2025 -
Murayama, H., N. Yakobov, N. Mahmoudi, S. Legrosdidier, N. Fournier, S. Zuttion, K. Matsumoto, M. Nishimura, J. Ji, B. Senger, L. Huck, H. B. Gamper, Y. Kise, R. E. Kleiner, M. Frechin, Y. M. Hou, H. D. Becker, Y. Itoh, F. Fischer and O. Nureki (2026). Structure of ergosteryl-aspartate synthase reveals how an entrapped tRNA is used like a prosthetic swinging arm in the synthesis of aminoacylated sterols. Nat Commun. doi.org/10.1038/s41467-026-73135-8 Takeda, H., S. Shinoda, C. Goto, A. Tsutsumi, H. Sakaue, C. Zhang, T. Hirashima, Y. Konishi, H. Ono, Y. Yamamori, K. Tomii, H. Shiino, Y. Tamura, S. Zuttion, B. Senger, S. Friant, H. D. Becker, Y. Araiso, N. Kobayashi, N. Kodera, M. Kikkawa and T. Endo (2025). Oligomer-based functions of mitochondrial porin. Nat Commun. doi.org/10.1038/s41467-025-62021-4
2021 - 2024
Zuttion, S., B. Senger, C. Panja, S. Friant, R. Kucharczyk and H. D. Becker (2024). Monitoring mitochondrial localization of dual localized proteins using a Bi-Genomic Mitochondrial-Split-GFP. Methods Enzymol. doi.org/10.1016/bs.mie.2024.07.028 Bykov, Y. S., S. Zuttion, B. Senger, O. Klein, Y. Asraf, H. Meyer, H. D. Becker, R. Kucharczyk and M. Schuldiner (2024). A systematic bi-genomic split-GFP assay illuminates the mitochondrial matrix proteome and protein targeting routes, eLife Sciences Publications, Ltd. doi.org/10.7554/eLife.98889 Grob, G., Hemmerle, M., Yakobov, N., Mahmoudi, N., Fischer, F., Senger, B., and Becker, H.D. (2022). tRNA-dependent addition of amino acids to cell wall and membrane components. Biochimie. https://doi.org/10.1016/j.biochi.2022.09.017 Yakobov, N., Mahmoudi, N., Grob, G., Yokokawa, D., Saga, Y., Kushiro, T., Worrell, D., Roy, H., Schaller, H., Senger, B., et al. (2022). RNA-dependent synthesis of ergosteryl-3β-O-glycine in Ascomycota expands the diversity of steryl-amino acids . J Biol Chem 298, 101657. Verdura, E., Senger, B., Raspall-Chaure, M., Schlüter, A., Launay, N., Ruiz, M., Casasnovas, C., Rodriguez-Palmero, A., Macaya, A., Becker, H.D., et al. (2022). Loss of seryl-tRNA synthetase (SARS1) causes complex spastic paraplegia and cellular senescence . J Med Genet, jmedgenet-2022-108529. Hemmerle, M., Senger, B., Kucharczyk, R., and Becker, H.D. (2022). Visualizing Mitochondrial Importability of a Protein Using the Yeast Bi-Genomic Mitochondrial-Split-GFP Strain and an Ordinary Fluorescence Microscope . Methods Mol Biol 2497, 255-267. Yokokawa, D., Tatematsu, S., Takagi, R., Saga, Y., Roy, H., Fischer, F., Becker, H. D., & Kushiro, T. (2021). Synthesis of aminoacylated ergosterols: A new lipid component of fungi . Steroids , 169 (February), 11–14. 10.1016/j.steroids.2021.108823 Enkler, L., Rinaldi, B., De Craene, J. O., Hammann, P., Nureki, O., Senger, B., Friant, S., & Becker, H. D. (2021). Cex1 is a component of the COPI intracellular trafficking machinery . Biology Open , 10 (3), 1–10. 10.1242/BIO.058528
2017 - 2020
