EDUCATION

Lomonosov Moscow State University                                                                                                  Moscow, Russia

Faculty of Biology, Department of Virology                                                      

• PhD in Virology (2010-2013):

PhD Thesis: “In planta expression and production of TMV chimeric virus particles surface decorated with Influenza A conservative antigens: immunogenic and protective properties of candidate vaccines”.

• BS/MS in Biochemistry, with Honours (2005-2010).

ITMO University,

Information Technologies and Programming Faculty

Department of Informatics and Applied Mathematics                                     Saint Petersburg, Russia

• Master’s Program “Bioinformatics and System Biology”             2018 - 2020

RESEARCH EXPERIENCE

Pavlov First Saint Petersburg State Medical University

Institute of Biomedicine, Bioinformatics Center                                               Saint Petersburg, Russia

Research Fellow                                                                                                   November 2018 - present

Research in following areas:

• Bioinformatics analysis of cancer patients (SNPs associated with diseases)
• Bioinformatics analysis of complex genome rearrangements (Chromothripsis project)
• Comparative genomics of genes and proteins and evaluation of mutations significance

“Materia Medica Holding”,

Research and Analytical Department                                                                           Moscow, Russia

Research Associate                                                                                        October 2017 - August 2018  

Quality control of full Drug Substance life cycle: planning, analysis and quality assurance of GMP manufacture (development, validation and quality control of Drug substance production in  compliance with EudraLex GMP, ICH, FDA and other regulatory requirements):

• production of affinity-purified antibodies as drug substance

The James Hutton Institute,

Division of Cell and Molecular Sciences                                                                                                   Dundee, UK

Plant Molecular Biologist                                                                            November 2014 – May 2017

Research in following areas:

• Plant response to abiotic stress and involvement of subnuclear bodies into this
• Plant-based biotechnology (collaboration with Moredun Research Institute on the nanobiotechnology project for production of plant-based vaccines against Sheep Scab Mite).
• Novel platform biotechnology for the production of natural next generation 3D nanomaterials and nanodevices (collaboration with CelluComp): production and characterisation of novel 3D nanodevices based on the complexes of nanocellulose and functionalised virus-like particles that can be used for different
• Virus derived surface display platforms for vaccines and diagnostics: production of new protein/peptide surface display platforms of broad utility for vaccines and diagnostic; identification and testing of formulations of novel antigenic proteins of applicability to the diagnosis and treatment/prevention of Psoroptes

Lomonosov Moscow State University                                                                                                  Moscow, Russia

Faculty of Biology, Department of Virology

Research Fellow                                                                      2011-2014

Development of new generation of universal vaccines against Influenza virus based on the TMV chimeric particles.

Junior Research Fellow                                                           2009-2011

SKILLS and TECHNIQUES

Experimental Molecular Biology:

• General gene engineering techniques such as DNA/RNA purification, PCR and RT-PCR, cDNA molecular cloning, synthesis and sequence analysis
• Recombinant protein expression
• Protein purification, electrophoresis and western blotting, refolding, ELISA
• Virus isolation and purification
• Production of synthetic nanoparticles for vaccine formulation
• Functionalization of nanoparticles with different active epitopes/proteins
• Transmission electron microscopy imaging methods (including immunogold and immunotrapping)
• Scanning electron microscopy

Bioinformatics skills:

• Ability to work in a command line environment (Linux)
• Programming in a scripting languages: Python, R
• Big data analysis and visualization in R
• Experience with NGS analysis techniques and high throughput data analysis

(especially variants detection, annotation, and complex genomic rearrangements analysis (SVs, chromothripsis))

• Experience in Hi-C data analysis and 3D-genome organization annotation
• Statistical analysis fundamentals, awareness of biostatistics and bioinformatic algorithms
• Phylogenetic analysis of genes and proteins
• Awareness of compositional data analysis in metagenomics
• Awareness of structural bioinformatics, protein 3D-modelling
• Broadening knowledge of genomic and protein databases

                                   PUBLICATIONS

• Zcvetkov NU, Morozova EV, Barkhatov IM, Moiseev IS, Barabanshikova MV, Tishkov AV, Bug DS, Petukhova NV, Izmailova EA, Bondarenko SN, Afanasiev BV. Prognostic significance of NGS results in patients with myelodysplastic syndrome. In press (2020).
• Love AJ, Yu C, Petukhova NV, Kalinina NO, Chen J, Taliansky ME. Cajal bodies and their role in plant stress and disease responses (review). RNA Biology 2016; 11: 1-12.
• Gasanova TV, Petukhova NV, Ivanov PA. Chimeric particles of Tobacco mosaic virus as a platform for the development of next-generation nanovaccines. Nanotechnologies in Russia 2016; 11(3-4): 227-236.
• Petukhova NV, Gasanova TV, Ivanov PA, Atabekov JG. World Biomedical Frontiers, section Infection and Immunity 2015, ISSN: 2328-0166. Supplementary materials to Viruses 6(4): 1789- 1800.
• Petukhova NV, Gasanova TV, Ivanov PA, Atabekov JG. High-level systemic expression of conserved influenza epitope in plants on the surface of rod-shaped chimeric particles. Viruses 2014; 6(4): 1789-1800.
• Petukhova NV, Gasanova TV, Stepanova LA, Rusova OA, Potapchuk MV, Korotkov AV, Skurat EV, Tsybalova LM, Kiselev OI, Ivanov PA, Atabekov JG. Immunogenicity and protective efficacy of candidate universal Influenza A nanovaccines produced in plants by Tobacco mosaic virus- based vectors. Current Pharmaceutical Design 2013; 19(31): 5587-5600.
• Petukhova NV, Ivanov PA, Migunov Virus-like particles - a new strategy for production of vaccines against influenza virus (review). Voprosy Virusologii 2013; 58(2): 10-14.

