Team Publications

  1. Lejars M. and Hajnsdorf E. (2023) "Bacterial RNase III: targets and physiology” Biochimie, in press. doi: 10.1016/j.biochi.2023.07.009

  2. Genera M., Colcombet-Cazenave B., Croitoru A., Raynal B., Mechaly A., Caillet J., Haouz A., Wolff N. and Caillet-Saguy C. (2023) "Interactions of the protein tyrosine phosphatase PTPN3 with viral and cellular partners through its PDZ domain: insights into structural determinants and phosphatase activity." Front. Mol. Biosci. 10:1192621. doi: 10.3389/fmolb.2023.1192621

  3. Fontaine F., Turjeman S., Callens K., Koren O. (2023) "The intersection of undernutrition, microbiome, and child development in the first years of life." Nat Commun. Jun 15;14(1):3554. doi: 10.1038/s41467-023-39285-9.

  4. Jagodnik J., Tjaden B., Ross W. and Gourse R.L. (2023) “Identification and characterization of RNA binding sites for (p)ppGpp using RNA-DRaCALA” Nucleic Acids Res. 51(2):852-869.

  5. Lejars, M., Caillet, J., Solchaga-Flores, E., Guillier, M., Plumbridge, J. & Hajnsdorf, E.. (2022) "Regulatory interplay between RNase III and asRNAs in E. coli; the case of AsflhD and FlhD, component of master regulator of motility" mBio, 13

  6. Brosse, A., Boudry, P., Walburger, A., Magalon, A. and Guillier, M. (2022) "Synthesis of the NarP response regulator of nitrate respiration in Escherichia coli is regulated at multiple levels by Hfq and small RNAs." Nucleic Acids Res. , 50, 6753-6768.

  7. Lejars M. and Hajnsdorf E. (2022) "RNase III participates in the adaptation to heat shock and the oxidative stress response in Escherichia coli" Microorganisms 10, 699. doi: 10.3390/microorganisms10040699.

  8. Roux C., Etienne T., Hajnsdorf E., Ropers D., Carpousis AJ, Cocaign-Bousquet M. & Girbal L. (2022) "The essential role of mRNA degradation in understanding and engineering E. coli metabolism" Biotechnology Advances 54:107805. doi:10.1016/j.biotechadv.2021.107805.

  9. Lejars M., Kobayashi A. & Hajnsdorf E. (2021) "RNase III, Ribosome Biogenesis and Beyond" Microorganisms 9, 2608. doi:10.3390/microorganisms9122608.

  10. Boudry P., Piattelli E., Drouineau E., Peltier J., Boutserin A., Lejars M., Hajnsdorf E., Monot m., Dupuy B., Martin-Verstraete I, Gautheret D., Toffano-Nioche C. & Soutourina O. (2021) "Identification of RNAs bound by Hfq reveals widespread RNA partners and a sporulation regulator in the human pathogen Clostridioides difficile" RNA Biology 25, 1-22. doi: 10.1080/15476286.2021.1882180.

  11. Durand, S. and Guillier, M. (2021) "Transcriptional and post-transcriptional control of the nitrate respiration in bacteria." Frontiers in Molecular Biosciences,

  12. Giraud, E., Otero Del Val, C., Caillet-Saguy, C., Zehrouni, N. , Khou, C., Caillet, J., Jacob, Y., Pardigon, N. and Wolff, N. (2021) "Role of PDZ-binding motif from West Nile virus NS5 protein on viral replication." Sc. Reports 11, 3266. doi:10.1038/s41598-021-82751-x

  13. Durand, S. and Guillier, M. (2021) "Transcriptional and post-transcriptional control of the nitrate respiration in bacteria." Frontiers in Molecular Biosciences, 8, 265. doi 10.3389/fmolb.2021.667758

  14. Lejars, M. and Hajnsdorf, E. (2020) "The world of asRNAs in Gram-negative and Gram-positive bacteria" BBA-Gene Regulatory Mechanisms 1863:194489. doi: 10.1016/j.bbagrm.2020.194489.

