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Items: 39

1.

A Novel Mechanism of Inactivating Antibacterial Nitro Compounds in the Human Pathogen Staphylococcus aureus by Overexpression of a NADH-Dependent Flavin Nitroreductase.

El-Hossary EM, Förstner KU, François P, Baud D, Streker K, Schrenzel J, Ohlsen K, Holzgrabe U.

Antimicrob Agents Chemother. 2018 Jan 25;62(2). pii: e01510-17. doi: 10.1128/AAC.01510-17. Print 2018 Feb.

PMID:
29133557
2.

Insights into Microalga and Bacteria Interactions of Selected Phycosphere Biofilms Using Metagenomic, Transcriptomic, and Proteomic Approaches.

Krohn-Molt I, Alawi M, Förstner KU, Wiegandt A, Burkhardt L, Indenbirken D, Thieß M, Grundhoff A, Kehr J, Tholey A, Streit WR.

Front Microbiol. 2017 Oct 10;8:1941. doi: 10.3389/fmicb.2017.01941. eCollection 2017.

3.

GT-rich promoters can drive RNA pol II transcription and deposition of H2A.Z in African trypanosomes.

Wedel C, Förstner KU, Derr R, Siegel TN.

EMBO J. 2017 Sep 1;36(17):2581-2594. doi: 10.15252/embj.201695323. Epub 2017 Jul 12.

4.

An RpoHI-Dependent Response Promotes Outgrowth after Extended Stationary Phase in the Alphaproteobacterium Rhodobacter sphaeroides.

Remes B, Rische-Grahl T, Müller KMH, Förstner KU, Yu SH, Weber L, Jäger A, Peuser V, Klug G.

J Bacteriol. 2017 Jun 27;199(14). pii: e00249-17. doi: 10.1128/JB.00249-17. Print 2017 Jul 15.

5.

APRICOT: an integrated computational pipeline for the sequence-based identification and characterization of RNA-binding proteins.

Sharan M, Förstner KU, Eulalio A, Vogel J.

Nucleic Acids Res. 2017 Jun 20;45(11):e96. doi: 10.1093/nar/gkx137.

6.

sRNA154 a newly identified regulator of nitrogen fixation in Methanosarcina mazei strain Gö1.

Prasse D, Förstner KU, Jäger D, Backofen R, Schmitz RA.

RNA Biol. 2017 Nov 2;14(11):1544-1558. doi: 10.1080/15476286.2017.1306170. Epub 2017 Apr 27.

PMID:
28296572
7.

Transcription Profiling of Bacillus subtilis Cells Infected with AR9, a Giant Phage Encoding Two Multisubunit RNA Polymerases.

Lavysh D, Sokolova M, Slashcheva M, Förstner KU, Severinov K.

MBio. 2017 Feb 14;8(1). pii: e02041-16. doi: 10.1128/mBio.02041-16.

8.

In Vivo Cleavage Map Illuminates the Central Role of RNase E in Coding and Non-coding RNA Pathways.

Chao Y, Li L, Girodat D, Förstner KU, Said N, Corcoran C, Śmiga M, Papenfort K, Reinhardt R, Wieden HJ, Luisi BF, Vogel J.

Mol Cell. 2017 Jan 5;65(1):39-51. doi: 10.1016/j.molcel.2016.11.002.

9.

The Absence of the N-acyl-homoserine-lactone Autoinducer Synthase Genes traI and ngrI Increases the Copy Number of the Symbiotic Plasmid in Sinorhizobium fredii NGR234.

Grote J, Krysciak D, Petersen K, Güllert S, Schmeisser C, Förstner KU, Krishnan HB, Schwalbe H, Kubatova N, Streit WR.

Front Microbiol. 2016 Nov 18;7:1858. eCollection 2016.

10.

The primary transcriptome of the Escherichia coli O104:H4 pAA plasmid and novel insights into its virulence gene expression and regulation.

Berger P, Knödler M, Förstner KU, Berger M, Bertling C, Sharma CM, Vogel J, Karch H, Dobrindt U, Mellmann A.

