Laboratory of Protein Synthesis Regulation (head Ivan N. Shatsky) is concerned with mechanisms of translation in eukaryotes and translational control. The officially registered subject of investigations : “Studies of structure of mRNAs and their complexes with ribosomes”. Until 1989, the group was concerned with the structure of bacterial ribosomes. From 1989, it started working in the area of translation initiation and its regulation in eukaryotes. Among its principal achievements are:
Finally, the lab has recently initiated search of specific mRNAs that use non-canonical translation mechanisms under stress conditions using deep sequencing including the ribosome profiling suggested by Ingolia and co-workers (Science 2009).
The laboratory collaborates with colleagues from USA, Germany, Denmark, Spain, UK, Ireland, as well with a number of Russian laboratories from Moscow, Puschino and Novosibirsk. It has especially close collaborations with laboratories of academicians A.S. Spirin and L.P. Ovchinnikov (Institute of Protein Research of RAS, Puschino, Moscow Region), the lab of Dr. G.G. Karpova (Institute of Fundamental Medicine, Novosibirsk) and Dr. M. Niepmann from Institute of Biochemistry, Giessen University, Germany.
Yordanova M.M., Wu C., Andreev D.E., Sachs M.S., Atkins J.F. (2015) A Nascent Peptide Signal Responsive to Endogenous Levels of Polyamines Acts to Stimulate Regulatory Frameshifting on Antizyme mRNA. J. Biol. Chem., 290 (29): 17863-17878. >>
Andreev D.E., O'Connor P.B.F, Zhdanov A.V., Dmitriev R.I., Shatsky I.N., Papkovsky D.B., Baranov P.V. (2015) Oxygen and glucose deprivation induces widespread alterations in mRNA translation within 20 minutes. Genome Biol., 16: . >>
Andreev D.E., O'Connor P.B.F, Fahey C., Kenny E.M., Terenin I.M., Dmitriev S.E., Cormican P., Morris D.W., Shatsky I.N., Baranov P.V. (2015) Translation of 5' leaders is pervasive in genes resistant to eIF2 repression. eLife, 4: . >>
Michel A.M., Andreev D.E., Baranov P.V. (2014) Computational approach for calculating the probability of eukaryotic translation initiation from ribo-seq data that takes into account leaky scanning. BMC Bioinformatics, 15: . >>
Shatsky I.N., Dmitriev S.E., Andreev D.E., Terenin I.M. (2014) Transcriptome-wide studies uncover the diversity of modes of mRNA recruitment to eukaryotic ribosomes. Crit. Rev. Biochem. Mol. Biol., 49 (2): 164-177. >>
Terenin I.M., Andreev D.E., Dmitriev S.E., Shatsky I.N. (2013) A novel mechanism of eukaryotic translation initiation that is neither m(7)G-cap-, nor IRES-dependent. Nucleic Acids Res., 41 (3): 1807-1816. >>
Andreev D.E., Dmitriev S.E., Terenin I.M., Shatsky I.N. (2013) Cap-independent translation initiation of Apaf-1 mRNA based on a scanning mechanism is determined by some features of the secondary structure of its 5 ' untranslated region. Biochem.-Moscow, 78 (2): 157-165. >>
Gushchin V.A., Andreev D.E., Taliansky M.E., MacFarlane S.E., Solovyev A.G., Morozov S.Y. (2013) Single amino acid substitution in the tobacco mosaic virus ORF6 protein suppresses formation of complex with eEF1A and cooperative nucleic acids binding in vitro. Dokl. Biochem. Biophys., 448 (1): 1-4. >>
Gushchin V.A., Lukhovitskaya N.I., Andreev D.E., Wright K.M., Taliansky M.E., Solovyev A.G., Morozov S.Y., MacFarlane S.A. (2013) Dynamic localization of two tobamovirus ORF6 proteins involves distinct organellar compartments. J. Gen. Virol., 94: 230-240. >>
Malygin A.A., Shatsky I.N., Karpova G.G. (2013) Proteins of the human 40S ribosomal subunit involved in hepatitis C IRES Binding as revealed from fluorescent labeling. Biochem.-Moscow, 78 (1): 53-59. >>
Shagam L.I., Terenin I.M., Andreev D.E., Dunaevsky J.E., Dmitriev S.E. (2012) In vitro activity of human translation initiation factor eIF4B is not affected by phosphomimetic amino acid substitutions S422D and S422E. Biochimie, 94 (12): 2484-2490. >>
Andreev D.E., Dmitriev S.E., Zinovkin R., Terenin I.M., Shatsky I.N. (2012) The 5 ' untranslated region of Apaf-1 mRNA directs translation under apoptosis conditions via a 5 ' end-dependent scanning mechanism. FEBS Lett., 586 (23): 4139-4143. >>
Andreev D.E., Hirnet J., Terenin I.M., Dmitriev S.E., Niepmann M., Shatsky I.N. (2012) Glycyl-tRNA synthetase specifically binds to the poliovirus IRES to activate translation initiation. Nucleic Acids Res., 40 (12): 5602-5614. >>
Dmitriev S.E., Stolboushkina E.A., Terenin I.M., Andreev D.E., Garber M.B., Shatsky I.N. (2011) Archaeal Translation Initiation Factor aIF2 Can Substitute for Eukaryotic eIF2 in Ribosomal Scanning during Mammalian 48S Complex Formation. Journal of Molecular Biology, 413 (1): 106-114.
