Kubicek CP: Lignocellulose Biorefinery. Fungi and Lignocellulosic Biomass. 2012, Oxford, UK: Wiley-Blackwell
Google Scholar
Sánchez C: Lignocellulosic residues: biodegradation and bioconversion by fungi. Biotechnol Adv. 2009, 27: 185-194.
PubMed
Google Scholar
Martinez D, Berka RM, Henrissat B, Saloheimo M, Arvas M, Baker SE, Chapman J, Chertkov O, Coutinho PM, Cullen D, Danchin EG, Grigoriev IV, Harris P, Jackson M, Kubicek CP, Han CS, Ho I, Larrondo LF, de Leon AL, Magnuson JK, Merino S, Misra M, Nelson B, Putnam N, Robbertse B, Salamov AA, Schmoll M, Terry A, Thayer N, Westerholm-Parvinen A, et al: Genome sequencing and analysis of the biomass-degrading fungus Trichoderma reesei (syn. Hypocrea jecorina). Nat Biotechnol. 2008, 26: 553-560.
CAS
PubMed
Google Scholar
Martinez D, Challacombe J, Morgenstern I, Hibbett D, Schmoll M, Kubicek CP, Ferreira P, Ruiz-Dueñas FJ, Martínez 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, et al: Genome, transcriptome, and secretome analysis of wood decay fungus Postia placenta supports unique mechanisms of lignocellulose conversion. Proc Natl Acad Sci U S A. 2009, 106: 1954-1959.
CAS
PubMed Central
PubMed
Google Scholar
Kirk TK, Farrell RL: Enzymatic “combustion”: the microbial degradation of lignin. Annu Rev Microbiol. 1987, 41: 465-505.
CAS
PubMed
Google Scholar
Floudas D, Binder M, Riley R, Barry K, Blanchette RA, Henrissat B, Martínez AT, Otillar R, Spatafora JW, Yadav JS, Aerts A, Benoit I, Boyd A, Carlson A, Copeland A, Coutinho PM, de Vries RP, Ferreira P, Findley K, Foster B, Gaskell J, Glotzer D, Górecki P, Heitman J, Hesse C, Hori C, Igarashi K, Jurgens JA, Kallen N, Kersten P, et al: The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes. Science. 2012, 336: 1715-1719.
CAS
PubMed
Google Scholar
Martínez AT, Speranza M, Ruiz-Dueñas FJ, Ferreira P, Camarero S, Guillén F, Martínez MJ, Gutiérrez A, del Río JC: Biodegradation of lignocellulosics: microbial, chemical, and enzymatic aspects of the fungal attack of lignin. Int Microbiol. 2005, 8: 195-204.
PubMed
Google Scholar
Lomascolo A, Uzan-Boukhris E, Herpoël-Gimbert I, Sigoillot J-G, Lesage-Meessen L: Peculiarities of Pycnoporus species for applications in biotechnology. Appl Microbiol Biotechnol. 2011, 92: 1129-1149.
CAS
PubMed
Google Scholar
Herpoël I, Moukha S, Lesage-Meessen L, Sigoillot JC, Asther M: Selection of Pycnoporus cinnabarinus strains for laccase production. FEMS Microbiol Lett. 2000, 183: 301-306.
PubMed
Google Scholar
Alves AM, Record E, Lomascolo A, Scholtmeijer K, Asther M, Wessels JG, Wösten HA: Highly efficient production of laccase by the basidiomycete Pycnoporus cinnabarinus. Appl Environ Microbiol. 2004, 70: 6379-6384.
CAS
PubMed Central
PubMed
Google Scholar
Moukha SM, Dumonceaux TJ, Record E, Archibald FS: Cloning and analysis of Pycnoporus cinnabarinus cellobiose dehydrogenase. Gene. 1999, 234: 23-33.
CAS
PubMed
Google Scholar
Halaouli S, Asther M, Kruus K, Guo L, Hamdi M, Sigoillot J-C, Asther M, Lomascolo A: Characterization of a new tyrosinase from Pycnoporus species with high potential for food technological applications. J Appl Microbiol. 2005, 98: 332-343.
CAS
PubMed
Google Scholar
Lesage-Meessen L, Haon M, Delattre M, Thibault J-F, Colonna-Ceccaldi B, Asther M: An attempt to channel the transformation of vanillic acid into vanillin by controlling methoxyhydroquinone formation in Pycnoporus cinnabarinus. Appl Microbiol Biotechnol. 1997, 47: 393-397.