Yakobov, N., Fischer, F., Mahmoudi, N., Saga, Y., & Grube, C. D. (2020). RNA-dependent sterol aspartylation in fungi . Proceedings of the National Academy of Sciences . 10.1073/pnas.2003266117 Bader, G., Enkler, L., Araiso, Y., Hemmerle, M., Binko, K., Baranowska, E., De Craene, J. O., Ruer-Laventie, J., Pieters, J., Tribouillard-Tanvier, D., Senger, B., Rago, J. P. Di, Friant, S., Kucharczyk, R., & Becker, H. D. (2020). Assigning mitochondrial localization of dual localized proteins using a yeast bi-genomic mitochondrial-split-gfp . ELife , 9 , 1–24. 10.7554/eLife.56649 Manole, A., Efthymiou, S., O’Connor, E., Mendes, M. I., Jennings, M., Maroofian, R., Davagnanam, I., Mankad, K., Lopez, M. R., Salpietro, V., Harripaul, R., Badalato, L., Walia, J., Francklyn, C. S., Athanasiou-Fragkouli, A., Sullivan, R., Desai, S., Baranano, K., Zafar, F., … Houlden, H. (2020). De Novo and Bi-allelic Pathogenic Variants in NARS1 Cause Neurodevelopmental Delay Due to Toxic Gain-of-Function and Partial Loss-of-Function Effects . American Journal of Human Genetics , 107 (2), 311–324. 10.1016/j.ajhg.2020.06.016 Hemmerle, M., Wendenbaum, M., Grob, G., Yakobov, N., Mahmoudi, N., Senger, B., Debard, S., Fischer, F., & Becker, H. D. (2020). Noncanonical inputs and outputs of tRNA aminoacylation . In The enzymes : Biology of Aminoacyl-tRNA Synthetases (Issue 48, pp. 1–423). Yakobov, N., Debard, S., Fischer, F., Senger, B., & Becker, H. D. (2018). Cytosolic aminoacyl-tRNA synthetases: Unanticipated relocations for unexpected functions . Biochimica et Biophysica Acta - Gene Regulatory Mechanisms , 1861 (4), 387–400. https://doi.org/10.1016/j.bbagrm.2017.11.004 Debard, S., Bader, G., De Craene, J. O., Enkler, L., Bär, S., Laporte, D., Hammann, P., Myslinski, E., Senger, B., Friant, S., & Becker, H. D. (2017). Nonconventional localizations of cytosolic aminoacyl-tRNA synthetases in yeast and human cells . Methods , 113 , 91–104. doi.org/10.1016/j.ymeth.2016.09.017
2015 - 2016
Chaliotis A, Vlastaridis P, Mossialos D, Ibba M, Becker HD, Stathopoulos C, Amoutzias GD. (2016) The complex evolutionary history of aminoacyl-tRNA synthetases , Nucleic Acids Res.; pii: gkw1182. Debard S, Bader G, De Craene JO, Enkler L, Bär S, Laporte D, Hammann P, Myslinski E, Senger B, Friant S, Becker HD. (2016) Nonconventional localizations of cytosolic aminoacyl-tRNA synthetases in yeast and human cells, Methods. pii: S1046-2023(16)30335-8. doi: 10.1016/j.ymeth.2016.09.017 . Ibrahim M, Gahoual R, Enkler L, Becker HD, Chicher J, Hammann P, François YN, Kuhn L, Leize-Wagner E. Improvement of Mitochondria Extract from Saccharomyces cerevisiae Characterization in Shotgun Proteomics Using Sheathless Capillary Electrophoresis Coupled to Tandem Mass Spectrometry. J Chromatogr Sci. 2016;54(4):653-63. doi: 10.1093/chromsci/bmw005. Apostolidi M, Saad NY, Drainas D, Pournaras S, Becker HD, Stathopoulos C. A glyS T-box riboswitch with species-specific structural features responding to both proteinogenic and nonproteinogenic tRNAGly isoacceptors . RNA. 2015;21(10):1790-806. doi: 10.1261/rna.052712.115.
