# first author; *corresponding author

Pre-print

Pre1: Grünberger K, Knüppel R, Jüttner M, Fenk M, Borst A, Reichelt R, Hausner W, Soppa J, Ferreira-Cerca S * and Dina Grohmann *. Nanopore-based native RNA sequencing provides insights into prokaryotic transcription, operon structures, rRNA maturation and modifications. BioRxiv 2020. https://doi.org/10.1101/2019.12.18.880849. Highlighted in Nanopore White paper on Microbiology

Pre2: Grünberger K, Ferreira-Cerca S and Dina Grohmann. Nanopore sequencing of RNA and cDNA molecules expands the transcriptomic toolbox in prokaryotes BioRxiv 2021. https://doi.org/10.1101/2021.06.14.448286.


2021

21: Londei P * and Ferreira-Cerca S *. Ribosome Biogenesis in Archaea. Front. Microbiol. 2021; 12:686977. https://doi.org/10.3389/fmicb.2021.686977.

20: Knüppel R, Trahan C, Kern M, Wagner A, Grünberger F, Hausner W, Quax T.E.F, Albers S.-V., Oeffinger M and Ferreira-Cerca S *. Insights into synthesis and function of KsgA/Dim1-dependent rRNA modifications in archaea. Nucleic Acids Res. 2021. https://doi.org/10.1093/nar/gkaa1268. PMID: 33434266.


2020

19: Schwarz TS, Berkemer SJ, Bernhart SH, Weiß M, Ferreira-Cerca S, Stadler PF and Marchfelder A. Splicing Endonuclease Is an Important Player in rRNA and tRNA Maturation in ArchaeaFront. Microbiol. 2020; 11:594838. https://doi.org/10.3389/fmicb.2020.594838. PMID: 33329479; PMCID: PMC7714728.

18: 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. https://doi.org/10.1038/s41467-020-16784-7. PMID: 32561711; PMCID: PMC7305310.

17: Knüppel R #, Fenk M #, Jüttner M, Ferreira-Cerca S *. In Vivo RNA Chemical Footprinting Analysis in Archaea. Methods Mol Biol. 2020;2106:193-208. https://doi.org/10.1007/978-1-0716-0231-7_12. PMID: 31889259.

16: Jüttner M, Weiß M, Ostheimer N, Reglin C, Kern M, Knüppel R, Ferreira-Cerca S*. A versatile cis-acting element reporter system to study the function, maturation and stability of ribosomal RNA mutants in archaea. Nucleic Acids Res. 2020 Feb 28;48(4):2073-2090. http://doi.org/10.1093/nar/gkz1156. PMID: 31828323; PMCID: PMC7038931.


2019

15: Mitterer V, Shayan R, Ferreira-Cerca S *, Murat G, Enne T, Rinaldi D, Weigl S, Omanic H, Gleizes PE, Kressler D *, Plisson-Chastang C *, Pertschy B *. Conformational proofreading of distant 40S ribosomal subunit maturation events by a long-range communication mechanism. Nat Commun. 2019 Jun 21;10(1):2754. https://doi.org/10.1038/s41467-019-10678-z. PMID: 31227701; PMCID: PMC6588571.

14: Linnemann J, Pöll G, Jakob S, Ferreira-Cerca S, Griesenbeck J, Tschochner H, Milkereit P. Impact of two neighbouring ribosomal protein clusters on biogenesis factor binding and assembly of yeast late small ribosomal subunit precursors. PLoS One. 2019 Jan 17;14(1):e0203415. https://doi.org/10.1371/journal.pone.0203415. PMID: 30653518; PMCID: PMC6336269.

13: Berto G, Ferreira-Cerca S, De Wulf P. The Rio1 protein kinases/ATPases: conserved regulators of growth, division, and genomic stability. Curr Genet. 2019 Apr;65(2):457-466. https://doi.org/10.1007/s00294-018-0912-y. Epub 2018 Dec 4. PMID: 30515528.


2018

12: Iacovella MG, Bremang M, Basha O, Giacò L, Carotenuto W, Golfieri C, Szakal B, Dal Maschio M, Infantino V, Beznoussenko GV, Joseph CR, Visintin C, Mironov AA, Visintin R, Branzei D, Ferreira-Cerca S, Yeger-Lotem E, De Wulf P. Integrating Rio1 activities discloses its nutrient activated network in Saccharomyces cerevisiae. Nucleic Acids Res. 2018 Sep 6;46(15):7586-7611. https://doi.org/10.1093/nar/gky618. PMID: 30011030; PMCID: PMC6125641.

