Lifetime Imaging Microscopy'. Analytical Chemistry, 88 (21):10566-10572   [DOI] [Details]
(2016)'Systematic analysis of the PTEN 5' leader identifies a major AUU initiated proteoform'
Tzani I;Ivanov IP;Andreev DE;Dmitriev RI;Dean KA;Baranov PV;Atkins JF;Loughran G; (2016) 'Systematic analysis of the PTEN 5' leader identifies a major AUU initiated proteoform'. Open Biology, 6 (5) [DOI] [Details]
(2016)'The Ca2+/Mn2+-transporting SPCA2 pump is regulated by oxygen and cell density in colon cancer cells'
Jenkins J;Papkovsky DB;Dmitriev RI; (2016) 'The Ca2+/Mn2+-transporting SPCA2 pump is regulated by oxygen and cell density in colon cancer cells'. The Biochemical Journal, 473 (16) [DOI] [Details]
(2016)'Metallochelate Coupling of Phosphorescent Pt-Porphyrins to Peptides, Proteins, and Self-Assembling Protein Nanoparticles'
Ruslan I. Dmitriev, Neil O’Donnell, and Dmitri B. Papkovsky (2016) 'Metallochelate Coupling of Phosphorescent Pt-Porphyrins to Peptides, Proteins, and Self-Assembling Protein Nanoparticles'. Bioconjugate Chemistry, [DOI] [Details]
(2015)'Oxygen and glucose deprivation induces widespread alterations in mRNA translation within 20 minutes'
Andreev DE, O’Connor PBF, Zhdanov AV, Dmitriev RI, Shatsky IN, Papkovsky BD and Baranov PV (2015) 'Oxygen and glucose deprivation induces widespread alterations in mRNA translation within 20 minutes'. Genome Biology, 16   [DOI] [Details]
(2015)'Versatile Conjugated Polymer Nanoparticles for High-Resolution O2 Imaging in Cells and 3D Tissue Models'
Ruslan I. Dmitriev, Sergey M. Borisov, Heiko Düssmann, Shiwen Sun, Bernhard J. Müller, Jochen Prehn, Vladimir P. Baklaushev, Ingo Klimant, and Dmitri B. Papkovsky (2015) 'Versatile Conjugated Polymer Nanoparticles for High-Resolution O2 Imaging in Cells and 3D Tissue Models'. ACS Nano,   [DOI] [Details]
(2015)'Oxygen-sensing scaffolds for 3-dimensional cell and tissue culture'
James Jenkins, Ruslan I. Dmitriev, Karl Morten, Kieran W. McDermott, Dmitri B. Papkovsky (2015) 'Oxygen-sensing scaffolds for 3-dimensional cell and tissue culture'. Acta Biomaterialia, 16 :126-135   [Details]
(2015)'In vitro ischemia decreases histone H4K16 acetylation in neural cells'
Ruslan I. Dmitriev, Dmitri B. Papkovsky (2015) 'In vitro ischemia decreases histone H4K16 acetylation in neural cells'. Febs Letters, 589 (1):138-144   [DOI] [Details]
(2014)'pH-sensitive perylene bisimide probes for live cell fluorescence lifetime imaging'
Aigner, D,Dmitriev, RI,Borisov, SM,Papkovsky, DB,Klimant, I (2014) 'pH-sensitive perylene bisimide probes for live cell fluorescence lifetime imaging'. Journal of Materials Chemistry B, 2 :6792-6801 [DOI] [Details]
(2015)'Imaging oxygen in neural cell and tissue models by means of anionic cell-permeable phosphorescent nanoparticles'
Dmitriev RI, Borisov SM, Kondrashina AV, Pakan JMP, Anilkumar U, Prehn JHM, Zhdanov, AV, McDermott KW, Klimant I, Papkovsky DB. (2015) 'Imaging oxygen in neural cell and tissue models by means of anionic cell-permeable phosphorescent nanoparticles'. Cellular and Molecular Life Sciences, 72 :367-381   [DOI] [Details]
(2014)'Availability of the key metabolic substrates dictates the respiratory response of cancer cells to the mitochondrial uncoupling'
Zhdanov AV, Waters AHC, Golubeva AV, Dmitriev RI and Papkovsky DB (2014) 'Availability of the key metabolic substrates dictates the respiratory response of cancer cells to the mitochondrial uncoupling'. BBA Biochimica et Biophysica Acta, 1837 (1):51-62 [Details]
(2014)'Small molecule phosphorescent probes for O-2 imaging in 3D tissue models'
Dmitriev, RI,Kondrashina, AV,Koren, K,Klimant, I,Zhdanov, AV,Pakan, JMP,McDermott, KW,Papkovsky, DB (2014) 'Small molecule phosphorescent probes for O-2 imaging in 3D tissue models'. Biomaterials Science, 2 :853-866 [DOI] [Details]
