Our group studies the mechanisms and transcriptome-wide patterns of eukaryotic mRNA translation as one of life’s core processes and its regulation by RNA-binding proteins and non-coding RNA (e.g. microRNAs) as a means of controlling gene activity. Translation takes place on the ribosome, and is aided by numerous accessory factors. Control at this post-transcriptional level makes major contributions to gene regulation and its dysregulation is increasingly recognised as an important factor in human disease.

Pathologic mechanisms may perturb the activity of components of the translational machinery with a broad impact on the cellular translation program, leading to, for instance, malignant transformation, inappropriate cell death or cardiac hypertrophy. Failure to properly regulate the translation of specific mRNAs is also linked to a growing spectrum of diseases. We investigate post-transcriptional gene control in mammalian and yeast cell culture models and employ a mix of conventional molecular biology approaches as well as global methods such as next generation sequencing.

  • Messenger RNA and noncoding RNA in cardiac biology
  • Gene regulation through interactions between RNA, enzymes and metabolites
  • 5-methylcytosine as an epitranscriptomic mark
  • Tracking factor footprints to reveal the intricacy and control of translation initiation
Authors
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Liao Y, Castello A, Fischer B, Leicht S, Föehr S, Frese CK, Ragan C, Kurscheid S, Pagler E, Yang H, Krijgsveld J, Hentze MW, Preiss T.

The Cardiomyocyte RNA-Binding Proteome: Links to Intermediary Metabolism and Heart Disease.

Cell Rep. 2016 Aug 2;16(5):1456-69. doi: 10.1016/j.celrep.2016.06.084. Epub 2016 Jul 21.

Singhania R, Pavey S, Payne E, Gu W, Clancy J, Jubair L, Preiss T, Saunders N, McMillan NA.

Short interfering RNA induced generation and translation of stable 5' mRNA cleavage intermediates.

Biochim Biophys Acta. 2016 Aug;1859(8):1034-42. doi: 10.1016/j.bbagrm.2016.06.005. Epub 2016 Jun 16.

Archer SK, Shirokikh NE, Beilharz TH, Preiss T.

Dynamics of ribosome scanning and recycling revealed by translation complex profiling.

Nature. 2016 Jul 28;535(7613):570-4.

Schumann U, Shafik A, Preiss T.

METTL3 Gains R/W Access to the Epitranscriptome.

Mol Cell. 2016 May 5;62(3):323-4. doi: 10.1016/j.molcel.2016.04.024.

Soetanto R, Hynes CJ, Patel HR, Humphreys DT, Evers M, Duan G, Parker BJ, Archer SK, Clancy JL, Graham RM, Beilharz TH, Smith NJ, Preiss T.

Role of miRNAs and alternative mRNA 3'-end cleavage and polyadenylation of their mRNA targets in cardiomyocyte hypertrophy.

Biochim Biophys Acta. 2016 May;1859(5):744-56. doi: 10.1016/j.bbagrm.2016.03.010. Epub 2016 Mar 24.

Shafik A, Schumann U, Evers M, Sibbritt T, Preiss T.

The emerging epitranscriptomics of long noncoding RNAs.

Biochim Biophys Acta. 2016 Jan;1859(1):59-70. doi: 10.1016/j.bbagrm.2015.10.019. Epub 2015 Nov 2.

Castello A, Hentze MW, Preiss T.

Metabolic enzymes enjoying new partnerships as RNA-binding proteins.

Trends in Endocrinology & Metabolism 2016;26(12):746-757. Doi: http://dx.doi.org/10.1016/j.tem.2015.09.012. Epub 2015 Oct 28.

Preiss T.

All ribosomes are created equal. Really?

Trends Biochem Sci. 2015 Dec 9. pii: S0968-0004(15)00234-0. doi: 10.1016/j.tibs.2015.11.009. [Epub ahead of print]

Harrison PF, Powell DR, Clancy JL, Preiss T, Boag PR, Traven A, Seemann T, Beilharz TH.

