Publications
Here you can find some selected publications (last update: Jan 2022).
For the full publication list please refer to the PubMed site.
Liao Y, Vogel V, Hauber S, Bartel J, Alkhnbashi OS, Maaß S, Schwarz TS, Backofen R, Becher D, Duggin IG, Marchfelder A. CdrS Is a Global Transcriptional Regulator Influencing Cell Division in Haloferax volcanii. mBio. 2021 Aug 31;12(4):e0141621. doi: 10.1128/mBio.01416-21. Epub 2021 Jul 13. PMID:34253062; PMCID: PMC8406309.
Märkle P, Maier LK, Maaß S, Hirschfeld C, Bartel J, Becher D, Voß B, Marchfelder A. A Small RNA Is Linking CRISPR-Cas and Zinc Transport. Front Mol Biosci. 2021 May 13;8:640440. doi: 10.3389/fmolb.2021.640440. PMID: 34055875; PMCID: PMC8155600.
Schwarz TS, Berkemer SJ, Bernhart SH, Weiß M, Ferreira-Cerca S, Stadler PF, Marchfelder A. Splicing Endonuclease Is an Important Player in rRNA and tRNA Maturation in Archaea. Front Microbiol. 2020 Nov 20;11:594838. doi:10.3389/fmicb.2020.594838. PMID: 33329479; PMCID: PMC7714728.
Turkowyd B, Schreiber S, Wörtz J, Segal ES, Mevarech M, Duggin IG, Marchfelder A, Endesfelder U. Establishing Live-Cell Single-Molecule Localization Microscopy Imaging and Single-Particle Tracking in the Archaeon Haloferax volcanii. Front Microbiol. 2020 Nov 20;11:583010. doi:10.3389/fmicb.2020.583010. PMID: 33329447; PMCID: PMC7714787.
Stachler AE, Wörtz J, Alkhnbashi OS, Turgeman-Grott I, Smith R, Allers T, Backofen R, Gophna U, Marchfelder A. Adaptation induced by self-targeting in a type I-B CRISPR-Cas system. J Biol Chem. 2020 Sep 25;295(39):13502-13515. doi:10.1074/jbc.RA120.014030. Epub 2020 Jul 28. PMID: 32723866; PMCID:PMC7521656.
Schulze S, Adams Z, Cerletti M, De Castro R, Ferreira-Cerca S, Fufezan C, Giménez MI, Hippler M, Jevtic Z, Knüppel R, Legerme G, Lenz C, Marchfelder A, Maupin-Furlow J, Paggi RA, Pfeiffer F, Poetsch A, Urlaub H, Pohlschroder M. The archaeal Proteome Project advances knowledge about archaeal cell biology through comprehensive proteomics. Nat Commun. 2020 Jun 19;11(1):3145. doi:10.1038/s41467-020-16784-7. PMID: 32561711; PMCID: PMC7305310.
Berkemer SJ, Maier LK, Amman F, Bernhart SH, Wörtz J, Märkle P, Pfeiffer F, Stadler PF, Marchfelder A. Identification of RNA 3´ ends and termination sites in Haloferax volcanii. RNA Biol. 2020 May;17(5):663-676. doi:10.1080/15476286.2020.1723328. Epub 2020 Feb 10. PMID: 32041469; PMCID:PMC7237163.
Kubatova N, Pyper DJ, Jonker HRA, Saxena K, Remmel L, Richter C, Brantl S, Evguenieva-Hackenberg E, Hess WR, Klug G, Marchfelder A, Soppa J, Streit W, Mayzel M, Orekhov VY, Fuxreiter M, Schmitz RA, Schwalbe H. Rapid Biophysical Characterization and NMR Spectroscopy Structural Analysis of Small Proteins from Bacteria and Archaea. Chembiochem. 2020 Apr 17;21(8):1178-1187. doi:10.1002/cbic.201900677. Epub 2020 Jan 21. PMID: 31705614; PMCID: PMC7217052.
Maier LK, Marchfelder A, Randau L. Meeting Report: German Genetics Society-Genome Editing with CRISPR. Bioessays. 2020 Feb;42(2):e1900223. doi:10.1002/bies.201900223. Epub 2019 Dec 19. PMID: 31853989.
Pfeiffer F, Losensky G, Marchfelder A, Habermann B, Dyall-Smith M. Whole-genome comparison between the type strain of Halobacterium salinarum (DSM 3754<sup>T</sup> ) and the laboratory strains R1 and NRC-1. Microbiologyopen. 2020 Feb;9(2):e974. doi: 10.1002/mbo3.974. Epub 2019 Dec 3.PMID: 31797576; PMCID: PMC7002104.