CAS
Google Scholar
Estrada Alvarado I, Navarro D, Record E, Asther M, Asther M: Fungal biotransformation of p-coumaric acid into caffeic acid by Pycnoporus cinnabarinus: an alternative for producing a strong natural antioxidant. World J Microbiol Biotechnol. 2003, 19: 157-160.
CAS
Google Scholar
Lesage-Meessen L, Delattre M, Haon M, Thibault JF, Ceccaldi BC, Brunerie P, Asther M: A two-step bioconversion process for vanillin production from ferulic acid combining Aspergillus niger and Pycnoporus cinnabarinus. J Biotechnol. 1996, 50: 107-113.
CAS
PubMed
Google Scholar
Eggert C, Temp U, Eriksson KEL: The lignolytic system of the white-rot fungus Pycnoporus cinnabarinus: purification and characterization of the laccase. Appl Environ Microbiol. 1996, 62: 1151-1158.
CAS
PubMed Central
PubMed
Google Scholar
Lomascolo A, Record E, Herpoël-Gimbert I, Delattre M, Robert JL, Georis J, Dauvrin T, Sigoillot JC, Asther M: Overproduction of laccase by a monokaryotic strain of Pycnoporus cinnabarinus using ethanol as inducer. J Appl Microbiol. 2003, 94: 618-624.
CAS
PubMed
Google Scholar
Herpoël I, Jeller H, Fang G, Petit-Conil M, Bourbonnais R, Robert JL, Asther M, Sigoillot JC: Efficient enzymatic delignification of wheat straw pulp by a sequential xylanase-laccase treatment. J Pulp Paper Sci. 2002, 28: 67-71.
Google Scholar
Camarero S, Garcia O, Vidal T, Colom J, del Rio JC, Gutierrez AM, Gras J, Monje R, Martínez MJ, Martínez AT: Efficient bleaching of non-wood high-quality paper pulp using laccase-mediator system. Enzyme Microb Technol. 2004, 35: 113-120.
CAS
Google Scholar
Sigoillot C, Record E, Belle V, Robert J-L, Levasseur A, Punt PJ, van den Hondel CAMJJ, Fournel A, Sigoillot J-C, Asther M: Natural and recombinant fungal laccases for paper pulp bleaching. Appl Microbiol Biotechnol. 2004, 64: 346-352.
CAS
PubMed
Google Scholar
Ravalason H, Herpoel-Gimbert I, Record E, Bertaud F, Grisel S, de Weert S, van den Hondel CAMJJ, Asther M, Petit-Conil M, Sigoillot JC: Fusion of a family 1 carbohydrate binding module of Aspergillus niger to the Pycnoporus cinnabarinus laccase for efficient softwood kraft pulp biobleaching. J Biotechnol. 2009, 142: 220-226.
CAS
PubMed
Google Scholar
Eugenio ME, Santos SM, Carbajo JM, Martin JA, Martin-Sampedro R, Gonzales AE, Villar JC: Kraft pulp biobleaching using an extracellular enzymatic fluid produced by Pycnoporus sanguineus. Bioresour Technol. 2010, 101: 1866-1870.
CAS
PubMed
Google Scholar
Camarero S, Ibarra D, Martínez MJ, Martínez A: Lignin-derived compounds as efficient laccase mediators for decolorization of different types of recalcitrant dyes. Appl Environ Microbiol. 2005, 71: 1775-1784.
CAS
PubMed Central
PubMed
Google Scholar
Lu L, Zhao M, Zhang B-B, Yu S-Y, Bian X-J, Wang W, Wang Y: Purification and characterization of laccase from Pycnoporus sanguineus and decolorization of an anthraquinone dye by the enzyme. Appl Microbiol Biotechnol. 2007, 74: 1232-1239.
CAS
PubMed
Google Scholar
Uzan E, Nousiainen P, Balland V, Sipila J, Piumi F, Navarro D, Asther M, Record E, Lomascolo A: High redox potential laccases from the ligninolytic fungi Pycnoporus coccineus and Pycnoporus sanguineus suitable for white biotechnology: from gene cloning to enzyme characterization and applications. J Appl Microbiol. 2010, 108: 2199-2213.
CAS
PubMed
Google Scholar
Jaouani A, Guillén F, Penninckx MJ, Martínez AT, Martínez MJ: Role of Pycnoporus coccineus laccase in the degradation of aromatic compounds in olive oil mill wastewater. Enzyme Microb Technol. 2005, 36: 478-486.
CAS
Google Scholar
Berrio J, Plou FJ, Ballesteros A, Martínez AT, Martínez MJ: Immobilization of Pycnoporus coccineus laccase on Eupergit C: Stabilization and treatment of olive oil mill wastewaters. Biocatal Biotransform. 2007, 25: 130-134.