(2013)'Chronic Hypoxia Leads to a Glycolytic Phenotype and Suppressed HIF-2 Signaling in PC12 Cells'
Zhdanov AV, Dmitriev RI, Golubeva AV, Gavrilova SA, Papkovsky DB (2013) 'Chronic Hypoxia Leads to a Glycolytic Phenotype and Suppressed HIF-2 Signaling in PC12 Cells'. Biochimica Et Biophysica Acta, [DOI] [Details]
(2013)'Biological detection by optical oxygen sensing'
Papkovsky DB, Dmitriev RI (2013) 'Biological detection by optical oxygen sensing'. Chemical Society Reviews, 42 (22):8700-8732 [DOI] [Details]
(2013)'Measurement of cell respiration and oxygenation in standard multichannel biochips using phosphorescent O2-sensitive probes'
Kondrashina AV, Papkovsky DB, Dmitriev RI (2013) 'Measurement of cell respiration and oxygenation in standard multichannel biochips using phosphorescent O2-sensitive probes'. Analyst, 138 (17):4915-4921 [DOI] [Details]
(2013)'Imaging of neurosphere oxygenation with phosphorescent probes'
Dmitriev, RI,Zhdanov, AV,Nolan, YM,Papkovsky, DB (2013) 'Imaging of neurosphere oxygenation with phosphorescent probes'. Biomaterials, 34 :9307-9317 [DOI] [Details]
(2012)'Optical probes and techniques for O-2 measurement in live cells and tissue'
Dmitriev, RI,Papkovsky, DB (2012) 'Optical probes and techniques for O-2 measurement in live cells and tissue'. Cell and Molecular Life Science, :2025-2039 [DOI] [Details]
(2012)'A Phosphorescent Nanoparticle-Based Probe for Sensing and Imaging of (Intra)Cellular Oxygen in Multiple Detection Modalities'
Kondrashina, AV,Dmitriev, RI,Borisov, SM,Klimant, I,O'Brien, I,Nolan, YM,Zhdanov, AV,Papkovsky, DB (2012) 'A Phosphorescent Nanoparticle-Based Probe for Sensing and Imaging of (Intra)Cellular Oxygen in Multiple Detection Modalities'. Advanced Functional Materials, 22 :4931-4939 [DOI] [Details]
(2012)'Assessment of Cellular Oxygen Gradients with a Panel of Phosphorescent Oxygen-Sensitive Probes'
Dmitriev, RI,Zhdanov, AV,Jasionek, G,Papkovsky, DB (2012) 'Assessment of Cellular Oxygen Gradients with a Panel of Phosphorescent Oxygen-Sensitive Probes'. Analytical Chemistry, 84 :2930-2938 [DOI] [Details]
(2012)'Complexes of IrIII-Octaethylporphyrin with Peptides as Probes for Sensing Cellular O2'
Koren, K,Dmitriev, RI,Borisov, SM,Papkovsky, DB,Klimant, I (2012) 'Complexes of IrIII-Octaethylporphyrin with Peptides as Probes for Sensing Cellular O2'. Chembiochem, 13 :1184-1190 [DOI] [Details]
(2012)'Bafilomycin A1 activates HIF-dependent signalling in human colon cancer cells via mitochondrial uncoupling'
Zhdanov AV, Dmitriev RI, Papkovsky DB (2012) 'Bafilomycin A1 activates HIF-dependent signalling in human colon cancer cells via mitochondrial uncoupling'. Bioscience reports, 32 (6):587-595 [DOI] [Details]
(2012)'Optical probes and techniques for O2 measurement in live cells and tissue'
Dmitriev RI, Papkovsky DB (2012) 'Optical probes and techniques for O2 measurement in live cells and tissue'. Cellular and molecular life sciences : CMLS, 69 (12):2025-2039 [DOI] [Details]
(2011)'Cell-Penetrating Conjugates of Coproporphyrins with Oligoarginine Peptides: Rational Design and Application for Sensing Intracellular O(2)'
Dmitriev RI, Ropiak HM, Ponomarev GV, Yashunsky DV, Papkovsky DB (2011) 'Cell-Penetrating Conjugates of Coproporphyrins with Oligoarginine Peptides: Rational Design and Application for Sensing Intracellular O(2)'. Bioconjugate Chemistry, [DOI] [Details]
(2010)'Bactenecin 7 peptide fragment as a tool for intracellular delivery of a phosphorescent oxygen sensor'
Dmitriev RI, Ropiak HM, Yashunsky DV, Ponomarev GV, Zhdanov AV, Papkovsky DB; (2010) 'Bactenecin 7 peptide fragment as a tool for intracellular delivery of a phosphorescent oxygen sensor'. Febs Journal, 277 (22):4651-4661 [DOI] [Details]
