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Items: 40

1.

Erratum for Gerke et al., "Breaking the Silence: Protein Stabilization Uncovers Silenced Biosynthetic Gene Clusters in the Fungus Aspergillus nidulans".

Gerke J, Bayram Ö, Feussner K, Landesfeind M, Shelest E, Feussner I, Braus GH.

Appl Environ Microbiol. 2019 Nov 14;85(23). pii: e02251-19. doi: 10.1128/AEM.02251-19. Print 2019 Dec 1. No abstract available.

2.

Chromatin mapping identifies BasR, a key regulator of bacteria-triggered production of fungal secondary metabolites.

Fischer J, Müller SY, Netzker T, Jäger N, Gacek-Matthews A, Scherlach K, Stroe MC, García-Altares M, Pezzini F, Schoeler H, Reichelt M, Gershenzon J, Krespach MK, Shelest E, Schroeckh V, Valiante V, Heinzel T, Hertweck C, Strauss J, Brakhage AA.

Elife. 2018 Oct 12;7. pii: e40969. doi: 10.7554/eLife.40969.

3.

Dissimilar pigment regulation in Serpula lacrymans and Paxillus involutus during inter-kingdom interactions.

Tauber JP, Gallegos-Monterrosa R, Kovács ÁT, Shelest E, Hoffmeister D.

Microbiology. 2018 Jan;164(1):65-77. doi: 10.1099/mic.0.000582. Epub 2017 Dec 5.

PMID:
29205129
4.

Transcription Factors in Fungi: TFome Dynamics, Three Major Families, and Dual-Specificity TFs.

Shelest E.

Front Genet. 2017 May 4;8:53. doi: 10.3389/fgene.2017.00053. eCollection 2017.

5.

antiSMASH 4.0-improvements in chemistry prediction and gene cluster boundary identification.

Blin K, Wolf T, Chevrette MG, Lu X, Schwalen CJ, Kautsar SA, Suarez Duran HG, de Los Santos ELC, Kim HU, Nave M, Dickschat JS, Mitchell DA, Shelest E, Breitling R, Takano E, Lee SY, Weber T, Medema MH.

Nucleic Acids Res. 2017 Jul 3;45(W1):W36-W41. doi: 10.1093/nar/gkx319.

6.

Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus.

de Vries RP, Riley R, Wiebenga A, Aguilar-Osorio G, Amillis S, Uchima CA, Anderluh G, Asadollahi M, Askin M, Barry K, Battaglia E, Bayram Ö, Benocci T, Braus-Stromeyer SA, Caldana C, Cánovas D, Cerqueira GC, Chen F, Chen W, Choi C, Clum A, Dos Santos RA, Damásio AR, Diallinas G, Emri T, Fekete E, Flipphi M, Freyberg S, Gallo A, Gournas C, Habgood R, Hainaut M, Harispe ML, Henrissat B, Hildén KS, Hope R, Hossain A, Karabika E, Karaffa L, Karányi Z, Kraševec N, Kuo A, Kusch H, LaButti K, Lagendijk EL, Lapidus A, Levasseur A, Lindquist E, Lipzen A, Logrieco AF, MacCabe A, Mäkelä MR, Malavazi I, Melin P, Meyer V, Mielnichuk N, Miskei M, Molnár ÁP, Mulé G, Ngan CY, Orejas M, Orosz E, Ouedraogo JP, Overkamp KM, Park HS, Perrone G, Piumi F, Punt PJ, Ram AF, Ramón A, Rauscher S, Record E, Riaño-Pachón DM, Robert V, Röhrig J, Ruller R, Salamov A, Salih NS, Samson RA, Sándor E, Sanguinetti M, Schütze T, Sepčić K, Shelest E, Sherlock G, Sophianopoulou V, Squina FM, Sun H, Susca A, Todd RB, Tsang A, Unkles SE, van de Wiele N, van Rossen-Uffink D, Oliveira JV, Vesth TC, Visser J, Yu JH, Zhou M, Andersen MR, Archer DB, Baker SE, Benoit I, Brakhage AA, Braus GH, Fischer R, Frisvad JC, Goldman GH, Houbraken J, Oakley B, Pócsi I, Scazzocchio C, Seiboth B, vanKuyk PA, Wortman J, Dyer PS, Grigoriev IV.

Genome Biol. 2017 Feb 14;18(1):28. doi: 10.1186/s13059-017-1151-0.

7.

Correction: Gene Expansion Shapes Genome Architecture in the Human Pathogen Lichtheimia corymbifera: An Evolutionary Genomics Analysis in the Ancient Terrestrial Mucorales (Mucoromycotina).