CAS
Google Scholar
Yahaya YA, Mashitah MD, Bhatia S: Biosorption of copper (II) onto immobilized cells of Pycnoporus sanguineus from acqueous solution: Equilibrium and kinetic studies. J Hazard Mater. 2009, 161: 189-195.
CAS
PubMed
Google Scholar
Osma JF, Toca-Herrera JL, Rodríguez-Couto S: Uses of laccases in the food industry. Enzyme Res. 2010, 2010: 918761-
PubMed Central
PubMed
Google Scholar
Gil ES, Muller L, Santiago MF, Garcia TA: Biosensor based on brut extract from laccase (Pycnoporus sanguineus) for environmental analysis of phenolic compounds. J Portuguese Electrochem Society. 2009, 27: 215-225.
CAS
Google Scholar
Kudanga T, Nyanhongo GS, Guebitz GM, Burton S: Potential applications of laccase-mediated coupling and grafting reactions: a review. Enzyme Microb Technol. 2011, 48: 195-208.
CAS
PubMed
Google Scholar
Lomascolo A, Cayol JL, Roche M, Guo L, Robert JL, Record E, Lesage-Meessen L, Ollivier B, Sigoillot JC, Asther M: Molecular clustering of Pycnoporus strains from various geographic origins and isolation of monokaryotic strains for laccase hyperproduction. Mycol Res. 2002, 106: 1193-1203.
CAS
Google Scholar
Wessels JGH, Mulder GH, Springer J: Expression of dikaryon-specific and non-specific mRNAs of Schizopyllum commune in relation to environmental conditions and fruiting. J Gen Microbiol. 1987, 13: 2557-2561.
Google Scholar
Meza JC, Lomascolo A, Casalot L, Sigoillot JC, Auria R: Laccase production by Pycnoporus cinnabarinus grown on sugar-cane bagasse: influence of ethanol vapors as inducer. Process Biochem. 2005, 40: 3365-3371.
CAS
Google Scholar
Meza JC, Auria R, Lomascolo A, Sigoillot JC, Casalot L: Role of ethanol on growth, laccase production and protease activity in Pycnoporus cinnabarinus ss3 grown on sugarcane bagasse. Enzyme Microbiol Technol. 2007, 41: 162-163.
CAS
Google Scholar
Espagne E, Lespinet O, Malagnac F, Da Silva C, Jaillon O, Porcel BM, Couloux A, Aury JM, Ségurens B, Poulain J, Anthouard V, Grossetete S, Khalili H, Coppin E, Déquard-Chablat M, Picard M, Contamine V, Arnaise S, Bourdais A, Berteaux-Lecellier V, Gautheret D, de Vries RP, Battaglia E, Coutinho PM, Danchin EG, Henrissat B, Khoury RE, Sainsard-Chanet A, Boivin A, Pinan-Lucarré B, et al: The genome sequence of the model ascomycete fungus Podospora anserina. Genome Biol. 2008, 9: R77-
PubMed Central
PubMed
Google Scholar
Mariette J, Escudié F, Allias N, Salin G, Noirot C, Thomas S, Klopp C: NG6: Integrated next generation sequencing storage and processing environment. BMC Genomics. 2012, 13: 462-
CAS
PubMed Central
PubMed
Google Scholar
Mariette J, Noirot C, Klopp C: Assessment of replicate bias in 454 pyrosequencing and a multi-purpose read-filtering tool. BMC Res Notes. 2011, 4: 149-
Google Scholar
Stanke M, Tzvetkova A, Morgenstern B: AUGUSTUS at EGASP: using EST, protein and genomic alignments for improved gene prediction in the human genome. Genome Biol. 2006, 7 (S11): 1-8.
PubMed
Google Scholar
Li L, Stoeckert CJ, Roos DS: OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res. 2003, 13: 2178-2189.
CAS
PubMed Central
PubMed
Google Scholar
Ashburner M, Ball CA, Blake JA, Botstein D, Butler H, Cherry JM, Davis AP, Dolinski K, Dwight SS, Eppig JT, Harris MA, Hill DP, Issel-Tarver L, Kasarskis A, Lewis S, Matese JC, Richardson JE, Ringwald M, Rubin GM, Sherlock G: Gene ontology: tool for the unification of biology: the gene ontology consortium. Nat Genet. 2000, 25: 25-29.
CAS
PubMed Central
PubMed
Google Scholar
Price AL, Jones NC, Pevzner PA: De novo identification of repeat families in large genomes. Bioinformatics. 2005, 21: 351-358.