(2010)'Intracellular oxygen-sensitive phosphorescent probes based on cell-penetrating peptides. Anal Biochem'
Dmitriev, R. I.,Zhdanov, A. V.,Ponomarev, G. V.,Yashunski, D. V.,Papkovsky, D. B.; (2010) 'Intracellular oxygen-sensitive phosphorescent probes based on cell-penetrating peptides. Anal Biochem'. Anal Biochem, 398 (1):24-33   [Details]
(2010)'Bafilomycin A1 activates respiration of neuronal cells via uncoupling associated with flickering depolarization of mitochondria'
Zhdanov AV, Dmitriev RI, Papkovsky DB; (2010) 'Bafilomycin A1 activates respiration of neuronal cells via uncoupling associated with flickering depolarization of mitochondria'. Cellular and Molecular Life Sciences, [DOI] [Details]
(2009)'Isolation of extracellular recombinant fragment of rat connexin-43'
Baklaushev VP, Gurina OI, Yusubalieva GM, Dmitriev RI, Makarov AV, Chekhonin VP; (2009) 'Isolation of extracellular recombinant fragment of rat connexin-43'. Bulletinetin of Experimental Biology and Medicine, 148 (3):389-393 [Details]
(2009)'Nuclear transport of protein TTC4 depends on the cell cycle'
Dmitriev, Ruslan I and Okkelman, Irina A and Abdulin, Roman A and Shakhparonov, Mikhail I and Pestov, Nikolay B (2009) 'Nuclear transport of protein TTC4 depends on the cell cycle'. Cell and Tissue Research, 336 (3):521-527 [Details]
(2008)'Structure and function of MYST1 histone acetyltransferase in the interactome of animal cells'
Dmitriev RI, Shakhparonov MI, Pestov NB; (2008) 'Structure and function of MYST1 histone acetyltransferase in the interactome of animal cells'. Biochemistry, 73 (8):839-852 [Details]
(2007)'Characterization of hampin/MSL1 as a node in the nuclear interactome'
Dmitriev RI, Korneenko TV, Bessonov AA, Shakhparonov MI, Modyanov NN, Pestov NB; (2007) 'Characterization of hampin/MSL1 as a node in the nuclear interactome'. Biochemical and Biophysical Research Communications, 355 (4):1051-1057 [DOI] [Details]
(2007)'[Decrease in expression of human J-chain in lung squamous cell cancer and adenocarcinoma]'
Slizhikova DK, Zinov'eva MV, Kuz'min DV, Snezhkov EB, Shakhparonov MI, Dmitriev RI, Antipova NV, Zavalova LL, Sverdlov ED; (2007) '[Decrease in expression of human J-chain in lung squamous cell cancer and adenocarcinoma]'. Molekuliarnaia Biologiia, 41 (4):659-665 [Details]
(2006)'Intracellular location of hampin isoforms'
Dmitriev RI, Pestov NB, Korneenko TV, Shakhparonov MI; (2006) 'Intracellular location of hampin isoforms'. Doklady. Biochemistry and Biophysics, 408 :130-132 [Details]
(2005)'A Caenorhabditis elegans mutant lacking functional nicotinamide nucleotide transhydrogenase displays increased sensitivity to oxidative stress'
Arkblad EL, Tuck S, Pestov NB, Dmitriev RI, Kostina MB, Stenvall J, Tranberg M, Rydstr�m J; (2005) 'A Caenorhabditis elegans mutant lacking functional nicotinamide nucleotide transhydrogenase displays increased sensitivity to oxidative stress'. Free Radical Biology & Medicine, 38 (11):1518-1525 [DOI] [Details]
(2005)'[Tissue specificity of alternative splicing products of mouse mRNA encoding new protein hampin homologous to the Drosophila MSL-1 protein]'
Dmitriev RI, Pestov NB, Korneenko TV, Gerasimova AV, Zhao Kh, Modianov NN, Kostina MB, Shakhparonov MI; (2005) '[Tissue specificity of alternative splicing products of mouse mRNA encoding new protein hampin homologous to the Drosophila MSL-1 protein]'. Bioorganicheskaia Khimiia, 31 (4):363-371 [Details]
(2003)'Liver SPCA, a secretory pathway Ca2+-ATPase, is predominantly localized in plasma membrane'
Dmitriev, RI and Pestov, NB and Korneenko, TV and Sorokina, ES and Kazmin, AA and Kostina, MB and Shakhparonov, MI (2003) 'Liver SPCA, a secretory pathway Ca2+-ATPase, is predominantly localized in plasma membrane'. Biologi\vceskie membrany, 20 (6):480-485 [Details]