Sci Rep. 2016 Oct 17;6:35307. doi: 10.1038/srep35307.

11.

Grad-seq guides the discovery of ProQ as a major small RNA-binding protein.

Smirnov A, Förstner KU, Holmqvist E, Otto A, Günster R, Becher D, Reinhardt R, Vogel J.

Proc Natl Acad Sci U S A. 2016 Oct 11;113(41):11591-11596. Epub 2016 Sep 26.

12.

Genome-wide identification of transcriptional start sites in the haloarchaeon Haloferax volcanii based on differential RNA-Seq (dRNA-Seq).

Babski J, Haas KA, Näther-Schindler D, Pfeiffer F, Förstner KU, Hammelmann M, Hilker R, Becker A, Sharma CM, Marchfelder A, Soppa J.

BMC Genomics. 2016 Aug 12;17(1):629. doi: 10.1186/s12864-016-2920-y.

13.

Effect of Shear Stress on Pseudomonas aeruginosa Isolated from the Cystic Fibrosis Lung.

Dingemans J, Monsieurs P, Yu SH, Crabbé A, Förstner KU, Malfroot A, Cornelis P, Van Houdt R.

MBio. 2016 Aug 2;7(4). pii: e00813-16. doi: 10.1128/mBio.00813-16.

14.

cis-Encoded Small RNAs, a Conserved Mechanism for Repression of Polysaccharide Utilization in Bacteroides.

Cao Y, Förstner KU, Vogel J, Smith CJ.

J Bacteriol. 2016 Aug 25;198(18):2410-8. doi: 10.1128/JB.00381-16. Print 2016 Sep 15.

15.

Analysis of the Microprocessor in Dictyostelium: The Role of RbdB, a dsRNA Binding Protein.

Meier D, Kruse J, Buttlar J, Friedrich M, Zenk F, Boesler B, Förstner KU, Hammann C, Nellen W.

PLoS Genet. 2016 Jun 6;12(6):e1006057. doi: 10.1371/journal.pgen.1006057. eCollection 2016 Jun.

16.

Natural mutations in a Staphylococcus aureus virulence regulator attenuate cytotoxicity but permit bacteremia and abscess formation.

Das S, Lindemann C, Young BC, Muller J, Österreich B, Ternette N, Winkler AC, Paprotka K, Reinhardt R, Förstner KU, Allen E, Flaxman A, Yamaguchi Y, Rollier CS, van Diemen P, Blättner S, Remmele CW, Selle M, Dittrich M, Müller T, Vogel J, Ohlsen K, Crook DW, Massey R, Wilson DJ, Rudel T, Wyllie DH, Fraunholz MJ.

Proc Natl Acad Sci U S A. 2016 May 31;113(22):E3101-10. doi: 10.1073/pnas.1520255113. Epub 2016 May 16.

17.

Genome-wide transcription start site mapping of Bradyrhizobium japonicum grown free-living or in symbiosis - a rich resource to identify new transcripts, proteins and to study gene regulation.

Čuklina J, Hahn J, Imakaev M, Omasits U, Förstner KU, Ljubimov N, Goebel M, Pessi G, Fischer HM, Ahrens CH, Gelfand MS, Evguenieva-Hackenberg E.

BMC Genomics. 2016 Apr 23;17:302. doi: 10.1186/s12864-016-2602-9.

18.

Dual RNA-seq unveils noncoding RNA functions in host-pathogen interactions.

Westermann AJ, Förstner KU, Amman F, Barquist L, Chao Y, Schulte LN, Müller L, Reinhardt R, Stadler PF, Vogel J.

Nature. 2016 Jan 28;529(7587):496-501. doi: 10.1038/nature16547. Epub 2016 Jan 20.

PMID:
26789254
19.

Phenotypic Heterogeneity Affects Stenotrophomonas maltophilia K279a Colony Morphotypes and β-Lactamase Expression.