  15. Peltier, J., Hamiot, A., Garneau, J. R., Boudry, P., Maikova, A., Hajnsdorf, E., Fortier, L. C., Dupuy, B. and Soutourina, O. (2020) "Type I toxin-antitoxin systems contribute to mobile genetic elements maintenance in Clostridioides difficile" Communications Biology 3:718 doi:10.1038/s42003-020-01448-5

  16. Chiaruttini C. and Guillier, M. (2019) On the role of mRNA secondary structure in bacterial translation. Wiley Interdisciplinary Reviews: RNA, Wiley, Nov 24:e1579. doi: 10.1002/wrna.1579

  17. Caillet, J, Baron, B., Boni, I. V., Caillet-Saguy, C. and Hajnsdorf, E. (2019) "Identification of protein-protein and ribonucleoprotein complexes containing Hfq" Sc. Reports 9, 14054. doi:10.1038/s41598-019-50562-w

  18. C. Dégut#, M. Roovers#, P. Barraud, F. Brachet, A. Feller, V. Larue, A. Al Refaii, J. Caillet, L. Droogmans*, C. Tisné* (2019). Structural characterisation of B. subtilis m1A22 tRNA methyltransferase TrmK: Insights into tRNA recognition, Nucleic Acids Res, 47(9) , 4736–4750, doi: 10.1093/nar/gkz230

  19. M. Lejars, A. Kobayashi & E. Hajnsdorf (2019) "Physiological roles of antisense RNAs in Prokaryotes" Biochimie, 164, 3-16. doi: 10.1016/j.biochi.2019.04.015

  20. Brosse A. and Guillier M. (2018) "Bacterial small RNAs in mixed regulatory networks" Microbiology Spectrum, 6(3). doi : 10.1128/microbiolspec.RWR-0014-2017. (also published as a book chapter in "Regulating with RNA in Bacteria and Archaea", editors Gisela Storz and Kai Papenfort, ASM Press).

  21. E. Hajnsdorf and V. R. Kaberdin. (2018) "RNA polyadenylation and its consequences in prokaryotes" Phil. Trans. R. Soc. B. doi: 10.1098/rstb.2018.0166

  22. Maikova, A., Peltier, J., Boudry, P., Hajnsdorf, E., Kint, N., Monot, M., Poquet, I., Martin-Verstrate, I., Dupuy, B., Soutourina, O. (2018) "Discorery of new type I toxin-antitoxin systems adjacent to CRISPR arrays in Clostridium difficile" Nucleic Acids Res. 46, 4733-4751, doi:10.1093/nar/gky124

  23. Jagodnik, J., Chiaruttini, C. Guillier, M.. (2017). "Stem-Loop Structures within mRNA Coding Sequences Activate Translation Initiation and Mediate Control by Small Regulatory RNAs." Mol Cell 68(1): 158-170 e153.

  24. Maes A., Gracia C. , Innocenti N. , Zang K. , Aurell E. & Hajnsdorf E. (2017) "Landscape of RNA polyadenylation in E. coli" Nucleic Acids Res. 45, 2746-2756,

  25. Jagodnik, J., Brosse, A., Le Lam, T.N., Chiaruttini, C., Guillier, M. (2017) "Mechanistic study of base-pairing small regulatory RNAs in bacteria". Methods 117: 67-76 doi: 10.1016/j.ymeth.2016.09.012

  26. Le Lam, T.N., Morvan, C., Liu, W., Bohn, C., Jaszczyszyn, Y. & Bouloc, P., (2017) "Finding sRNA-associated phenotypes by competition assays: An example with Staphylococcus aureus". Methods 117: 21-27 doi: 10.1016/j.ymeth.2016.11.018

  27. Jagodnik, J., Thieffry, D. and Guillier, M. (2016) Bacterial Small RNAs in Mixed Regulatory Circuits, in Stress and Environmental Regulation of Gene Expression and Adaptation in Bacteria (ed F. J. de Bruijn), John Wiley & Sons, Inc., Hoboken, NJ, USA. doi: 10.1002/9781119004813.ch33

  28. Brosse, A.; Korobeinikova, A.; Gottesman, S.; Guillier, M. (2016) "Unexpected properties of sRNA promoters allow feedback control via regulation of a two-component system" Nucleic Acids Res. 2016 44: 9650-9666

  29. Ruiz-Larrabeiti, O., Hernández, A., Gracia, C., Sevillano, E., Gallego, L., Hajnsdorf, E. & Kaberdin, V. (2016) "A new custom microarray for sRNA profiling in Escherichia coli" FEMS Microbiology Letters, 363, (13). (Editor's choice)

  30. Fontaine, F., Gasiorowski, E., Gracia, C., Ballouche, M., Caillet, J., Marchais, A. & Hajnsdorf, E. "The small RNA SraG participates in PNPase homeostasis." RNA 22, 1560-73

