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Items: 1 to 50 of 65

1.

Transposon-associated epigenetic silencing during Pleurotus ostreatus life cycle.

Borgognone A, Castanera R, Morselli M, López-Varas L, Rubbi L, Pisabarro AG, Pellegrini M, Ramírez L.

DNA Res. 2018 Oct 1;25(5):451-464. doi: 10.1093/dnares/dsy016.

2.

Comparative genomics of Coniophora olivacea reveals different patterns of genome expansion in Boletales.

Castanera R, Pérez G, López-Varas L, Amselem J, LaButti K, Singan V, Lipzen A, Haridas S, Barry K, Grigoriev IV, Pisabarro AG, Ramírez L.

BMC Genomics. 2017 Nov 16;18(1):883. doi: 10.1186/s12864-017-4243-z.

3.

Somatic transposition and meiotically driven elimination of an active helitron family in Pleurotus ostreatus.

Borgognone A, Castanera R, Muguerza E, Pisabarro AG, Ramírez L.

DNA Res. 2017 Apr 1;24(2):103-115. doi: 10.1093/dnares/dsw060.

4.

Biology, dynamics, and applications of transposable elements in basidiomycete fungi.

Castanera R, Borgognone A, Pisabarro AG, Ramírez L.

Appl Microbiol Biotechnol. 2017 Feb;101(4):1337-1350. doi: 10.1007/s00253-017-8097-8. Epub 2017 Jan 10. Review.

PMID:
28074220
5.

Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles.

Castanera R, López-Varas L, Borgognone A, LaButti K, Lapidus A, Schmutz J, Grimwood J, Pérez G, Pisabarro AG, Grigoriev IV, Stajich JE, Ramírez L.

PLoS Genet. 2016 Jun 13;12(6):e1006108. doi: 10.1371/journal.pgen.1006108. eCollection 2016 Jun.

6.

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.

7.

Comparative and transcriptional analysis of the predicted secretome in the lignocellulose-degrading basidiomycete fungus Pleurotus ostreatus.

Alfaro M, Castanera R, Lavín JL, Grigoriev IV, Oguiza JA, Ramírez L, Pisabarro AG.

Environ Microbiol. 2016 Dec;18(12):4710-4726. doi: 10.1111/1462-2920.13360. Epub 2016 Jun 8.

PMID:
27117896
8.

A secretomic view of woody and nonwoody lignocellulose degradation by Pleurotus ostreatus.

Fernández-Fueyo E, Ruiz-Dueñas FJ, López-Lucendo MF, Pérez-Boada M, Rencoret J, Gutiérrez A, Pisabarro AG, Ramírez L, Martínez AT.

Biotechnol Biofuels. 2016 Feb 29;9:49. doi: 10.1186/s13068-016-0462-9. eCollection 2016.

9.

Validation of Reference Genes for Transcriptional Analyses in Pleurotus ostreatus by Using Reverse Transcription-Quantitative PCR.

Castanera R, López-Varas L, Pisabarro AG, Ramírez L.

Appl Environ Microbiol. 2015 Jun 15;81(12):4120-9. doi: 10.1128/AEM.00402-15. Epub 2015 Apr 10.

10.

Genomewide analysis of phytochrome proteins in the phylum Basidiomycota.

Lavín JL, Ramírez L, Pisabarro AG, Oguiza JA.

J Basic Microbiol. 2015 Sep;55(9):1141-7. doi: 10.1002/jobm.201500078. Epub 2015 Apr 7.

PMID:
25847700
11.

Highly expressed captured genes and cross-kingdom domains present in Helitrons create novel diversity in Pleurotus ostreatus and other fungi.

Castanera R, Pérez G, López L, Sancho R, Santoyo F, Alfaro M, Gabaldón T, Pisabarro AG, Oguiza JA, Ramírez L.

BMC Genomics. 2014 Dec 5;15:1071. doi: 10.1186/1471-2164-15-1071.

12.

Transcriptome characteristics of filamentous fungi deduced using high-throughput analytical technologies.

Meijueiro ML, Santoyo F, Ramírez L, Pisabarro AG.

Brief Funct Genomics. 2014 Nov;13(6):440-50. doi: 10.1093/bfgp/elu033. Epub 2014 Sep 11. Review.

PMID:
25212483
13.

Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi.

Riley R, Salamov AA, Brown DW, Nagy LG, Floudas D, Held BW, Levasseur A, Lombard V, Morin E, Otillar R, Lindquist EA, Sun H, LaButti KM, Schmutz J, Jabbour D, Luo H, Baker SE, Pisabarro AG, Walton JD, Blanchette RA, Henrissat B, Martin F, Cullen D, Hibbett DS, Grigoriev IV.