Vassilenko K.S., Alekhina O.M., Dmitriev S.E., Shatsky I.N., Spirin A.S. (2011) Unidirectional constant rate motion of the ribosomal scanning particle during eukaryotic translation initiation. Nucleic Acids Research, 39 (13): 5555-5567.
Shatsky I.N., Dmitriev S.E., Terenin I.M., Andreev D.E. (2010) Cap- and IRES-Independent Scanning Mechanism of Translation Initiation as an Alternative to the Concept of Cellular IRESs. Molecules and Cells, 30 (4): 285-293.
Dmitriev S.E., Terenin I.M., Andreev D.E., Ivanov P.A., Dunaevsky J.E., Merrick W.C., Shatsky I.N. (2010) GTP-independent tRNA Delivery to the Ribosomal P-site by a Novel Eukaryotic Translation Factor. Journal of Biological Chemistry, 285 (35): 26779-26787.
Bung C., Bochkaeva Z., Terenin I., Zinovkin R., Shatsky I.N., Niepmann M. (2010) Influence of the hepatitis C virus 3 '-untranslated region on IRES-dependent and cap-dependent translation initiation. FEBS Letters, 584 (4): 837-842.
Malygin A.A., Bochkaeva Z.V., Bondarenko E.I., Kossinova O.A., Loktev V.B., Shatsky I.N., Karpova G.G. (2009) Binding of the IRES of hepatitis C virus RNA to the 40S ribosomal subunit: Role of p40. Molecular Biology, 43 (6): 997-1003.
Andreev D.E., Dmitriev S.E., Terenin I.M., Prassolov V.S., Merrick W.C., Shatsky I.N. (2009) Differential contribution of the m(7)G-cap to the 5' end-dependent translation initiation of mammalian mRNAs. Nucleic Acids Research, 37 (18): 6135-6147.
Dmitriev S.E., Andreev D.E., Adyanova Z.V., Terenin I.M., Shatsky I.N. (2009) Efficient cap-dependent translation of mammalian mRNAs with long and highly structured 5'-untranslated regions in vitro and in vivo. Molecular Biology, 43 (1): 108-113.
Babaylova E.S., Graifer D.M., Malygin A.A., Shatsky I.N., Shtahl I., Karpova G. (2009) Molecular environment of the IIId subdomain of the IRES element of hepatitits C virus RNA on the human 40S ribosomal subunit. Russian Journal of Bioorganic Chemistry, 35 (1): 94-102.
Terenin I.M., Dmitriev S.E., Andreev D.E., Shatsky I.N. (2008) Eukaryotic translation initiation machinery can operate in a bacterial-like mode without eIF2. Nature Structural and Molecular Biology, 15 (8): 836-841.
Andreev D.E., Fernandez-miragall O., Ramajo J., Dmitriev S.E., Terenin I.M., Martinez-salas E., Shatsky I.N. (2007) Differential factor requirement to assemble translation initiation complexes at the alternative start codons of foot- and-mouth disease virus RNA. RNA-Publ. RNA Soc., 13 (8): 1366-1374.
Dmitriev S.E., Andreev D.E., Terenin I.M., Olovnikov I.A., Prassolov V.S., Merrick W.C., Shatsky I.N. (2007) Efficient translation initiation directed by the 900-nucleotide-long and GC-rich 5 ' untranslated region of the human retrotransposon LINE-1 mRNA is strictly cap dependent rather than internal ribosome entry site mediated. Molecular and Cellular Biology, 27 (13): 4685-4697.
Olovnikov I.A., Adyanova Z.V., Galimov E.R., Andreev D.E., Terenin I.M., Ivanov D.S., Prassolov V.S., Dmitriev S.E. (2007) Key role of the internal 5'-UTR segment in the transcription activity of the human L1 retrotransposon. Molecular Biology, 41 (3): 453-458.
Andreev D.E., Terenin I.M., Dmitriev S.E., Shatsky I.N. (2006) Similar features in mechanisms of translation initiation of mRNAS in eukaryotic and prokaryotic systems. Molecular Biology, 40 (4): 694-702.
Laletina E.S., Graifer D.M., Malygin A.A., Shatsky I.N., Karpova G.G. (2006) Molecular environment of the subdomain IIIe loop of the RNA IRES element of hepatitis C virus on the human 40S ribosomal subunit. Russian Journal of Bioorganic Chemistry, 32 (3): 280-287.
Andreev D.E., Terenin I.M., Dunaevsky Y.E., Dmitriev S.E., Shatsky I.N. (2006) A leaderless mRNA can bind to mammalian 80S ribosomes and direct polypeptide synthesis in the absence of translation initiation factors. Molecular and Cellular Biology, 26 (8): 3164-3169.
Dmitriev S.E., Bykova N.V., Andreev D.E., Terenin I.M. (2006) Adequate system for investigation of the human retrotransposon L1 mRNA translation initiation in vitro. Molecular Biology, 40 (1): 25-30.