  31. Boudry, P., Gracia, C., Monot, M., Caillet, J., Saujet L., Hajnsdorf, E., Dupuy, B., Martin-Verstraete, I.  & Soutourina, O.  (2014) "Pleiotropic role of the RNA chaperone protein Hfq in the human pathogen Clostridium difficile" J. Bacteriol., 196, 3234-32-48

  32. Caillet J., Gracia C., Fontaine, F. and Hajnsdorf, E.(2014) "Clostridium difficile Hfq can replace Escherichia coliHfq for most of its function" RNA ; 20: 1567-1578

  33. Hammann P., Parmentier D., Cerciat M., Reimegard J., Helfer AC., Boisset S., Guillier M., Vandenesch F., Wagner EG., Romby P. and Fechter P., (2014), "A method to map changes in bacterial surface composition induced by regulatory RNAs in Escherichia coli and Staphylococcus aureus", Biochimie, 2014 Nov;106:175-9. doi: 10.1016/j.biochi.2014.07.011.

  34. Wenner, N., Maes, A., Cotado-Sampayo, M.  & Lapouge, K. (2014) "NrsZ: a novel, processed, nitrogen-dependent, small non-coding RNA that regulates Pseudomonas aeruginosa PAO1 virulence". Environ Microbiol. 16, 1053-68

  35. Bos J., Duverger Y., Thouvenot B., Chiaruttini C., Branlant C., Springer M., Charpentier B. & Barras F. (2013) "The sRNA RyhB regulates the synthesis of the Escherichia coli methionine sulfoxide reductase MsrB but not MsrA", PLoS One, 8(5): e63647.

  36. Maes, A., Gracia,C.,  Bréchemier-Baey, D., Hamman, P., Chatre, E., Lemelle, L., Bertin, P. N. & Hajnsdorf, E. (2013) Role of polyadenylation in regulation of the flagella cascade and motility in E. coli. Biochimie, 95, 410-418.

  37. Régnier, Ph. &  Hajnsdorf,  E. (2013) The interplay of Hfq, poly(A) polymerase I and exoribonucleases at the 3' ends of RNAs resulting from Rho-independent termination: a tentative model. RNA Biology 10(4)

  38. Mandin P. and Guillier M. (2013). Expanding control in bacteria: interplay between small RNAs and transcriptional regulators to control gene expression, Current Opinion in Microbiology, 16(2): 125-32.

  39. Coornaert A., Chiaruttini C., Springer M. & Guillier M.(2012) Post-transcriptional control of the Escherichia coli PhoQ-PhoP two-component system by multiple sRNAs involves a novel pairing region of GcvB. PLoS Genet, 2013;9(1):e1003156. doi: 10.1371/journal.pgen.1003156. Epub 2013 Jan 3.

  40. Hajnsdorf, E. & Boni, I. V. (2012) Multiple activities of RNA-binding proteins S1 and Hfq. Biochimie 94, 1544-1553.

  41. Maes, A., Gracia, C., Hajnsdorf, E. & Régnier, Ph. (2012) Search for poly(A) polymerase targets in E. coli reveals its implication in surveillance of Glu tRNA processing and degradation of stable RNAs. Mol Microbiol, 83, 436-451.

  42. Thomason, M. K., Fontaine, F., De Lay, N. & Storz, G. (2012) A small RNA that regulates motility and biofilm formation in response to changes in nutrient availability in Escherichia coli. Mol Microbiol, 84, 17-35.

  43. Ni, M., Decrulle, A. L., Fontaine, F., Demarez, A., Taddei, F. & Lindner, A. B. (2012) Pre-disposition and epigenetics govern variation in bacterial survival upon stress. PLoS Genet. 8(12)

  44. Mangeol, P., Bizebard, T., Chiaruttini, C., Dreyfus, M., Springer, M., & Bockelmann, U. (2011) Probing ribosomal protein–RNA interactions with an external force. Proc. Natl. Acad. Sci. U.S.A. 108, 18272-18276.

  45. Busi, F., Le Dérout, J., Cerciat, M., Régnier, Ph. & Hajnsdorf, E.(2010) Is the secondary putative RNA-RNA interaction site relevant to GcvB mediated regulation of oppA mRNA in Escherichia coli ? Biochimie 92, 1458-1461.

