Gene Expression Regulation in Development

Group leader

Yulii Shidlovskii
Ph.D., Dr.Sc.
Professor of the Russian Academy of Sciences
Group Leader
Lab. of gene expression regulation in development

Research interests:

Gene, Transcription, chromatin, mRNA, gene expression

Information

Our research focuses on the molecular mechanisms that regulate gene expression. Gene expression is a fundamental process that underlies the functioning of an organism. The process proceeds through a series of consecutive steps at the molecular level: chromatin template preparation, DNA transcription, mRNA maturation and the formation of ribonucleoprotein particles, their intracellular transport, and translation on ribosomes. Each of the steps is controlled by a particular set of regulatory factors, or molecular machines, which are usually multisubunit protein complexes.

We study the mechanisms of gene expression regulation in the context of various processes at the organism level, such as embryogenesis, gametogenesis, immune response, neurogenesis and brain function.

History

Laboratory of Gene Expression Regulation in Development was founded in 2013 for the implementation of contract with Russian Ministry of Education and Science No. 14.B25.31.0022 from June 26, 2013 (with a grant issued to support the scientific research projects under the supervision of the world's leading scientists). The Scientific supervisor of laboratory is Prof. Paul Schedl, Princeton University.

Current projects of laboratory

  • higher order chromatin structures formation, mechanisms of long-range interaction of genome regulatory elements, and the function of insulators
  • molecular events on chromatin template upon genes activation, the mechanisms of enhancer-promoter communication
  • structure and functions of transcription protein complexes, chromatin-remodeling complexes
  • participation of transcription factors in cell signaling pathways that mediate the immune response
  • regulation of biogenesis and local mRNA translation, study of mechanisms of action of CPEB proteins in cell polarity formation
  • mechanisms of neurogenesis, long-term memory formation, gametogenesis
  • mRNA biogenesis and translation, functions of CPEB family proteins in neurogenesis and gametogenesis
  • modelling of cognitive disabilities (Coffin-Siris syndrome) on Drosophila
  • molecular genetic analysis and population genetics SNPs, which are significant in the development of cardiometabolic diseases in humans

Publications of laboratory and scientific advisor of lab (jointly with other groups of IGB RAS)

Collaboration

Laboratory conducts joint research with several Laboratories both in Russia and abroad.

  • Paul Schedl Laboratory, Princeton University
  • Thomas Gregor Laboratory, Princeton University, USA
  • John Yates Laboratory, The Scripps Research Institute, USA http://fields.scripps.edu/
  • Ennio Giordano Laboratory, Università degli Studi di Napoli "Federico II"
  • Filomena Anna Digilio, Institute of research on terrestrial ecosystems (IRET), CNR, Italy
  • FAME Laboratory, Centre for Research and Technology Thessaly, Greece
  • Laboratory of Immunopathology, Instytut Immunologii i Terapii Doświadczalnej im. Ludwika Hirszfelda Polskiej Akademii Nauk, Poland
  • Research Center for Genetics and Life Sciences, Sirius University, Sochi
  • Laboratory of intracellular signaling, Institute of molecular biology RAS, Moscow
  • Laboratory of biochemical genetics of animals, Institute of molecular genetics, Moscow
  • Laboratory of neurogenetics, Pavlov Institute of physiology RAS, St-Petersburg
  • Research and educational center Photonics and IR Techniques, Bauman Moscow State Technical University, Moscow
  • Department of biology and general genetics, Sechenov University, Moscow
  • The International Nucleome Consortium (INC) unites laboratories that study the structural and functional organization of chromatin in the cell nucleus. The tasks of the Сonsortium laboratories are to study the principles of the spatial organization of the genome and its dynamics by experimental methods, to model the dynamics of chromatin in the nucleus, to study the relationship between the structure of the genome and its functioning.

    The main goal of the consortium is to support joint research between groups from different countries. The main members of the consortium are European Union countries, however, the consortium has representatives in other countries (including Russia).

    The main tasks of the consortium:

    • development of new high-throughput experimental methods for studying the structure of chromatin, improvement and integration of existing techniques (C-methods, light and electron microscopy);
    • unification of methods, standards and data formats in these studies;
    • creation of a collection of software for processing data obtained by the above methods;
    • development of approaches to the big data analysis, modeling of the structure of chromatin;
    • development of methods for storing samples in biobanks for further analysis using these methods;
    • study of applied aspects of genome organization (in medicine, biotechnology);
    • development of intellectual property issues, establishment of cooperation with commercial companies.

    The consortium provides financial support for short-term visits (for young scientists predominately) for training and establishing new contacts between groups from different countries. In addition, the consortium can be used as a platform for EU-level grants for researchers from different countries, as well as for joint publications. The consortium provides access to expensive instruments from various laboratories.

    The consortium maintains a database of researchers in the field of studying the structure of the genome (an application for inclusion in the database can be left on the website). (https://inc-cost.eu/researchers-database/)

    The consortium hosts conferences and schools. Regular webinars (INC Academy) have been organized, there is access to the archive of past webinars.

    Consortium representatives in Russia:

    Yulii Shidlovskii, Institute of Gene Biology RAS, yul.biogen@gmail.com

    Veniamin Fishman, Institute of Cytology and Genetics SB RAS, minja@bionet.nsc.ru

Group members

Selected publications

Funding

Foundation Title
RSF Functioning of the CPEB proteins in oogenesis, spermatogenesis and neurogenesis: mRNA localization, on-site translation and autoregulation
RSF

Studying molecular mechanisms of long-range interactions in Drosophila genome

RFBR Novel approaches to study Intellectual Disability related to Coffin-Siris syndrome (CSS) in the model system Drosophila melanogaster