Publications

 

Click here for a full list of publications from the Max Planck Unit for the Science of Pathogens on PubMed.

Click here to download a full list of publications from the Max Planck Unit for the Science of Pathogens.

 

The publications listed below include articles, editorials, opinions, comments, reviews and book chapters published by members of RIIB (2016-2018) and MPUSP (since 2018).

 

Preprints

  1. Cornejo FA, Driller K, Ahmed-Begrich R, Schmidt K, Jahn M, Shanmuganathan V, Hahnke K, Kondrot F, Wulff TF, Rämisch S, Alagesan K, Charpentier E and Turgay K (2025) Targeting the translation machinery: The RNase Y specificity factor Y-complex coordinates ribosome degradation. bioRxiv. doi.org/10.1101/2025.06.27.661978
  2. Rubinić M, Arias-Rojas A, Martinez KA, Klimek W, Paczia N, Alagesan K, Duneau D and Iatsenko I (2025) Sex differences in Drosophila intestinal metabolism contribute to sexually dimorphic infection outcome and alter gut pathogen virulence. bioRxiv. doi.org/10.1101/2025.05.22.655590 
  3. Alver R, Hantke I, Cornejo FA, Gunka K, Rämisch S, Molière N, Charpentier E and Turgay K (2022) Protein arginine phosphorylation and de-phosphorylation facilitates protein homeostasis by a unique AAA+ chaperone protease system. bioRxiv. doi.org/10.1101/2022.09.15.508104
  4. Alagesan K, Ahmed-Begrich R and Charpentier E (2022) Improved N- and O-Glycopeptide identification using High-Field Asymmetric Waveform Ion Mobility Spectrometry (FAIMS). bioRxiv. doi.org/10.1101/2022.12.12.520086

 

