For citations and H index:

BioRxiv Preprints:

1. Accepted to PNAS March 2020! Discovery of small alarmone synthetases and their inhibitors as toxin-antitoxin loci
Steffi Jimmy, Chayan Kumar Saha, Constantine Stavropoulos, Abel Garcia-Pino, Vasili Hauryliuk, Gemma C. Atkinson

2. Predicting Functional Associations using Flanking Genes (FlaGs)
Chayan Kumar Saha, Rodrigo Sanchez Pires, Harald Brolin,  Gemma C. Atkinson

References and Pubmed links:


  1. The C-terminal RRM/ACT domain is crucial for fine-tuning the activation of ‘long’RelA-SpoT Homolog enzymes by ribosomal complexes

    Hiraku Takada, Mohammad Roghanian, Victoriia Murina, Ievgen Dzhygyr, Rikinori Murayama, Genki Akanuma, Atkinson GC, Abel Garcia-Pino, Vasili Hauryliuk

    Frontiers in Microbiology 11

  2. A role for the Saccharomyces cerevisiae ABCF protein New1 during translation termination

    Villu Kasari, Agnieszka A. Pochopien, Tõnu Margus, Victoriia Murina, Yang Zhou, Tracy Nissan, Michael Graf, Jiří Nováček, Atkinson GC, Marcus J.O. Johansson, Daniel N. Wilson, Vasili Hauryliuk

    Nucleic Acids Res, 47 (16), 8807-8820 2019

  3. ABCF ATPases Involved in Protein Synthesis, Ribosome Assembly and Antibiotic Resistance: Structural and Functional Diversification across the Tree of Life.

    Murina V, Kasari M, Takada H, Hinnu M, Saha CK, Grimshaw JW, Seki T, Reith M, Putrinš M, Tenson T, Strahl H, Hauryliuk V, Atkinson GC.

    J Mol Biol. 2018  doi: 10.1016/j.jmb.2018.12.013

  4. Ribosome profiling analysis of eEF3-depleted Saccharomyces cerevisiae.

    Kasari V, Margus T, Atkinson GC, Johansson MJO, Hauryliuk V.

    Sci Rep. 2019 Feb 28;9(1):3037. doi: 10.1038/s41598-019-39403-y.

  5. Structural basis for antibiotic resistance mediated by the Bacillus subtilis ABCF ATPase VmlR

    Crowe-McAuliffe C, Graf M, Huter P, Takada H, Abdelshahid M, Nováček J, Murina V, Atkinson GC, Hauryliuk V, Wilson DN.

    Proceedings of the National Academy of Sciences USA.

  6. Antibiotic resistance ABCF proteins reset the peptidyl transferase centre of the ribosome to counter translational arrest

    Murina, V, Kasari, M, Hauryliuk V, Atkinson GC.

    Nucleic Acids Research. gky050,

  7. Small Alarmone Synthetases as novel bacterial RNA-binding proteins.

    Hauryliuk V, Atkinson GC.

    RNA Biol. 2017 Aug 18:1-5. doi: 10.1080/15476286.2017.1367889

  8. Negative allosteric regulation of Enterococcus faecalis small alarmone synthetase RelQ by single-stranded RNA.

    Beljantseva J, Kudrin P, Andresen L, Shingler V, Atkinson GC, Tenson T, Hauryliuk V.

    Proc Natl Acad Sci U S A. 2017 Mar 20. pii: 201617868. doi: 10.1073/pnas.1617868114.

  9. Aim-less translation: loss of Saccharomyces cerevisiae mitochondrial translation initiation factor mIF3/Aim23 leads to unbalanced protein synthesis.

    Kuzmenko A, Derbikova K, Salvatori R, Tankov S, Atkinson GC, Tenson T, Ott M, Kamenski P, Hauryliuk V.

    Sci Rep. 2016 Jan 5;6:18749. doi: 10.1038/srep18749.

  10. Recent functional insights into the role of (p)ppGpp in bacterial physiology.

    Hauryliuk V, Atkinson GC, Murakami KS, Tenson T, Gerdes K.

    Nat Rev Microbiol. 2015 May;13(5):298-309. doi: 10.1038/nrmicro3448. Review.

  11. The evolutionary and functional diversity of classical and lesser-known cytoplasmic and organellar translational GTPases across the tree of life.

    Atkinson GC.

    BMC Genomics. 2015 Feb 14;16:78. doi: 10.1186/s12864-015-1289-7.

  12. A conserved proline triplet in Val-tRNA synthetase and the origin of elongation factor P.

    Starosta AL, Lassak J, Peil L, Atkinson GC, Woolstenhulme CJ, Virumäe K, Buskirk A, Tenson T, Remme J, Jung K, Wilson DN.

    Cell Rep. 2014 Oct 23;9(2):476-83. doi: 10.1016/j.celrep.2014.09.008.

  13. Translational stalling at polyproline stretches is modulated by the sequence context upstream of the stall site.

    Starosta AL, Lassak J, Peil L, Atkinson GC, Virumäe K, Tenson T, Remme J, Jung K, Wilson DN.

    Nucleic Acids Res. 2014;42(16):10711-9. doi: 10.1093/nar/gku768.

  14. Macrolide antibiotics allosterically predispose the ribosome for translation arrest.

    Sothiselvam S, Liu B, Han W, Ramu H, Klepacki D, Atkinson GC, Brauer A, Remm M, Tenson T, Schulten K, Vázquez-Laslop N, Mankin AS.