Abda EM, Krysciak D, Krohn-Molt I, Mamat U, Schmeisser C, Förstner KU, Schaible UE, Kohl TA, Nieman S, Streit WR.

Front Microbiol. 2015 Dec 2;6:1373. doi: 10.3389/fmicb.2015.01373. eCollection 2015.

20.

Genome-wide transcription start site profiling in biofilm-grown Burkholderia cenocepacia J2315.

Sass AM, Van Acker H, Förstner KU, Van Nieuwerburgh F, Deforce D, Vogel J, Coenye T.

BMC Genomics. 2015 Oct 13;16:775. doi: 10.1186/s12864-015-1993-3.

21.

An open science peer review oath.

Aleksic J, Alexa A, Attwood TK, Chue Hong N, Dahlö M, Davey R, Dinkel H, Förstner KU, Grigorov I, Hériché JK, Lahti L, MacLean D, Markie ML, Molloy J, Schneider MV, Scott C, Smith-Unna R, Vieira BM; as part of the AllBio: Open Science & Reproducibility Best Practice Workshop.

Version 2. F1000Res. 2014 Nov 12 [revised 2015 Jan 1];3:271. doi: 10.12688/f1000research.5686.2. eCollection 2014.

22.

Differential RNA-seq of Vibrio cholerae identifies the VqmR small RNA as a regulator of biofilm formation.

Papenfort K, Förstner KU, Cong JP, Sharma CM, Bassler BL.

Proc Natl Acad Sci U S A. 2015 Feb 17;112(7):E766-75. doi: 10.1073/pnas.1500203112. Epub 2015 Feb 2.

23.

Ten simple rules for organizing an unconference.

Budd A, Dinkel H, Corpas M, Fuller JC, Rubinat L, Devos DP, Khoueiry PH, Förstner KU, Georgatos F, Rowland F, Sharan M, Binder JX, Grace T, Traphagen K, Gristwood A, Wood NT.

PLoS Comput Biol. 2015 Jan 29;11(1):e1003905. doi: 10.1371/journal.pcbi.1003905. eCollection 2015 Jan. No abstract available.

24.

Argonaute proteins affect siRNA levels and accumulation of a novel extrachromosomal DNA from the Dictyostelium retrotransposon DIRS-1.

Boesler B, Meier D, Förstner KU, Friedrich M, Hammann C, Sharma CM, Nellen W.

J Biol Chem. 2014 Dec 19;289(51):35124-38. doi: 10.1074/jbc.M114.612663. Epub 2014 Oct 28.

25.

Profound impact of Hfq on nutrient acquisition, metabolism and motility in the plant pathogen Agrobacterium tumefaciens.

Möller P, Overlöper A, Förstner KU, Wen TN, Sharma CM, Lai EM, Narberhaus F.

PLoS One. 2014 Oct 17;9(10):e110427. doi: 10.1371/journal.pone.0110427. eCollection 2014.

26.

Global transcriptional start site mapping using differential RNA sequencing reveals novel antisense RNAs in Escherichia coli.

Thomason MK, Bischler T, Eisenbart SK, Förstner KU, Zhang A, Herbig A, Nieselt K, Sharma CM, Storz G.

J Bacteriol. 2015 Jan 1;197(1):18-28. doi: 10.1128/JB.02096-14. Epub 2014 Sep 29.

27.

Role of oxygen and the OxyR protein in the response to iron limitation in Rhodobacter sphaeroides.

Remes B, Berghoff BA, Förstner KU, Klug G.

BMC Genomics. 2014 Sep 15;15:794. doi: 10.1186/1471-2164-15-794.

28.

Evolution of resistance to a last-resort antibiotic in Staphylococcus aureus via bacterial competition.

Koch G, Yepes A, Förstner KU, Wermser C, Stengel ST, Modamio J, Ohlsen K, Foster KR, Lopez D.

Cell. 2014 Aug 28;158(5):1060-1071. doi: 10.1016/j.cell.2014.06.046.

29.

Functional high-throughput screening identifies the miR-15 microRNA family as cellular restriction factors for Salmonella infection.