Original Articles

  1. Krause K, Franch Arroyo S, Ugolini M, Kueck T, Sullivan TJ, Gálvez EJC, Muenzner M, Goosmann C, Brinkmann V, Frese CK, Alagesan K, Vierbuchen T, Heine H, Resch U, Sander LE and Charpentier E (2025) Streptococcus pyogenes EVs induce the alternative inflammasome via caspase-4/-5 in human monocytes. EMBO Rep. 26(19):4847-4885. doi: 10.1038/s44319-025-00558-7
  2. Andrianova EP, Dobbins AL, Erhardt M, Hendrixson DR and Zhulin IB (2025) FliO is an evolutionarily conserved yet diversified core component of the bacterial flagellar type III secretion system. PNAS 122(34):e2512476122. doi: 10.1073/pnas.2512476122
  3. Ignatov D, Shanmuganathan V, Ahmed-Begrich R, Alagesan K, Hahnke K, Wang C, Krause K, Cornejo FA, Funke K, Erhardt M, Frese CK and Charpentier E (2025) RNA-binding protein YebC enhances translation of proline-rich amino acid stretches in bacteria. Nat. Commun. 16(1):6262. doi: 10.1038/s41467-025-60687-4
  4. Einenkel R, Qin K, Schmidt J, Al-Otaibi NS, Mann D, Drobnič T, Cohen EJ, Gonzalez-Rodriguez N, Harrowell J, Shmakova E, Beeby M, Erhardt M and Bergeron JRC (2025) The structure of the complete extracellular bacterial flagellum reveals the mechanism of flagellin incorporation. Nat. Microbiol. 10(7):1741-1757. doi: 10.1038/s41564-025-02037-0
  5. Halte M, Popp PF, Hathcock D, Severn J, Fischer S, Goosmann C, Ducret A, Charpentier E, Tu Y, Lauga E, Erhardt M and Renault TT (2025) Bacterial motility depends on a critical flagellum length and energy-optimized assembly. Proc. Natl. Acad. Sci. U. S. A. 122(11):e2413488122. doi: 10.1073/pnas.2413488122
  6. Massoni SC, Evans NJ, Hantke I, Fenton C, Torpey JH, Collins KM, Krysztofinska EM, Muench JH, Thapaliya A, Martínez-Lumbreras S, Hart Ferrell S, Slater C, Wang X, Fekade R, Obwar S, Yin S, Vazquez A, Prior CB, Turgay K, Isaacson RL and Camp AH (2025) MdfA is a novel ClpC adaptor protein that functions in the developing Bacillus subtilis spore. Genes Dev. 39(7-8):510–23. doi: 10.1101/gad.352498.124
  7. Hu H, Popp PF, Hughes TCD, Roa-Eguiara A, Rutbeek NR, Martin FJO, Hendriks IA, Payne LJ, Yan Y, Humolli D, Klein-Sousa V, Songailiene I, Wang Y, Nielsen ML, Berry RM, Harms A, Erhardt M, Jackson SA and Taylor NMI (2025) Structure and mechanism of the Zorya anti-phage defence system. Nature 639(8056):1093-1101. doi: 10.1038/s41586-024-08493-8
  8. Chatzimpinou A, Diehl A, Harhoff AT, Driller K, Vanslembrouck B, Chen JH, Kairišs K, Loconte V, Le Gros MA, Larabell C, Turgay K, Oschkinat H and Weinhardt V (2025) Soft X-ray tomography reveals variations in B. subtilisbiofilm structure upon tasA deletion. NPJ Biofilms Microbiomes 11(1):23. doi: 10.1038/s41522-025-00659-0
  9. Ajay Castro S, Passmore IJ, Ndeh D, Shaw HA, Ruda A, Burns K, Thomson S, Nagar R, Alagesan K, Reglinski M, Lucas K, Abouelhadid S, Schwarz-Linek U, Mawas F, Widmalm G, Wren BW and Dorfmueller HC (2025)Recombinant production platform for Group A Streptococcus glycoconjugate vaccines. NPJ Vaccines 10(1):16. doi: 10.1038/s41541-025-01068-2
  10. Wulff TF, Ahmed-Begrich R, Hahnke K, Jahn M and Charpentier E (2025) Novel assembly of the SF370 strain of the important human pathogen Streptococcus pyogenes serotype M1. Microbiol. Resour. Announc. 14(1):e0119724. doi: 10.1128/mra.01197-24
  11. Jahn M, Crang N, Gynnå AH, Kabova D, Frielingsdorf S, Lenz O, Charpentier E and Hudson EP (2024) The energy metabolism of Cupriavidus necator in different trophic conditions. Appl. Environ. Microbiol. 90(10):e0074824. doi: 10.1128/aem.00748-24
  12. Wulff TF, Hahnke K, Lécrivain AL, Schmidt K, Ahmed-Begrich R, Finstermeier K and Charpentier E (2024) Dynamics of diversified A-to-I editing in Streptococcus pyogenes is governed by changes in mRNA stability. Nucleic Acids Res. 52(18):11234-11253. doi: 10.1093/nar/gkae629
  13. Gray DA, Wang B, Sidarta M, Cornejo FA, Wijnheijmer J, Rani R, Gamba P, Turgay K, Wenzel M, Strahl H and Hamoen LW (2024) Membrane depolarization kills dormant Bacillus subtilis cells by generating a lethal dose of ROS. Nat. Commun. 15(1):6877. doi: 10.1038/s41467-024-51347-0