Google Scholar
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol. 1990, 215: 403-410.
CAS
PubMed
Google Scholar
Jurka J, Kapitonov VV, Pavlicek A, Klonowski P, Kohany O, Walichiewicz J: Repbase Update, a database of eukaryotic repetitive elements. Cytogenet Genome Res. 2005, 110: 462-467.
CAS
PubMed
Google Scholar
Mc Carthy E, Mc Donald JF: LTR_STRUC: a novel search and identification program for LTR retrotransposons. Bioinformatics. 2003, 19: 362-367.
CAS
Google Scholar
Smit AFA, Hubley R, Green P: RepeatMasker Open-3.0. 1996–2010. http://www.repeatmasker.org,
Benson G: Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 1999, 27: 573-580.
CAS
PubMed Central
PubMed
Google Scholar
Lombard V, Golaconda Ramulu H, Drula E, Coutinho PM, Henrissat B: The carbohydrate-active enzymes database (CAZy) in 2013. Nucleic Acids Res. 2014, 42: D490-D495.
CAS
PubMed Central
PubMed
Google Scholar
Levasseur A, Drula E, Lombard V, Coutinho PM, Henrissat B: Expansion of the enzymatic repertoire of the CAZy database to integrate auxiliary redox enzymes. Biotechnology for Biofuels. 2013, 6: 41-
CAS
PubMed Central
PubMed
Google Scholar
Finn RD, Clements J, Eddy SR: HMMER web server: interactive sequence similarity searching. Nucleic Acids Res. 2011, 39: W29-W37.
CAS
PubMed Central
PubMed
Google Scholar
Breathnach R, Benoist C, O’Hara K, Chambon P: Ovalbumin gene: evidence for a leader sequence in mRNA and DNA sequences at the exon-intron boundaries. Proc Natl Acad Sci U S A. 1978, 75: 4853-4857.
CAS
PubMed Central
PubMed
Google Scholar
Couturier M, Navarro D, Olivé C, Chevret D, Haon M, Favel A, Lesage-Meessen L, Henrissat B, Coutinho PM, Berrin JG: Post-genomic analyses of fungal lignocellulosic biomass degradation reveal the unexpected potential of the plant pathogen Ustilago maydis. BMC Genomics. 2012, 13: 57-
CAS
PubMed Central
PubMed
Google Scholar
Arfi Y, Chevret D, Henrissat B, Berrin JG, Levasseur A, Record E: Characterization of salt-adapted secreted lignocellulolytic enzymes from the mangrove fungus Pestalotiopsis sp. Nat Commun. 2013, 4: 1810-
PubMed
Google Scholar
Pel HJ, de Winde JH, Archer DB, Dyer PS, Hofmann G, Schaap PJ, Turner G, de Vries RP, Albang R, Albermann K, Andersen MR, Bendtsen JD, Benen JA, van den Berg M, Breestraat S, Caddick MX, Contreras R, Cornell M, Coutinho PM, Danchin EG, Debets AJ, Dekker P, van Dijck PW, van Dijk A, Dijkhuizen L, Driessen AJ, d’Enfert C, Geysens S, Goosen C, Groot GS, et al: Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88. Nat Biotechnol. 2007, 25: 221-231.
PubMed
Google Scholar
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, StJohn FJ, Vanden Wymelenberg A, Sabat G, Splinter BonDurant S, Syed K, Yadav JS, Doddapaneni H, Subramanian V, Lavín JL, Oguiza JA, et al: Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis. Proc Natl Acad Sci U S A. 2012, 109: 5458-5463.
CAS
PubMed Central
PubMed
Google Scholar
Martínez D, Larrondo LF, Putnam N, Gelpke MD, Huang K, Chapman J, Helfenbein KG, Ramaiya P, Detter JC, Larimer F, Coutinho PM, Henrissat B, Berka R, Cullen D, Rokhsar D: Genome sequence of the lignocellulose degrading fungus Phanerochaete chrysosporium strain RP78. Nat Biotechnol. 2004, 22: 695-700.
PubMed
Google Scholar
Levasseur A, Pontarotti P, Poch O, Thompson JD: Strategies for reliable exploitation of evolutionary concepts in high throughput biology. Evol Bioinform Online. 2008, 4: 121-137.
CAS
PubMed Central
PubMed
Google Scholar
Levasseur A, Orlando L, Bailly X, Milinkovitch MC, Danchin EG, Pontarotti P: Conceptual bases for quantifying the role of the environment on gene evolution: the participation of positive selection and neutral evolution. Biol Rev Camb Philos Soc. 2007, 82: 551-572.