Stachler AE, Schwarz TS, Schreiber S, Marchfelder A. CRISPRi as an efficient tool for gene repression in archaea. Methods. 2020 Feb 1;172:76-85. doi:10.1016/j.ymeth.2019.05.023. Epub 2019 May 28. PMID: 31150759.
Kubatova N, Jonker HRA, Saxena K, Richter C, Vogel V, Schreiber S, Marchfelder A, Schwalbe H. Solution Structure and Dynamics of the Small Protein HVO_2922 from Haloferax volcanii. Chembiochem. 2020 Jan 15;21(1-2):149-156. doi:10.1002/cbic.201900085. Epub 2019 Sep 26. PMID: 31161645.
Marchfelder A. CRISPR-Cas: In Rekordzeit von der Grundlagenforschung zur Anwendung. Biospektrum (Heidelb). 2020;26(7):806. German. doi:10.1007/s12268-020-1500-5. Epub 2020 Nov 25. PMID: 33250580; PMCID: PMC7686457.
Jevtić Ž, Stoll B, Pfeiffer F, Sharma K, Urlaub H, Marchfelder A, Lenz C. The Response of Haloferax volcanii to Salt and Temperature Stress: A Proteome Study by Label-Free Mass Spectrometry. Proteomics. 2019 Oct;19(20):e1800491. doi: 10.1002/pmic.201800491. Epub 2019 Sep 30. PMID: 31502396.
Schwarz TS, Wäber NB, Feyh R, Weidenbach K, Schmitz RA, Marchfelder A, Hartmann RK. Homologs of Aquifex aeolicus protein-only RNase P are not the major RNase P activities in the archaea Haloferax volcanii and Methanosarcina mazei. IUBMB Life. 2019 Aug;71(8):1109-1116. doi: 10.1002/iub.2122. Epub 2019 Jul 8. PMID: 31283101.
Pfeiffer F, Marchfelder A, Habermann B, Dyall-Smith ML. The Genome Sequence of the Halobacterium salinarum Type Strain Is Closely Related to That of Laboratory Strains NRC-1 and R1. Microbiol Resour Announc. 2019 Jul 11;8(28):e00429-19. doi: 10.1128/MRA.00429-19. PMID: 31296677; PMCID: PMC6624760.
Charpentier E, Elsholz A, Marchfelder A. CRISPR-Cas: more than ten years and still full of mysteries. RNA Biol. 2019 Apr;16(4):377-379. doi:10.1080/15476286.2019.1591659. PMID: 31009325; PMCID: PMC6546415.
Maier LK, Stachler AE, Brendel J, Stoll B, Fischer S, Haas KA, Schwarz TS, Alkhnbashi OS, Sharma K, Urlaub H, Backofen R, Gophna U, Marchfelder A. The nuts and bolts of the Haloferax CRISPR-Cas system I-B. RNA Biol. 2019
Apr;16(4):469-480. doi: 10.1080/15476286.2018.1460994. Epub 2018 May 21. PMID:29649958; PMCID: PMC6546412.
Maier LK, Marchfelder A. It's all about the T: transcription termination in archaea. Biochem Soc Trans. 2019 Feb 28;47(1):461-468. doi: 10.1042/BST20180557. Epub 2019 Feb 19. PMID: 30783016.
Turgeman-Grott I, Joseph S, Marton S, Eizenshtein K, Naor A, Soucy SM, Stachler AE, Shalev Y, Zarkor M, Reshef L, Altman-Price N, Marchfelder A, Gophna U. Pervasive acquisition of CRISPR memory driven by inter-species mating of archaea can limit gene transfer and influence speciation. Nat Microbiol. 2019 Jan;4(1):177-186. doi: 10.1038/s41564-018-0302-8. Epub 2018 Nov 26. PMID 30478289; PMCID: PMC6298592.
Clouet-d'Orval B, Batista M, Bouvier M, Quentin Y, Fichant G, Marchfelder A, Maier LK. Insights into RNA-processing pathways and associated RNA-degrading enzymes in Archaea. FEMS Microbiol Rev. 2018 Sep 1;42(5):579-613. doi:10.1093/femsre/fuy016. PMID: 29684129.