  14. Halte M, Andrianova EP, Goosmann C, Chevance FFV, Hughes KT, Zhulin IB and Erhardt M (2024) FlhE functions as a chaperone to prevent formation of periplasmic flagella in Gram-negative bacteria. Nat. Commun. 15(1):5921. doi: 10.1038/s41467-024-50278-0
  15. Osbelt L, Almási ÉDH, Wende M, Kienesberger S, Voltz A, Lesker TR, Muthukumarasamy U, Knischewski N, Nordmann E, Bielecka AA, Giralt-Zúñiga M, Kaganovitch E, Kühne C, Baier C, Pietsch M, Müsken M, Greweling-Pils MC, Breinbauer R, Flieger A, Schlüter D, Müller R, Erhardt M, Zechner EL and Strowig T (2024) Klebsiella oxytoca inhibits Salmonella infection through multiple microbiota-context-dependent mechanisms. Nat. Microbiol. 9(7):1792-1811. doi: 10.1038/s41564-024-01710-0
  16. Lautenschläger N, Schmidt K, Schiffer C, Wulff TF, Hahnke K, Finstermeier K, Mansour M, Elsholz AKW and Charpentier E (2024) Expanding the genetic toolbox for the obligate human pathogen Streptococcus pyogenes. Front. Bioeng. Biotechnol. 12:1395659. doi: 10.3389/fbioe.2024.1395659
  17. Muñoz-Gutierrez V, Cornejo FA, Schmidt K, Frese CK, Halte M, Erhardt M, Elsholz AKW, Turgay K and Charpentier E (2024) Bacillus subtilis remains translationally active after CRISPRi-mediated replication initiation arrest. mSystems 9(4):e0022124. doi: 10.1128/msystems.00221-24
  18. Delgadillo-Guevara M, Halte M, Erhardt M and Popp PF (2024) Fluorescent tools for the standardized work in Gram-negative bacteria. J. Biol. Eng. 18(1):25. doi: 10.1186/s13036-024-00420-9
  19. Daily KP, Badr A, Eltobgy M, Estfanous S, Whitham O, Tan MH, Carafice C, Krause K, McNamara A, Hamilton K, Houle S, Gupta S, Gupta GA, Madhu S, Fitzgerald J, Saadey AA, Laster B, Yan P, Webb A, Zhang X, Pietrzak M, Kokiko-Cochran ON, Ghoneim HE and Amer AO (2024) DNA hypomethylation promotes the expression of CASPASE-4 which exacerbates inflammation and amyloid-β deposition in Alzheimer's disease. Alzheimers Res. Ther. 16(1):29. doi: 10.1186/s13195-024-01390-2
  20. Huerta M, Cornejo F, Aburto C, Illanes A, Vera C and Guerrero C (2024) Enzymatic production of rare sugars with a new mutant of cellobiose 2-epimerase from Caldicellulosiruptor saccharolyticus.  Bioresour. Technol. 391, 129936. doi: 10.1016/j.biortech.2023.129936
  21. Goldlust K, Ducret A, Halte M, Dedieu-Berne A, Erhardt M and Lesterlin C (2023) The F pilus serves as a conduit for the DNA during conjugation between physically distant bacteria. Proc. Natl. Acad. Sci. U. S. A. 120(47):e2310842120. doi: 10.1073/pnas.2310842120
  22. Miao R, Jahn M, Shabestary K, Peltier G and Hudson EP (2023) CRISPR interference screens reveal growth-robustness tradeoffs in Synechocystis sp. PCC 6803 across growth conditions. Plant Cell 35(11):3937-3956. doi.org/10.1093/plcell/koad208
  23. Naseri G, Raasch H, Charpentier E and Erhardt M (2023) A versatile regulatory toolkit of arabinose-inducible artificial transcription factors for Enterobacteriaceae. Commun. Biol. 6(1):1005. doi.org/10.1038/s42003-023-05363-3
  24. Grätz L, Kowalski-Jahn M, Scharf MM, Kozielewicz P, Jahn M, Bous J, Lambert NA, Gloriam DE and Schulte G (2023) Pathway selectivity in Frizzleds is achieved by conserved micro-switches defining pathway-determining, active conformations. Nat. Commun. 14(1):4573. doi: 10.1038/s41467-023-40213-0
  25. Hu H, Popp PF, Santiveri M, Roa-Eguiara A, Yan Y, Martin FJO, Liu Z, Wadhwa N, Wang Y, Erhardt M and Taylor NMI (2023) Ion selectivity and rotor coupling of the Vibrio flagellar sodium-driven stator unit. Nat. Commun. 14(1):4411. doi: 10.1038/s41467-023-39899-z
  26. Saleh DO, Horstmann JA, Giralt-Zúñiga M, Weber W, Kaganovitch E, Durairaj AC, Klotzsch E, Strowig T and Erhardt M (2023) SPI-1 virulence gene expression modulates motility of Salmonella Typhimurium in a proton motive force- and adhesins-dependent manner. PLoS Pathog. 19(6):e1011451. doi: 10.1371/journal.ppat.1011451
  27. Roske Y, Lindemann F, Diehl A, Cremer N, Higman VA, Schlegel B, Leidert M, Driller K, Turgay K, Schmieder P, Heinemann U and Oschkinat H (2023) TapA acts as specific chaperone in TasA filament formation by strand complementation. Proc. Natl. Acad. Sci. U. S. A. 120(17):e2217070120. doi: 10.1073/pnas.2217070120