2013 - 2014
Frechin M, Enkler L, Tetaud E, Laporte D, Senger B, Blancard C, Hammann P, Bader G, Clauder-Münster S, Steinmetz LM, Martin RP, di Rago JP, Becker HD. Expression of nuclear and mitochondrial genes encoding ATP synthase is synchronized by disassembly of a multisynthetase complex . Mol Cell. 2014; 56(6):763-76. doi: 10.1016/j.molcel.2014.10.015. Laporte D, Huot JL, Bader G, Enkler L, Senger B, Becker HD. Exploring the evolutionary diversity and assembly modes of multi-aminoacyl-tRNA synthetase complexes: lessons from unicellular organisms . FEBS Lett. 2014;588(23):4268-78. doi: 10.1016/j.febslet.2014.10.007. Araiso Y, Huot JL, Sekiguchi T, Frechin M, Fischer F, Enkler L, Senger B, Ishitani R, Becker HD, Nureki O. Crystal structure of Saccharomyces cerevisiae mitochondrial GatFAB reveals a novel subunit assembly in tRNA-dependent amidotransferases . Nucleic Acids Res. 2014;42(9):6052-63. doi: 10.1093/nar/gku234. Epub 2014 Apr 1. Huot JL, Enkler L, Megel C, Karim L, Laporte D, Becker HD, Duchêne AM, Sissler M, Maréchal-Drouard L. Idiosyncrasies in decoding mitochondrial genomes . Biochimie. 2014 May;100:95-106. doi: 10.1016/j.biochi.2014.01.004. Epub 2014 Jan 16. Saad NY, Stamatopoulou V, Brayé M, Drainas D, Stathopoulos C, Becker HD. Two-codon T-box riboswitch binding two tRNAs . Proc Natl Acad Sci U S A. 2013 Jul 30;110(31):12756-61. doi: 10.1073/pnas.1304307110. Epub 2013 Jul 15. Nozawa K, Ishitani R, Yoshihisa T, Sato M, Arisaka F, Kanamaru S, Dohmae N, Mangroo D, Senger B, Becker HD, Nureki O. Crystal structure of Cex1p reveals the mechanism of tRNA trafficking between nucleus and cytoplasm . Nucleic Acids Res. 2013 Apr 1;41(6):3901-14. doi: 10.1093/nar/gkt010. Epub 2013 Feb 8. Saad NY, Schiel B, Brayé M, Heap JT, Minton NP, Dürre P, Becker HD. Riboswitch (T-box)-mediated control of tRNA-dependent amidation in Clostridium acetobutylicum rationalizes gene and pathway redundancy for asparagine and asparaginyl-trnaasn synthesis . J Biol Chem. 2012 Jun 8;287(24):20382-94. doi: 10.1074/jbc.M111.332304. Epub 2012 Apr 13. Fischer F, Huot JL, Lorber B, Diss G, Hendrickson TL, Becker HD, Lapointe J, Kern D. The asparagine-transamidosome from Helicobacter pylori: a dual-kinetic mode in non-discriminating aspartyl-tRNA synthetase safeguards the genetic code . Nucleic Acids Res. 2012 Jun;40(11):4965-76. doi: 10.1093/nar/gks167. Epub 2012 Feb 22.
2008 - 2012
Blaise, M., Bailly, M., Frechin, M., Behrens, M. A., Fischer, F., Oliveira, C. LP., Becker, H. D., Pedersen, J. S., Thirup, S. & Kern, D. Crystal structure of a transfer-ribonucleoprotein particle that promotes asparagine formation . EMBO2010 Sep 15;29(18):3118-29. Epub 2010 Aug 17 Frechin, M., Kern, D., Martin, R. P., Becker, H. D. & Senger, B. (2010) Arc1p: anchoring, routing, coordinating . FEBS Letters 584, 427-433. Frechin, M., Senger, B. Brayé, M., Kern, D., Martin, R. & Becker, H. D. (2009) Yeast mitochondrial Gln-tRNAGln is generated by a GatFAB-mediated transamidation pathway involving Arc1p-controlled subcellular sorting of cytosolic GluRS . Genes Dev. 23, 1119-1130 Giannouli, S., Kyritsis, A., Malissovas, N., Becker, H. D. & Stathopoulos, C. (2009) On the role of an unusual tRNA(Gly) isoacceptor in Staphylococcus aureus . Biochimie 91, 344-351. Blaise, M., Olieric, V., Sauter, C., Lorber, B., Roy, B., Karmakar, S., Banerjee, R., Becker, H. D. & Kern, D. (2008) Crystal