PAT-seq: a method to study the integration of 3'-UTR dynamics with gene expression in the eukaryotic transcriptome.

RNA. 2015 Aug;21(8):1502-10. doi: 10.1261/rna.048355.114. Epub 2015 Jun 19. PMID: 26092945.

Archer SK, Shirokikh NE, Hallwirth CV, Beilharz TH, Preiss T.

Probing the closed-loop model of mRNA translation in living cells.

RNA Biol. 2015;12(3):248-54. doi: 10.1080/15476286.2015.1017242. PMID: 25826658.

Fu NY, Rios AC, Pal B, Soetanto R, Lun AT, Liu K, Beck T, Best SA, Vaillant F, Bouillet P, Strasser A, Preiss T, Smyth GK, Lindeman GJ, Visvader JE.

EGF-mediated induction of Mcl-1 at the switch to lactation is essential for alveolar cell survival.

Nat Cell Biol. 2015 Apr;17(4):365-75. doi: 10.1038/ncb3117. Epub 2015 Mar 2. PMID: 25730472.

Srivastava M, Duan G, Kershaw NJ, Athanasopoulos V, Yeo JH, Ose T, Hu D, Brown SH, Jergic S, Patel HR, Pratama A, Richards S, Verma A, Jones EY, Heissmeyer V, Preiss T, Dixon NE, Chong MM, Babon JJ, Vinuesa CG.

Roquin binds microRNA-146a and Argonaute2 to regulate microRNA homeostasis.

Nat Commun. 2015 Feb 20;6:6253. doi: 10.1038/ncomms7253.

Hussein SM, Puri MC, Tonge PD, Benevento M, Corso AJ, Clancy JL, Mosbergen R, Li M, Lee DS, Cloonan N, Wood DL, Munoz J, Middleton R, Korn O, Patel HR, White CA, Shin JY, Gauthier ME, Lê Cao KA, Kim JI, Mar JC, Shakiba N, Ritchie W, Rasko JE, Grimmond SM, Zandstra PW, Wells CA, Preiss T, Seo JS, Heck AJ, Rogers IM, Nagy A.

Genome-wide characterization of the routes to pluripotency.

Nature. 2014 Dec 11;516(7530):198-206. doi: 10.1038/nature14046. Erratum in: Nature. 2015 Jul 30;523(7562):626. PMID: 25503233.

Tonge PD, Corso AJ, Monetti C, Hussein SM, Puri MC, Michael IP, Li M, Lee DS, Mar JC, Cloonan N, Wood DL, Gauthier ME, Korn O, Clancy JL, Preiss T, Grimmond SM, Shin JY, Seo JS, Wells CA, Rogers IM, Nagy A.

Divergent reprogramming routes lead to alternative stem-cell states.

Nature. 2014 Dec 11;516(7530):192-7. doi: 10.1038/nature14047. Erratum in: Nature. 2015 Jul 30;523(7562):626. PMID: 25503232.

Clancy JL, Patel HR, Hussein SM, Tonge PD, Cloonan N, Corso AJ, Li M, Lee DS, Shin JY, Wong JJ, Bailey CG, Benevento M, Munoz J, Chuah A, Wood D, Rasko JE, Heck AJ, Grimmond SM, Rogers IM, Seo JS, Wells CA, Puri MC, Nagy A, Preiss T.

Small RNA changes en route to distinct cellular states of induced pluripotency.

Nat Commun. 2014 Dec 10;5:5522. doi: 10.1038/ncomms6522. PMID: 25494340.

An epigenomic roadmap to induced pluripotency reveals DNA methylation as a reprogramming modulator.

Lee DS, Shin JY, Tonge PD, Puri MC, Lee S, Park H, Lee WC, Hussein SM, Bleazard T, Yun JY, Kim J, Li M, Cloonan N, Wood D, Clancy JL, Mosbergen R, Yi JH, Yang KS, Kim H, Rhee H, Wells CA, Preiss T, Grimmond SM, Rogers IM, Nagy A, Seo JS.

Nat Commun. 2014 Dec 10;5:5619. doi: 10.1038/ncomms6619. PMID: 25493341.