  28. Tcyganov EN, Sanseviero E, Marvel D, Beer T, Tang HY, Hembach P, Speicher DW, Zhang Q, Donthireddy LR, Mostafa A, Tsyganova S, Pisarev V, Laufer T, Ignatov D, Ferrone S, Meyer C, Maby-El Hajjami H, Speiser DE, Altiok S, Antonia S, Xu X, Xu W, Zheng C, Schuchter LM, Amaravadi RK, Mitchell TC, Karakousis GC, Yuan Z, Montaner LJ, Celis E and Gabrilovich DI (2022) Peroxynitrite in the tumor microenvironment changes the profile of antigens allowing escape from cancer immunotherapy. Cancer Cell 40(10):1173-1189.e6. doi: 10.1016/j.ccell.2022.09.001
  29. Buttress JA, Halte M, Te Winkel JD, Erhardt M, Popp PF and Strahl H (2022) A guide for membrane potential measurements in Gram-negative bacteria using voltage-sensitive dyes. Microbiology 168(9). doi: 10.1099/mic.0.001227
  30. Christensen S, Rämisch S and André I (2022) DnaK response to expression of protein mutants is dependent on translation rate and stability. Commun. Biol. 5(1):597. doi: 10.1038/s42003-022-03542-2
  31. Stelbrink B, Von Rintelen T, Richter K, Finstermeier K, Frahnert S, Cracraft J and Hofreiter M (2022) Insights into the geographical origin and phylogeographical patterns of Paradisaea birds-of-paradise. Zool. J. Linn. Soc. Vol. 196 (4), p.1394-1407.      doi.org/10.1093/zoolinnean/zlac010
  32. Badr A, Eltobgy M, Krause K, Hamilton K, Estfanous S, Daily KP, Abu Khweek A, Hegazi A, Anne MNK, Carafice C, Robledo-Avila F, Saqr Y, Zhang X, Bonfield TL, Gavrilin MA, Partida-Sanchez S, Seveau S, Cormet-Boyaka E and Amer AO (2022) CFTR Modulators Restore Acidification of Autophago-Lysosomes and Bacterial Clearance in Cystic Fibrosis Macrophages. Front. Cell. Infect. Microbiol. 12:819554. doi: 10.3389/fcimb.2022.819554
  33. Halte M, Wörmann ME, Bogisch M, Erhardt M and Tschowri N (2022) BldD-based bimolecular fluorescence complementation for in vivo detection of the second messenger cyclic di-GMP. Mol. Microbiol. 117(3):705-713. doi: 10.1111/mmi.14876
  34. Glaser LV, Steiger M, Fuchs A, van Bömmel A, Einfeldt E, Chung HR, Vingron M and Meijsing SH (2021)Assessing genome-wide dynamic changes in enhancer activity during early mESC differentiation by FAIRE-STARR-seq. Nucleic Acids Res. 49(21):12178-12195. doi: 10.1093/nar/gkab1100
  35. Vowinckel J, Hartl J, Marx H, Kerick M, Runggatscher K, Keller MA, Mülleder M, Day J, Weber M, Rinnerthaler M, Yu JSL, Aulakh SK, Lehmann A, Mattanovich D, Timmermann B, Zhang N, Dunn CD, MacRae JI, Breitenbach M et al. (2021) The metabolic growth limitations of petite cells lacking the mitochondrial genome. Nat. Metabol. 3(11), 1521–1535. doi: 10.1038/s42255-021-00477-6
  36. Birk MS, Charpentier E and Frese CK (2021) Automated phosphopeptide enrichment for Gram-positive bacteria. J. Proteome Res. 20(10):4886-4892. doi: 10.1021/acs.jproteome.1c00364
  37. Guse A, Halte M, Hüsing S and Erhardt M (2021) Hook-basal-body assembly state dictates substrate specificity of the flagellar type-III secretion system. Mol. Microbiol. 116(4):1189-1200. doi: 10.1111/mmi.14805
  38. Bothe M, Buschow R and Meijsing SH (2021) Glucocorticoid signaling induces transcriptional memory and universally reversible chromatin changes. Life Sci. Alliance 4(10):e202101080. doi: 10.26508/lsa.202101080
  39. Birk MS, Ahmed-Begrich R, Tran S, Elsholz AKW, Frese CK and Charpentier E (2021) Time-resolved proteome analysis of Listeria monocytogenes during infection reveals the role of the AAA+ chaperone ClpC for host cell adaptation. mSystems 6(4):e0021521. doi: 10.1128/mSystems.00215-21
  40. Krishnamoorthy G, Kaiser P, Constant P, Abu Abed U, Schmid M, Frese CK, Brinkmann V, Daffé M and Kaufmann SHE (2021) Role of premycofactocin synthase in growth, microaerophilic adaptation, and metabolism of Mycobacterium tuberculosis. mBio 12(4):e0166521. doi: 10.1128/mBio.01665-21
  41. Estfanous S, Daily KP, Eltobgy M, Deems NP, Anne MNK, Krause K, Badr A, Hamilton K, Carafice C, Hegazi A, Abu Khweek A, Kelani H, Nimjee S, Awad H, Zhang X, Cormet-Boyaka E, Haffez H, Soror S, Mikhail A, Nuovo G, Barrientos RM, Gavrilin MA and Amer AO (2021) Elevated expression of MiR-17 in microglia of Alzheimer's disease patients abrogates autophagy-mediated amyloid-β degradation. Front. Immunol. 12:705581. doi: 10.3389/fimmu.2021.705581