  46. Coornaert, A., Lu. A., Mandin, P., Springer, M., Gottesman, S. & Guillier, M. (2010) MicA sRNA links the PhoP regulon to cell envelope stress. Mol. Microbiol., 76, 467-479.

  47. Le Dérout, J., Boni, I. V., Régnier, Ph. & Hajnsdorf, E. (2010) Hfq affects mRNA levels independently of degradation. BMC Mol. Biol. 11, 17.

  48. Noinaj, N., Guillier, M., Barnard, T. J. & Buchanan, S. K. (2010). TonB-dependent transporters: regulation, structure, and function. Annu Rev Microbiol 64, 43-60.

  49. Andrade, J. M., Hajnsdorf, E., Régnier, Ph. & Arraiano, C. (2009) The Poly(A)-dependent degradation pathway of rpsO mRNA is primarily mediated by RNase R. RNA 15, 316-326.

  50. Chiaruttini, C., Allemand, F. & Springer, M. (2009) Structural probing of RNA thermosensors. Methods Mol. Biol. 540, 233-245.

  51. Timsit, Y., Acosta, Z., Allemand, F., Chiaruttini, C. & Springer, M. (2009) The role of disordered ribosomal protein extensions in the early steps of eubacterial 50 s ribosomal subunit assembly. Int. J. Mol. Sci. 10, 817-834.

  52. Régnier, Ph. & Hajnsdorf, E. (2009) Poly(A)-assisted RNA decay and modulators of RNA stability. In : Progress in Nucleic Acids Research and Translational Science 85, 137-185.

  53. Haentjens-Sitri, J., Allemand, F., Springer, M. & Chiaruttini, C. (2008) A competition mechanism regulates the translation of the Escherichia coli operon encoding ribosomal proteins L35 and L20. J. Mol. Biol. 375, 612-625.

  54. Reichenbach, B., Maes, A., Kalamorz, F., Hajnsdorf, E. & Görke, B. (2008) The small RNA GlmY acts upstream of the sRNA GlmZ in the activation of glmS expression and is subject to regulation by polyadenylation in Escherichia coli. Nucleic Acids Res. 36, 2570–2580.

  55. Roovers, M., Oudjama, Y., Kaminska, K. H., Purta, E., Caillet, J., Droogmans, L. & Bujnicki, J. M. (2008) Sequence-structure-function analysis of the bifunctional enzyme MnmC that catalyses the last two steps in the biosynthesis of hypermodified nucleoside mnm5s2U in tRNA. Proteins 71, 2076-2085.

  56. Guillier, M. & Gottesman, S. (2008). The 5' end of two redundant sRNAs is involved in the regulation of multiple targets, including their own regulator. Nucleic Acids Res. 36, 6781-6794.

  57. Allemand, F., Haentjens, J., Chiaruttini, C., Royer, C.& Springer, M. (2007) Escherichia coli ribosomal protein L20 binds as a single monomer to its own mRNA bearing two potential binding sites. Nucleic Acids Res. 35, 3016-3031.

  58. Caillet, J., Graffe, M., Eyermann, F., Romby, P. & Springer, M. (2007) Mutations in residues involved in zinc binding in the catalytic site of Escherichia coli threonyl-tRNA synthetase confer a dominant lethal phenotype. J. Bacteriol. 189, 6839-6848.

  59. Joanny, G., Le Derout, J., Bréchemier-Baey, D., Labas, V., Vinh, J., Régnier, Ph. & Hajnsdorf, E. (2007) Polyadenylation of a functional mRNA controls gene expression in E. coli. Nucleic Acids Res. 35, 2494-2502.

  60. Ziolkowska, K., Derreumaux, Ph., Folichon, M., Pellegrini, O., Régnier, Ph., Boni, I. & Hajnsdorf, E. (2006) Hfq variant with altered RNA binding functions. Nucleic Acids Res. 34, 709-720.

  61. Timsit, Y., Allemand, F., Chiaruttini, C. & Springer, M. (2006). Coexistence of two protein folding states in the crystal structure of ribosomal protein L20. EMBO Rep 7, 1013-1018.

  62. Guillier, M., Gottesman, S. & Storz, G. (2006). Modulating the outer membrane with small RNAs. Genes Dev 20, 2338-2348.

  63. Tjaden, B., Goodwin, S. S., Opdyke, J. A., Guillier, M., Fu, D. X., Gottesman, S. & Storz, G. (2006). Target prediction for small, noncoding RNAs in bacteria. Nucleic Acids Res. 34, 2791-2802.