Proc Natl Acad Sci U S A. 2014 Jul 8;111(27):9923-8. doi: 10.1073/pnas.1400592111. Epub 2014 Jun 23. Erratum in: Proc Natl Acad Sci U S A. 2014 Oct 14;111(41):14959.

14.

Comparative analysis of secretomes in basidiomycete fungi.

Alfaro M, Oguiza JA, Ramírez L, Pisabarro AG.

J Proteomics. 2014 May 6;102:28-43. doi: 10.1016/j.jprot.2014.03.001. Epub 2014 Mar 12. Review.

PMID:
24631824
15.

Dual-histidine kinases in basidiomycete fungi.

Lavín JL, Sarasola-Puente V, Ramírez L, Pisabarro AG, Oguiza JA.

C R Biol. 2014 Feb;337(2):111-6. doi: 10.1016/j.crvi.2013.12.007. Epub 2014 Feb 10.

PMID:
24581805
16.

Ligninolytic peroxidase gene expression by Pleurotus ostreatus: differential regulation in lignocellulose medium and effect of temperature and pH.

Fernández-Fueyo E, Castanera R, Ruiz-Dueñas FJ, López-Lucendo MF, Ramírez L, Pisabarro AG, Martínez AT.

Fungal Genet Biol. 2014 Nov;72:150-161. doi: 10.1016/j.fgb.2014.02.003. Epub 2014 Feb 18.

17.

Non-additive transcriptional profiles underlie dikaryotic superiority in Pleurotus ostreatus laccase activity.

Castanera R, Omarini A, Santoyo F, Pérez G, Pisabarro AG, Ramírez L.

PLoS One. 2013 Sep 5;8(9):e73282. doi: 10.1371/journal.pone.0073282. eCollection 2013.

18.

FUNGALOXPHOS: an integrated database for oxidative phosphorylation in fungi.

Lavín JL, Marcet-Houben M, Gutiérrez-Vázquez RL, Ramírez L, Pisabarro AG, Gabaldón T, Oguiza JA.

Mitochondrion. 2013 Jul;13(4):357-9. doi: 10.1016/j.mito.2013.04.009. Epub 2013 Apr 28.

PMID:
23628689
19.

Induction of laccase activity in the white rot fungus Pleurotus ostreatus using water polluted with wheat straw extracts.

Parenti A, Muguerza E, Iroz AR, Omarini A, Conde E, Alfaro M, Castanera R, Santoyo F, Ramírez L, Pisabarro AG.

Bioresour Technol. 2013 Apr;133:142-9. doi: 10.1016/j.biortech.2013.01.072. Epub 2013 Jan 30.

PMID:
23425584
20.

Two-component signal transduction in Agaricus bisporus: a comparative genomic analysis with other basidiomycetes through the web-based tool BASID2CS.

Lavín JL, García-Yoldi A, Ramírez L, Pisabarro AG, Oguiza JA.

Fungal Genet Biol. 2013 Jun;55:77-84. doi: 10.1016/j.fgb.2012.09.012. Epub 2012 Oct 31.

PMID:
23123423
21.

Transcriptional and enzymatic profiling of Pleurotus ostreatus laccase genes in submerged and solid-state fermentation cultures.

Castanera R, Pérez G, Omarini A, Alfaro M, Pisabarro AG, Faraco V, Amore A, Ramírez L.

Appl Environ Microbiol. 2012 Jun;78(11):4037-45. doi: 10.1128/AEM.07880-11. Epub 2012 Mar 30.

22.

Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis.

Fernandez-Fueyo E, Ruiz-Dueñas FJ, Ferreira P, Floudas D, Hibbett DS, Canessa P, Larrondo LF, James TY, Seelenfreund D, Lobos S, Polanco R, Tello M, Honda Y, Watanabe T, Watanabe T, Ryu JS, Kubicek CP, Schmoll M, Gaskell J, Hammel KE, St John FJ, Vanden Wymelenberg A, Sabat G, Splinter BonDurant S, Syed K, Yadav JS, Doddapaneni H, Subramanian V, Lavín JL, Oguiza JA, Perez G, Pisabarro AG, Ramirez L, Santoyo F, Master E, Coutinho PM, Henrissat B, Lombard V, Magnuson JK, Kües U, Hori C, Igarashi K, Samejima M, Held BW, Barry KW, LaButti KM, Lapidus A, Lindquist EA, Lucas SM, Riley R, Salamov AA, Hoffmeister D, Schwenk D, Hadar Y, Yarden O, de Vries RP, Wiebenga A, Stenlid J, Eastwood D, Grigoriev IV, Berka RM, Blanchette RA, Kersten P, Martinez AT, Vicuna R, Cullen D.