  42. Hüsing S, Halte M, van Look U, Guse A, Gálvez EJC, Charpentier E, Blair DF, Erhardt M and Renault TT (2021)Control of membrane barrier during bacterial type-III protein secretion. Nat. Commun. 12(1):3999. doi: 10.1038/s41467-021-24226-1
  43. Kulik M, Bothe M, Kibar G, Fuchs A, Schöne S, Prekovic S, Mayayo-Peralta I, Chung HR, Zwart W, Helsen C, Claessens F and Meijsing SH (2021) Androgen and glucocorticoid receptor direct distinct transcriptional programs by receptor-specific and shared DNA binding sites. Nucleic Acids Res. 49(7):3856-3875. doi: 10.1093/nar/gkab185
  44. Otaru N, Ye K, Mujezinovic D, Berchtold L, Constancias F, Cornejo FA, Krzystek A, de Wouters T, Braegger C, Lacroix C and Pugin B (2021) GABA production by human intestinal Bacteroides spp.: Prevalence, regulation, and role in acid stress tolerance. Front. Microbiol. 12:656895. doi: 10.3389/fmicb.2021.656895
  45. Beerens D, Franch-Arroyo S, Sullivan TJ, Goosmann C, Brinkmann V and Charpentier E (2021) Survival strategies of Streptococcus pyogenes in response to phage infection. Viruses 13(4):612. doi: 10.3390/v13040612
  46. Apel F, Andreeva L, Knackstedt LS, Streeck R, Frese CK, Goosmann C, Hopfner KP and Zychlinsky A (2021) The cytosolic DNA sensor cGAS recognizes neutrophil extracellular traps. Sci. Signal. 14(673):eaax7942. doi: 10.1126/scisignal.aax7942
  47. Estfanous S, Krause K, Anne MNK, Eltobgy M, Caution K, Abu Khweek A, Hamilton K, Badr A, Daily K, Carafice C, Baetzhold D, Zhang X, Li T, Wen H, Gavrilin MA, Haffez H, Soror S and Amer AO (2021) Gasdermin D restricts Burkholderia cenocepacia infection in vitro and in vivo. Sci. Rep. 11(1):855. doi: 10.1038/s41598-020-79201-5
  48. Gálvez EJC, Iljazovic A, Amend L, Lesker TR, Renault T, Thiemann S, Hao L, Roy U, Gronow A, Charpentier E and Strowig T (2020) Distinct polysaccharide utilization determines interspecies competition between intestinal Prevotella spp. Cell Host Microbe. 28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012
  49. Bae-Gartz I, Kasper P, Großmann N, Breuer S, Janoschek R, Kretschmer T, Appel S, Schmitz L, Vohlen C, Quaas A, Schweiger MR, Grimm C, Fischer A, Ferrari N, Graf C, Frese CK, Lang S, Demir M, Schramm C, Fink G, Goeser T, Dötsch J and Hucklenbruch-Rother E (2020) Maternal exercise conveys protection against NAFLD in the offspring via hepatic metabolic programming. Sci. Rep. 10(1):15424. doi: 10.1038/s41598-020-72022-6
  50. Pausch P, Abdelshahid M, Steinchen W, Schäfer H, Gratani FL, Freibert SA, Wolz C, Turgay K, Wilson DN and Bange G (2020) Structural Basis for Regulation of the Opposing (p)ppGpp Synthetase and Hydrolase within the Stringent Response Orchestrator Rel. Cell Rep. 32(11):108157. doi: 10.1016/j.celrep.2020.108157
  51. Schnirch L, Nadler-Holly M, Siao SW, Frese CK, Viner R and Liu F (2020) Expanding the depth and sensitivity of cross-link identification by differential ion mobility using high-field asymmetric waveform ion mobility spectrometry. Anal. Chem. 92(15):10495-10503. doi: 10.1021/acs.analchem.0c01273
  52. Lautenschläger N, Popp PF and Mascher T (2020) Development of a novel heterologous β-lactam-specific whole-cell biosensor in Bacillus subtilis. J. Biol. Eng. 14:21. doi: 10.1186/s13036-020-00243-4
  53. Bratovič M, Fonfara I, Chylinski K, Gálvez EJC, Sullivan TJ, Boerno S, Timmermann B, Boettcher M and Charpentier E (2020) Bridge helix arginines play a critical role in Cas9 sensitivity to mismatches. Nat. Chem. Biol. 16(5):587-595. doi: 10.1038/s41589-020-0490-4
  54. Righetti F, Materne SL, Boss J, Eichner H, Charpentier E and Loh E (2020) Characterization of a transcriptional TPP riboswitch in the human pathogen Neisseria meningitidis. RNA Biol. 17(5):718-730. doi: 10.1080/15476286.2020.1727188
  55. Broglia L, Lécrivain AL, Renault TT, Hahnke K, Ahmed-Begrich R, Le Rhun A and Charpentier E (2020) An RNA-seq based comparative approach reveals the transcriptome-wide interplay between 3'-to-5' exoRNases and RNase Y. Nat. Commun. 11(1):1587. doi: 10.1038/s41467-020-15387-6
  56. Schäfer H, Beckert B, Frese CK, Steinchen W, Nuss AM, Beckstette M, Hantke I, Driller K, Sudzinová P, Krásný L, Kaever V, Dersch P, Bange G, Wilson DN and Turgay K (2020) The alarmones (p)ppGpp are part of the heat shock response of Bacillus subtilis. PLoS Genet. 16(3):e1008275. doi: 10.1371/journal.pgen.1008275
