Prof Jurg Bahler

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Personal Profile

Name: Jurg Bahler Email: j.bahler@ucl.ac.uk
Title: Prof Tel: 020 3108 1602
Department: Genetics, Evolution & Environment Fax: 020 7679 7096
Position: Chair in Molecular Systems Biology Address: Darwin Building, Gower Street, London, WC1E 6BT
Research Domain: Ageing, Basic Life Sciences, Cancer, Genetics (Frontier Disciplines), Neuroscience, Personalised Medicine, Populations & Lifelong Health Web Page: Personal Web Page

Profile

Research Description

The characteristics of organisms result largely from the dynamic interplay between DNA or RNA and the regulatory apparatus. The control of gene expression is fundamental to implement the information in the genome and to determine the properties of different organisms. Gene expression is regulated at multiple levels, and cells need to integrate external and internal cues and coordinate different regulatory levels to properly exert biological functions. We study transcriptional and post-transcriptional gene expression programmes during cellular proliferation, quiescence/ageing, and stress response using Schizosaccharomyces pombe as a model system. We apply multiple genetic and high-throughput approaches for systems-level understanding of regulatory networks and complex relationships between genotype, phenotype, and environment, including roles of genome variation and evolution, transcriptome regulation, and non-coding RNAs.


Research Activities

Experimental evolution of gene regulation

Non-coding RNA function in genome regulation and cell maintenance

PhenOxiGEn

Education Description

Undergraduate:
Lectures for Introduction to microbiology (BIOL1003).
Course organizer for 3rd year research/literature projects of BIOL students.

Graduate:
Lectures for CoMPLEX ABC course.
Lectures for MSc/MRes course Advanced Human Genetics/Genetics of Human Disease (BIOL3013/G011).
Organizer of new MRes course in Systems Biology on Genome-wide approaches and data mining (wet and dry).

Other:
Organizer, 8-day Wellcome Trust Advanced Courses on Genome-wide approaches with fission yeast (Hinxton, UK).
Instructor and Lecturer for several EMBO Practical Courses and Wellcome Trust Advanced Courses.


UCL Collaborators

Dr Max Reuter

External Collaborators

Publications

    2014

    • Marguerat S, Lawler K, Brazma A, Bähler J (2014). Contributions of transcription and mRNA decay to gene expression dynamics of fission yeast in response to oxidative stress.. RNA Biol, 11(6), - .
    • Zilio N, Codlin S, Vashisht AA, Bitton DA, Head SR, Wohlschlegel JA, Bähler J, Boddy MN (2014). A Novel HDAC Complex in the Control of Transcription and Genome Stability.. Mol Cell Biol, , - . doi:10.1128/MCB.00519-14
    • Pai CC, Deegan RS, Subramanian L, Gal C, Sarkar S, Blaikley EJ, Walker C, Hulme L, Bernhard E, Codlin S, Bähler J, Allshire R, Whitehall S, Humphrey TC (2014). A histone H3K36 chromatin switch coordinates DNA double-strand break repair pathway choice.. Nat Commun, 5, 4091 - . doi:10.1038/ncomms5091
    • Rallis C, López-Maury L, Georgescu T, Pancaldi V, Bähler J (2014). Systematic screen for mutants resistant to TORC1 inhibition in fission yeast reveals genes involved in cellular ageing and growth.. Biol Open, , - . doi:10.1242/bio.20147245
    • Blaikley EJ, Tinline-Purvis H, Kasparek TR, Marguerat S, Sarkar S, Hulme L, Hussey S, Wee BY, Deegan RS, Walker CA, Pai CC, Bähler J, Nakagawa T, Humphrey TC (2014). The DNA damage checkpoint pathway promotes extensive resection and nucleotide synthesis to facilitate homologous recombination repair and genome stability in fission yeast.. Nucleic Acids Res, , - . doi:10.1093/nar/gku190
    • Schwer B, Bitton DA, Sanchez AM, Bähler J, Shuman S (2014). Individual letters of the RNA polymerase II CTD code govern distinct gene expression programs in fission yeast.. Proc Natl Acad Sci U S A, , - . doi:10.1073/pnas.1321842111
    • Bitton DA, Rallis C, Jeffares DC, Smith GC, Chen YY, Codlin S, Marguerat S, Bahler J (2014). LaSSO, a strategy for genome-wide mapping of intronic lariats and branch-points using RNA-seq.. Genome Res, , - . doi:10.1101/gr.166819.113