PubMed
Google Scholar
Levasseur A, Pontarotti P: The role of duplications in the evolution of genomes highlights the need for evolutionary-based approaches in comparative genomics. Biol Direct. 2011, 6: 11-
CAS
PubMed Central
PubMed
Google Scholar
Murat C, Payen T, Petitpierre D, Labbé J: Repeated elements in filamentous fungi and comparative genomic of wood-decay fungi. The Ecological Genomics of Fungi. Edited by: Francis M. 2013, Hoboken, New Jersey: Wiley-Blackwell
Google Scholar
Ohm RA, de Jong JF, Lugones LG, Aerts A, Kothe E, Stajich JE, de Vries RP, Record E, Levasseur A, Baker SE, Bartholomew KA, Coutinho PM, Erdmann S, Fowler TJ, Gathman AC, Lombard V, Henrissat B, Knabe N, Kües U, Lilly WW, Lindquist E, Lucas S, Magnuson JK, Piumi F, Raudaskoski M, Salamov A, Schmutz J, Schwarze FW, van Kuyk PA, Horton JS, et al: Genome sequence of the model mushroom Schizophyllum commune. Nat Biotechnol. 2010, 28: 957-963.
CAS
PubMed
Google Scholar
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, et al: The plant cell wall-decomposing machinery underlies the functional diversity of forest fungi. Science. 2011, 333: 762-765.
CAS
PubMed
Google Scholar
Guillén F, Gómez-Toribio V, Martínez MJ, Martínez AT: Production of hydroxyl radical by the synergistic action of fungal laccase and aryl alcohol oxidase. Arch Biochem Biophys. 2000, 383: 142-147.
PubMed
Google Scholar
Sigoillot C, Lomascolo A, Record E, Robert JL, Asther M, Sigoillot JC: Lignocellulolytic and hemicellulolytic system of Pycnoporus cinnabarinus: isolation and characterization of a cellobiose dehydrogenase and a new xylanase. Enzyme Microb Technol. 2002, 31: 876-883.
CAS
Google Scholar
Bey M, Berrin JG, Poidevin L, Sigoillot JC: Heterologous expression of Pycnoporus cinnabarinus cellobiose dehydrogenase in Pichia pastoris and involvement in saccharification processes. Microb Cell Fact. 2011, 10: 113-
CAS
PubMed Central
PubMed
Google Scholar
Caffall KH, Mohnen D: The structure, function, and biosynthesis of plant cell wall pectic polysaccharides. Carbohydr Res. 2009, 344: 1879-1900.
CAS
PubMed
Google Scholar
Eggert C, Lafayette P, Temp U, Eriksson KEL, Dean JFD: Molecular analysis of a laccase gene from the white-rot fungus Pycnoporus cinnabarinus. Appl Environ Microbiol. 1998, 6: 1766-1772.
Google Scholar
Otterbein L, Record E, Chereau D, Herpoël I, Asther M, Moukha S: Isolation of a new laccase isoform from the white-rot fungi Pycnoporus cinnabarinus strain ss3. Can J Microbiol. 2000, 46: 759-763.
CAS
PubMed
Google Scholar
Yaver DS, Golightly EJ: Cloning and characterization of three laccase genes from the white-rot basidiomycete Trametes villosa: genomic organization of the laccase gene family. Gene. 1996, 181: 95-102.
CAS
PubMed
Google Scholar
Hoshida H, Nakao M, Kanazawa H, Kubo K, Hakukawa T, Morimasa K, Akada R, Nishizawa Y: Isolation of five laccase gene sequences from the white rot fungus Trametes sanguineus by PCR, and cloning, characterization and expression of the laccase cDNA in yeasts. J Biosci Bioeng. 2001, 92: 372-380.
CAS
PubMed
Google Scholar
Wahleithner JA, Xu F, Brown KM, Brown SH, Golightly EJ, Halkier T, Kauppinen S, Pederson A, Schneider P: The identification and characterization of four laccases from the plant pathogenic fungus Rhizoctonia solani. Curr Genet. 1996, 29: 395-403.
CAS
PubMed
Google Scholar
Litvintseva AP, Henson JM: Cloning, characterization, and transcription of three laccase genes from Gaeumannomyces graminis var. tritici, the take-all fungus. Appl Environ Microbiol. 2002, 68: 1305-1311.
CAS
PubMed Central
PubMed
Google Scholar
Xiao YZ, Hong YZ, Li JF, Hang T, Tong PG, Fang W, Zhou CZ: Cloning of novel laccase isozyme genes from Trametes sp. AH28-2 and analyses of their differential expression. Appl Microbiol Biotechnol. 2006, 71: 493-501.