Proc Natl Acad Sci U S A. 2012 Apr 3;109(14):5458-63. doi: 10.1073/pnas.1119912109. Epub 2012 Mar 20. Erratum in: Proc Natl Acad Sci U S A. 2012 May 22;109(21):8352. San, Ryu Jae [corrected to Ryu, Jae San].

23.

Genomics and transcriptomics characterization of genes expressed during postharvest at 4°C by the edible basidiomycete Pleurotus ostreatus.

Ramírez L, Oguiza JA, Pérez G, Lavín JL, Omarini A, Santoyo F, Alfaro M, Castanera R, Parenti A, Muguerza E, Pisabarro AG.

Int Microbiol. 2011 Jun;14(2):111-20.

24.

The plant cell wall-decomposing machinery underlies the functional diversity of forest fungi.

Eastwood DC, Floudas D, Binder M, Majcherczyk A, Schneider P, Aerts A, Asiegbu FO, Baker SE, Barry K, Bendiksby M, Blumentritt M, Coutinho PM, Cullen D, de Vries RP, Gathman A, Goodell B, Henrissat B, Ihrmark K, Kauserud H, Kohler A, LaButti K, Lapidus A, Lavin JL, Lee YH, Lindquist E, Lilly W, Lucas S, Morin E, Murat C, Oguiza JA, Park J, Pisabarro AG, Riley R, Rosling A, Salamov A, Schmidt O, Schmutz J, Skrede I, Stenlid J, Wiebenga A, Xie X, Kües U, Hibbett DS, Hoffmeister D, Högberg N, Martin F, Grigoriev IV, Watkinson SC.

Science. 2011 Aug 5;333(6043):762-5. doi: 10.1126/science.1205411. Epub 2011 Jul 14. Erratum in: Science. 2011 Sep 30;333(6051):1825.

25.

Differences in two-component signal transduction proteins among the genus Brucella: implications for host preference and pathogenesis.

Lavín JL, Binnewies TT, Pisabarro AG, Ussery DW, García-Lobo JM, Oguiza JA.

Vet Microbiol. 2010 Aug 26;144(3-4):478-83. doi: 10.1016/j.vetmic.2010.01.007. Epub 2010 Jan 28.

PMID:
20153589
26.

Genomic analysis of two-component signal transduction proteins in basidiomycetes.

Lavín JL, Ramírez L, Ussery DW, Pisabarro AG, Oguiza JA.

J Mol Microbiol Biotechnol. 2010;18(2):63-73. doi: 10.1159/000277654. Epub 2010 Jan 23.

PMID:
20110730
27.

Reproducible and controllable light induction of in vitro fruiting of the white-rot basidiomycete Pleurotus ostreatus.

Arjona D, Aragón C, Aguilera JA, Ramírez L, Pisabarro AG.

Mycol Res. 2009 May;113(5):552-8. doi: 10.1016/j.mycres.2008.12.006. Epub 2009 Jan 27.

PMID:
19640403
28.

Genome, transcriptome, and secretome analysis of wood decay fungus Postia placenta supports unique mechanisms of lignocellulose conversion.

Martinez D, Challacombe J, Morgenstern I, Hibbett D, Schmoll M, Kubicek CP, Ferreira P, Ruiz-Duenas FJ, Martinez AT, Kersten P, Hammel KE, Vanden Wymelenberg A, Gaskell J, Lindquist E, Sabat G, Bondurant SS, Larrondo LF, Canessa P, Vicuna R, Yadav J, Doddapaneni H, Subramanian V, Pisabarro AG, Lavín JL, Oguiza JA, Master E, Henrissat B, Coutinho PM, Harris P, Magnuson JK, Baker SE, Bruno K, Kenealy W, Hoegger PJ, Kües U, Ramaiya P, Lucas S, Salamov A, Shapiro H, Tu H, Chee CL, Misra M, Xie G, Teter S, Yaver D, James T, Mokrejs M, Pospisek M, Grigoriev IV, Brettin T, Rokhsar D, Berka R, Cullen D.

Proc Natl Acad Sci U S A. 2009 Feb 10;106(6):1954-9. doi: 10.1073/pnas.0809575106. Epub 2009 Feb 4.

29.

Telomere organization in the ligninolytic basidiomycete Pleurotus ostreatus.

Pérez G, Pangilinan J, Pisabarro AG, Ramírez L.

Appl Environ Microbiol. 2009 Mar;75(5):1427-36. doi: 10.1128/AEM.01889-08. Epub 2008 Dec 29.

30.

Comparative genomics of the oxidative phosphorylation system in fungi.

Lavín JL, Oguiza JA, Ramírez L, Pisabarro AG.

Fungal Genet Biol. 2008 Sep;45(9):1248-56. doi: 10.1016/j.fgb.2008.06.005. Epub 2008 Jul 3.