  64. Gottesman, S., McCullen, C. A., Guillier, M., Vanderpool, C. K., Majdalani, N., Benhammou, J., Thompson, K. M., FitzGerald, P. C., Sowa, N. A. & FitzGerald, D. J. (2006). Small RNA regulators and the bacterial response to stress. Cold Spring Harb Symp Quant Biol 71, 1-11.

  65. Guillier, M. & Gottesman, S. (2006). Remodelling of the Escherichia coli outer membrane by two small regulatory RNAs. Mol. Microbiol. 59, 231-247.

  66. Folichon, M., Allemand, F., Régnier, Ph. & Hajnsdorf, E. (2005) Stimulation of poly(A) synthesis by E.coli poly(A) polymerase I is correlated with Hfq binding to poly(A) tails. FEBS J. 272, 454-463.

  67. Guillier, M., Allemand, F., Graffe, M., Raibaud, S., Dardel, F., Springer, M. & Chiaruttini, C. (2005). The N-terminal extension of Escherichia coli ribosomal protein L20 is important for ribosome assembly, but dispensable for translational feedback control. RNA 11, 728-738.

  68. Guillier, M., Allemand, F., Dardel, F., Royer, C. A.,Springer, M. & Chiaruttini, C. (2005). Double molecular mimicry in Escherichia coli: binding of ribosomal protein L20 to its two sites in mRNA is similar to its binding to 23S rRNA. Mol. Microbiol. 56, 1441-1456.

  69. Marujo, P.E., Braun, F., Haugel-Nielsen, J., Le Derout, J., Arraiano, C.M. and Regnier, P. (2003) Inactivation of the decay pathway initiated at an internal site by RNase E promotes poly(A)-dependent degradation of the rpsO mRNA in Escherichia coli. Mol. Microbiol. 50, 1283-1294.

  70. Folichon, M., Arluison, V., Pellegrini, O., Huntzinger, E., Régnier, Ph. & Hajnsdorf, E. (2003) The poly(A) binding protein Hfq protects RNA from RNase E and exoribonucleolytic degradation. Nucleic Acids Res. 31, 7302-7310.

  71. Le Derout, J., Folichon, M., Briani, F., Dehò, G., Régnier, P. & Hajnsdorf, E. (2003) Hfq affects the length and the frequency of short oligo(A) tails at the 3’ end of Escherichia coli rpsO mRNAs Nucleic Acids Res. 31, 4017-4023.

  72. Raibaud, S., Vachette, P., Guillier, M., Allemand, Chiaruttini, C., & Dardel, F. (2003). How bacterial ribosomal protein L20 assembles with 23S ribosomal RNA and its own messenger RNA. J. Biol. Chem. 278, 36522-30.

  73. Arluison, V., Derreumaux, Ph., Allemand, F., Folichon, M., Hajnsdorf, E. & Régnier, P. (2002) Structural modeling of the Sm-like protein HFq from E. coli. J. Mol. Biol., 320, 705-712.

  74. Raibaud, S., Lebars, I., Guillier, M., Chiaruttini, C., Bontems, F., Rak, A., Garber, M., Allemand, F., Springer, M. & Dardel, F. (2002). NMR structure of bacterial ribosomal protein L20: implications for ribosome assembly and translational control. J. Mol Biol., 323:143-51.

  75. Johansson, J., Mandin, P., Renzoni, A., Chiaruttini, C., Springer, M. & Cossart, P. (2002). An RNA thermosensor controls expression of virulence genes in Listeria monocytogenes. Cell, 110:551-61.

  76. Guillier, M., Allemand, F., Raibaud, S., Dardel, F., Springer, M. & Chiaruttini, C. (2002). Translational feedback regulation of the gene for L35 in Escherichia coli requires binding of ribosomal protein L20 to two sites in its leader mRNA: a possible case of ribosomal RNA-messenger RNA molecular mimicry. RNA, 8:878-89.

  77. Hajnsdorf, E. & Régnier, P.(2000) Host factor HFq (HF-1) of Escherichia coli stimulates elongation of poly(A) tails by poly(A) polymerase I. Proc. Natl Acad. Sc. USA, 97, 1501-1505.

  78. Marujo, P., Hajnsdorf, E., Le Derout, J., Andrade, R., Arraiano, C. M. & Régnier, P.(2000) RNase II prevents synthesis of oligo(A)tails which destabilize the rpsO mRNA. RNA 6, 1079-90