Schwartze VU, Winter S, Shelest E, Marcet-Houben M, Horn F, Wehner S, Linde J, Valiante V, Sammeth M, Riege K, Nowrousian M, Kaerger K, Jacobsen ID, Marz M, Brakhage AA, Gabaldón T, Böcker S, Voigt K.

PLoS Genet. 2016 Dec 5;12(12):e1006491. doi: 10.1371/journal.pgen.1006491. eCollection 2016 Dec.

8.

Comparative genomics to explore phylogenetic relationship, cryptic sexual potential and host specificity of Rhynchosporium species on grasses.

Penselin D, Münsterkötter M, Kirsten S, Felder M, Taudien S, Platzer M, Ashelford K, Paskiewicz KH, Harrison RJ, Hughes DJ, Wolf T, Shelest E, Graap J, Hoffmann J, Wenzel C, Wöltje N, King KM, Fitt BD, Güldener U, Avrova A, Knogge W.

BMC Genomics. 2016 Nov 22;17(1):953.

9.

Bacteria induce pigment formation in the basidiomycete Serpula lacrymans.

Tauber JP, Schroeckh V, Shelest E, Brakhage AA, Hoffmeister D.

Environ Microbiol. 2016 Dec;18(12):5218-5227. doi: 10.1111/1462-2920.13558. Epub 2016 Oct 24.

PMID:
27699944
10.

Editorial: Systems Biology of Transcription Regulation.

Shelest E, Wingender E.

Front Genet. 2016 Jul 6;7:124. doi: 10.3389/fgene.2016.00124. eCollection 2016. No abstract available.

11.

The Aspergillus fumigatus conidial melanin production is regulated by the bifunctional bHLH DevR and MADS-box RlmA transcription factors.

Valiante V, Baldin C, Hortschansky P, Jain R, Thywißen A, Straßburger M, Shelest E, Heinekamp T, Brakhage AA.

Mol Microbiol. 2016 Oct;102(2):321-335. doi: 10.1111/mmi.13462. Epub 2016 Jul 28.

12.

Expansion of Signal Transduction Pathways in Fungi by Extensive Genome Duplication.

Corrochano LM, Kuo A, Marcet-Houben M, Polaino S, Salamov A, Villalobos-Escobedo JM, Grimwood J, Álvarez MI, Avalos J, Bauer D, Benito EP, Benoit I, Burger G, Camino LP, Cánovas D, Cerdá-Olmedo E, Cheng JF, Domínguez A, Eliáš M, Eslava AP, Glaser F, Gutiérrez G, Heitman J, Henrissat B, Iturriaga EA, Lang BF, Lavín JL, Lee SC, Li W, Lindquist E, López-García S, Luque EM, Marcos AT, Martin J, McCluskey K, Medina HR, Miralles-Durán A, Miyazaki A, Muñoz-Torres E, Oguiza JA, Ohm RA, Olmedo M, Orejas M, Ortiz-Castellanos L, Pisabarro AG, Rodríguez-Romero J, Ruiz-Herrera J, Ruiz-Vázquez R, Sanz C, Schackwitz W, Shahriari M, Shelest E, Silva-Franco F, Soanes D, Syed K, Tagua VG, Talbot NJ, Thon MR, Tice H, de Vries RP, Wiebenga A, Yadav JS, Braun EL, Baker SE, Garre V, Schmutz J, Horwitz BA, Torres-Martínez S, Idnurm A, Herrera-Estrella A, Gabaldón T, Grigoriev IV.

Curr Biol. 2016 Jun 20;26(12):1577-1584. doi: 10.1016/j.cub.2016.04.038. Epub 2016 May 26.

13.

Data-based Reconstruction of Gene Regulatory Networks of Fungal Pathogens.

Guthke R, Gerber S, Conrad T, Vlaic S, Durmuş S, Çakır T, Sevilgen FE, Shelest E, Linde J.

Front Microbiol. 2016 Apr 22;7:570. doi: 10.3389/fmicb.2016.00570. eCollection 2016.

14.

The hypoxia-induced dehydrogenase HorA is required for coenzyme Q10 biosynthesis, azole sensitivity and virulence of Aspergillus fumigatus.

Kroll K, Shekhova E, Mattern DJ, Thywissen A, Jacobsen ID, Strassburger M, Heinekamp T, Shelest E, Brakhage AA, Kniemeyer O.

Mol Microbiol. 2016 Jul;101(1):92-108. doi: 10.1111/mmi.13377. Epub 2016 May 3.

15.

HapX Mediates Iron Homeostasis in the Pathogenic Dermatophyte Arthroderma benhamiae but Is Dispensable for Virulence.

Kröber A, Scherlach K, Hortschansky P, Shelest E, Staib P, Kniemeyer O, Brakhage AA.