Maudet C, Mano M, Sunkavalli U, Sharan M, Giacca M, Förstner KU, Eulalio A.

Nat Commun. 2014 Aug 22;5:4718. doi: 10.1038/ncomms5718.

PMID:
25146723
30.

Primary transcriptome map of the hyperthermophilic archaeon Thermococcus kodakarensis.

Jäger D, Förstner KU, Sharma CM, Santangelo TJ, Reeve JN.

BMC Genomics. 2014 Aug 16;15:684. doi: 10.1186/1471-2164-15-684.

31.

READemption-a tool for the computational analysis of deep-sequencing-based transcriptome data.

Förstner KU, Vogel J, Sharma CM.

Bioinformatics. 2014 Dec 1;30(23):3421-3. doi: 10.1093/bioinformatics/btu533. Epub 2014 Aug 13.

PMID:
25123900
32.

Regulation of transcription termination by glucosylated hydroxymethyluracil, base J, in Leishmania major and Trypanosoma brucei.

Reynolds D, Cliffe L, Förstner KU, Hon CC, Siegel TN, Sabatini R.

Nucleic Acids Res. 2014 Sep;42(15):9717-29. doi: 10.1093/nar/gku714. Epub 2014 Aug 7.

33.

RNA sequencing analysis of the broad-host-range strain Sinorhizobium fredii NGR234 identifies a large set of genes linked to quorum sensing-dependent regulation in the background of a traI and ngrI deletion mutant.

Krysciak D, Grote J, Rodriguez Orbegoso M, Utpatel C, Förstner KU, Li L, Schmeisser C, Krishnan HB, Streit WR.

Appl Environ Microbiol. 2014 Sep;80(18):5655-71. doi: 10.1128/AEM.01835-14. Epub 2014 Jul 7.

34.

RNase J is required for processing of a small number of RNAs in Rhodobacter sphaeroides.

Rische-Grahl T, Weber L, Remes B, Förstner KU, Klug G.

RNA Biol. 2014;11(7):855-64. doi: 10.4161/rna.29440. Epub 2014 Jun 12.

35.

Target recognition, RNA methylation activity and transcriptional regulation of the Dictyostelium discoideum Dnmt2-homologue (DnmA).

Müller S, Windhof IM, Maximov V, Jurkowski T, Jeltsch A, Förstner KU, Sharma CM, Gräf R, Nellen W.

Nucleic Acids Res. 2013 Oct;41(18):8615-27. doi: 10.1093/nar/gkt634. Epub 2013 Jul 22.

36.

Integrative "omics"-approach discovers dynamic and regulatory features of bacterial stress responses.

Berghoff BA, Konzer A, Mank NN, Looso M, Rische T, Förstner KU, Krüger M, Klug G.

PLoS Genet. 2013 Jun;9(6):e1003576. doi: 10.1371/journal.pgen.1003576. Epub 2013 Jun 20.

37.

High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates.

Dugar G, Herbig A, Förstner KU, Heidrich N, Reinhardt R, Nieselt K, Sharma CM.

PLoS Genet. 2013 May;9(5):e1003495. doi: 10.1371/journal.pgen.1003495. Epub 2013 May 16.

38.

Functional characterization of the RNA chaperone Hfq in the opportunistic human pathogen Stenotrophomonas maltophilia.

Roscetto E, Angrisano T, Costa V, Casalino M, Förstner KU, Sharma CM, Di Nocera PP, De Gregorio E.

J Bacteriol. 2012 Nov;194(21):5864-74. doi: 10.1128/JB.00746-12. Epub 2012 Aug 24.

39.

The primary transcriptome of barley chloroplasts: numerous noncoding RNAs and the dominating role of the plastid-encoded RNA polymerase.

Zhelyazkova P, Sharma CM, Förstner KU, Liere K, Vogel J, Börner T.

Plant Cell. 2012 Jan;24(1):123-36. doi: 10.1105/tpc.111.089441. Epub 2012 Jan 20.

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