Gophna, U, Allers T and Marchfelder A, (2017). Finally, archaea get their CRISPR-Cas toolbox. Trends Microbiol. 2017 Jun;25(6):430-432. doi:10.1016/j.tim.2017.03.009. Epub 2017 Apr 6. PMID: 28391963.
Ma M, Li de la Sierra-Gallay I, Lazar N, Pellegrini O, Durand D, Marchfelder A, Condon C and van Tilbeurgh H (2017) The crystal structure of Trz1, the long form RNase Z from yeast. Nucleic Acids Res. 2017 Jun 2;45(10):6209-6216. doi:10.1093/nar/gkx216. PMID: 28379452; PMCID: PMC5449637.
Maier, L.K., Alkhnbashi, O.S., Backofen, R. and Marchfelder, A. (2017) CRISPR AND SALTY - CRISPR-Cas systems in Haloarchaea. in NAMB (Nucleic Acids and Molecuar Biology) Volume” RNA metabolism and gene expression in Archaea ed. Clouet-d´ Orval, B.; Springer, in press
Stachler, AE, Turgeman-Grott, I, Shtifman Segal, E, Allers, T., Marchfelder, A. and Gophna, U. (2017) High tolerance to self-targeting of the genome by the endogenous CRISPR-Cas system in an archaeon. Nucleic Acids Res, in press
Babski J, Haas KA, Näther-Schindler D, Pfeiffer F, Förstner KU, Hammelmann M, Hilker R, Becker A, Sharma CM, Marchfelder A*, Soppa J.* (2016) Genome-wide identification of transcriptional start sites in the haloarchaeon Haloferax volcanii based on differential RNA-Seq (dRNA-Seq). BMC Genomics, 17: 629. * joint corresponding author
Stachler AE and Marchfelder A (2016) Gene Repression in Haloarchaea using the CRISPR (clustered regularly interspaced short palindromic repeats) - Cas I-B system. J Biol Chem, 291: 15226-42
Sharma K, Hrle A, Kramer K, Sachsenberg T, Staals RH, Randau L, Marchfelder A, van der Oost J, Kohlbacher O, Conti E, Urlaub H (2015) Analysis of protein-RNA interactions in CRISPR proteins and effector complexes by UV-induced cross-linking and mass spectrometry. Methods, 89: 138-48
DB Cass SDB, Haas KA, Stoll B, Alkhnbashi O, Sharma K, Urlaub H, Backofen R, Marchfelder A and Bolt EL (2015) The role of Cas8 in type I CRISPR interference, Bioscience Reports, 35: e00197
Maier, L.K., Dyall-Smith M, Marchfelder A. (2015) The adaptive immune system of Haloferax volcanii, Life, 5: 521-37.
Maier, L.K., Benz, J., Fischer, S., Alstetter, M., Jaschinski, K., Hilker, R., Becker, A., Allers, T., Soppa, J. and Marchfelder, A. (2015) Deletion of the Sm1 encoding motif in the lsm gene result in distinct changes in the transcriptome and enhanced swarming activity of Haloferax cells, Biochemie, 117: 129-137
Maier, L.K., Stachler, A., Saunders, S.J., Backofen R and Marchfelder, A. (2015) An Active Immune Defence with a Minimal CRISPR (clustered regularly interspaced short palindromic repeats) RNA and Without the Cas6 Protein. J Biol Chem., 290: 4192-201
Hrle, A., Maier, L.-K., Sharma, K., Ebert, J, R., Basquin, C., Urlaub, H., Marchfelder, A. and Conti, E. (2014) Structural analyses of the CRISPR protein Csc2 reveal the RNA binding interface of the type I-D Cas7 family. RNA Biology, 11: 1072-82
Babski, J., Maier, L.K., Heyer, R., Jaschinski, J., Prasse, D., Jäger, D., Randau, L., Schmitz, R.A., Marchfelder, A. and Soppa, J. (2014) Small regulatory RNAs in Archaea. RNA Biology, 11: 484-93
Jaschinski, K., Babski, J., Lehr, M., Burmester, A., Benz, J., Heyer, R., Dörr, M., Marchfelder, A. and Soppa, J. (2014) Generation and phenotyping of a collection of sRNA gene deletion mutants of the haloarchaeon Haloferax volcanii. PlosONE, 9: e90763