structure of glutamyl-queuosine tRNAAsp synthetase complexed with L-glutamate: structural elements mediating tRNA-independent activation of glutamate and glutamylation of tRNAAsp anticodon . J. Mol. Biol. 381, 1224-1237. Pujol, C., Bailly, M., Kern, D. Maréchal-Drouard, L., Becker, H. D. & Duchêne A-M (2008) Plant tRNA-dependent amidotransferase ensures mitochondrial and chloroplastic Gln-tRNAGln synthesis Proc. Natl. Acad. Sci. U. S. A. 105, 6481-6485. Bailly, M., Blaise, M., Roy, H., Deniziak, Lorber, B., Birck, C., Becker, H. D. & Kern, D. (2008). tRNA-dependent asparagine formation in prokaryotes: Characterization, isolation and structural and functional analysis of a ribonucleoprotein particle generating Asn-tRNAAsn .Methods 44,
2003 - 2007
Touzé, E., Lorber, B., Deniziak, M. A., Becker, H. D., Kern, D., Giegé, R. & Sauter, C. (2007). Disoerder can exist inside well-diffracting crystals. Crystal growth & design 7, Bailly, M., Blaise, M., Lorber, B., Becker, H. D., & Kern, D. (2007). The transamidosome: a ribonucleoprotein particle dedicated to prokaryotic tRNA-dependent asparagines biosynthesis . Mol. Cell 28 , Roy, H., Becker, H. D., Mazauric, M-H. & Kern, D. (2007). Structural elements defining elongation factor Tu mediated suppression of codon ambiguity . Nucleic Acids Res. 35, 3420-3430. Deniziak, M. A., Sauter, C., Becker, H. D., Paulus, C. A., Giegé, R. & Kern, D. (2007). Deinococcus Nucleic Acids Res. 35 , 1421-1431. Bailly, M., Giannouli, S., Blaise, M., Stathopoulos, C., Kern D. & Becker, H. D. (2006). A single tRNA base-pair mediates bacterial tRNA-dependent biosynthesis of asparagines . Nucleic Acids Res. 34, Blaise, M., Becker, H. D., Lapointe, J., Cambillau, C., Giegé, R. & Kern, D. (2005). Glu-Q-tRNAAsp synthetase coded by the yadB gene, a new paralog of aminoacyl-tRNA synthetase that glutamylates tRNAAsp anticodon . Biochimie 87, Kern D., Roy H. & Becker, H. D. (2005). Asparaginyl-tRNA synthetase, in The Aminoacyl-tRNA synthetases, edited by Michael Ibba, Christopher Francklyn and Stephen Cusack. Landes Bioscience , 193-209 Deniziak, M. A., Sauter, C., Becker, H. D., Giegé, R. & Kern, D. (2004). Crystallization and preliminary X-ray characterization of the atypical glutaminyl-tRNA synthetase from Deinococcus radiodurans . Acta Crystallogr. D Biol. Crystallogr. 60, 2361-2363. Blaise, M., Becker, H. D., Keith, G., Cambillau, C., Lapointe, J., Giegé, R. & Kern, D. (2004). A minimalist glutamyl-tRNA synthetase dedicated to aminoacylation of the tRNAAsp QUC anticodon . Nucleic Acids Res. 32, 2768-2775. Dubois, D. Y., Blaise, M., Becker, H. D., Campanacci, V., Keith, G., Giegé, R., Cambillau, C., Lapointe, J. & Kern, D. (2004). An aminoacyl-tRNA synthetase-like protein encoded by the Escherichia coli yadB gene glutamylates specifically tRNAAsp . Proc. Natl. Acad. Sci. U. S. A. 101, 7530-7535. Campanacci, V., Dubois, D. Y., Becker, H. D., Kern, D., Spinelli, S., Valencia, C., Pagot, F., Salomoni, A., Grisel, S., Vincentelli, R., Bignon, C., Lapointe, J., Giegé, R. & Cambillau, C. (2004).The Escherichia coli YadB gene product reveals a novel aminoacyl-tRNA synthetase like activity . J. Mol. Biol. 337, 273-283. Roy, H., Becker, H. D., Reinbolt, J. & Kern, D. (2003). When contemporary aminoacyl-tRNA synthetases invent their cognate amino acid metabolism . Proc. Natl. Acad. Sci. U. S. A. 100, 9837-9842
1996 - 2002