  57. Mulvenna N, Hantke I, Burchell L, Nicod S, Bell D, Turgay K and Wigneshweraraj S (2019) Xenogeneic modulation of the ClpCP protease of Bacillus subtilis by a phage-encoded adaptor-like protein. J. Biol. Chem. 294(46):17501-17511. doi: 10.1074/jbc.RA119.010007
  58. Ratner HK, Escalera-Maurer A, Le Rhun A, Jaggavarapu S, Wozniak JE, Crispell EK, Charpentier E and Weiss DS (2019) Catalytically active Cas9 mediates transcriptional interference to facilitate bacterial virulence. Mol. Cell75(3):498-510. doi: 10.1016/j.molcel.2019.05.029
  59. Lécrivain AL, Le Rhun A, Renault TT, Ahmed-Begrich R, Hahnke K and Charpentier E (2018) In vivo 3’-to-5’ exoribonuclease targetomes of Streptococcus pyogenes. Proc. Natl. Acad. Sci. U. S. A. 115(46):11814-11819. doi: 10.1073/pnas.1809663115
  60. Broglia L, Materne S, Lécrivain AL, Hahnke K, Le Rhun A and Charpentier E (2018) RNase Y-mediated regulation of the streptococcal pyrogenic exotoxin B. RNA Biol. 15(10):1336-1347. doi: 10.1080/15476286.2018.1532253
  61. Labuhn M, Adams FF, NG M, Knoess S, Schambach A, Charpentier E, Schwarzer A, Mateo JL, Klusmann JH and Heckl D (2018) Refined sgRNA efficacy prediction improves large- and small-scale CRISPR-Cas9 applications. Nucleic Acids Res. 46(3):1375-1385. doi: 10.1093/nar/gkx1268
  62. Fabiani FD, Renault TT, Peters B, Dietsche T, Gálvez EJC, Guse A, Freier K, Charpentier E, Strowig T, Franz-Wachtel M, Macek B, Wagner S, Hensel M and Erhardt M (2017) A flagellum-specific chaperone facilitates assembly of the core type III export apparatus of the bacterial flagellum. PLoS Biol. 15(8):e2002267. doi: 10.1371/journal.pbio.2002267
  63. Reimer J, Knöss S, Labuhn M, Charpentier E, Göhring G, Schlegelberger B, Klusmann JH and Heckl D (2017)CRISPR-Cas9-induced t(11;19)/MLL-ENL translocations initiate leukemia in human hematopoietic progenitor cells in vivo. Haematologica 102(9):1558-1566. doi: 10.3324/haematol.2017.164046
  64. Renault TT, Abraham AO, Bergmiller T, Paradis G, Rainville S, Charpentier E, Guet CC, Tu Y, Namba K, Keener JP, Minamino T and Erhardt M (2017) Bacterial flagella grow through an injection-diffusion mechanism. Elife. doi: 10.7554/eLife.23136
  65. Le Rhun A, Lécrivain AL, Reimegård J, Proux-Wéra E, Broglia L, Della Beffa C and Charpentier E (2017)Identification of endoribonuclease specific cleavage positions reveals novel targets of RNase III in Streptococcus pyogenes. Nucleic Acids Res. 45(5):2329-2340. doi: 10.1093/nar/gkw1316
  66. Eggenschwiler R, Moslem M, Fráguas MS, Galla M, Papp O, Naujock M, Fonfara I, Gensch I, Wähner A, Beh-Pajooh A, Mussolino C, Tauscher M, Steinemann D, Wegner F, Petri S, Schambach A, Charpentier E, Cathomen T and Cantz T (2016) Improved bi-allelic modification of a transcriptionally silent locus in patient-derived iPSC by Cas9 nickase. Sci. Rep. 6:38198. doi: 10.1038/srep38198
  67. Resch U, Tsatsaronis JA, Le Rhun A, Stübiger G, Rohde M, Kasvandik S, Holzmeister S, Tinnefeld P, Wai SN and Charpentier E (2016) A two-component regulatory system impacts extracellular membrane-derived vesicle production in group A streptococcus. MBio 7(6):e00207-16. doi: 10.1128/mBio.00207-16
  68. Richter F, Fonfara I, Bouazza B, Schumacher CH, Bratovič M, Charpentier E and Möglich A (2016) Engineering of temperature- and light-switchable Cas9 variants. Nucleic Acids Res. 44(20):10003-10014. doi: 10.1093/nar/gkw930
  69. Labenski V, Suerth JD, Barczak E, Heckl D, Levy C, Bernadin O, Charpentier E, Williams DA, Fehse B, Verhoeyen E and Schambach A (2016) Alpharetroviral self-inactivating vectors produced by a superinfection-resistant stable packaging cell line allow genetic modification of primary human T lymphocytes. Biomaterials 97:97-109. doi: 10.1016/j.biomaterials.2016.04.019
  70. Fonfara I, Richter H, Bratovič M, Le Rhun A and Charpentier E (2016) The CRISPR-associated DNA-cleaving enzyme Cpf1 also processes precursor CRISPR RNA. Nature 532(7600):517-521. doi: 10.1038/nature17945
  71. Le Rhun A, Beer YY, Reimegård J, Chylinski K and Charpentier E (2016) RNA sequencing uncovers antisense RNAs and novel small RNAs in Streptococcus pyogenes. RNA Biol. 13(2):177-195. doi: 10.1080/15476286.2015

