Complete List of Published Work in MyBibliography
Some of the key publications:
Komar AA, Kommer A, Krasheninnikov IA, Spirin AS. (1997) Cotranslational folding of globin. J Biol Chem. 272, 10646-10651
Komar AA, Lesnik T, Reiss C. (1999) Synonymous codon substitutions affect ribosome traffic and protein folding during in vitro translation. FEBS Lett. 462, 387-391.
Komar AA, Lesnik T, Cullin C, Merrick WC, Trachsel H, Altmann M. (2003) Internal initiation drives the synthesis of Ure2 protein lacking the prion domain and affects [URE3] propagation in yeast cells. EMBO J. 22, 1199-1209.
Komar AA, Gross SR, Barth-Baus D, Strachan R, Hensold JO, Goss Kinzy T, Merrick WC. (2005) Novel characteristics of the biological properties of the yeast Saccharomyces cerevisiae eukaryotic initiation factor 2A. J Biol Chem. 280, 15601-15611.
Komar AA. (2007) SNPs, silent but not invisible. Science, 315, 466-467.
Komar AA. (2009). A pause for thought along the co-translational folding pathway. Trends Biochem. Sci., 34, 16-24.
Holtkamp W, Kokic G, Jäger M, Mittelstaet J, Komar AA, Rodnina MV. (2015) Cotranslational protein folding on the ribosome monitored in real time. Science, 350, 1104-1107.
Buhr F, Jha S, Thommen M, Mittelstaet J, Kutz F, Schwalbe H, Rodnina MV, Komar AA. (2016) Synonymous codons direct cotranslational folding toward different protein conformations. Mol. Cell., 61, 341-351.
Komar AA. (2016) The yin and yang of codon usage. Hum Mol Genet., 25(R2), R77-R85.
Anderson R, Agarwal A, Ghosh A, Guan B-J, Casteel, J., Dvorina N, Baldwin WM, 3rd, Merrick WC, Mazumder B, Buchner D, Hatzoglou M, Kondratov RV, Komar AA. (2021) Reduced life span and metabolic syndrome phenotype in eIF2A-knockout mouse model. FASEB J, 35, e21990.
Other recent representative publications in reverse chronological order:
Mazumder B, Komar AA, Cis regulatory elements: A novel communication route between the host cell and the SARS-CoV-2 genome, in Thematic Approaches to COVID-19: Structure, transmission and avoidance, 2023, Rajendram, R., Martin, C. R., Patel, V. B., Preedy, V. R. (Editors). Academic Press/Elsevier, Cambridge,MA, USA.
Fumagalli SE, Padhiar NH, Meyer D, Katneni U, Bar H, DiCuccio M, Komar AA, Kimchi-Sarfaty C. Analysis of 3.5 million SARS-CoV-2 sequences reveals unique mutational trends with consistent nucleotide and codon frequencies. Virol J. 2023 Feb 17;20(1):31. doi: 10.1186/s12985-023-01982-8.
Katneni U, Alexaki A, Hunt R, Katagiri N, Hettiarachchi G, Kames J, McGill JR, Holcomb DDF, Athey J, Lin B, Parunov LA, Kafri T, Lu Q, Peters RT, Ovanesov MV, Freedberg D, Bar H, Komar AA, Sauna ZE, Kimchi-Sarfaty C. Structural, functional, and immunogenicity implications of F9 gene recoding. Blood Adv. 2022 Apr 12:bloodadvances.2022007094. doi: 10.1182/bloodadvances. 2022007094.
Basu A, Penumutchu S, Nguyen K, Tolbert BS, Karn J, Komar AA, Mazumder B. A structurally conserved RNA element within SARS-CoV-2 ORF1a RNA and S mRNA regulates translation in response to viral S protein-induced signaling in human lung cells. J. Virol. 2022 Jan 26;96(2):e0167821. doi: 10.1128/JVI.01678-21. Epub 2021 Nov 10.
Komar AA. A code within a code: how codons fine-tune protein folding in the cell. Biochemistry, 2021, Aug;86(8):976-991. doi: 10.1134/S0006297921080083. PMID: 34488574.
Komar AA., Merrick WC. A retrospective on eIF2A – and not the alpha subunit of eIF2. Int J Mol Sci. 2020, Mar 17;21(6):2054. doi: 10.3390/ijms21062054. PMID: 32192132.
Komar AA. Synonymous Codon Usage – a Guide for Co-translational Protein Folding in the Cell. Mol. Biol., 2019 Nov-Dec;53(6):883-898. doi: 10.1134/S0026898419060090. PMID: 31876270.