CAS
PubMed
Google Scholar
Soden DM, Dobson ADW: Differential regulation of laccase gene expression in Pleurotus sajor-caju. Microbiology. 2001, 147: 1755-1763.
CAS
PubMed
Google Scholar
Rodriguez E, Ruiz-Duenas FJ, Kooistra R, Ramb A, Martínez AT, Martínez MJ: Isolation of two laccase genes from the white-rot fungus Pleurotus eryngii and heterologous expression of the pel3 encoded protein. J Biotechnol. 2008, 134: 9-19.
CAS
PubMed
Google Scholar
Pezzella C, Autore F, Giardina P, Piscitelli A, Sannia G, Faraco V: The Pleurotus ostreatus laccase multi-gene family: isolation and heterologous expression of new family members. Curr Genet. 2009, 55: 45-57.
CAS
PubMed
Google Scholar
Kilaru S, Hoegger PJ, Kües U: The laccase multi-gene family in Coprinopsis cinerea has seventeen different members that divide into two distint subfamilies. Curr Genet. 2006, 50: 45-60.
CAS
PubMed
Google Scholar
Hoegger PJ, Kilaru S, James TY, Thacker JR, Kües U: Phylogenetic comparison and classification of laccase and related multicopper oxidase protein sequences. FEBS J. 2006, 273: 2308-2326.
CAS
PubMed
Google Scholar
Perry CR, Matcham SE, Wood DA, Thurston CF: The structure of laccase protein and its synthesis by the commercial mushroom Agaricus bisporus. J Gen Microbiol. 1993, 39: 171-178.
Google Scholar
Giardina P, Faraco V, Pezzella C, Piscitelli A, Vanhulle S, Sannia G: Laccases: a never-ending story. Cell Mol Life Sci. 2010, 67: 369-385.
CAS
PubMed
Google Scholar
Ruiz-Dueñas FJ, Fernández E, Martínez MJ, Martínez AT: Pleurotus ostreatus heme peroxidases: An in silico analysis from the genome sequence to the enzyme molecular structure. CR Biol. 2011, 334: 795-805.
Google Scholar
Ruiz-Dueñas FJ, Morales M, García E, Miki Y, Martínez MJ, Martínez AT: Substrate oxidation sites in versatile peroxidase and other basidiomycete peroxidases. J Exp Bot. 2009, 60: 441-452.
PubMed
Google Scholar
Bordoli L, Kiefer F, Arnold K, Benkert P, Battey J, Schwede T: Protein structure homology modeling using SWISS-MODEL workspace. Nat Protoc. 2009, 4: 1-13.
CAS
PubMed
Google Scholar
Ruiz-Dueñas FJ, Lundell T, Floudas D, Nagy LG, Barrasa JM, Hibbett DS, Martínez AT: Lignin-degrading peroxidases in Polyporales: an evolutionary survey based on ten sequenced genomes. Mycologia. 2013, 105: 1428-1444.
PubMed
Google Scholar
Hofrichter M, Ullrich R, Pecyna MJ, Liers C, Lundell T: New and classic families of secreted fungal heme peroxidases. Appl Microbiol Biotechnol. 2010, 87: 871-897.
CAS
PubMed
Google Scholar
Ruiz-Dueñas FJ, Martínez AT: Structural and functional features of peroxidases with a potential as industrial biocatalysts. Biocatalysts based on heme peroxidases. Edited by: Torres E, Ayala M. 2010, Berlin: Springer-Verlag, 37-59.
Google Scholar
Morin E, Kohler A, Baker AR, Foulongne-Oriol M, Lombard V, Nagy LG, Ohm RA, Patyshakuliyeva A, Brun A, Aerts AL, Bailey AM, Billette C, Coutinho PM, Deakin G, Doddapaneni H, Floudas D, Grimwood J, Hildén K, Kües U, Labutti KM, Lapidus A, Lindquist EA, Lucas SM, Murat C, Riley RW, Salamov AA, Schmutz J, Subramanian V, Wösten HA, Xu J, et al: Genome sequence of the button mushroom Agaricus bisporus reveals mechanisms governing adaptation to a humic-rich ecological niche. Proc Natl Acad Sci U S A. 2012, 109: 17501-17506.
CAS
PubMed Central
PubMed
Google Scholar
Hofrichter M, Ullrich R: Heme-thiolate haloperoxidases: versatile biocatalysts with biotechnological and environmental significance. Appl Microbiol Biotechnol. 2006, 71: 276-288.