 

Editorials, Opinions, Comments, Voices, Previews & Perspectives

  1. Ignatov D, Shanmuganathan V and Charpentier E (2024) A prokaryotic Argonaute protein recruits a helicase-nuclease to degrade invading plasmids. Cell 187(19):5223-5225. doi: 10.1016/j.cell.2024.08.031
  2. Cech TR, Charpentier E, Ciechanover A, Lefkowitz RJ and Wüthrich K (2024) Reflections from Nobel laureates in chemistry. Cell Chem. Biol. 31(8):1388-1390. doi: 10.1016/j.chembiol.2024.07.016
  3. Naseri G (2023) A roadmap to establish a comprehensive platform for sustainable manufacturing of natural products in yeast. Nat. Commun. 14(1):1916. doi: 10.1038/s41467-023-37627-1
  4. Popp PF and Erhardt M (2022) Supercoiled filaments propel them all. Cell 185(19):3461-3463. doi: 10.1016/j.cell.2022.08.016
  5. Zhan X and Jungblut PR (2022) The comparison between 2DE-MS and bottom-up LC-MS demands high-end techniques for both technologies. Electrophoresis 43(11):1242-1245. doi: 10.1002/elps.202200036
  6. Dougan DA, Alver R and Turgay K (2021) Exploring a potential Achilles heel of Mycobacterium tuberculosis: defining the ClpC1 interactome. FEBS J. 288(1):95-98. doi: 10.1111/febs.15430
  7. Davies K and Charpentier E (2019) Finding her niche: An interview with Emmanuelle Charpentier. CRISPR J. 2:17-22. doi: 10.1089/crispr.2019.29042.kda
  8. Charpentier E, Elsholz A and Marchfelder A (2019) CRISPR-Cas: more than ten years and still full of mysteries. RNA Biol. 16(4):377-379. doi: 10.1080/15476286.2019.1591659
  9. Lander ES, Baylis F, Zhang F, Charpentier E, Berg P, Bourgain C, Friedrich B, Joung JK, Li J, Liu D, Naldini L, Nie JB, Qiu R, Schoene-Seifert B, Shao F, Terry S, Wei W and Winnacker EL (2019) Adopt a moratorium on heritable genome editing. Nature 567(7747):165-168. doi: 10.1038/d41586-019-00726-5
  10. Charpentier E. (2018) Spotlight on… Emmanuelle Charpentier. FEMS Microbiol. Lett. 365(4). doi: 10.1093/femsle/fnx271
  11. Hurwitz JL, Jones BG, Charpentier E and Woodland DL (2017) Hypothesis: RNA and DNA viral sequence integration into the mammalian host genome supports long-term B cell and T cell adaptive immunity. Viral Immunol. 30(9):628-632. doi: 10.1089/vim.2017.0099

 