    2013

    • Schlackow M, Marguerat S, Proudfoot NJ, Bähler J, Erban R, Gullerova M (2013). Genome-wide analysis of poly(A) site selection in Schizosaccharomyces pombe.. RNA, , - . doi:10.1261/rna.040675.113
    • Degennaro CM, Alver BH, Marguerat S, Stepanova E, Davis CP, Bähler J, Park PJ, Winston F (2013). Spt6 regulates intragenic and antisense transcription, nucleosome positioning, and histone modifications genome-wide in fission yeast.. Mol Cell Biol, , - . doi:10.1128/MCB.01068-13
    • Livesay SB, Collier SE, Bitton DA, Bähler J, Ohi MD (2013). Structural and functional characterization of the N-terminus of Schizosaccharomyces pombe Cwf10.. Eukaryot Cell, , - . doi:10.1128/EC.00140-13
    • Rallis C, Bähler J (2013). Inhibition of TORC1 signaling and increased lifespan: gained in translation?. Aging (Albany NY), , - .
    • Valente LP, Dehé PM, Klutstein M, Aligianni S, Watt S, Bähler J, Promisel Cooper J (2013). Myb-domain protein Teb1 controls histone levels and centromere assembly in fission yeast.. EMBO J, 32(3), 450 - 460. doi:10.1038/emboj.2012.339
    • Rallis C, Codlin S, Bähler J (2013). TORC1 signaling inhibition by rapamycin and caffeine affect lifespan, global gene expression, and cell proliferation of fission yeast.. Aging Cell, 12(4), 563 - 573. doi:10.1111/acel.12080
    • Lehtinen S, Marsellach FX, Codlin S, Schmidt A, Clément-Ziza M, Beyer A, Bähler J, Orengo C, Pancaldi V (2013). Stress induces remodelling of yeast interaction and co-expression networks.. Mol Biosyst, 9(7), 1697 - 1707. doi:10.1039/c3mb25548d
    • Gunaratne J, Schmidt A, Quandt A, Neo SP, Saraç OS, Gracia T, Loguercio S, Ahrné E, Xia RL, Tan KH, Lössner C, Bähler J, Beyer A, Blackstock W, Aebersold R (2013). Extensive mass spectrometry-based analysis of the fission yeast proteome: the Schizosaccharomyces pombe PeptideAtlas.. Mol Cell Proteomics, 12(6), 1741 - 1751. doi:10.1074/mcp.M112.023754
    • Blake JA, Dolan M, Drabkin H, Hill DP, Ni L, Sitnikov D, Bridges S, Burgess S, Buza T, McCarthy F, Peddinti D, Pillai L, Carbon S, Dietze H, Ireland A, Lewis SE, Mungall CJ, Gaudet P, Chisholm RL, Fey P, Kibbe WA, Basu S, Siegele DA, McIntosh BK, Renfro DP, Zweifel AE, Hu JC, Brown NH, Tweedie S, Alam-Faruque Y, Apweiler R, Auchinchloss A, Axelsen K, Bely B, Blatter M-C, Bonilla C, Bougueleret L, Boutet E, Breuza L, Bridge A, Chan WM, Chavali G, Coudert E, Dimmer E, Estreicher A, Famiglietti L, Feuermann M, Gos A, Gruaz-Gumowski N, Hieta R, Hinz U, Hulo C, Huntley R, James J, Jungo F, Keller G, Laiho K, Legge D, Lemercier P, Lieberherr D, Magrane M, Martin MJ, Masson P, Mutowo-Muellenet P, O'Donovan C, Pedruzzi I, Pichler K, Poggioli D, Millan PP, Poux S, Rivoire C, Roechert B, Sawford T, Schneider M, Stutz A, Sundaram S, Tognolli M, Xenarios I, Foulger R, Lomax J, Roncaglia P, Khodiyar VK, Lovering RC, Talmud PJ, Chibucos M, Giglio MG, Chang H-Y, Hunter S, McAnulla C, Mitchell A, Sangrador A, Stephan R, Harris MA, Oliver SG, Rutherford K, Wood V, Bahler J, Lock A, Kersey PJ, McDowall MD, Staines DM, Dwinell M, Shimoyama M, Laulederkind S, Hayman T, Wang S-J, Petri V, Lowry T, D'Eustachio P, Matthews L, Balakrishnan R, Binkley G, Cherry JM, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hitz BC, Hong EL, Karra K, Miyasato SR, Nash RS, Park J, Skrzypek MS, Weng S, Wong ED, Berardini TZ, Li D, Huala E, Mi H, Thomas PD, Chan J, Kishore R, Sternberg P, Van Auken K, Howe D, Westerfield M, Consortium GO (2013). Gene Ontology Annotations and Resources. NUCLEIC ACIDS RESEARCH, 41(D1), D530 - D535. doi:10.1093/nar/gks1050
    • Harris MA, Lock A, Bähler J, Oliver SG, Wood V (2013). FYPO: the fission yeast phenotype ontology.. Bioinformatics, 29(13), 1671 - 1678. doi:10.1093/bioinformatics/btt266

