Publications of PhD Students

2022

Stebel S, Breuer J, Rossbach O.
Studying miRNA–mRNA Interactions: An Optimized CLIP-Protocol for Endogenous Ago2-Protein.
Methods and Protocols. 2022 Nov 30;5(6):96.

Spanka DT, Grützner J, Andreas Jäger, Klug G.
A Small RNA, UdsC, Interacts with the RpoHII mRNA and Affects the Motility and Stress Resistance of Rhodobacter sphaeroides.
Int J Mol Sci. 2022, 23(24): 15486.

Scheuer R, Dietz T, Kretz J, Hadjeras L, McIntosh M, Evguenieva-Hackenberg E.
ncoherent dual regulation by a SAM-II riboswitch controlling translation at a distan.
RNA Biology, 19:1, 980-995.

Klockner I, Schutt C, Gerhardt T, Boettger T, Braun T.
Control of CRK-RAC1 activity by the miR-1/206/133 miRNA family is essential for neuromuscular junction function.
Nat Commun. 2022 Jun 8;13(1):3180.

Breuer J, Barth P, Noe Y, Shalamova L, Goesmann A, Weber F, Rossbach O.
What goes around comes around: Artificial circular RNAs bypass cellular antiviral responses.
Mol Ther Nucleic Acids. 2022 Jun 14;28:623-635.

Burenina OY, Elkina DA, Ovcharenko A, Bannikova VA, Schlüter MAC, Oretskaya TS, Hartmann RK and Kubareva EA
Involvement of E. coli 6S RNA in Oxidative Stress Response.
Int. J. Mol. Sci. 2022, 23, 3653.

2021

Pfafenrot C, Schneider T, Müller C, Hung LH, Schreiner S, Ziebuhr J, Bindereif A.
Inhibition of SARS-CoV-2 coronavirus proliferation by designer antisense-circRNAs.
Nucleic Acids Res. 2021 Nov 24:gkab1096.

Spanka DT, Klug G
Maturation of sRNAs from UTRs is modulated during adaptation to different growth conditions.
Int. J. Mol. Sci. 2021, 22(22), 12260.

Mosbach ML, Pfafenrot C, von Strandmann EP, Bindereif A, Preußer C.
Molecular Determinants for RNA Release into Extracellular Vesicles.
Cells. 2021 Oct 6;10(10):2674.

Ganapathy S, Wiegard JC, Hartmann RK.
Rapid preparation of 6S RNA-free B. subtilis σA-RNA polymerase and σA..
J Microbiol Methods. 2021 Sep 7:106324.

Schlemmer T, Barth P, Weipert L, Preusser C, Hardt M, Möbus A, Busche T, Koch A.
Isolation and characterization of barley (Hordeum vulgare) extracellular vesicles and their role in RNAi-based crop protection.
Int. J. Mol. Sci. 2021, 22(13), 7212.

Eisenhardt KMH*, Remes B*, Grützner J*, Spanka DT, Jäger A, Klug G..
A Complex Network of Sigma Factors and sRNA StsR Regulates Stress Responses in R. sphaeroides.
Int J Mol Sci. 2021 Jul 14;22(14):7557.

Grützner J, Remes B, Eisenhardt KMH, Scheller D, Kretz J, Madhugiri R, McIntosh M, Klug G.
sRNA-mediated RNA processing regulates bacterial cell division.
Nucleic Acids Res. 2021 Jul 9;49(12):7035-7052.

Korn SM, Ulshöfer CJ, Schneider T, Schlundt A.
Structures and target RNA preferences of the RNA-binding protein family of IGF2BPs: An overview.
Structure. 2021 May 18:S0969-2126(21)00159-3.

Ulshöfer CJ, Pfafenrot C, Bindereif A, Schneider T.
Methods to study circRNA-protein interactions.
Methods. 2021 Apr 21:S1046-2023(21)00106-7.

Grützner J, Billenkamp F, Spanka DT, Rick T, Monzon V, Förstner KU and Klug G.
The small DUF1127 protein CcaF1 from Rhodobacter sphaeroidesis an RNA-binding protein involved in sRNA maturation and RNA turnover.
Nucleic Acids Res. 2021 Apr 6;49(6):3003-3019.

Wiegard JC*, Schlüter MAC*, Burenina OY, Kubareva EA, Klug G, Grünweller A, Hartmann RK.
Northern Blot Detection of Tiny RNAs.
Methods Mol. Biol. 2021 Apr 1; 2300:41-58.

