Publications co-authored by the Proteomics Core Facility

2019

Bluhm A, Viceconte N, Li F, Rane G, Ritz S, Wang S, Levin M, Shi Y, Kappei D and Butter F (2019) ZBTB10 binds the telomeric variant repeat TTGGGG and interacts with TRF2. Nucleic Acids Res, 47:1896–1907 Link

Cordeiro Rodrigues RJ, de Jesus Domingues AM, Hellmann S, Dietz S, de Albuquerque BFM, Renz C, Ulrich HD, Sarkies P, Butter F and Ketting RF (2019) PETISCO is a novel protein complex required for 21U RNA biogenesis and embryonic viability. Genes Dev, 33:857–870 Link

Goos C, Dejung M, Wehman AM, M-Natus E, Schmidt J, Sunter J, Engstler M, Butter F# and Kramer S# (2019) Trypanosomes can initiate nuclear export co-transcriptionally. Nucleic Acids Res, 47:266–282 (#indicates joint correspondence) Link

Pons M, Nagel G, Zeyn Y, Beyer M, Laguna T, Brachetti T, Sellmer A, Mahboobi S, Conradi R, Butter F and Kramer OH (2019) Human platelet lysate as validated replacement for animal serum to assess chemosensitivity. ALTEX, 36:277–288 Link

Wohlfahrt T, Rauber S, Uebe S, Luber M, Soare A, Ekici A, Weber S, Matei A-E, Chen C-W, Maier C, Karouzakis E, Kiener HP, Pachera E, Dees C, Beyer C, Daniel C, Gelse K, Kremer AE, Naschberger E, Stürzl M, Butter F, Sticherling M, Finotto S, Kreuter A, Kaplan MH, Jüngel A, Gay S, Nutt SL, Boykin DW, Poon GMK, Distler O, Schett G, Distler JHW and Ramming A (2019) PU.1 controls fibroblast polarization and tissue fibrosis. Nature, 566:344–349 Link

2018

Almeida MV, Dietz S, Redl S, Karaulanov E, Hildebrandt A, Renz C, Ulrich HD, König J, Butter F and Ketting RF (2018) GTSF‐1 is required for formation of a functional RNA‐dependent RNA Polymerase complex in Caenorhabditis elegans. EMBO J, 37:e99325 Link

Baldi S, Jain DS, Harpprecht L, Zabel A, Scheibe M, Butter F, Straub T and Becker PB (2018) Genome-wide rules of nucleosome phasing in Drosophila. Mol Cell, 72:661–672.e4 Link

Becker K, Bluhm A*, Casas-Vila N*, Dinges N*, Dejung M, Sayols S, Kreutz C, Roignant J-Y, Butter F# and Legewie S# (2018) Quantifying post-transcriptional regulation in the development of Drosophila melanogaster. Nat Commun, 9:4970 (*indicates joint contribution, #indicates joint correspondence) Link

Charbonnel C, Rymarenko O, Da Ines O, Benyahya F, White CI, Butter F and Amiard S (2018) The linker histone GH1-HMGA1 is involved in telomere stability and DNA damage repair. Plant Physiol, 177:311–327 Link

Dal Magro C, Keller P, Kotter A, Werner S, Duarte V, Marchand V, Ignarski M, Freiwald A, Müller R-U, Dieterich C, Motorin Y, Butter F, Atta M and Helm M (2018) A vastly increased chemical variety of RNA modifications containing a thioacetal structure. Angew Chemie Int Ed, 57:7893–7897 Link

Harris CJ*, Scheibe M*, Wongpalee SP, Liu W, Cornett EM, Vaughan RM, Li X, Chen W, Xue Y, Zhong Z, Yen L, Barshop WD, Rayatpisheh S, Gallego-Bartolome J, Groth M, Wang Z, Wohlschlegel JA, Du J, Rothbart SB, Butter F# and Jacobsen SE# (2018) A DNA methylation reader complex that enhances gene transcription. Science, 362:1182–1186 (*indicates joint contribution, #indicates joint correspondence) Link

Kiweler N, Brill B, Wirth M, Breuksch I, Laguna T, Dietrich C, Strand S, Schneider G, Groner B, Butter F, Heinzel T, Brenner W and Krämer OH (2018) The histone deacetylases HDAC1 and HDAC2 are required for the growth and survival of renal carcinoma cells. Arch Toxicol, 92:2227–2243 Link

Pons M, Reichardt CM, Hennig D, Nathan A, Kiweler N, Stocking C, Wichmann C, Christmann M, Butter F, Reichardt S, Schneider G, Heinzel T, Englert C, Hartkamp J, Krämer OH and Mahendrarajah N (2018) Loss of Wilms tumor 1 protein is a marker for apoptosis in response to replicative stress in leukemic cells. Arch Toxicol, 92:2119–2135 Link

Reis H, Schwebs M, Dietz S, Janzen CJ and Butter F (2018) TelAP1 links telomere complexes with developmental expression site silencing in African trypanosomes. Nucleic Acids Res, 46:2820–2833 Link

Roovers EF, Kaaij LJT, Redl S, Bronkhorst AW, Wiebrands K, de Jesus Domingues AM, Huang H-Y, Han C-T, Riemer S, Dosch R, Salvenmoser W, Grün D, Butter F, van Oudenaarden A and Ketting RF (2018) Tdrd6a regulates the aggregation of Buc into functional subcellular compartments that drive germ cell specification. Dev Cell, 46:285–301.e9 Link