    2012

    • Cherkasova V, Maury LL, Bacikova D, Pridham K, Bähler J, Maraia RJ (2012). Altered nuclear tRNA metabolism in La-deleted Schizosaccharomyces pombe is accompanied by a nutritional stress response involving Atf1p and Pcr1p that is suppressible by Xpo-t/Los1p.. Mol Biol Cell, 23(3), 480 - 491. doi:10.1091/mbc.E11-08-0732
    • Wood V, Harris MA, McDowall MD, Rutherford K, Vaughan BW, Staines DM, Aslett M, Lock A, Bähler J, Kersey PJ, Oliver SG (2012). PomBase: a comprehensive online resource for fission yeast.. Nucleic Acids Res, 40(Database issue), D695 - D699. doi:10.1093/nar/gkr853
    • Marguerat S, Bähler J (2012). Coordinating genome expression with cell size.. Trends Genet, 28(11), 560 - 565. doi:10.1016/j.tig.2012.07.003
    • Marguerat S, Schmidt A, Codlin S, Chen W, Aebersold R, Bähler J (2012). Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.. Cell, 151(3), 671 - 683. doi:10.1016/j.cell.2012.09.019
    • Atkinson SR, Marguerat S, Bähler J (2012). Exploring long non-coding RNAs through sequencing.. Semin Cell Dev Biol, 23(2), 200 - 205. doi:10.1016/j.semcdb.2011.12.003
    • Wang Y, Kallgren SP, Reddy BD, Kuntz K, López-Maury L, Thompson J, Watt S, Ma C, Hou H, Shi Y, Yates JR, Bähler J, O'Connell MJ, Jia S (2012). Histone H3 lysine 14 acetylation is required for activation of a DNA damage checkpoint in fission yeast.. J Biol Chem, 287(6), 4386 - 4393. doi:10.1074/jbc.M111.329417
    • Ioannoni R, Beaudoin J, Lopez-Maury L, Codlin S, Bahler J, Labbe S (2012). Cuf2 is a novel meiosis-specific regulatory factor of meiosis maturation.. PLoS One, 7(4), e36338 - . doi:10.1371/journal.pone.0036338
    • Pancaldi V, Saraç OS, Rallis C, McLean JR, Převorovský M, Gould K, Beyer A, Bähler J (2012). Predicting the fission yeast protein interaction network.. G3 (Bethesda), 2(4), 453 - 467. doi:10.1534/g3.111.001560
    • Lackner DH, Schmidt MW, Wu S, Wolf DA, Bähler J (2012). Regulation of transcriptome, translation, and proteome in response to environmental stress in fission yeast.. Genome Biol, 13(4), R25 - . doi:10.1186/gb-2012-13-4-r25
    • Bähler J (2012). Genome regulation and evolution analysed by next-generation sequencing.. Semin Cell Dev Biol, 23(2), 191 - . doi:10.1016/j.semcdb.2012.02.009
    • Blake JA, Dolan M, Drabkin H, Hill DP, Ni L, Sitnikov D, Burgess S, Buza T, Gresham C, McCarthy F, Pillai L, Wang H, Carbon S, Lewis SE, Mungall CJ, Gaudet P, Chisholm RL, Fey P, Kibbe WA, Basu S, Siegele DA, McIntosh BK, Renfro DP, Zweifel AE, Hu JC, Brown NH, Tweedie S, Alam-Faruque Y, Apweiler R, Auchinchloss A, Axelsen K, Argoud-Puy G, Bely B, Blatter M-C, Bougueleret L, Boutet E, Branconi-Quintaje S, Breuza L, Bridge A, Browne P, Chan WM, Coudert E, Cusin I, Dimmer E, Duek-Roggli P, Eberhardt R, Estreicher A, Famiglietti L, Ferro-Rojas S, Feuermann M, Gardner M, Gos A, Gruaz-Gumowski N, Hinz U, Hulo C, Huntley R, James J, Jimenez S, Jungo F, Keller G, Laiho K, Legge D, Lemercier P, Lieberherr D, Magrane M, Martin MJ, Masson P, Moinat M, O'Donovan C, Pedruzzi I, Pichler K, Poggioli D, Millan PP, Poux S, Rivoire C, Roechert B, Sawford T, Schneider M, Sehra H, Stanley E, Stutz A, Sundaram S, Tognolli M, Xenarios I, Foulger R, Lomax J, Roncaglia P, Camon E, Khodiyar VK, Lovering RC, Talmud PJ, Chibucos M, Giglio MG, Dolinski K, Heinicke S, Livstone MS, Stephan R, Harris MA, Oliver SG, Rutherford K, Wood V, Bahler J, Lock A, Kersey PJ, McDowall MD, Staines DM, Dwinell M, Shimoyama M, Laulederkind S, Hayman T, Wang S-J, Petri V, Lowry T, D'Eustachio P, Matthews L, Amundsen CD, Balakrishnan R, Binkley G, Cherry JM, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hirschman JE, Hitz BC, Hong EL, Karra K, Krieger CJ, Miyasato SR, Nash RS, Park J, Skrzypek MS, Weng S, Wong ED, Berardini TZ, Li D, Huala E, Slonim D, Wick H, Thomas P, Chan J, Kishore R, Sternberg P, Van Auken K, Howe D, Westerfield M, Consortium GO (2012). The Gene Ontology: enhancements for 2011. NUCLEIC ACIDS RESEARCH, 40(D1), D559 - D564. doi:10.1093/nar/gkr1028
    • Saraç OS, Pancaldi V, Bähler J, Beyer A (2012). Topology of functional networks predicts physical binding of proteins.. Bioinformatics, 28(16), 2137 - 2145. doi:10.1093/bioinformatics/bts351

    2011

    • Lemieux C, Marguerat S, Lafontaine J, Barbezier N, Bähler J, Bachand F (2011). A Pre-mRNA degradation pathway that selectively targets intron-containing genes requires the nuclear poly(A)-binding protein.. Mol Cell, 44(1), 108 - 119. doi:10.1016/j.molcel.2011.06.035
    • Wilhelm BT, Marguerat S, Aligianni S, Codlin S, Watt S, Bähler J (2011). Differential patterns of intronic and exonic DNA regions with respect to RNA polymerase II occupancy, nucleosome density and H3K36me3 marking in fission yeast.. Genome Biol, 12(8), R82 - . doi:10.1186/gb-2011-12-8-r82
    • Převorovský M, Atkinson SR, Ptáčková M, McLean JR, Gould K, Folk P, Půta F, Bähler J (2011). N-termini of fungal CSL transcription factors are disordered, enriched in regulatory motifs and inhibit DNA binding in fission yeast.. PLoS One, 6(8), e23650 - . doi:10.1371/journal.pone.0023650
    • Kiely CM, Marguerat S, Garcia JF, Madhani HD, Bähler J, Winston F (2011). Spt6 is required for heterochromatic silencing in the fission yeast Schizosaccharomyces pombe.. Mol Cell Biol, 31(20), 4193 - 4204. doi:10.1128/MCB.05568-11
    • Helmlinger D, Marguerat S, Villén J, Swaney DL, Gygi SP, Bähler J, Winston F (2011). Tra1 has specific regulatory roles, rather than global functions, within the SAGA co-activator complex.. EMBO J, 30(14), 2843 - 2852. doi:10.1038/emboj.2011.181
    • Zaratiegui M, Vaughn MW, Irvine DV, Goto D, Watt S, Bähler J, Arcangioli B, Martienssen RA (2011). CENP-B preserves genome integrity at replication forks paused by retrotransposon LTR.. Nature, 469(7328), 112 - 115. doi:10.1038/nature09608
    • Beaudoin J, Ioannoni R, López-Maury L, Bähler J, Ait-Mohand S, Guérin B, Dodani SC, Chang CJ, Labbé S (2011). Mfc1 is a novel forespore membrane copper transporter in meiotic and sporulating cells.. J Biol Chem, 286(39), 34356 - 34372. doi:10.1074/jbc.M111.280396
    • Pancaldi V, Bähler J (2011). In silico characterization and prediction of global protein-mRNA interactions in yeast.. Nucleic Acids Res, 39(14), 5826 - 5836. doi:10.1093/nar/gkr160
    • Guha S, López-Maury L, Shaw M, Bähler J, Norbury CJ, Agashe VR (2011). Transcriptional and cellular responses to defective mitochondrial proteolysis in fission yeast.. J Mol Biol, 408(2), 222 - 237. doi:10.1016/j.jmb.2011.02.044
    • Hansen KR, Hazan I, Shanker S, Watt S, Verhein-Hansen J, Bähler J, Martienssen RA, Partridge JF, Cohen A, Thon G (2011). H3K9me-independent gene silencing in fission yeast heterochromatin by Clr5 and histone deacetylases.. PLoS Genet, 7(1), e1001268 - . doi:10.1371/journal.pgen.1001268
    • Sun W, Wang Z, Jiang H, Zhang J, Bähler J, Chen D, Murchie AI (2011). A novel function of the mitochondrial transcription factor Mtf1 in fission yeast; Mtf1 regulates the nuclear transcription of srk1.. Nucleic Acids Res, 39(7), 2690 - 2700. doi:10.1093/nar/gkq1179
    • Reddy BD, Wang Y, Niu L, Higuchi EC, Marguerat SB, Bähler J, Smith GR, Jia S (2011). Elimination of a specific histone H3K14 acetyltransferase complex bypasses the RNAi pathway to regulate pericentric heterochromatin functions.. Genes Dev, 25(3), 214 - 219. doi:10.1101/gad.1993611