Keam SP, Young PE, McCorkindale AL, Dang TH, Clancy JL, Humphreys DT, Preiss T, Hutvagner G, Martin DI, Cropley JE, Suter CM.

The human Piwi protein Hiwi2 associates with tRNA-derived piRNAs in somatic cells.

Nucleic Acids Res. 2014 Aug;42(14):8984-95. doi: 10.1093/nar/gku620. Epub 2014 Jul 18. PMID: 25038252.

Vinuesa CG, Preiss T.

Inflammation: gone with translation.

PLoS Genet. 2014 Jun 19;10(6):e1004442. doi: 10.1371/journal.pgen.1004442. eCollection 2014 Jun. No abstract available. PMID: 24945149.

Archer SK, Shirokikh NE, Preiss T.

Selective and flexible depletion of problematic sequences from RNA-seq libraries at the cDNA stage.

BMC Genomics. 2014 May 26;15:401. doi: 10.1186/1471-2164-15-401. PMID: 24886553.

Murat P, Zhong J, Lekieffre L, Cowieson NP, Clancy JL, Preiss T, Balasubramanian S, Khanna R, Tellam J.

G-quadruplexes regulate Epstein-Barr virus-encoded nuclear antigen 1 mRNA translation.

Nat Chem Biol. 2014 May;10(5):358-64. doi: 10.1038/nchembio.1479. Epub 2014 Mar 16. PMID: 24633353.

Sibbritt T, Patel HR, Preiss T.

Mapping and significance of the mRNA methylome.

Wiley Interdiscip Rev RNA. 2013 Jul-Aug;4(4):397-422. doi: 10.1002/wrna.1166. Epub 2013 May 16. Review. PMID: 23681756.

Hentze MW, Preiss T.

Circular RNAs: splicing's enigma variations.

EMBO J. 2013 Apr 3;32(7):923-5. doi: 10.1038/emboj.2013.53. Epub 2013 Mar 5. Review. No abstract available. PMID: 23463100.

Castello A, Fischer B, Hentze MW, Preiss T.

RNA-binding proteins in Mendelian disease.

Trends Genet. 2013 May;29(5):318-27. doi: 10.1016/j.tig.2013.01.004. Epub 2013 Feb 15. Review. PMID: 23415593.

Hynes CJ, Clancy JL, Preiss T.

miRNAs in cardiac disease: sitting duck or moving target?

IUBMB Life. 2012 Nov;64(11):872-8. doi: 10.1002/iub.1082. Epub 2012 Sep 26. Review. PMID: 23011932.

Gebauer F, Preiss T, Hentze MW.

From cis-regulatory elements to complex RNPs and back.

Cold Spring Harb Perspect Biol. 2012 Jul 1;4(7):a012245. doi: 10.1101/cshperspect.a012245. PMID: 22751153.

Castello A, Fischer B, Eichelbaum K, Horos R, Beckmann BM, Strein C, Davey NE, Humphreys DT, Preiss T, Steinmetz LM, Krijgsveld J, Hentze MW.

Insights into RNA biology from an atlas of mammalian mRNA-binding proteins.

Cell. 2012 Jun 8;149(6):1393-406. doi: 10.1016/j.cell.2012.04.031. Epub 2012 May 31. PMID: 22658674.

Squires JE, Patel HR, Nousch M, Sibbritt T, Humphreys DT, Parker BJ, Suter CM, Preiss T.

Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA.

Nucleic Acids Res. 2012 Jun;40(11):5023-33. doi: 10.1093/nar/gks144. Epub 2012 Feb 16. PMID: 22344696.

Humphreys DT, Hynes CJ, Patel HR, Wei GH, Cannon L, Fatkin D, Suter CM, Clancy JL, Preiss T.

Complexity of murine cardiomyocyte miRNA biogenesis, sequence variant expression and function.

PLoS One. 2012;7(2):e30933. doi: 10.1371/journal.pone.0030933. Epub 2012 Feb 3. PMID: 22319597.