11: Knüppel R, Christensen RH, Gray FC, Esser D, Strauß D, Medenbach J, Siebers B, MacNeill SA, LaRonde N, Ferreira-Cerca S *. Insights into the evolutionary conserved regulation of Rio ATPase activity. Nucleic Acids Res. 2018 Feb 16;46(3):1441-1456. https://doi.org/10.1093/nar/gkx1236. PMID: 29237037; PMCID: PMC5815136.


2017

10: Ferreira-Cerca S *. (2017) Life and Death of Ribosomes in Archaea. In: Clouet-d’Orval B. (eds) RNA Metabolism and Gene Expression in Archaea. Nucleic Acids and Molecular Biology, vol 32. Springer, Cham. https://doi.org/10.1007/978-3-319-65795-0_6

9: Knüppel R #, Kuttenberger C #, Ferreira-Cerca S*. Toward Time-Resolved Analysis of RNA Metabolism in Archaea Using 4-Thiouracil. Front Microbiol. 2017 Feb 24;8:286. https://doi.org/10.3389/fmicb.2017.00286. PMID: 28286499; PMCID: PMC5323407.


2015

8: Iacovella MG, Golfieri C, Massari LF, Busnelli S, Pagliuca C, Dal Maschio M, Infantino V, Visintin R, Mechtler K, Ferreira-Cerca S, De Wulf P. Rio1 promotes rDNA stability and downregulates RNA polymerase I to ensure rDNA segregation. Nat Commun. 2015 Apr 8;6:6643. https://doi.org/10.1038/ncomms7643. PMID: 25851096.


2014

7: Ferreira-Cerca S #*, Kiburu I #, Thomson E, LaRonde N *, Hurt E *. Dominant Rio1 kinase/ATPase catalytic mutant induces trapping of late pre-40S biogenesis factors in 80S-like ribosomes. Nucleic Acids Res. 2014 Jul;42(13):8635-47. https://doi.org/10.1093/nar/gku542. Epub 2014 Jun 19. PMID: 24948609; PMCID: PMC4117770.


2013

6: Thomson E #*, Ferreira-Cerca S #*, Hurt E. Eukaryotic ribosome biogenesis at a glance. J Cell Sci. 2013 Nov 1;126(Pt 21):4815-21. https://doi.org/10.1242/jcs.111948. PMID: 24172536.


2004 – 2012

5: Ferreira-Cerca S #, Sagar V #, Schäfer T, Diop M, Wesseling AM, Lu H, Chai E, Hurt E, LaRonde-LeBlanc N. ATPase-dependent role of the atypical kinase Rio2 on the evolving pre-40S ribosomal subunit. Nat Struct Mol Biol. 2012 Dec;19(12):1316-23. https://doi.org/10.1038/nsmb.2403. Epub 2012 Oct 28. PMID: 23104056; PMCID: PMC3515705.

4: Ferreira-Cerca S, Hurt E. Cell biology: Arrest by ribosome. Nature. 2009 May 7;459(7243):46-7. https://doi.org/10.1038/459046a. PMID: 19424147.

3: Ferreira-Cerca S, Pöll G, Kühn H, Neueder A, Jakob S, Tschochner H, Milkereit P. Analysis of the in vivo assembly pathway of eukaryotic 40S ribosomal proteins. Mol Cell. 2007 Nov 9;28(3):446-57. doi: 10.1016/j.molcel.2007.09.029. PMID: 17996708.

2: Ferreira-Cerca S, Pöll G, Gleizes PE, Tschochner H, Milkereit P. Roles of eukaryotic ribosomal proteins in maturation and transport of pre-18S rRNA and ribosome function. Mol Cell. 2005 Oct 28;20(2):263-75. https://doi.org/10.1016/j.molcel.2005.09.005. PMID: 16246728.

1: Léger-Silvestre I, Milkereit P, Ferreira-Cerca S, Saveanu C, Rousselle JC, Choesmel V, Guinefoleau C, Gas N, Gleizes PE. The ribosomal protein Rps15p is required for nuclear exit of the 40S subunit precursors in yeast. EMBO J. 2004 Jun 16;23(12):2336-47. https://doi.org/10.1038/sj.emboj.7600252. Epub 2004 May 27. PMID: 15167894; PMCID: PMC423291.