Other Journals

 YearPublication
(2014)'Real-time monitoring of oxygenation in cultured organotypic brain slices (1180.20)'
Dmitriev, Ruslan and Borisov, Sergey and Kondrashina, Alina and Pakan, Janelle and Papkovsky, Dmitri (2014) 'Real-time monitoring of oxygenation in cultured organotypic brain slices (1180.20)' The FASEBJ Journal, 28 (1 Supplement) :1180-20. [Details]
(2014)'Comparison of different techniques for monitoring of mammalian cell respiration (960.4)'
Kondrashina, Alina and Dmitriev, Ruslan and Papkovsky, Dmitri (2014) 'Comparison of different techniques for monitoring of mammalian cell respiration (960.4)' The FASEB Journal, 28 (1 Supplement) :960-4. [Details]
(2013)'3D O 2 imaging in the neuronal spheroids'
Dmitriev, Ruslan I and Zhdanov, Alexander V and Nolan, Yvonne M and Papkovsky, Dmitri B (2013) '3D O 2 imaging in the neuronal spheroids' The FASEB Journal, 27 :574-1. [Details]
(2013)'Insight into oxygenation levels within 3D cell models and its impact on cell metabolism'
Papkovsky, Dmitri B and Carey, Conn and Morten, Karl and Dmitriev, Ruslan I and Hynes, James (2013) 'Insight into oxygenation levels within 3D cell models and its impact on cell metabolism' The FASEB Journal, 2013 (27) . [Details]
(2013)'Phosphorescent nanoparticle based probes for imaging and measurement of cellular oxygen'
Kondrashina, Alina and Dmitriev, Ruslan and Borisov, Sergey and Klimant, Ingo and Zhdanov, Alexander and Papkovsky, Dmitri (2013) 'Phosphorescent nanoparticle based probes for imaging and measurement of cellular oxygen' The FASEB Journal, 27 :576-2. [Details]
(2013)'Insight into oxygenation levels within 3D cell models and its impact on cell metabolism'
Papkovsky, DB,Carey, C,Morten, K,Dmitriev, RI,Hynes, J (2013) 'Insight into oxygenation levels within 3D cell models and its impact on cell metabolism' The Faseb Journal, . [Details]
(2012)'Histone H4 acetylation at K16 residue and mitochondrial activity in neuronal cells'
Dmitriev, Ruslan I and Zhdanov, Alexander V and Papkovsky, Dmitri B (2012) 'Histone H4 acetylation at K16 residue and mitochondrial activity in neuronal cells' The FASEB Journal, 26 :565-4. [Details]
(2012)'Assessment of intracellular O 2 gradient on a microplate reader'
Dmitriev, Ruslan I and Zhdanov, Alexander V and Jasionek, Greg and Papkovsky, Dmitri B (2012) 'Assessment of intracellular O 2 gradient on a microplate reader' The FASEB Journal, 26 :785-1. [Details]
(2011)'Rational design and experimental assessment of the new family of intracellular O 2-sensitive probes'
Dmitriev, Ruslan I and Yashunsky, Dmitri V and Ropiak, Honorata M and Zhdanov, Alexander V and Ponomarev, Gelii V and Papkovsky, Dmitri B (2011) 'Rational design and experimental assessment of the new family of intracellular O 2-sensitive probes' The FASEB Journal, 25 :762-4. [Details]
(2011)'Uncoupling effect of bafilomycin A1 on HIF and cell bioenergetics'
Dmitriev, Ruslan I and Zhdanov, Alexander V and Papkovsky, Dmitri B (2011) 'Uncoupling effect of bafilomycin A1 on HIF and cell bioenergetics' The FASEB Journal, 25 :861-15. [Details]
(2010)'Imaging of Cellular Oxygen and Analysis of Metabolic Responses of Mammalian Cells'