    Proc Natl Acad Sci U S A. 2014 Jul 8;111(27):9804-9. doi: 10.1073/pnas.1403586111.

  15. An evolutionary ratchet leading to loss of elongation factors in eukaryotes.

    Atkinson GC, Kuzmenko A, Chicherin I, Soosaar A, Tenson T, Carr M, Kamenski P, Hauryliuk V.

    BMC Evol Biol. 2014 Feb 24;14(1):35. doi: 10.1186/1471-2148-14-35.

  16. Protein biosynthesis in mitochondria.

    Kuzmenko AV, Levitskii SA, Vinogradova EN, Atkinson GC, Hauryliuk V, Zenkin N, Kamenski PA.

    Biochemistry (Mosc). 2013 Aug;78(8):855-66. doi: 10.1134/S0006297913080014. Review.

  17. Distinct XPPX sequence motifs induce ribosome stalling, which is rescued by the translation elongation factor EF-P.

    Peil L, Starosta AL, Lassak J, Atkinson GC, Virumäe K, Spitzer M, Tenson T, Jung K, Remme J, Wilson DN.

    Proc Natl Acad Sci U S A. 2013 Sep 17;110(38):15265-70. doi: 10.1073/pnas.1310642110.

  18. Mitochondrial translation initiation machinery: conservation and diversification.

    Kuzmenko A, Atkinson GC, Levitskii S, Zenkin N, Tenson T, Hauryliuk V, Kamenski P.

    Biochimie. 2014 May;100:132-40. doi: 10.1016/j.biochi.2013.07.024. Review.

  19. Distinction between the Cfr methyltransferase conferring antibiotic resistance and the housekeeping RlmN methyltransferase.

    Atkinson GC, Hansen LH, Tenson T, Rasmussen A, Kirpekar F, Vester B.

    Antimicrob Agents Chemother. 2013 Aug;57(8):4019-26. doi: 10.1128/AAC.00448-13.

  20. Mechanism of tetracycline resistance by ribosomal protection protein Tet(O).

    Li W, Atkinson GC, Thakor NS, Allas U, Lu CC, Chan KY, Tenson T, Schulten K, Wilson KS, Hauryliuk V, Frank J.

    Nat Commun. 2013;4:1477. doi: 10.1038/ncomms2470.

  21. GTPases IF2 and EF-G bind GDP and the SRL RNA in a mutually exclusive manner.

    Mitkevich VA, Shyp V, Petrushanko IY, Soosaar A, Atkinson GC, Tenson T, Makarov AA, Hauryliuk V.

    Sci Rep. 2012;2:843. doi: 10.1038/srep00843.

  22. Lys34 of translation elongation factor EF-P is hydroxylated by YfcM.

    Peil L, Starosta AL, Virumäe K, Atkinson GC, Tenson T, Remme J, Wilson DN.

    Nat Chem Biol. 2012 Aug;8(8):695-7. doi: 10.1038/nchembio.1001.

  23. SeqFIRE: a web application for automated extraction of indel regions and conserved blocks from protein multiple sequence alignments.

    Ajawatanawong P, Atkinson GC, Watson-Haigh NS, Mackenzie B, Baldauf SL.

    Nucleic Acids Res. 2012 Jul;40(Web Server issue):W340-7. doi: 10.1093/nar/gks561.

  24. Evolutionary and genetic analyses of mitochondrial translation initiation factors identify the missing mitochondrial IF3 in S. cerevisiae.

    Atkinson GC, Kuzmenko A, Kamenski P, Vysokikh MY, Lakunina V, Tankov S, Smirnova E, Soosaar A, Tenson T, Hauryliuk V.

    Nucleic Acids Res. 2012 Jul;40(13):6122-34. doi: 10.1093/nar/gks272.

  25. The RelA/SpoT homolog (RSH) superfamily: distribution and functional evolution of ppGpp synthetases and hydrolases across the tree of life.

    Atkinson GC, Tenson T, Hauryliuk V.

    PLoS One. 2011;6(8):e23479. doi: 10.1371/journal.pone.0023479.

  26. An ancient family of SelB elongation factor-like proteins with a broad but disjunct distribution across archaea.

    Atkinson GC, Hauryliuk V, Tenson T.

    BMC Evol Biol. 2011 Jan 21;11:22. doi: 10.1186/1471-2148-11-22.

  27. Evolution of elongation factor G and the origins of mitochondrial and chloroplast forms.

    Atkinson GC, Baldauf SL.

    Mol Biol Evol. 2011 Mar;28(3):1281-92. doi: 10.1093/molbev/msq316.

  28. GTP-dependent structural rearrangement of the eRF1:eRF3 complex and eRF3 sequence motifs essential for PABP binding.

    Kononenko AV, Mitkevich VA, Atkinson GC, Tenson T, Dubovaya VI, Frolova LY, Makarov AA, Hauryliuk V.

    Nucleic Acids Res. 2010 Jan;38(2):548-58. doi: 10.1093/nar/gkp908.

  29. Evolution of nonstop, no-go and nonsense-mediated mRNA decay and their termination factor-derived components.

    Atkinson GC, Baldauf SL, Hauryliuk V.

    BMC Evol Biol. 2008 Oct 23;8:290. doi: 10.1186/1471-2148-8-290.