CAS
PubMed
Google Scholar
Johansson T, Nyman PO: A cluster of genes encoding major isozymes of lignin peroxidase and manganese peroxidase from the white-rot fungus Trametes versicolor. Gene. 1996, 170: 31-38.
CAS
PubMed
Google Scholar
Pointing SB, Pelling AL, Smith GJD, Hyde KD, Reddy CA: Screening of basidiomycetes and xylariaceous fungi for lignin peroxidase and laccase gene specific sequences. Mycology Research. 2005, 109: 115-124.
CAS
Google Scholar
Morgenstern I, Robertson D, Hibbett DS: Characterization of three mnp genes of Fomitiporia mediterranea and report of additional class II peroxidases in the order Hymenochaetales. Appl Environ Microbiol. 2010, 76: 6431-6440.
CAS
PubMed Central
PubMed
Google Scholar
Rajakumar S, Gaskell SJ, Cullen D, Lobos S, Karahanian E, Vicuna R: Lip-like genes in Phanerochaete sordida and Ceriporiopsis subvermispora, white rot fungi with no detectable lignin peroxidase activity. Appl Environ Microbiol. 1996, 62: 2660-2663.
CAS
PubMed Central
PubMed
Google Scholar
Fernández-Fueyo E, Ruiz-Dueñas FJ, Ferreira P, Floudas D, Hibbett DS, Canessa P, Larrondo L, 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, Bondurant SS, Syed K, Yadav J, Doddapaneni H, Subramanian V, Lavín JL, Oguiza JA, et al: Comparative genomics of Ceriporiopisis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis. Proc Natl Acad Sci U S A. 2012, 109: 5458-5463.
PubMed Central
PubMed
Google Scholar
Evans CS, Dutton MV, Guillén F, Veness RG: Enzymes and small molecular mass agents involved with lignocellulose degradation. FEMS Microbiol Rev. 1994, 13: 235-240.
CAS
Google Scholar
Vanden Wymelenberg A, Sabat G, Mozuch M, Kersten PJ, Cullen D, Blanchette RA: Structure, organization and transcriptional regulation of a family of copper radical oxidase genes in the lignin degrading basidiomycete Phanerochaete chrysosporium. Appl Environ Microbiol. 2006, 72: 4871-4877.
CAS
PubMed Central
PubMed
Google Scholar
Whittaker MM, Kersten PJ, Cullen D, Whittaker JM: Identification of catalytic residues in glyoxal oxidase by targeted mutagenesis. J Biol Chem. 1999, 274: 36226-36232.
CAS
PubMed
Google Scholar
Rogers MS, Tyler EM, Akyumani N, Kurtis CR, Spooner RK, Deacon SE, Tamber S, Firbank SJ, Mahmoud K, Knowles PF, Phillips SEV, McPherson MJ, Dooley DM: The stacking tryptophan of galactose oxidase: a second coordination sphere residue that has profound effects on tyrosyl radical behavior and enzyme catalysis. Biochemistry. 2007, 46: 4606-4618.
CAS
PubMed Central
PubMed
Google Scholar
Songulashvili G, Elisashvili V, Wasser SP, Nevo E, Hadar Y: Basidiomycetes laccase and manganese peroxidase activity in submerged fermentation of food industry wastes. Enzyme Microb Technol. 2007, 41: 57-61.
CAS
Google Scholar
Elisashvili V, Kachlishvili E, Penninckx M: Effect of growth substrate, method of fermentation, and nitrogen source on lignocellulose-degrading enzymes production by white-rot basidiomycetes. J Ind Microbiol Biotechnol. 2008, 35: 1531-1538.
CAS
PubMed
Google Scholar
Elisashvili V, Kachlishvili E, Tsiklauri N, Metreveli E, Khardziani T, Agathos SN: Lignocellulose-degrading enzyme production by white-rot Basidiomycetes isolated from the forests of Georgia. World J Microbiol Biotechnol. 2009, 25: 331-339.
CAS
Google Scholar
Sathishkumar P, Murugesan K, Palvannan T: Production of laccase from Pleurotus florida using agro-wastes and efficient decolorization of reactive blue 198. J Basic Microbiol. 2010, 50: 360-367.
CAS
PubMed
Google Scholar
Osma JF, Moilanen U, Toca-Herrera JL, Rodriguez-Couto S: Morphology and laccase production of white-rot fungi grown on wheat bran flakes under semi-solid-state fermentation conditions. FEMS Microbiol Lett. 2011, 318: 27-34.