    2010

    • Zhurinsky J, Leonhard K, Watt S, Marguerat S, Bähler J, Nurse P (2010). A coordinated global control over cellular transcription.. Curr Biol, 20(22), 2010 - 2015. doi:10.1016/j.cub.2010.10.002
    • Kaufmann I, White E, Azad A, Marguerat S, Bähler J, Proudfoot NJ (2010). Transcriptional activation of the general amino acid permease gene per1 by the histone deacetylase Clr6 Is regulated by Oca2 kinase.. Mol Cell Biol, 30(13), 3396 - 3410. doi:10.1128/MCB.00971-09
    • Marguerat S, Bähler J (2010). RNA-seq: from technology to biology.. Cell Mol Life Sci, 67(4), 569 - 579. doi:10.1007/s00018-009-0180-6
    • Onishi M, Koga T, Hirata A, Nakamura T, Asakawa H, Shimoda C, Bähler J, Wu JQ, Takegawa K, Tachikawa H, Pringle JR, Fukui Y (2010). Role of septins in the orientation of forespore membrane extension during sporulation in fission yeast.. Mol Cell Biol, 30(8), 2057 - 2074. doi:10.1128/MCB.01529-09
    • Wilhelm BT, Marguerat S, Goodhead I, Bähler J (2010). Defining transcribed regions using RNA-seq.. Nat Protoc, 5(2), 255 - 266. doi:10.1038/nprot.2009.229
    • Lemay JF, D'Amours A, Lemieux C, Lackner DH, St-Sauveur VG, Bähler J, Bachand F (2010). The nuclear poly(A)-binding protein interacts with the exosome to promote synthesis of noncoding small nucleolar RNAs.. Mol Cell, 37(1), 34 - 45. doi:10.1016/j.molcel.2009.12.019
    • Kiang L, Heichinger C, Watt S, Bähler J, Nurse P (2010). Specific replication origins promote DNA amplification in fission yeast.. J Cell Sci, 123(Pt 18), 3047 - 3051. doi:10.1242/jcs.067470
    • St-André O, Lemieux C, Perreault A, Lackner DH, Bähler J, Bachand F (2010). Negative regulation of meiotic gene expression by the nuclear poly(a)-binding protein in fission yeast.. J Biol Chem, 285(36), 27859 - 27868. doi:10.1074/jbc.M110.150748
    • Wen WL, Stevenson AL, Wang CY, Chen HJ, Kearsey SE, Norbury CJ, Watt S, Bähler J, Wang SW (2010). Vgl1, a multi-KH domain protein, is a novel component of the fission yeast stress granules required for cell survival under thermal stress.. Nucleic Acids Res, 38(19), 6555 - 6566. doi:10.1093/nar/gkq555
    • Pancaldi V, Schubert F, Bähler J (2010). Meta-analysis of genome regulation and expression variability across hundreds of environmental and genetic perturbations in fission yeast.. Mol Biosyst, 6(3), 543 - 552. doi:10.1039/b913876p
    • Nemoto N, Udagawa T, Ohira T, Jiang L, Hirota K, Wilkinson CR, Bähler J, Jones N, Ohta K, Wek RC, Asano K (2010). The roles of stress-activated Sty1 and Gcn2 kinases and of the protooncoprotein homologue Int6/eIF3e in responses to endogenous oxidative stress during histidine starvation.. J Mol Biol, 404(2), 183 - 201. doi:10.1016/j.jmb.2010.09.016