ABSTRACTS

• Petukhova N, Gasanova T, Ivanov P. Tobacco mosaic virus-based vectors displaying conserved Influenza antigens: host range, tissue localization and peculiarities of joint infections. FEBS Journal 2015; Supplement 1, 282: 165-166.
• Kurchashova S, Gasanova T, Petukhova N, Ivanov P. Electron microscope investigation of native recombinant viruses in plant mesophyll and optimization of immunogold labeling of purified chimeric particles. Advanced Microscopy Meeting "Super-resolution in different dimensions",
• Petukhova N, Gasanova T, Erokhina T, Ivanov P. Recombinant TMV-based virus carrying hydrophobic hemagglutinin Influenza fusion peptide moves via plant vascular system and forms stable particles. Recombinant TMV-based virus carrying hydrophobic hemagglutinin Influenza fusion peptide moves via plant vascular system and forms stable particles. FEBS Journal 2014 Supplement 1, 281:
• Petukhova NV, Gasanova TV, Ivanov PA. Amino acid substitutions in plant-produced conservative Influenza antigen significantly increase animal immune response and protective efficacy of candidate nanovaccines. FEBS Journal 2013; 280, Supplement 1:471.
• Petukhova N, Gasanova T, Skurat E, Ivanov P, Atabekov J. Modifications of conservative Influenza antigen expressed on the surface of chimeric virions do not affect the immunogenic properties of epitopes but dramatically increase their production by plant viral vector. FEBS Journal 2011; 278, Supplement 1:161.

PATENTS

WO2016156878A1

• Talianski M, Love A, Wale E, Hepworth D, Petukhova N, Shaw J. WO2016156878A1. Nanocomposite material (2016).
• Gasanova T, Ivanov P, Petukhova N. WO2014074509. Production of an immunogen using a plant virus (2014).

CONFERENCES and PRESENTATIONS

• Bug DS, Petukhova NV, Gindina TL, Tishkov AV. Research experience of chomothripsis in bioinformatics. IV international conference “NGS in medical genetics”, Suzdal, April 24-26, 2019.
• Gasanova TV, Petukhova NV, Ivanov PA. Hydrophobic peptide on the surface of chimeric particles of viral vector causes systemic necrotic response in Nicotiana benthamiana. IV Russian Symposium with International Contributions "Phytoimmunity and cell signaling in plants", September 2016: 34-35.
• Taliansky M, Shaw J, Yu C, Love AJ, Makarova SS, Petukhova NV, Kalinina NO, MacFarlane S, Chen J. Nucleolar interaction between coilin and poly(ADP-ribose) polymerase mediates anti- virus defence. The second international SFB796 conference “Mechanisms of Microbial Host Cell Manipulation – from Plants to Humans”. Erlangen, Germany, October
• Ivanov P, Gasanova T, Petukhova N. Towards plant-derived universal Influenza vaccines: conserved antigens and rigid helical carriers. 6th Plant-Based Vaccines, Antibodies & Biologics, Lausanne, Switzerland, June
• Petukhova N, Burgess S, Nisbet A, Karpova O, Atabekov J, Taliansky M, Love A. Surface display of immunogenic P. ovis peptides on TMV- derived spherical particles. Association of Applied Biologists, Advances in Plant Virology, Birmingham, UK, March 31 – April 2
• Ivanov PA, Gasanova TV, Petukhova NV. Candidate plant-derived universal Influenza A nanovaccines confer protection against lethal homologous and heterologous virus challenge. 5th European Congress of Virology, Lyon, France, September 2013, Virologie 17,
• Gasanova TV, Petukhova NV, Ivanov P.A. Recombinant TMV-based viruses carrying mutations in conservative Influenza antigen on the surface of chimeric particles provide appropriate model system for studying systemic spread and apical merystem invasion. EMBO Workshop "Green viruses, from gene to landscape", Hyeres-les-Palmiers, France, September 2013,
• Stepanova L, Potapchuk M, Kupriyanov V, Kotlyarov R, Petukhova N, Ivanov P, Rusova O, Repko I, Korotkov A, Tsybalova L. Candidate M2e-based vaccines against human and avian influenza viruses, produced in plant: immune response and protection. The 4th ESWI Influenza Conference, Malta, September 11-14, section SPA2 "Vaccines: Current and novel approaches: 203.

GRANTS and AWARDS

• Bursary winner at 36th FEBS Congress “Biochemistry for Tomorrow’s Medicine”, Torino, Italy, June 25-30, 2011.
• Awarded with FEBS short-term fellowship to collaborate with the Moredun Research Institute on a common project “The surface display of Psoroptes ovis mite antigen immunogenic epitopes on novel Tobacco mosaic virus derived spherical nanoparticles as a candidate vaccine” (April – May, 2014).
• Specially selected to participate in the 14th Young Scientist Forum, Paris, France, August 27-30, 2014.
• Winner of Portfolio competition for ITMO master’s program “Bioinformatics and System Biology” (2018).

PROFESSIONAL QUALIFICATIONS

• Introduction to Bioinformatics:

Certification URL: https://www.coursera.org/account/accomplishments/verify/JPBLPEHSXQC2

• Stanford Machine Learning:

Certification URL: https://www.coursera.org/account/accomplishments/certificate/2B5GMMZ8J3VE

• Neural Networks and Deep Learning

Certification URL: https://www.coursera.org/account/accomplishments/certificate/YTBY7MYYEQ28

Научные интересы: онкогеномика.