Salazar, J-C., Zúñiga, R., Raczniak, G., Becker, H. D., Söll, D. & Orellana, O. (2001). A dual-specific Glu-tRNAGlnAsn amidotransferase is involved in decoding glutamine and asparagine codons in Acidithiobacillus ferrooxidans and Asp-tRNA. FEBS Letters 500, 129-131. Ruan, B., Ahel, I., Ambrogelly, A., Becker, H. D., Bunjun, S., Feng, L., Tumbula-Hansen, D., Ibba, M., Korencic, D., Kobayashi, H., Jacquin-Becker, C., Mejlhede, N., Min, B., Raczniak, G., Rinehart, J., Stathopoulos, C., Li, T. & Söll, D. (2001) Genomics and the evolution of aminoacyl-tRNA synthesis . Acta Biochim. Pol. 48, 313-321. Raczniak, G., Becker, H. D., Min, B. & Söll, D. (2001). A Single Amidotransferase Forms Asparaginyl-tRNA and Glutaminyl-tRNA in Chlamydia trachomatis . J. Biol. Chem. 276, 45862-45867. Stathopoulos, C., Ahel, I., Ali, K., Ambrogely, A., Becker, H. D., Bunjun, S., Feng, L., Herring, S., Jacquin-Becker, C., Kobayashi, H., Korencic, D., Krett, B., Mejlhede, N., Min, B., Nakano, H., Namgoong, S., Polycarpo, C., Raczniak, G., Rinehart, J., Rosas-Sandoval, G., Ruan, B., Sabina, J., Sauerwald, A., Toogood, H., Tumbula-Hansen, D., Ibba, M. & Söll, D. (2001). Aminoacyl-tRNA synthesis: a postgenomic perspective . Cold Spring Harb. Symp. Quant. Biol. 66, 175-183. Stathopoulos, C., Jacquin-Becker, C., Becker, H. D., Li, T,. Ambrogely, A., Longman, R. & Söll, D. (2001). Methanococcus jannaschii ProCysRS possesses overlapping amino acid binding sitesBiochemistry 40, 46-52. Söll, D., Becker, H. D., Plateau, P., Blanquet, S. & Ibba, M. (2000). Context-dependent anticodon recognition by class I lysyl-tRNA synthetases . Proc. Natl. Acad. Sci. U. S. A. 97, 14224-14228. Becker, H. D., Tumbula, D. L., Chang, W-Z. & Söll, D. (2000). Domain-specific recruitment of amide amino acids for protein synthesis . Nature 407, 106-110. Becker, H. D., Min, B., Jacobi, C., Raczniak, G., Pelaschier, J., Roy, H., Klein, S., Kern, D. & Söll, D. (2000). The heterotrimeric Thermus thermophilus Asp-tRNAAsn amidotransferaseGln . FEBS Letters 476, 140-144. Ibba, M., Becker, H. D., Stathopoulos, C., Tumbula, D. L. & Söll, D. (2000). The adaptor hypothesis revisited. Trends Biochem. Sci. 25, 311-316. Becker, H. D., Roy, H., Moulinier, L., Mazauric, M-H., Keith, G. & Kern, D. (2000). Thermus thermophilus contains an eubacterial and an archaebacterial aspartyl-tRNA synthetaseBiochemistry 39, 3216-3230 Stathopoulos, C., Li, T., Longman, R., Vothknecht, U. C., Becker, H. D., Ibba, M. & Söll, D. (2000). One polypeptide with two aminoacyl-tRNA synthetase activities . Science 287, 479-482 Tumbula, D. L., Vothknecht, U. C., Kim, H., Ibba, M., Min, B., Li, T., Pelaschier, J., Stathopoulos, C., Becker, H. D. & Söll, D. (1999). Archaeal Aminoacyl-tRNA Synthesis: Diversity Replaces Dogma . Genetics 152, 1260-1276. Becker, H. D. & Kern, D. (1998). Thermus thermophilus : a link in evolution of the tRNA-dependent amino acid amidation pathwaysProc. Natl. Acad. Sci. U.S.A. 95, 12832-12837. Becker, H. D., Reinbolt, J., Kreutzer, R., Giegé, R. & Kern, D. (1997). Existence of two distinct aspartyl-tRNA synthetases in Thermus thermophilus . Structural and biochemical properties of the two enzymes . Biochemistry 36, 8785-8797. Becker, H. D., Giegé R. & Kern D. (1996). Identity of Prokaryotic and Eukaryotic tRNAAsp for Aminoacylation by Aspartyl-tRNA Synthetase from Thermus thermophilus . Biochemistry 35 , 7447-7458.