    2009

    • Croucher NJ, Fookes MC, Perkins TT, Turner DJ, Marguerat SB, Keane T, Quail MA, He M, Assefa S, Bähler J, Kingsley RA, Parkhill J, Bentley SD, Dougan G, Thomson NR (2009). A simple method for directional transcriptome sequencing using Illumina technology.. Nucleic Acids Res, 37(22), e148 - . doi:10.1093/nar/gkp811
    • Tinline-Purvis H, Savory AP, Cullen JK, Davé A, Moss J, Bridge WL, Marguerat S, Bähler J, Ragoussis J, Mott R, Walker CA, Humphrey TC (2009). Failed gene conversion leads to extensive end processing and chromosomal rearrangements in fission yeast.. EMBO J, 28(21), 3400 - 3412. doi:10.1038/emboj.2009.265
    • Aligianni S, Lackner DH, Klier S, Rustici G, Wilhelm BT, Marguerat S, Codlin S, Brazma A, de Bruin RA, Bähler J (2009). The fission yeast homeodomain protein Yox1p binds to MBF and confines MBF-dependent cell-cycle transcription to G1-S via negative feedback.. PLoS Genet, 5(8), e1000626 - . doi:10.1371/journal.pgen.1000626
    • Schonbrun M, Laor D, López-Maury L, Bähler J, Kupiec M, Weisman R (2009). TOR complex 2 controls gene silencing, telomere length maintenance, and survival under DNA-damaging conditions.. Mol Cell Biol, 29(16), 4584 - 4594. doi:10.1128/MCB.01879-08
    • Kim HS, Vanoosthuyse V, Fillingham J, Roguev A, Watt S, Kislinger T, Treyer A, Carpenter LR, Bennett CS, Emili A, Greenblatt JF, Hardwick KG, Krogan NJ, Bähler J, Keogh MC (2009). An acetylated form of histone H2A.Z regulates chromosome architecture in Schizosaccharomyces pombe.. Nat Struct Mol Biol, 16(12), 1286 - 1293. doi:10.1038/nsmb.1688
    • Anderson HE, Wardle J, Korkut SV, Murton HE, López-Maury L, Bähler J, Whitehall SK (2009). The fission yeast HIRA histone chaperone is required for promoter silencing and the suppression of cryptic antisense transcripts.. Mol Cell Biol, 29(18), 5158 - 5167. doi:10.1128/MCB.00698-09
    • Kiang L, Heichinger C, Watt S, Bähler J, Nurse P (2009). Cyclin-dependent kinase inhibits reinitiation of a normal S-phase program during G2 in fission yeast.. Mol Cell Biol, 29(15), 4025 - 4032. doi:10.1128/MCB.00185-09
    • Bähler J (2009). Global approaches to study gene regulation.. Methods, 48(3), 217 - . doi:10.1016/j.ymeth.2009.06.006

    2008

    • Anders A, Watt S, Bähler J, Sawin KE (2008). Improved tools for efficient mapping of fission yeast genes: identification of microtubule nucleation modifier mod22-1 as an allele of chromatin- remodelling factor gene swr1.. Yeast, 25(12), 913 - 925. doi:10.1002/yea.1639
    • Lackner DH, Bähler J (2008). Translational control of gene expression from transcripts to transcriptomes.. Int Rev Cell Mol Biol, 271, 199 - 251. doi:10.1016/S1937-6448(08)01205-7
    • Marguerat S, Wilhelm BT, Bähler J (2008). Next-generation sequencing: applications beyond genomes.. Biochem Soc Trans, 36(Pt 5), 1091 - 1096. doi:10.1042/BST0361091
    • López-Maury L, Marguerat S, Bähler J (2008). Tuning gene expression to changing environments: from rapid responses to evolutionary adaptation.. Nat Rev Genet, 9(8), 583 - 593. doi:10.1038/nrg2398
    • Monahan BJ, Villén J, Marguerat S, Bähler J, Gygi SP, Winston F (2008). Fission yeast SWI/SNF and RSC complexes show compositional and functional differences from budding yeast.. Nat Struct Mol Biol, 15(8), 873 - 880. doi:10.1038/nsmb.1452
    • Wilhelm BT, Marguerat S, Watt S, Schubert F, Wood V, Goodhead I, Penkett CJ, Rogers J, Bähler J (2008). Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution.. Nature, 453(7199), 1239 - 1243. doi:10.1038/nature07002
    • Watt S, Mata J, López-Maury L, Marguerat S, Burns G, Bähler J (2008). urg1: a uracil-regulatable promoter system for fission yeast with short induction and repression times.. PLoS One, 3(1), e1428 - . doi:10.1371/journal.pone.0001428
    • Ludin K, Mata J, Watt S, Lehmann E, Bähler J, Kohli J (2008). Sites of strong Rec12/Spo11 binding in the fission yeast genome are associated with meiotic recombination and with centromeres.. Chromosoma, 117(5), 431 - 444. doi:10.1007/s00412-008-0159-3
    • Udagawa T, Nemoto N, Wilkinson CR, Narashimhan J, Jiang L, Watt S, Zook A, Jones N, Wek RC, Bähler J, Asano K (2008). Int6/eIF3e promotes general translation and Atf1 abundance to modulate Sty1 MAPK-dependent stress response in fission yeast.. J Biol Chem, 283(32), 22063 - 22075. doi:10.1074/jbc.M710017200
    • Jeffares DC, Penkett CJ, Bähler J (2008). Rapidly regulated genes are intron poor.. Trends Genet, 24(8), 375 - 378. doi:10.1016/j.tig.2008.05.006
    • Reiter W, Watt S, Dawson K, Lawrence CL, Bähler J, Jones N, Wilkinson CR (2008). Fission yeast MAP kinase Sty1 is recruited to stress-induced genes.. J Biol Chem, 283(15), 9945 - 9956. doi:10.1074/jbc.M710428200
    • Miklos I, Szilagyi Z, Watt S, Zilahi E, Batta G, Antunovics Z, Enczi K, Bähler J, Sipiczki M (2008). Genomic expression patterns in cell separation mutants of Schizosaccharomyces pombe defective in the genes sep10 ( + ) and sep15 ( + ) coding for the Mediator subunits Med31 and Med8.. Mol Genet Genomics, 279(3), 225 - 238. doi:10.1007/s00438-007-0296-z
    • Dainty SJ, Kennedy CA, Watt S, Bähler J, Whitehall SK (2008). Response of Schizosaccharomyces pombe to zinc deficiency.. Eukaryot Cell, 7(3), 454 - 464. doi:10.1128/EC.00408-07
    • Mercier A, Watt S, Bähler J, Labbé S (2008). Key function for the CCAAT-binding factor Php4 to regulate gene expression in response to iron deficiency in fission yeast.. Eukaryot Cell, 7(3), 493 - 508. doi:10.1128/EC.00446-07
    • Breitkreutz BJ, Stark C, Reguly T, Boucher L, Breitkreutz A, Livstone M, Oughtred R, Lackner DH, Bähler J, Wood V, Dolinski K, Tyers M (2008). The BioGRID Interaction Database: 2008 update.. Nucleic Acids Res, 36(Database issue), D637 - D640. doi:10.1093/nar/gkm1001
    • Chen D, Wilkinson CR, Watt S, Penkett CJ, Toone WM, Jones N, Bähler J (2008). Multiple pathways differentially regulate global oxidative stress responses in fission yeast.. Mol Biol Cell, 19(1), 308 - 317. doi:10.1091/mbc.E07-08-0735
    • Wang SW, Stevenson AL, Kearsey SE, Watt S, Bähler J (2008). Global role for polyadenylation-assisted nuclear RNA degradation in posttranscriptional gene silencing.. Mol Cell Biol, 28(2), 656 - 665. doi:10.1128/MCB.01531-07
    • Helmlinger D, Marguerat S, Villén J, Gygi SP, Bähler J, Winston F (2008). The S. pombe SAGA complex controls the switch from proliferation to sexual differentiation through the opposing roles of its subunits Gcn5 and Spt8.. Genes Dev, 22(22), 3184 - 3195. doi:10.1101/gad.1719908