Fercher, Andreas and O’Riordan, Tomas C and Zhdanov, Alexander V and Dmitriev, Ruslan I and Papkovsky, Dmitri B (2010) 'Imaging of Cellular Oxygen and Analysis of Metabolic Responses of Mammalian Cells' Methods Mol. Biol, 591 :257-273. [Details]
(2008)'TTC4 provides a functional link between RASSF1C and DNA primase'
Dmitriev, Ruslan and Shakhparonov, Mikhail I and Pestov, Nikolay B (2008) 'TTC4 provides a functional link between RASSF1C and DNA primase' The FASEB Journal, 22 :826-1. [Details]
(2007)'Decreased expression of the human immunoglobulin J-chain gene in squamous cell cancer and adenocarcinoma of the lungs'
Slizhikova, DK and Zinovyeva, MV and Kuzmin, DV and Snezhkov, EV and Shakhparonov, MI and Dmitriev, RI and Antipova, NV and Zavalova, LL and Sverdlov, ED (2007) 'Decreased expression of the human immunoglobulin J-chain gene in squamous cell cancer and adenocarcinoma of the lungs' Molecular Biology, 41 (4) :594-600. [Details]
(2007)'Snizhenie ekspressii gena J-peptida cheloveka pri ploskokletochnom rake i adenokartsinome legkogo'
Slizhikova, DK and Zinov'eva, MV and Kuz'min, DV and Snezhkov, EV and Shakhparonov, MI and Dmitriev, RI and Antipova, NV and Zavalova, LL and Sverdlov, ED (2007) 'Snizhenie ekspressii gena J-peptida cheloveka pri ploskokletochnom rake i adenokartsinome legkogo' Molekulyar. biologiya, 41 :659-665. [Details]
(2007)'Identification of novel protein-protein interactions pertinent to regulation of mammalian hampin/MSL1 and histone acetylase MYST1/MOF'
Dmitriev, Ruslan I and Korneenko, Tatyana V and Pestov, Nikolay B and Modyanov, Nikolay N and Shakhparonov, Mikhail I (2007) 'Identification of novel protein-protein interactions pertinent to regulation of mammalian hampin/MSL1 and histone acetylase MYST1/MOF' The FASEB Journal, 21 :516-5. [Details]
(2006)'[Decrease in expression of human J-chain in lung squamous cell cancer and adenocarcinoma]'
Slizhikova, DK and Zinov'eva, MV and Kuz'min, DV and Snezhkov, EB and Shakhparonov, MI and Dmitriev, RI and Antipova, NV and Zavalova, LL and Sverdlov, ED (2006) '[Decrease in expression of human J-chain in lung squamous cell cancer and adenocarcinoma]' Molekuliarnaia biologiia, 41 (4) :659-665. [Details]
(2006)'Intracellular location of hampin isoforms'
Dmitriev, RI and Pestov, NB and Korneenko, TV and Shakhparonov, MI (2006) 'Intracellular location of hampin isoforms' Doklady Biochemistry and Biophysics, 408 (1) :130-132. [Details]
(2005)'Tissue Specificity of Alternative Splicing of Transcripts Encoding Hampin, a New Mouse Protein Homologous to the MSL-1 Protein'
Dmitriev, RI and Pestov, NB and Korneenko, TV and Gerasimova, AV and Zhao, H and Modyanov, NN and Kostina, MB and Shakhparonov, MI (2005) 'Tissue Specificity of Alternative Splicing of Transcripts Encoding Hampin, a New Mouse Protein Homologous to the MSL-1 Protein' Russian Journal of Bioorganic Chemistry, 31 (4) :325-331. [Details]
(2005)'[Tissue specificity of alternative splicing products of mouse mRNA encoding new protein hampin homologous to the Drosophila MSL-1 protein]'
Dmitriev, RI and Pestov, NB and Korneenko, TV and Gerasimova, AV and Zhao, Kh and Modianov, NN and Kostina, MB and Shakhparonov, MI and others (2005) '[Tissue specificity of alternative splicing products of mouse mRNA encoding new protein hampin homologous to the Drosophila MSL-1 protein]' Bioorganicheskaia khimiia, 31 (4) . [Details]