PLoS One. 2016 Mar 9;11(3):e0150701. doi: 10.1371/journal.pone.0150701. eCollection 2016.

16.

Draft Genome Sequence of Shewanella sp. Strain P1-14-1, a Bacterial Inducer of Settlement and Morphogenesis in Larvae of the Marine Hydroid Hydractinia echinata.

Rischer M, Klassen JL, Wolf T, Guo H, Shelest E, Clardy J, Beemelmanns C.

Genome Announc. 2016 Feb 18;4(1). pii: e00003-16. doi: 10.1128/genomeA.00003-16.

17.

Draft Genome Sequences of Six Pseudoalteromonas Strains, P1-7a, P1-9, P1-13-1a, P1-16-1b, P1-25, and P1-26, Which Induce Larval Settlement and Metamorphosis in Hydractinia echinata.

Klassen JL, Wolf T, Rischer M, Guo H, Shelest E, Clardy J, Beemelmanns C.

Genome Announc. 2015 Dec 17;3(6). pii: e01477-15. doi: 10.1128/genomeA.01477-15.

18.

Genome Sequences of Three Pseudoalteromonas Strains (P1-8, P1-11, and P1-30), Isolated from the Marine Hydroid Hydractinia echinata.

Klassen JL, Rischer M, Wolf T, Guo H, Shelest E, Clardy J, Beemelmanns C.

Genome Announc. 2015 Dec 10;3(6). pii: e01380-15. doi: 10.1128/genomeA.01380-15.

19.

CASSIS and SMIPS: promoter-based prediction of secondary metabolite gene clusters in eukaryotic genomes.

Wolf T, Shelest V, Nath N, Shelest E.

Bioinformatics. 2016 Apr 15;32(8):1138-43. doi: 10.1093/bioinformatics/btv713. Epub 2015 Dec 9.

20.

Multimodular type I polyketide synthases in algae evolve by module duplications and displacement of AT domains in trans.

Shelest E, Heimerl N, Fichtner M, Sasso S.

BMC Genomics. 2015 Nov 26;16:1015. doi: 10.1186/s12864-015-2222-9.

21.

Glucocorticoids limit acute lung inflammation in concert with inflammatory stimuli by induction of SphK1.

Vettorazzi S, Bode C, Dejager L, Frappart L, Shelest E, Klaßen C, Tasdogan A, Reichardt HM, Libert C, Schneider M, Weih F, Henriette Uhlenhaut N, David JP, Gräler M, Kleiman A, Tuckermann JP.

Nat Commun. 2015 Jul 17;6:7796. doi: 10.1038/ncomms8796.

22.

Comments on the distribution and phylogeny of type I polyketide synthases and nonribosomal peptide synthetases in eukaryotes.

Sasso S, Shelest E, Hoffmeister D.

Proc Natl Acad Sci U S A. 2014 Sep 23;111(38):E3946. doi: 10.1073/pnas.1412766111. Epub 2014 Sep 2. No abstract available.

23.

Gene expansion shapes genome architecture in the human pathogen Lichtheimia corymbifera: an evolutionary genomics analysis in the ancient terrestrial mucorales (Mucoromycotina).

Schwartze VU, Winter S, Shelest E, Marcet-Houben M, Horn F, Wehner S, Linde J, Valiante V, Sammeth M, Riege K, Nowrousian M, Kaerger K, Jacobsen ID, Marz M, Brakhage AA, Gabaldón T, Böcker S, Voigt K.

PLoS Genet. 2014 Aug 14;10(8):e1004496. doi: 10.1371/journal.pgen.1004496. eCollection 2014 Aug. Erratum in: PLoS Genet. 2016 Dec 5;12 (12 ):e1006491.

24.

Terrein biosynthesis in Aspergillus terreus and its impact on phytotoxicity.

Zaehle C, Gressler M, Shelest E, Geib E, Hertweck C, Brock M.

Chem Biol. 2014 Jun 19;21(6):719-31. doi: 10.1016/j.chembiol.2014.03.010. Epub 2014 May 8.

25.

[Intensity of intravascular microcoagulation in chronic obstructive pulmonary disease with atherotrombosis and thrombophilia].

Shelest EA, Popova LV, Shuganov EG, Bokarev IN.

Klin Med (Mosk). 2013;91(11):4-7. Review. Russian.

PMID:
25696958
26.

The fungal α-aminoadipate pathway for lysine biosynthesis requires two enzymes of the aconitase family for the isomerization of homocitrate to homoisocitrate.

Fazius F, Shelest E, Gebhardt P, Brock M.

Mol Microbiol. 2012 Dec;86(6):1508-30. doi: 10.1111/mmi.12076. Epub 2012 Nov 6.

27.