Winzi M, Casas Vila N, Paszkowski-Rogacz M, Ding L, Noack S, Theis M, Butter F and Buchholz F (2018) The long noncoding RNA lncR492 inhibits neural differentiation of murine embryonic stem cells. PLOS One, 13:e0191682 Link

2017

Casas-Vila N*, Bluhm A*, Sayols S*, Dinges N, Dejung M, Altenhein T, Kappei D, Altenhein B, Roignant JY and Butter F (2017) The developmental proteome of Drosophila melanogaster. Genome Res, 27:1273–1285 (*indicates joint contribution) Link

Goos C, Dejung M, Janzen CJ, Butter F and Kramer S (2017) The nuclear proteome of Trypanosoma brucei. PLOS One, 12:e0181884 Link

Jahn A*, Rane G*, Paszkowski‐Rogacz M, Sayols S, Bluhm A, Han C, Draškovič I, Londoño‐Vallejo JA, Kumar AP, Buchholz F#, Butter F# and Kappei D# (2017) ZBTB48 is both a vertebrate telomere‐binding protein and a transcriptional activator. EMBO Rep, 18:929–946 (*indicates joint contribution, #indicates joint correspondence) Link

Lebedeva S, de Jesus Domingues AM, Butter F and Ketting RF (2017) Characterization of genetic loss-of-function of Fus in zebrafish. RNA Biol, 14:29–35 Link

2016

Bluhm A, Casas-Vila N, Scheibe M and Butter F (2016) Reader interactome of epigenetic histone marks in birds. Proteomics, 16:427–436 Link

Cicova Z, Dejung M, Skalicky T, Eisenhuth N, Hanselmann S, Morriswood B, Figueiredo LM, Butter F# and Janzen CJ# (2016) Two flagellar BAR domain proteins in Trypanosoma brucei with stage-specific regulation. Sci Rep, 6:35826 (#indicates joint correspondence) Link

Dejung M, Subota I, Bucerius F, Dindar G, Freiwald A, Engstler M, Boshart M, Butter F# and Janzen CJ# (2016) Quantitative proteomics uncovers novel factors involved in developmental differentiation of trypanosoma brucei. PLOS Pathog, 12:e1005439 (#indicates joint correspondence) Link

Klassen R, Ciftci A, Funk J, Bruch A, Butter F and Schaffrath R (2016) tRNA anticodon loop modifications ensure protein homeostasis and cell morphogenesis in yeast. Nucleic Acids Res, 44:10946–10959 Link

Wagner SA, Oehler H, Voigt A, Dalic D, Freiwald A, Serve H and Beli P (2016) ATR inhibition rewires cellular signaling networks induced by replication stress. Proteomics, 16:402–416 Link

2015

Casas-Vila N, Scheibe M, Freiwald A, Kappei D and Butter F (2015) Identification of TTAGGG-binding proteins in Neurospora crassa, a fungus with vertebrate-like telomere repeats. BMC Genomics, 16:965 Link

Roovers EF, Rosenkranz D, Mahdipour M, Han CT, He N, Chuva de Sousa Lopes SM, van der Westerlaken LAJ, Zischler H, Butter F, Roelen BAJ and Ketting RF (2015) Piwi proteins and piRNAs in mammalian oocytes and early embryos. Cell Rep, 10:2069–2082 Link

2014

Hornburg D, Drepper C, Butter F, Meissner F, Sendtner M and Mann M (2014) Deep proteomic evaluation of primary and cell line motoneuron disease models delineates major differences in neuronal characteristics. Mol Cell Proteomics, 13:3410–3420 Link

Machyna M, Kehr S, Straube K, Kappei D, Buchholz F, Butter F, Ule J, Hertel J, Stadler PF and Neugebauer KM (2014) The coilin interactome identifies hundreds of small noncoding RNAs that traffic through cajal bodies. Mol Cell, 56:389–399 Link


Publications acknowledging the Proteomics Core Facility

2018

Borisova ME, Voigt A, Tollenaere MAX, Sahu SK, Juretschke T, Kreim N, Mailand N, Choudhary C, Bekker-Jensen S, Akutsu M, Wagner SA and Beli P. (2018). p38-MK2 signaling axis regulates RNA metabolism after UV-light-induced DNA damageNat Commun, 9: 1017.

Heidelberger JB, Voigt A, Borisova ME, Petrosino G, Ruf S, Wagner SA and Beli P. (2018). Proteomic profiling of VCP substrates links VCP to K6‐linked ubiquitylation and c‐Myc functionEMBO Rep, pii: e44754.

Knuckles P, Lence T, Haussmann IU, Jacob D, Kreim N, Carl SH, Masiello I, Hares T, Villaseñor R, Hess D, Andrade-Navarro MA, Biggiogera M, Helm M, Soller M, Bühler M and Roignant JY. (2018). Zc3h13/Flacc is required for adenosine methylation by bridging the mRNA-binding factor Rbm15/Spenito to the m6A machinery component Wtap/Fl(2)dGenes Dev, 32: 415–429

2017

Chitale S and Richly H. (2017). Nuclear organization of nucleotide excision repair is mediated by RING1B dependent H2A-ubiquitylationOncotarget, 8: 30870-30887.

Lebedeva S, de Jesus Domingues AM, Butter F and Ketting RF. (2017). Characterization of genetic loss-of-function of Fus in zebrafishRNA Biol, 14: 29-35.

2016

Thakurela S, Garding A, Jung RB, Müller C, Goebbels S, White R, Werner HB and Tiwari VK. (2016). The transcriptome of mouse central nervous system myelinSci Rep, 6: 25828.