Conference Publications

 YearPublication
(2014)Experimental Biology 2014
Dmitriev, Ruslan and Kondrashina, Alina and Foley, Tara and Papkovsky, Dmitri (2014) Imaging of molecular oxygen at subcellular resolution in mammalian cell culture: from 2D to 3D models (764.1) Experimental Biology 2014 , pp.764-1 [Details]
(2014)Experimental Biology 2014
Dmitriev RI, Kondrashina AV, Foley T, Papkovsky DB (2014) Imaging of molecular oxygen at subcellular resolution in mammalian cell culture: from 2D to 3D models Experimental Biology 2014 [Details]
(2011)MOLECULAR BIOLOGY OF THE CELL
Dmitriev, RI and Fercher, A and Zhdanov, AV and Papkovsky, DB (2011) Oxygen microscopy and high-throughput analysis of icO (2) by means of cell-penetrating phosphorescent dyes MOLECULAR BIOLOGY OF THE CELL [Details]
(2007)FEBS JOURNAL
Antipova, NV and Dmitriev, RI and Shakhparonov, MI and Kopancev, EP and Zavalova, LL and Sverdlov, ED (2007) Regulation of human immunoglobulin J-peptide expression in non-small cell lung cancer (NSCLC) FEBS JOURNAL , pp.158-158 [Details]

Reviews

 YearPublication
(2018)Hydrogel-assisted neuroregeneration approaches towards brain injury therapy: A state-of-the-art review.
Kornev, VA;Grebenik, EA;Solovieva, AB;Dmitriev, RI;Timashev, PS (2018) Hydrogel-assisted neuroregeneration approaches towards brain injury therapy: A state-of-the-art review. AMSTERDAM: Reviews [DOI] [Details]
(2018)Imaging of oxygen and hypoxia in cell and tissue samples.
Papkovsky, DB;Dmitriev, RI (2018) Imaging of oxygen and hypoxia in cell and tissue samples. BASEL: Reviews [DOI] [Details]