Evolutionary imprint of catalytic domains in fungal PKS-NRPS hybrids.

Boettger D, Bergmann H, Kuehn B, Shelest E, Hertweck C.

Chembiochem. 2012 Nov 5;13(16):2363-73. doi: 10.1002/cbic.201200449. Epub 2012 Sep 28.

PMID:
23023987
28.

Breaking the silence: protein stabilization uncovers silenced biosynthetic gene clusters in the fungus Aspergillus nidulans.

Gerke J, Bayram O, Feussner K, Landesfeind M, Shelest E, Feussner I, Braus GH.

Appl Environ Microbiol. 2012 Dec;78(23):8234-44. doi: 10.1128/AEM.01808-12. Epub 2012 Sep 21. Erratum in: Appl Environ Microbiol. 2019 Nov 14;85(23):.

29.

Comparative genome analysis of Trichophyton rubrum and related dermatophytes reveals candidate genes involved in infection.

Martinez DA, Oliver BG, Gräser Y, Goldberg JM, Li W, Martinez-Rossi NM, Monod M, Shelest E, Barton RC, Birch E, Brakhage AA, Chen Z, Gurr SJ, Heiman D, Heitman J, Kosti I, Rossi A, Saif S, Samalova M, Saunders CW, Shea T, Summerbell RC, Xu J, Young S, Zeng Q, Birren BW, Cuomo CA, White TC.

mBio. 2012 Sep 4;3(5):e00259-12. doi: 10.1128/mBio.00259-12. Print 2012.

30.

Novel traits of Trichoderma predicted through the analysis of its secretome.

Druzhinina IS, Shelest E, Kubicek CP.

FEMS Microbiol Lett. 2012 Dec;337(1):1-9. doi: 10.1111/j.1574-6968.2012.02665.x. Epub 2012 Sep 18. Review.

31.

SiTaR: a novel tool for transcription factor binding site prediction.

Fazius E, Shelest V, Shelest E.

Bioinformatics. 2011 Oct 15;27(20):2806-11. doi: 10.1093/bioinformatics/btr492. Epub 2011 Sep 4.

PMID:
21893518
32.

Comparative and functional genomics provide insights into the pathogenicity of dermatophytic fungi.

Burmester A, Shelest E, Glöckner G, Heddergott C, Schindler S, Staib P, Heidel A, Felder M, Petzold A, Szafranski K, Feuermann M, Pedruzzi I, Priebe S, Groth M, Winkler R, Li W, Kniemeyer O, Schroeckh V, Hertweck C, Hube B, White TC, Platzer M, Guthke R, Heitman J, Wöstemeyer J, Zipfel PF, Monod M, Brakhage AA.

Genome Biol. 2011;12(1):R7. doi: 10.1186/gb-2011-12-1-r7. Epub 2011 Jan 19.

33.

Activation of a silent fungal polyketide biosynthesis pathway through regulatory cross talk with a cryptic nonribosomal peptide synthetase gene cluster.

Bergmann S, Funk AN, Scherlach K, Schroeckh V, Shelest E, Horn U, Hertweck C, Brakhage AA.

Appl Environ Microbiol. 2010 Dec;76(24):8143-9. doi: 10.1128/AEM.00683-10. Epub 2010 Oct 15.

34.

DistanceScan: a tool for promoter modeling.

Shelest V, Albrecht D, Shelest E.

Bioinformatics. 2010 Jun 1;26(11):1460-2. doi: 10.1093/bioinformatics/btq132. Epub 2010 Mar 25.

PMID:
20360058
35.

Intimate bacterial-fungal interaction triggers biosynthesis of archetypal polyketides in Aspergillus nidulans.

Schroeckh V, Scherlach K, Nützmann HW, Shelest E, Schmidt-Heck W, Schuemann J, Martin K, Hertweck C, Brakhage AA.

Proc Natl Acad Sci U S A. 2009 Aug 25;106(34):14558-63. doi: 10.1073/pnas.0901870106. Epub 2009 Aug 6.

36.
37.

Transcription factors in fungi.

Shelest E.

FEMS Microbiol Lett. 2008 Sep;286(2):145-51. doi: 10.1111/j.1574-6968.2008.01293.x. Review.

38.

Evaluating phylogenetic footprinting for human-rodent comparisons.

Sauer T, Shelest E, Wingender E.

Bioinformatics. 2006 Feb 15;22(4):430-7. Epub 2005 Dec 6.

PMID:
16332706
39.
40.

Prediction of potential C/EBP/NF-kappaB composite elements using matrix-based search methods.

Shelest E, Kel AE, Göessling E, Wingender E.

In Silico Biol. 2003;3(1-2):71-9. Epub 2002 Dec 8.

PMID:
12762847

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