Brendel J., Stoll B., Lange S.J., Sharma K., Lenz C., Stachler A.E., Maier L.K., Richter H., Nickel L., Schmitz R.A., Randau L., Allers T., Urlaub H., Backofen R., Marchfelder A. (2014) A complex of Cas proteins 5, 6, and 7 is required for the biogenesis and stability of crRNAs in Haloferax volcanii. J Biol Chem, 289: 7164-7177
Marchfelder, A, Maier, L.-K., Heidrich, N., Pul, Ü. (2013) CRISPR-Cas: das Immunsystem der Prokaryoten. Biologie in unserer Zeit, 43: 158-165
Stoll, B., Maier, L.-K., Lange, S. J., Brendel, J., Fischer, S., Backofen, R. and Marchfelder, A. (2013) Requirements for a successful defence reaction by the CRISPR/Cas type I-B system. Biochem. Soc. Trans., 41: 1444-1448
Marchfelder, A. (2013) A Sophisticated Defense System: CRISPR-Cas. RNA Biology, 10: 665-658
Maier, L.-K., Lange, S. J., Stoll, B., Haas, K. A., Fischer, S., Fischer, E., Duchardt-Ferner, E., Wöhnert, J., Backofen, R. and Marchfelder, A. (2013) Essential requirements to detect and degrade invaders. RNA Biology, 10: 865-874
Skowronek, E., Grzechnik, P., Späth, B., Rösch, S., Marchfelder, A. and Kufel, J. (2013) Pathways for 3’ processing of yeast tRNAs involve tRNase Z, Rex1 and Rrp6. RNA, 20: 115-130
Maier LK, Fischer S, Stoll B, Brendel J, Pfeiffer F, Dyall-Smith M, Marchfelder A. (2013) The ring of confidence: a haloarchaeal CRISPR/Cas system. Biochem. Soc. Trans., 41: 374-378
Schnattinger, T., Schöning, U., Marchfelder, A., Kestler, H. (2013) RNA-Pareto: Interactive Analysis of Pareto-optimal RNA Sequence-Structure Alignments. Bioinformatics, 29: 3102-4
Englert, M., Späth, B., Schiffer, S., Rösch, S., Beier, H. and Marchfelder, A. (2013) Use of RNA affinity matrices for the isolation of RNA-binding proteinsin Handbook of RNA Biochemistry eds. Hartmann, R. K., Bindereif, A., Schön, A. and Westhof, E.; Wiley VCH, Weinheim
Maier LK, Fischer S, Stoll B, Brendel J, Pfeiffer F, Dyall-Smith M, Marchfelder A. (2012) The immune system of halophilic archaea. Mobile Genetic Elements, 2: 1-5
Fischer S, Maier LK, Stoll B, Brendel J, Fischer E, Pfeiffer F, Dyall-Smith M, Marchfelder A. (2012) An archaeal immune system can detect multiple protospacer adjacent motifs (PAMs) to target invader DNA. J Biol Chem, 287: 33351-63
Heyer, R., Dörr, M., Jellen-Ritter, A., Späth, B., Babski, J., Jaschinski, K., Soppa, J. and Marchfelder, A. (2012) High throughput sequencing reveals a plethora of small RNAs including tRNA derived fragments in Haloferax volcanii. RNA Biology, 9: 1011-1018
Marchfelder, A., Fischer, S., Brendel, J., Stoll, B., Maier, L.-K., Jäger, D., Prasse, D., Plagens,A., Schmitz, R.A. and Randau, L. (2012) Small RNAs for Defence and Regulation in Archaea. Extremophiles, 16: 685-696
Schmitz-Streit, R., Jäger, D. , Jellen-Ritter, A., Babski, J., Soppa, J. and Marchfelder, A. (2011) Archaea employ small RNAs as regulators, in Regulatory RNAs in Prokaryotes eds Hess, W.R. and Marchfelder, A., Springer Verlag, Wien, pp 131-145
Fischer, S., Benz, J., Späth, B., Maier, LK., Straub, J., Granzow, M., Raabe, M., Urlaub, H., Hoffmann, J., Brutschy, B., Allers, T., Soppa, J., and Marchfelder, A. (2010) The archaeal Lsm protein binds to small RNAs, J Biol Chem, 285: 34429-34438
Barbezier, N., Canino, G., Rodor, J., Jobet, E., Saez-Vasquez, J., Marchfelder, A. and Echeverría, M. (2009) Processing of a dicistronic tRNA-snoRNA precursor: combined analysis in vitro and in vivo reveals alternate pathways and coupling to assembly of snoRNP. Plant Phys, 150: 1598- 1610
Canino, G., Bocian, E., Barbezier, N., Echeverria, M.,Forner, J., Binder, S. and Marchfelder, A. (2009) The four tRNase Z enzymes encoded in Arabidopsis have distinct features. Plant Phys, 150: 1494-1502