    2007

    • Lackner DH, Beilharz TH, Marguerat S, Mata J, Watt S, Schubert F, Preiss T, Bähler J (2007). A network of multiple regulatory layers shapes gene expression in fission yeast.. Mol Cell, 26(1), 145 - 155. doi:10.1016/j.molcel.2007.03.002
    • Marguerat S, Wilhelm BT, Bähler J (2007). Shaken not stirred: a global research cocktail served in Hinxton.. Genome Biol, 8(11), 320 - . doi:10.1186/gb-2007-8-11-320
    • Mata J, Wilbrey A, Bähler J (2007). Transcriptional regulatory network for sexual differentiation in fission yeast.. Genome Biol, 8(10), R217 - . doi:10.1186/gb-2007-8-10-r217
    • Gordon M, Holt DG, Panigrahi A, Wilhelm BT, Erdjument-Bromage H, Tempst P, Bähler J, Cairns BR (2007). Genome-wide dynamics of SAPHIRE, an essential complex for gene activation and chromatin boundaries.. Mol Cell Biol, 27(11), 4058 - 4069. doi:10.1128/MCB.02044-06
    • Rustici G, van Bakel H, Lackner DH, Holstege FC, Wijmenga C, Bähler J, Brazma A (2007). Global transcriptional responses of fission and budding yeast to changes in copper and iron levels: a comparative study.. Genome Biol, 8(5), R73 - . doi:10.1186/gb-2007-8-5-r73
    • Kirmizis A, Santos-Rosa H, Penkett CJ, Singer MA, Vermeulen M, Mann M, Bähler J, Green RD, Kouzarides T (2007). Arginine methylation at histone H3R2 controls deposition of H3K4 trimethylation.. Nature, 449(7164), 928 - 932. doi:10.1038/nature06160

    2006

    • Sharma N, Marguerat S, Mehta S, Watt S, Bähler J (2006). The fission yeast Rpb4 subunit of RNA polymerase II plays a specialized role in cell separation.. Mol Genet Genomics, 276(6), 545 - 554. doi:10.1007/s00438-006-0161-5
    • Marguerat S, Jensen TS, de Lichtenberg U, Wilhelm BT, Jensen LJ, Bähler J (2006). The more the merrier: comparative analysis of microarray studies on cell cycle-regulated genes in fission yeast.. Yeast, 23(4), 261 - 277. doi:10.1002/yea.1351
    • Penkett CJ, Morris JA, Wood V, Bähler J (2006). YOGY: a web-based, integrated database to retrieve protein orthologs and associated Gene Ontology terms.. Nucleic Acids Research, , - .
    • Heichinger C, Penkett CJ, Bähler J, Nurse P (2006). Genome-wide characterization of fission yeast DNA replication origins.. EMBO J, 25(21), 5171 - 5179. doi:10.1038/sj.emboj.7601390
    • Mata J, Bähler J (2006). Global roles of Ste11p, cell type, and pheromone in the control of gene expression during early sexual differentiation in fission yeast.. Proc Natl Acad Sci U S A, 103(42), 15517 - 15522. doi:10.1073/pnas.0603403103
    • Penkett CJ, Birtle ZE, Bähler J (2006). Simplified primer design for PCR-based gene targeting and microarray primer database: two web tools for fission yeast.. Yeast, 23(13), 921 - 928. doi:10.1002/yea.1422
    • Bahler J, Wood V (2006). Probably the best model organism in the world. YEAST, 23(13), 899 - 900. doi:10.1002/yea.1417
    • Rodríguez-Gabriel MA, Watt S, Bähler J, Russell P (2006). Upf1, an RNA helicase required for nonsense-mediated mRNA decay, modulates the transcriptional response to oxidative stress in fission yeast.. Mol Cell Biol, 26(17), 6347 - 6356. doi:10.1128/MCB.00286-06
    • Penkett CJ, Morris JA, Wood V, Bähler J (2006). YOGY: a web-based, integrated database to retrieve protein orthologs and associated Gene Ontology terms.. Nucleic Acids Res, 34(Web Server issue), W330 - W334. doi:10.1093/nar/gkl311
    • Martín V, Rodríguez-Gabriel MA, McDonald WH, Watt S, Yates JR, Bähler J, Russell P (2006). Cip1 and Cip2 are novel RNA-recognition-motif proteins that counteract Csx1 function during oxidative stress.. Mol Biol Cell, 17(3), 1176 - 1183. doi:10.1091/mbc.E05-09-0847
    • Bachand F, Lackner DH, Bähler J, Silver PA (2006). Autoregulation of ribosome biosynthesis by a translational response in fission yeast.. Mol Cell Biol, 26(5), 1731 - 1742. doi:10.1128/MCB.26.5.1731-1742.2006
    • Wilhelm BT, Bähler J (2006). The genomics of stress response in Schizosaccharomyces pombe. In Brown AJP (Ed.), The Mycota Volume XIII, Fungal Genomics, Transcriptomics, Proteomics and Metabolomics (pp. 97 - 111). : Springer Verlag.