CAS
PubMed
Google Scholar
Poidevin L, Berrin JG, Bennati-Granier C, Levasseur A, Herpoël-Gimbert I, Chevret D, Coutinho PM, Henrissat B, Heiss-Blanquet S, Record E: Comparative analyses of Podospora anserina secretomes reveal a large array of lignocellulose-active enzymes. Appl Microbiol Biotechnol. 2014, In press
Google Scholar
Janusz G, Kucharzyk KH, Pawlik A, Staszczak M, Paszczynski AJ: Fungal laccase, manganese peroxidase and lignin peroxidase: gene expression and regulation. Enzyme Microb Technol. 2013, 52: 1-12.
CAS
PubMed
Google Scholar
Koseki T, Fushinobu S, Ardiansyah , Shirakawa H, Komai M: Occurrence, properties, and applications of feruloyl esterases. Appl Microbiol Biotechnol. 2009, 84: 803-810.
CAS
PubMed
Google Scholar
Saha BC: Hemicellulose bioconversion. J Ind Microbiol Biotechnol. 2003, 30: 279-291.
CAS
PubMed
Google Scholar
Kohno K: Stress-sensing mechanisms in the unfolded protein response: similarities and differences between yeast and mammals. J Biochem. 2010, 147: 27-33.
CAS
PubMed
Google Scholar
Berends E, Ohm RA, de Jong JF, Rouwendal G, ten HA W, Lugones LG, Bosch D: Genomic and biochemical analysis of N glycosylation in the mushroom-forming basidiomycete Schizophyllum commune. Appl Environ Microbiol. 2009, 75: 4648-4652.
CAS
PubMed Central
PubMed
Google Scholar
Tefsen B, Ram AF, van Die I, Routier FH: Galactofuranose in eukaryotes: aspects of biosynthesis and functional impact. Glycobiology. 2012, 22: 456-469.
CAS
PubMed
Google Scholar
Nobles MK, Frew BP: Studies in wood-inhabiting hymenomycetes. V. The genus Pycnoporus Karst. Can J Bot. 1962, 40: 987-1016.
Google Scholar
Casselton LA, Olesnicky : Molecular genetics of mating type recognition in basidiomycete fungi. Microbiolo Mol Biol Rev. 1998, 62: 55-70.
CAS
Google Scholar
Kües U, James TY, Heitman J: Mating type in basidiomycetes: Unipolar, bipolar, and tetrapolar patterns of sexuality. The mycota, Volume XIV. Edited by: Pöggeler S, Wöstemeyer J. 2011, Heidelberg: Evolution of fungi and fungal-like organisms. Springer, 97-160.
Google Scholar
Kües U, Casselton LA: Homeodomains and regulation of sexual development in basidiomycetes. Trends Genet. 1992, 8: 154-155.
PubMed
Google Scholar
Asante-Owusu RN, Banham AH, Böhnert HU, Mellor EJ, Casselton LA: Heterodimerization between two classes of homeodomain proteins in the mushroom Coprinus cinereus brings together potential DNA-binding and activation domains. Gene. 1996, 172: 25-31.
CAS
PubMed
Google Scholar
Niculita-Hirzel H, Labbé J, Kohler A, Le Tacon F, Martin F, Sanders IR, Kües U: Gene organization of the mating type regions in the ectomycorrhizal fungus Laccaria bicolor reveals distinct evolution between the two mating type loci. New Phytol. 2008, 180: 329-342.
CAS
PubMed
Google Scholar
James TY, Kües U, Rehner SA, Vilgalys R: Evolution of the gene encoding mitochondrial intermediate peptidase and its cosegregation with the A mating type locus of mushroom fungi. Fungal Genet Biol. 2004, 41: 381-390.
CAS
PubMed
Google Scholar
James TY, Lee M, van Diepen LTA: A single mating-type locus composed of homeodomain genes promotes nuclear migration and heterokaryosis in the white-rot fungus Phanerochaete chrysosporium. Eukaryot Cell. 2011, 10: 249-262.
CAS
PubMed Central
PubMed
Google Scholar
James TY, Sun S, Li WJ, Heitman J, Kuo HC, Lee YH, Asiegbu FO, Olsen Å: Polyporales genomes reveal the genetic architecture underlying tetrapolar and bipolar mating systems. Mycologia. 2013, 105: 1374-1390.
CAS
PubMed
Google Scholar
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S: MEGA: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol. 2011, 28: 2731-2739.
CAS
PubMed Central
PubMed
Google Scholar
Kües U, Navarro-González M: Mating-type orthologous genes in the primarily homothallic Moniliophthora perniciosa, the causal agent of Witches’ Broom Disease in cacao. J Basic Microbiol. 2010, 50: 442-451.
PubMed
Google Scholar