Alexaki A, Hettiarachchi GK, Athey JC, Katneni UK, Simhadri V, Hamasaki-Katagiri N, Nanavaty P, Lin B, Takeda K, Freedberg D, Monroe D, McGill JR, Peters R, Kames JM, Holcomb DD, Hunt RC, Sauna ZE, Gelinas A, Janjic N, DiCuccio M, Bar H, Komar AA, Kimchi-Sarfaty C. Effects of codon optimization on coagulation factor IX translation and structure: Implications for protein and gene therapies. Sci Rep. 2019 Oct 29;9(1):15449. doi: 10.1038/s41598-019-51984-2. PMID: 31664102.
Singh N, Jindal S, Ghosh A, Komar AA. Communication between RACK1/Asc1 and uS3 (Rps3) is essential for RACK1/Asc1 function in yeast Saccharomyces cerevisiae. Gene 2019 Jul 20;706:69-76. doi: 10.1016/j.gene.2019.04.087. PMID: 31054365.
Alexaki A, Kames J, Holcomb DD, Athey J, Santana-Quintero LV, Lam PVN, Hamasaki-Katagiri N, Osipova E, Simonyan V, Bar H, Komar AA, Kimchi-Sarfaty C. Codon and Codon-Pair Usage Tables (CoCoPUTs): Facilitating Genetic Variation Analyses and Recombinant Gene Design. J Mol Biol. 2019 Jun 14;431(13):2434-2441. doi: 10.1016/j.jmb.2019.04.02. PMID: 31029701.
Jindal S, Ghosh A, Singh N, Komar AA. Role of uS9/yS16 C-terminal tail in translation initiation and elongation in yeast Saccharomyces cerevisiae. Nucleic Acids Res. 2019 Jan 25;47(2):806-823. doi: 10.1093/nar/gky1180. PMID: 30481328.
Zinoviev, A. Goyal, A., Jindal, S., LaCava, J, Komar, AA, Rodnina, MV, Hellen, CUT, Pestova, TV. Functions of unconventional mammalian translational GTPases GTPBP1 and GTPBP2. Genes Dev. 2018 Sep 1;32(17-18):1226-1241. doi: 10.1101/gad.314724.118. Epub 2018 Aug 14. PMID: 30108131.
Arndt, N., Ross-Kaschitza D, Kojukhov A, Komar AA. Altmann M. Properties of the ternary complex formed by yeast 1 eIF4E, p20 and mRNA. Sci Rep., 2018 Apr 30;8(1):6707. doi: 10.1038/s41598-018-25273-3. PMID: 29712996.
Komar AA. Unraveling co-translational protein folding: concepts and methods. Methods, 2017, S1046-2023(17)30273-6. doi: 10.1016/j.ymeth.2017.11.007. PMID: 29221924.
Basu A, Wells N, Tolbert BS, Komar AA, Mazumder B. Conserved structures formed by heterogeneous RNA sequences drive silencing of an inflammation responsive post transcriptional operon. Nucleic Acids Res. 2017, 45(22):12987-13003. doi: 10.1093/nar/gkx979. PMID: 29069516.
Guan B-J, van Hoef V, Jobava R, Elroy-Stein O, Valasek LS, Cargnello M, Gao X-H, Krokowski D, Merrick WC, Kimball SR, Komar AA, Koromilas AE, Wynshaw-Boris A, Topisirovic I, Larsson O, Hatzoglou M. A Unique ISR Program Determines Cellular Responses to Chronic Stress. Mol Cell, 2017, 68(5):885-900.e6. doi: 10.1016/j.molcel.2017.11.007. PMID: 29220654
Simhadri VL, Katagiri NH, Lin BC, Hunt R, Jha S, Tseng SC, Wu A, Bentley AA, Zichel R, Lu Q, Zhu L, Freedberg DI, Monroe DM, Sauna ZE, Peters R, Komar AA, Kimchi-Sarfaty C. Single synonymous mutation in Factor IX alters protein properties and underlies hemophilia B. J Med Genet, 2017 Dec 22. pii: jmedgenet-2016-104072. doi: 10.1136/jmedgenet-2016-104072. PMID: 28007939.
Golovko A, Kojukhov A., Guan B-J, Morpurgo B, Merrick WC, Mazumder B, Hatzoglou M, Komar AA. The eIF2A knockout mouse. Cell Cycle, 2016 Nov 16;15(22):3115-3120. PMID: 27686860.
Komar AA. The art of gene redesign and recombinant protein production: approaches and perspectives. Top. Med. Chem., 2016, 2, 1-17.
Ghosh A, Jindal S, Bentley AA, Hinnebusch AG, Komar AA. Rps5-Rps16 communication is essential for efficient translation initiation in yeast S. cerevisiae. Nucleic Acids Res. 2014 Jul;42(13):8537-55. doi: 10.1093/nar/gku550. Epub 2014 Jun 19. PubMed PMID: 24948608; PubMed Central PMCID: PMC4117775.