    2005

    • Lee KM, Miklos I, Du H, Watt S, Szilagyi Z, Saiz JE, Madabhushi R, Penkett CJ, Sipiczki M, Bähler J, Fisher RP (2005). Impairment of the TFIIH-associated CDK-activating kinase selectively affects cell cycle-regulated gene expression in fission yeast.. Mol Biol Cell, 16(6), 2734 - 2745. doi:10.1091/mbc.E04-11-0982
    • Jenkins CC, Mata J, Crane RF, Thomas B, Akoulitchev A, Bähler J, Norbury CJ (2005). Activation of AP-1-dependent transcription by a truncated translation initiation factor.. Eukaryot Cell, 4(11), 1840 - 1850. doi:10.1128/EC.4.11.1840-1850.2005
    • Bähler J, Svetina S (2005). A logical circuit for the regulation of fission yeast growth modes.. J Theor Biol, 237(2), 210 - 218. doi:10.1016/j.jtbi.2005.04.008
    • Mata J, Marguerat S, Bähler J (2005). Post-transcriptional control of gene expression: a genome-wide perspective.. Trends Biochem Sci, 30(9), 506 - 514. doi:10.1016/j.tibs.2005.07.005
    • Hansen KR, Burns G, Mata J, Volpe TA, Martienssen RA, Bähler J, Thon G (2005). Global effects on gene expression in fission yeast by silencing and RNA interference machineries.. Mol Cell Biol, 25(2), 590 - 601. doi:10.1128/MCB.25.2.590-601.2005
    • Mandell JG, Bähler J, Volpe TA, Martienssen RA, Cech TR (2005). Global expression changes resulting from loss of telomeric DNA in fission yeast.. Genome Biol, 6(1), R1 - . doi:10.1186/gb-2004-6-1-r1
    • Mandell JG, Goodrich KJ, Bähler J, Cech TR (2005). Expression of a RecQ helicase homolog affects progression through crisis in fission yeast lacking telomerase.. J Biol Chem, 280(7), 5249 - 5257. doi:10.1074/jbc.M412756200
    • Harrison C, Katayama S, Dhut S, Chen D, Jones N, Bähler J, Toda T (2005). SCF(Pof1)-ubiquitin and its target Zip1 transcription factor mediate cadmium response in fission yeast.. EMBO J, 24(3), 599 - 610. doi:10.1038/sj.emboj.7600536
    • Bähler J (2005). A transcriptional pathway for cell separation in fission yeast.. Cell Cycle, 4(1), 39 - 41.
    • Bähler J (2005). Cell-cycle control of gene expression in budding and fission yeast.. Annu Rev Genet, 39, 69 - 94. doi:10.1146/annurev.genet.39.110304.095808

    2004

    • Watson A, Mata J, Bähler J, Carr A, Humphrey T (2004). Global gene expression responses of fission yeast to ionizing radiation.. Mol Biol Cell, 15(2), 851 - 860. doi:10.1091/mbc.E03-08-0569
    • Rustici G, Mata J, Kivinen K, Lió P, Penkett CJ, Burns G, Hayles J, Brazma A, Nurse P, Bähler J (2004). Periodic gene expression program of the fission yeast cell cycle.. Nat Genet, 36(8), 809 - 817. doi:10.1038/ng1377
    • Gatti L, Chen D, Beretta GL, Rustici G, Carenini N, Corna E, Colangelo D, Zunino F, Bähler J, Perego P (2004). Global gene expression of fission yeast in response to cisplatin.. Cell Mol Life Sci, 61(17), 2253 - 2263. doi:10.1007/s00018-004-4218-5
    • Sanders SL, Portoso M, Mata J, Bähler J, Allshire RC, Kouzarides T (2004). Methylation of histone H4 lysine 20 controls recruitment of Crb2 to sites of DNA damage.. Cell, 119(5), 603 - 614. doi:10.1016/j.cell.2004.11.009
    • Bähler J, Wood V (2004). The genome and beyond. In Egel R (Ed.), The molecular biology of Schizosaccharomyces pombe (pp. 13 - 25). : Springer Verlag.
    • Penkett CJ, Bähler J (2004). Navigating public microarray databases.. Comp Funct Genomics, 5(6-7), 471 - 479. doi:10.1002/cfg.427
    • Penkett CJ, Bähler J (2004). Getting the most from public microarray data. European Pharmaceutical Review, Spring, 8 - 17.