Melior H, Li S, Stötzel M, Maaß S, Schütz R, Azarderakhsh S, Shevkoplias A, Barth-Weber S, Baumgardt K, Ziebuhr J, Förstner KU, Chervontseva Z, Becher D, Evguenieva-Hackenberg E.
Reprograming of sRNA target specificity by the leader peptide peTrpL in response to antibiotic exposure.
Nucleic Acids Res. 2021 Mar 18;49(5):2894-2915.

Melior H, Evguenieva-Hackenberg E.
RNA-Regulation und Antibiotikaresistenz: Trans-agierende Attenuator-RNA und Leaderpeptid in Bakterien.
Biospektrum 2021.02.21:127-130.

Spanka DT, Reuscher CM, Klug G.
Impact of PNPase on the transcriptome of Rhodobacter sphaeroides and its cooperation with RNase III and RNase E.
BMC Genomics. 2021 Feb 6;22(1):106.

Thüring M, Ganapathy S, Schlüter MAC, Lechner M, Hartmann RK.
6S-2 RNA deletion in the undomesticated B. subtilis strain NCIB 3610 causes a biofilm derepression phenotype.
RNA Biol. 2021 Jan; 18(1):79-92.

2020

Schutt C, Hallmann A, Hachim S, Klockner I, Valussi M, Atzberger A, Graumann J, Braun T*, Boettger T*
Linc-MYH configures INO80 to regulate muscle stem cell numbers and skeletal muscle hypertrophy.
EMBO J. 2020 Nov 16;39(22):e105098.

Müller S*, Wedler A*, Breuer J*, Glaß M, Bley N, Lederer M, Haase J, Misiak C, Fuchs T, Ottmann A, Schmachtel T, Shalamova L, Ewe A, Aigner A, Rossbach O, Hüttelmaier S.
Synthetic circular miR-21 RNA decoys enhance tumor suppressor expression and impair tumor growth in mice.
NAR Cancer, Volume 2, Issue 3, September 2020, zcaa014.

Kilchert C, Kecman T, Priest E, Hester S, Aydin E, Kus K, Rossbach O, Castello A, Mohammed S, Vasiljeva L.
System-wide analyses of the fission yeast poly(A)+RNA interactome reveal insights into organization and function of RNA-protein complexes.
Genome Res. 2020 30(7):1012–1026.

Melior H, Maaß S, Li S, Förstner KU, Azarderakhsh S, Varadarajan AR, Stötzel M, Elhossary M, Barth-Weber S, Ahrens CH, Becher D, Evguenieva-Hackenberg E.
The Leader Peptide peTrpL Forms Antibiotic-Containing Ribonucleoprotein Complexes for Posttranscriptional Regulation of Multiresistance Genes.
mBio 2020 Jun 16;11(3):e01027-20.

Breuer J, Rossbach O.
Production and Purification of Artificial Circular RNA Sponges for Application in Molecular Biology and Medicine.
Methods and protocols 2020 Jun; 3(2): 42.

Schlemmer T, Lischka Z, and Koch A.
Elucidating the role of extracellular vesicles in the Barley-Fusarium interaction.
TEV doi.org/10.47184/tev.2020.01.03.

2019

Deutschmeyer V*, Breuer J*, Walesch SK, Sokol AM, Graumann J, Bartkuhn M, Boettger T, Rossbach O, Richter AM.
Epigenetic therapy of novel tumour suppressor ZAR1 and its cancer biomarker function.
Clinical Epigenetics. 2019 Dec 4;11(1):182.

Melior H, Li S, Madhugiri R, Stötzel M, Azarderakhsh S, Barth-Weber S, Baumgardt K, Ziebuhr J, Evguenieva-Hackenberg E.
Transcription attenuation-derived small RNA rnTrpL regulates tryptophan biosynthesis gene expression in trans.
Nucleic Acids Res. 2019 Jul 9;47(12):6396-6410.

Pfafenrot C, Preußer C.
Establishing essential quality criteria for the validation of circular RNAs as biomarkers.
Biomol Detect Quantif. 2019 May 2;17:100085.

Spanka DT, Konzer A, Edelmann D, Berghoff BA.
High-Throughput Proteomics Identifies Proteins With Importance to Postantibiotic Recovery in Depolarized Persister Cells.
Front Microbiol. 2019 Mar 6;10:378.