​​​​​​​Review Articles

  1. Hinneburg H, Gu S and Naseri G (2025) Fungal innovations - Advancing sustainable materials, genetics, and applications for industry. J. Fungi. 11 (10): doi: 10.3390/jof11100721
  2. Hengge R, Pruteanu M, Stülke J, Tschowri N and Turgay K (2023) Recent advances and perspectives in nucleotide second messenger signaling in bacteria. Microlife. 4:uqad015. doi: 10.1093/femsml/uqad015
  3. Driller K, Cornejo FA and Turgay K (2023) (p)ppGpp - an important player during heat shock response. Microlife. 4:uqad017. doi: 10.1093/femsml/uqad017
  4. Broglia L, Le Rhun A and Charpentier E (2023) Methodologies for bacterial ribonuclease characterization using RNA-seq. FEMS Microbiol. Rev. 47(5):fuad049. doi: 10.1093/femsre/fuad049
  5. Makarova KS, Wolf YI, Iranzo J, Shmakov SA, Alkhnbashi OS, Brouns SJJ, Charpentier E, Cheng D, Haft DH, Horvath P, Moineau S, Mojica FJM, Scott D, Shah SA, Siksnys V, Terns MP, Venclovas Č, White MF, Yakunin AF, Yan W, Zhang F, Garrett RA, Backofen R, van der Oost J, Barrangou R and Koonin EV (2020) Evolutionary classification of CRISPR-Cas systems: a burst of class 2 and derived variants. Nat. Rev. Microbiol. 18(2):67-83. doi: 10.1038/s41579-019-0299-x
  6. Zhan X, Li B, Zhan X, Schlüter H, Jungblut PR and Coorssen JR (2019) Innovating the concept and practice of two-dimensional gel electrophoresis in the analysis of proteomes at the proteoform level. Proteomes 7(4):36. doi: 10.3390/proteomes7040036
  7. Le Rhun A, Escalera-Maurer A, Bratovič M and Charpentier E (2019) CRISPR-Cas in Streptococcus pyogenes.RNA Biol. 16(4):380-389. doi: 10.1080/15476286.2019.1582974
  8. Ugolini M and Sander LE (2019) Dead or alive: how the immune system detects microbial viability. Curr. Opin. Immunol. 56:60-66. doi: 10.1016/j.coi.2018.09.018
  9. Tsatsaronis JA, Franch-Arroyo S, Resch U and Charpentier E (2018) Extracellular vesicle RNA: A universal mediator of microbial communication? Trends Microbiol. 26(5):401-410.  doi: 10.1016/j.tim.2018.02.009
  10. Hille F, Richter H, Wong SP, Bratovič M, Ressel S and Charpentier E (2018) The biology of CRISPR-Cas: Backward and forward. Cell 172(6):1239-1259. doi: 10.1016/j.cell.2017.11.032
  11. Elsholz AKW, Birk MS, Charpentier E and Turgay K (2017) Functional diversity of AAA+ protease complexes in Bacillus subtilis. Front. Mol. Biosci. 4:44. doi: 10.3389/fmolb.2017.00044
  12. Richter F, Fonfara I, Gelfert R, Nack J, Charpentier E and Möglich A (2017) Switchable Cas9. Curr. Opin. Biotechnol. 48:119-126. doi: 10.1016/j.copbio.2017.03.025
  13. Hille F and Charpentier E (2016) CRISPR-Cas: biology, mechanisms and relevance. Philos. Trans. R. Soc. Lond. B. Biol. Sci. 371(1707):20150496. doi: 10.1098/rstb.2015.0496
  14. Sternberg SH, Richter H, Charpentier E and Qimron U (2016) Adaptation in CRISPR-Cas systems. Mol. Cell 61(6):797-808. doi: 10.1016/j.molcel.2016.01.030
  15. Barthelme D and Sauer RT (2016) Origin and Functional Evolution of the Cdc48/p97/VCP AAA+ Protein Unfolding and Remodeling Machine. J. Mol. Biol. 428(9 Pt B):1861-9. doi: 10.1016/j.jmb.2015.11.015

 

​​​​​​​Book Chapters

  1. Einenkel R, Halte M and Erhardt M (2024) Quantifying substrate protein secretion via the Type III secretion system of the bacterial flagellum. In: Journet, L., Cascales, E. (eds) Bacterial Secretion Systems. Methods in Molecular Biology, vol 2715. Humana, New York, NY. doi: 10.1007/978-1-0716-3445-5_36
  2. Alagesan K and Charpentier E (2023) Systems-Wide Site-Specific Analysis of Glycoproteins. In: Gevaert, K. (eds) Mass Spectrometry-Based Proteomics. Methods in Molecular Biology, vol 2718. Humana, New York, NY. doi: 10.1007/978-1-0716-3457-8_9
  3. Lisacek F, Alagesan K, Hayes C, Lippold S and de Haan N (2021) Bioinformatics in Immunoglobulin Glycosylation Analysis. In: Pezer, M. (eds) Antibody Glycosylation. Experientia Supplementum, vol 112. Springer, Cham. doi: 10.1007/978-3-030-76912-3_6
  4. Alagesan K, Hoffmann M, Rapp E and Kolarich D (2020) Glycoproteomics Technologies in Glycobiotechnology. In: Rapp, E., Reichl, U. (eds) Advances in Glycobiotechnology. Advances in Biochemical Engineering/Biotechnology, vol 175. Springer, Cham. doi.org/10.1007/10_2020_144

 

 

 

 

 

 

 

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