    2003

    • Fardin P, Bahler J, Capanni P, Inglese E, Ricciardi A, Ferrara GB (2003). Gene expression analysis in non small cell lung cancer (NSCLC) using microarray technology..
    • Chen D, Toone WM, Mata J, Lyne R, Burns G, Kivinen K, Brazma A, Jones N, Bähler J (2003). Global transcriptional responses of fission yeast to environmental stress.. Mol Biol Cell, 14(1), 214 - 229. doi:10.1091/mbc.E02-08-0499
    • Lyne R, Burns G, Mata J, Penkett CJ, Rustici G, Chen D, Langford C, Vetrie D, Bähler J (2003). Whole-genome microarrays of fission yeast: characteristics, accuracy, reproducibility, and processing of array data.. BMC Genomics, 4(1), 27 - . doi:10.1186/1471-2164-4-27
    • Rodríguez-Gabriel MA, Burns G, McDonald WH, Martín V, Yates JR, Bähler J, Russell P (2003). RNA-binding protein Csx1 mediates global control of gene expression in response to oxidative stress.. EMBO J, 22(23), 6256 - 6266. doi:10.1093/emboj/cdg597
    • Mata J, Bahler J (2003). Correlations between gene expression and gene conservation in fission yeast.. Genome Res, 13(12), 2686 - 2690. doi:10.1101/gr.1420903

    2002

    • Smith DA, Toone WM, Chen D, Bahler J, Jones N, Morgan BA, Quinn J (2002). The Srk1 protein kinase is a target for the Sty1 stress-activated MAPK in fission yeast.. J Biol Chem, 277(36), 33411 - 33421. doi:10.1074/jbc.M204593200
    • Mata J, Lyne R, Burns G, Bähler J (2002). The transcriptional program of meiosis and sporulation in fission yeast.. Nat Genet, 32(1), 143 - 147. doi:10.1038/ng951
    • Wood V, Bähler J (2002). Website review: how to get the best from fission yeast genome data.. Comp Funct Genomics, 3(3), 282 - 288. doi:10.1002/cfg.175

    2001

    • Molnar M, Bähler J, Kohli J, Hiraoka Y (2001). Live observation of fission yeast meiosis in recombination-deficient mutants: a study on achiasmate chromosome segregation.. J Cell Sci, 114(Pt 15), 2843 - 2853.
    • Rustici G, Bahler J (2001). Study of global gene expression patterns during the fission yeast cell cycle using DNA microarrays.. YEAST, 18, S99 - S99.
    • Wu JQ, Bähler J, Pringle JR (2001). Roles of a fimbrin and an alpha-actinin-like protein in fission yeast cell polarization and cytokinesis.. Mol Biol Cell, 12(4), 1061 - 1077.
    • Bähler J, Nurse P (2001). Fission yeast Pom1p kinase activity is cell cycle regulated and essential for cellular symmetry during growth and division.. EMBO J, 20(5), 1064 - 1073. doi:10.1093/emboj/20.5.1064

    2000

    • Bähler J, Peter M (2000). Cell polarity in yeast. In (Ed.), Frontiers in Molecular Biology: Cell Polarity (pp. 21 - 77). : Oxford University Press.

    1998

    • Hartsuiker E, Bähler J, Kohli J (1998). The role of topoisomerase II in meiotic chromosome condensation and segregation in Schizosaccharomyces pombe.. Mol Biol Cell, 9(10), 2739 - 2750.
    • Bähler J, Steever AB, Wheatley S, Wang YL, Pringle JR, Gould KL, McCollum D (1998). Role of polo kinase and Mid1p in determining the site of cell division in fission yeast.. J Cell Biol, 143(6), 1603 - 1616.
    • Bähler J, Wu JQ, Longtine MS, Shah NG, McKenzie A, Steever AB, Wach A, Philippsen P, Pringle JR (1998). Heterologous modules for efficient and versatile PCR-based gene targeting in Schizosaccharomyces pombe.. Yeast, 14(10), 943 - 951. doi:10.1002/(SICI)1097-0061(199807)14:10<943::AID-YEA292>3.0.CO;2-Y
    • Bähler J, Pringle JR (1998). Pom1p, a fission yeast protein kinase that provides positional information for both polarized growth and cytokinesis.. Genes Dev, 12(9), 1356 - 1370.

    1995

    • Svoboda A, Bähler J, Kohli J (1995). Microtubule-driven nuclear movements and linear elements as meiosis-specific characteristics of the fission yeasts Schizosaccharomyces versatilis and Schizosaccharomyces pombe.. Chromosoma, 104(3), 203 - 214.
    • Molnar M, Bähler J, Sipiczki M, Kohli J (1995). The rec8 gene of Schizosaccharomyces pombe is involved in linear element formation, chromosome pairing and sister-chromatid cohesion during meiosis.. Genetics, 141(1), 61 - 73.
    • Interthal H, Bellocq C, Bähler J, Bashkirov VI, Edelstein S, Heyer WD (1995). A role of Sep1 (= Kem1, Xrn1) as a microtubule-associated protein in Saccharomyces cerevisiae.. EMBO J, 14(6), 1057 - 1066.

    1994

    • Scherthan H, Bähler J, Kohli J (1994). Dynamics of chromosome organization and pairing during meiotic prophase in fission yeast.. J Cell Biol, 127(2), 273 - 285.
    • Grimm C, Bähler J, Kohli J (1994). M26 recombinational hotspot and physical conversion tract analysis in the ade6 gene of Schizosaccharomyces pombe.. Genetics, 136(1), 41 - 51.
    • Bähler J, Hagens G, Holzinger G, Scherthan H, Heyer WD (1994). Saccharomyces cerevisiae cells lacking the homologous pairing protein p175SEP1 arrest at pachytene during meiotic prophase.. Chromosoma, 103(2), 129 - 141.
    • Kohli J, Bähler J (1994). Homologous recombination in fission yeast: absence of crossover interference and synaptonemal complex.. Experientia, 50(3), 295 - 306.

    1993

    • Bähler J, Wyler T, Loidl J, Kohli J (1993). Unusual nuclear structures in meiotic prophase of fission yeast: a cytological analysis.. J Cell Biol, 121(2), 241 - 256.

    1991

    • Bähler J, Schuchert P, Grimm C, Kohli J (1991). Synchronized meiosis and recombination in fission yeast: observations with pat1-114 diploid cells.. Curr Genet, 19(6), 445 - 451.