PMID:
18647654
31.

Genetic networks for the functional study of genomes.

Pisabarro AG, Pérez G, Lavín JL, Ramírez L.

Brief Funct Genomic Proteomic. 2008 Jul;7(4):249-63. doi: 10.1093/bfgp/eln026. Epub 2008 Jun 25.

PMID:
18579617
32.

Genetic linkage map and expression analysis of genes expressed in the lamellae of the edible basidiomycete Pleurotus ostreatus.

Park SK, Peñas MM, Ramírez L, Pisabarro AG.

Fungal Genet Biol. 2006 May;43(5):376-87. Epub 2006 Mar 13.

PMID:
16531085
33.

Purification and sequencing of cerein 7B, a novel bacteriocin produced by Bacillus cereus Bc7.

Oscáriz JC, Cintas L, Holo H, Lasa I, Nes IF, Pisabarro AG.

FEMS Microbiol Lett. 2006 Jan;254(1):108-15.

34.

Identification and functional characterisation of ctr1, a Pleurotus ostreatus gene coding for a copper transporter.

Peñas MM, Azparren G, Domínguez A, Sommer H, Ramírez L, Pisabarro AG.

Mol Genet Genomics. 2005 Nov;274(4):402-9. Epub 2005 Aug 17.

PMID:
16133162
35.

Structure of gene coding for the fruit body-specific hydrophobin Fbh1 of the edible basidiomycete Pleurotus ostreatus.

Peñas MM, Aranguren J, Ramírez L, Pisabarro AG.

Mycologia. 2004 Jan-Feb;96(1):75-82.

PMID:
21148831
36.
37.

Diffusional properties of methanogenic granular sludge: 1H NMR characterization.

Lens PN, Gastesi R, Vergeldt F, van Aelst AC, Pisabarro AG, Van As H.

Appl Environ Microbiol. 2003 Nov;69(11):6644-9.

38.

Spinning-off and joining ventures in microbiology.

Pisabarro AG.

Int Microbiol. 2003 Jun;6(2):85-6. No abstract available.

PMID:
12959087
39.
40.

Solid-phase handling of hydrophobins: immobilized hydrophobins as a new tool to study lipases.

Palomo JM, Peñas MM, Fernández-Lorente G, Mateo C, Pisabarro AG, Fernández-Lafuente R, Ramírez L, Guisán JM.

Biomacromolecules. 2003 Mar-Apr;4(2):204-10.

PMID:
12625713
41.

Differentially regulated, vegetative-mycelium-specific hydrophobins of the edible basidiomycete Pleurotus ostreatus.

Peñas MM, Rust B, Larraya LM, Ramírez L, Pisabarro AG.

Appl Environ Microbiol. 2002 Aug;68(8):3891-8.

42.

Quantitative trait loci controlling vegetative growth rate in the edible basidiomycete Pleurotus ostreatus.

Larraya LM, Idareta E, Arana D, Ritter E, Pisabarro AG, Ramírez L.

Appl Environ Microbiol. 2002 Mar;68(3):1109-14.

43.

Classification and mode of action of membrane-active bacteriocins produced by gram-positive bacteria.

Oscáriz JC, Pisabarro AG.

Int Microbiol. 2001 Mar;4(1):13-9. Review.

PMID:
11770815
44.

Relationship between monokaryotic growth rate and mating type in the edible basidiomycete Pleurotus ostreatus.

Larraya LM, Pérez G, Iribarren I, Blanco JA, Alfonso M, Pisabarro AG, Ramírez L.

Appl Environ Microbiol. 2001 Aug;67(8):3385-90.

45.

Use of molecular markers to differentiate between commercial strains of the button mushroom Agaricus bisporus.

Ramírez L, Muez V, Alfonso M, García Barrenechea A, Alfonso L, Pisabarro AG.

FEMS Microbiol Lett. 2001 Apr 20;198(1):45-8.

46.

Molecular tools for breeding basidiomycetes.

Ramírez L, Larraya LM, Pisabarro AG.

Int Microbiol. 2000 Sep;3(3):147-52. Review.

PMID:
11032306
47.

Genetic linkage map of the edible basidiomycete Pleurotus ostreatus.

Larraya LM, Pérez G, Ritter E, Pisabarro AG, Ramírez L.

Appl Environ Microbiol. 2000 Dec;66(12):5290-300.

48.
49.
50.

Molecular karyotype of the white rot fungus Pleurotus ostreatus.

Larraya LM, Pérez G, Peñas MM, Baars JJ, Mikosch TS, Pisabarro AG, Ramírez L.

Appl Environ Microbiol. 1999 Aug;65(8):3413-7.

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