Abstract

 YearPublication
(2017)Live cell FLIM-PLIM microscopy reveals proliferative and metabolic heterogeneity of intestinal organoids.
Dmitriev, RI;Foley, T;Papkovsky, DB;Okkelman, IA (2017) Live cell FLIM-PLIM microscopy reveals proliferative and metabolic heterogeneity of intestinal organoids. BETHESDA: Abstract [Details]
(2012)Assessment of intracellular O-2 gradient on a microplate reader.
Dmitriev, RI,Zhdanov, AV,Jasionek, G,Papkovsky, DB (2012) Assessment of intracellular O-2 gradient on a microplate reader. Abstract [Details]
(2012)Histone H4 acetylation at K16 residue and mitochondrial activity in neuronal cells.
Dmitriev, RI,Zhdanov, AV,Papkovsky, DB (2012) Histone H4 acetylation at K16 residue and mitochondrial activity in neuronal cells. Abstract [Details]
(2011)Oxygen microscopy and high-throughput analysis of icO(2) by means of cell-penetrating phosphorescent dyes.
Dmitriev, RI,Fercher, A,Zhdanov, AV,Papkovsky, DB (2011) Oxygen microscopy and high-throughput analysis of icO(2) by means of cell-penetrating phosphorescent dyes. Abstract [Details]
(2011)Rational design and experimental assessment of the new family of intracellular O-2-sensitive probes.
Dmitriev, RI,Yashunsky, DV,Ropiak, HM,Zhdanov, AV,Ponomarev, GV,Papkovsky, DB (2011) Rational design and experimental assessment of the new family of intracellular O-2-sensitive probes. Abstract [Details]
(2011)Uncoupling effect of bafilomycin A1 on HIF and cell bioenergetics.
Dmitriev, RI,Zhdanov, AV,Papkovsky, DB (2011) Uncoupling effect of bafilomycin A1 on HIF and cell bioenergetics. Abstract [Details]
(2010)Analysis of cellular function by use of cell-penetrating oxygen sensing probes.
Ropiak, HM,Dmitriev, RI,Yashunski, DV,Ponomarev, GV,Zhdanov, AV,Papkovsky, DB (2010) Analysis of cellular function by use of cell-penetrating oxygen sensing probes. Abstract [DOI] [Details]

Professional Activities

Honours and Awards

 YearTitleAwarding Body
2020Biophysical Society Travel Award Biophysical Society
2019ASCB-EMBO Annual Meeting Travel Award European Molecular Biology Organisation (EMBO) and ASCB
2017ASCB-EMBO Annual Meeting Travel Award European Molecular Biology Organisation (EMBO) and ASCB
2015ASBMB Postdoctoral Member Travel Award American society for biochemistry and molecular biology
2015Outstanding reviewer Elsevier/ Sensors and Actuators B Journal
2014ASBMB Postdoctoral travel award ASBMB
2012ASBMB postdoctoral travel award for Experimental Biology symposia ASBMB
2011ASBMB postdoctoral travel award ASBMB
2011ASCB postdoctoral travel award for ASCB 2011 Annual Meeting (Denver CO, USA) ASCB
20072nd prize for oral presentation “Conference for young scientists, Ph.D. students and students on molecular biology and genetics” (Institute of Molecular Biology & Genetics, Kiev, Ukraine)
2007ASBMB graduate student and postdoctoral travel award for Experimental Biology symposia ASBMB
20062nd prize for oral presentation “The 1st International Young Scientists Conference: Biology - from molecule to biosphere” (Kharkiv National University, Ukraine)
2005Travel award for 59th annual meeting of the Society of General Physiologists (‘Na,K-ATPase & Related Cation Pumps: Structures, Mechanisms, & Diseases (September 6-11, Woods Hole, MA, USA) Society of General Physiologists (SGP)
2004Award for the best M.Sc. thesis in “Open competition of students’ research projects” Moscow State Academy of Fine Chemical Technology
2004Special diploma with honors for “active and fruitful research work in successful combination with studies” Moscow State Academy of Fine Chemical Technology

Professional Associations

 AssociationFunctionFrom / To
Royal Society of Chemistry Reviewer/
International Society for Stem Cell Research ISSCR Member01-MAY-17 /
Biophysical Society Member01-JAN-16 /
American society for biochemistry and molecular biology (ASBMB) member/
American society for cell biology (ASCB) member/

Conference Contributions

 YearPublication
(2014)Experimental Biology 2014,
Dmitriev RI, Borisov SM, Kondrashina AV, Pakan JMP, Papkovsky DB (2014) Real-time monitoring of oxygenation in cultured organotypic brain slices,. [Oral Presentation], Experimental Biology 2014, San Diego, USA , 26-APR-14. [Details]
(2013)8th Annual Neuroscience Ireland conference,
Dmitriev RI, Zhdanov AV, Nolan YM, Papkovsky DB (2013) An imaging method to analyse o2 distribution in live neurospheres. [Invited Lectures (Conference)], 8th Annual Neuroscience Ireland conference, University College Cork . [Details]
(2013)ASCB Annual Meeting,
Dmitriev RI, Kondrashina AV, Zhdanov AV, Papkovsky DB (2013) Phosphorescent O2 imaging probes for use in 3D tissue models. [Oral Presentation], ASCB Annual Meeting, New Orleans, USA , 14-DEC-13. [Details]
(2014)Imaging of oxygenation in 3D tissue models by means of cell-penetrating phosphorescent nanosensors,
Papkovsky DB, Dmitriev RI (2014) International Microscopy Congress. [Oral Presentation], Imaging of oxygenation in 3D tissue models by means of cell-penetrating phosphorescent nanosensors, Prague, Czech Republic , 07-SEP-14 - 10-SEP-14. [Details]
(2014)Experimental Biology 2014,
Kondrashina AV, Ogirtsov VI, Dmitriev RI, Papkovsky DB (2014) Comparison of the different techniques of monitoring mammalian cell respiration. [Poster Presentation], Experimental Biology 2014, San Diego, USA , 26-APR-14. [Details]