Straub, J., Brenneis, M., Jellen-Ritter, A., Heyer, R., Soppa, J. and Marchfelder, A. (2009) Small RNAs in haloarchaea: Identification, differential expression and biological function. RNA Biology, 6, 281-292
Hölzle, A., Fischer, S., Heyer, R., Schütz, S., Zacharias, M., Walther, P., Allers, T. and Marchfelder, A. (2008) Maturation of the 5S rRNA 5´ end is catalysed in vitro by the endonuclease tRNase Z in the archaeon Haloferax volcanii. RNA, 14: 928-37
Klug, G., Evguenieva-Hackenberg, E., Omer, A.D., Dennis, P.P. and Marchfelder, A. (2007) RNA processing. in Archaea: Molecular Cell Biology ed. Cavicchioli, R., ASM press, pp 158-174
Späth, B., Kirchner, S., Vogel, A., Schubert, S., Meinlschmidt, P., Aymanns, S., Nezzar, J. and Marchfelder, A. (2005) Analysis of the functional modules of the tRNA 3' endonuclease (tRNase Z). J Biol Chem, 280: 35440-35447
Dubrovsky, E. B., Dubrovskaya, V. A., Levinger, L., Schiffer, S. and Marchfelder, A. (2004) Drosophila RNase Z processes mitochondrial and nuclear pre-tRNA 3´ ends in vivo. Nucleic Acids Res, 32: 255-262
Pellegrini, O., Nezzar, J., Marchfelder, A., Putzer, H. and Condon, C. (2003) Endonucleolytic processing of CCA-less tRNA precursors by RNase Z in Bacillus subtilis. EMBO J, 22: 4534-4543
Kruszka, K., Barneche, F., Guyot, R., Ailhas, J., Meneau, I., Schiffer, S., Marchfelder, A. and Echeverría, M. (2003) Plant dicistronic tRNA-snoRNA genes: a new mode of expression of the small nucleolar RNAs processed by RNase Z. EMBO J, 22: 621-632
Schiffer, S., Rösch, S. and Marchfelder, A. (2002) Assigning a function to a conserved group of proteins: The tRNA 3´ processing enzymes. EMBO J 21: 2769-2777
Schierling, K., Rösch, S., Rupprecht, R., Schiffer, S. and Marchfelder, A. (2002) tRNA 3´ end maturation in archaea has eukaryotic features: the RNase Z from Haloferax volcanii. J Mol Biol 316: 893-900
Schürer, H., Schiffer, S., Marchfelder, A. and Mörl, M. (2001) This is the end: Processing, editing and repair at the tRNA 3´-terminus. Biol Chem 382: 1147-1156
Schiffer, S., Helm, M., Théobald-Dietrich, A., Giége, R. and Marchfelder, A. (2001) The plant tRNA 3´ processing enzyme has a broad substrate spectrum. Biochemistry 40: 8264-8272
Mörl, M. and Marchfelder, A. (2001) The final cut: the importance of tRNA 3´ processing. EMBO Rep 2: 17-20
Mayer, M., Schiffer, S. and Marchfelder, A. (2000) tRNA 3´ processing in plants: nuclear and mitochondrial activities differ. Biochemistry 39: 2096-2105
Kunzmann, A., Brennicke, A. and Marchfelder, A. (1998) 5´ end maturation and RNA editing have to precede tRNA 3´ processing in plant mitochondria. Proc Natl Acad Sci, USA 95: 108-113
Marchfelder, A., Clayton, D. A. and Brennicke, A. (1998) The gene for ribosomal protein L7A-1 in S. pombe contains an intron after the initiation codon. Biochim Biophys Acta 1397: 146-150
Marchfelder, A. (1996) Plant mitochondrial RNase P. Mol Biol Rep 22: 151-156
Marchfelder, A., Brennicke, A. and Binder, S. (1996) RNA editing is required for efficient excision of tRNAPhe from precursors in plant mitochondria. J Biol Chem 271: 1898-1903
Marchfelder, A., Schuster, W. and Brennicke, A. (1990) In vitro processing of mitochondrial and plastid derived tRNA precursors in a plant mitochondrial extract. Nucleic Acids Res, 18: 1401-1406
Koepke, AKE and Marchfelder, A. (1988) Sequencing proteins of low availability - gene cloning of ribosomal-protein genes from archaebacterium Methanococcus vannielii. J Protein Chem, 7: 253