Committees

 CommitteeFunctionFrom / To
Microscopy Society of Ireland annual meeting 2012 /

Outreach Activities

 Description

https://www.biotechniques.com/microscopy-imaging/ruslan-dmitriev-on-flim-and-intestinal-organoids/

https://photobiolabcork.blogspot.com

Teaching Activities

Teaching Interests

I have strong interest in mentoring, supervision and teaching:

Co-supervised 5 Ph.D. students: A.V. Kondrashina (2011-2015), J. Jenkins (2013-16, official), R. McQuaid (2014-2017, jointly with University College Dublin), Neil O’Donnell (2014 -2019, official) at Biochemistry Department, UCC, Michael Vaughan (Supervisor M. Rae, 2018-…, official advisor) at Physiology Department, UCC.
Co-supervised 4 M.Sc. students: A.V. Gerasimova (2005), A.A. Bessonov (2006), A.V. Vassilevskaya (2007) at Moscow State Academy of Fine Chemical Technology. H.M. Ropiak, (2011) at Biochemistry Department, UCC.
Co-supervised 22 undergraduate (B.Sc.) students: A. Gerasimova (2003), A. Bessonov (2004), A. Zviagina (2005), A. Vassilevskaya (2005), R. Abdulin (2007) at Moscow State Academy of Fine Chemical Technology. L. Crowe (2010), N. Spriggs (2011), C. Barrett (2011), S. Stapleton (2011), A. Murphy (2011), D. Walsh (2012), L. Dunne (2013), C. O'Shea (2013), A. O'Neill (2014), C. Coughlan (2014), R. Bagnall (2014) J.P. Hegarty (2016), U. Nimitz (2017), S. Ruane (2017), C. Cusack (2018), S. O’Carroll (2018), J. Downey (2019) at Biochemistry, UCC.

Teaching activities at UCC:
2020-present – Part-time lecturer (University College Cork, BC4017; Biosensors & Tissue engineering) 2020 – Invited lecturer (Sechenov First Medical University, Institute for Regenerative Medicine, lectures on biomedical applications of FLIM and PLIM for postgraduate students)
2019 – Invited Lecturer (University of Tubingen, Germany, hosted by Prof. K. Schenke- Layland). ‘Biomedical applications of FLIM and PLIM microscopies’ (Lecture as part of the undergraduate course for medical engineering students).
2014-2015 – Teaching and Learning for Postdoctoral Researchers course (UCC, Certificate)
2012-2017 – Instructor of postgraduate teaching module at UCC, BC6001 ‘Molecular and Cell Biology’ (delivering lectures, preparing and assessing exams, coordinating the Course content) 

Recent Postgraduates

 Graduation YearStudent NameInstitutionDegree TypeThesis Title
2019Neil O'Donnell University College CorkPh.D.
2017James Jenkins University College CorkPh.D. (NUI)

Research Information

Internal Collaborators

 NameInstituteCountry
Prof. Dmitri B. Papkovsky University College CorkIRELAND

External Collaborators

 NameOrganisation / InstituteCountry
Prof. Ingo Klimant Graz University of TechnologyAUSTRIA
Peter Timashev Sechenov First Medical University / Institute for Regenerative MedicineRUSSIA
Michael Monaghan Trinity College DublinIRELAND
Dr. Sergey M. Borisov Graz University of TechnologyAUSTRIA

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School of Biochemistry and Cell Biology

Scoil na Bithcheimice agus na Cillbhitheolaíochta

University College Cork, Western Road, Cork.

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