Kües, Ursula

[["dc.bibliographiccitation.artnumber","486"],["dc.bibliographiccitation.journal","BMC Genomics"],["dc.bibliographiccitation.volume","15"],["dc.contributor.author","Levasseur, Anthony"],["dc.contributor.author","Lomascolo, Anne"],["dc.contributor.author","Chabrol, Olivier"],["dc.contributor.author","Ruiz-Duenas, Francisco J."],["dc.contributor.author","Boukhris-Uzan, Eva"],["dc.contributor.author","Piumi, Francois"],["dc.contributor.author","Kuees, Ursula"],["dc.contributor.author","Ram, Arthur F. J."],["dc.contributor.author","Murat, Claude"],["dc.contributor.author","Haon, Mireille"],["dc.contributor.author","Benoit, Isabelle"],["dc.contributor.author","Arfi, Yonathan"],["dc.contributor.author","Chevret, Didier"],["dc.contributor.author","Drula, Elodie"],["dc.contributor.author","Kwon, Min Jin"],["dc.contributor.author","Gouret, Philippe"],["dc.contributor.author","Lesage-Meessen, Laurence"],["dc.contributor.author","Lombard, Vincent"],["dc.contributor.author","Mariette, Jerome"],["dc.contributor.author","Noirot, Celine"],["dc.contributor.author","Park, Joohae"],["dc.contributor.author","Patyshakuliyeva, Aleksandrina"],["dc.contributor.author","Sigoillot, Jean Claude"],["dc.contributor.author","Wiebenga, A. D."],["dc.contributor.author","Woesten, Han A. B."],["dc.contributor.author","Martin, Francis M."],["dc.contributor.author","Coutinho, Pedro M."],["dc.contributor.author","de Vries, Ronald P."],["dc.contributor.author","Martinez, Angel T."],["dc.contributor.author","Klopp, Christophe"],["dc.contributor.author","Pontarotti, Pierre"],["dc.contributor.author","Henrissat, Bernard"],["dc.contributor.author","Record, Eric"],["dc.date.accessioned","2018-11-07T09:38:52Z"],["dc.date.available","2018-11-07T09:38:52Z"],["dc.date.issued","2014"],["dc.description.abstract","Background: Saprophytic filamentous fungi are ubiquitous micro-organisms that play an essential role in photosynthetic carbon recycling. The wood-decayer Pycnoporus cinnabarinus is a model fungus for the study of plant cell wall decomposition and is used for a number of applications in green and white biotechnology. Results: The 33.6 megabase genome of P. cinnabarinus was sequenced and assembled, and the 10,442 predicted genes were functionally annotated using a phylogenomic procedure. In-depth analyses were carried out for the numerous enzyme families involved in lignocellulosic biomass breakdown, for protein secretion and glycosylation pathways, and for mating type. The P. cinnabarinus genome sequence revealed a consistent repertoire of genes shared with wood-decaying basidiomycetes. P. cinnabarinus is thus fully equipped with the classical families involved in cellulose and hemicellulose degradation, whereas its pectinolytic repertoire appears relatively limited. In addition, P. cinnabarinus possesses a complete versatile enzymatic arsenal for lignin breakdown. We identified several genes encoding members of the three ligninolytic peroxidase types, namely lignin peroxidase, manganese peroxidase and versatile peroxidase. Comparative genome analyses were performed in fungi displaying different nutritional strategies (white-rot and brown-rot modes of decay). P. cinnabarinus presents a typical distribution of all the specific families found in the white-rot life style. Growth profiling of P. cinnabarinus was performed on 35 carbon sources including simple and complex substrates to study substrate utilization and preferences. P. cinnabarinus grew faster on crude plant substrates than on pure, mono- or polysaccharide substrates. Finally, proteomic analyses were conducted from liquid and solid-state fermentation to analyze the composition of the secretomes corresponding to growth on different substrates. The distribution of lignocellulolytic enzymes in the secretomes was strongly dependent on growth conditions, especially for lytic polysaccharide mono-oxygenases. Conclusions: With its available genome sequence, P. cinnabarinus is now an outstanding model system for the of the enzyme machinery involved in the degradation or transformation of lignocellulosic biomass."],["dc.identifier.doi","10.1186/1471-2164-15-486"],["dc.identifier.isi","000338891700001"],["dc.identifier.pmid","24942338"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/33156"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Biomed Central Ltd"],["dc.relation.issn","1471-2164"],["dc.title","The genome of the white-rot fungus Pycnoporus cinnabarinus: a basidiomycete model with a versatile arsenal for lignocellulosic biomass breakdown"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","1001"],["dc.bibliographiccitation.issue","4"],["dc.bibliographiccitation.journal","New Phytologist"],["dc.bibliographiccitation.lastpage","1013"],["dc.bibliographiccitation.volume","194"],["dc.contributor.author","Olson, Ake"],["dc.contributor.author","Aerts, Andrea L."],["dc.contributor.author","Asiegbu, Fred O."],["dc.contributor.author","Belbahri, Lassaad"],["dc.contributor.author","Bouzid, Ourdia"],["dc.contributor.author","Broberg, Anders"],["dc.contributor.author","Canback, Bjorn"],["dc.contributor.author","Coutinho, Pedro M."],["dc.contributor.author","Cullen, Dan"],["dc.contributor.author","Dalman, Kerstin"],["dc.contributor.author","Deflorio, Giuliana"],["dc.contributor.author","van Diepen, Linda T. A."],["dc.contributor.author","Dunand, Christophe"],["dc.contributor.author","Duplessis, Sebastien"],["dc.contributor.author","Durling, Mikael"],["dc.contributor.author","Gonthier, Paolo"],["dc.contributor.author","Grimwood, Jane"],["dc.contributor.author","Fossdal, Carl Gunnar"],["dc.contributor.author","Hansson, David"],["dc.contributor.author","Henrissat, Bernard"],["dc.contributor.author","Hietala, Ari"],["dc.contributor.author","Himmelstrand, Kajsa"],["dc.contributor.author","Hoffmeister, Dirk"],["dc.contributor.author","Hogberg, Nils"],["dc.contributor.author","James, Timothy Y."],["dc.contributor.author","Karlsson, Magnus"],["dc.contributor.author","Kohler, Annegret"],["dc.contributor.author","Kuees, Ursula"],["dc.contributor.author","Lee, Yong-Hwan"],["dc.contributor.author","Lin, Yao-Cheng"],["dc.contributor.author","Lind, Marten"],["dc.contributor.author","Lindquist, Erika A."],["dc.contributor.author","Lombard, Vincent"],["dc.contributor.author","Lucas, Susan M."],["dc.contributor.author","Lunden, Karl"],["dc.contributor.author","Morin, Emmanuelle"],["dc.contributor.author","Murat, Claude"],["dc.contributor.author","Park, Jongsun"],["dc.contributor.author","Raffaello, Tommaso"],["dc.contributor.author","Rouze, Pierre"],["dc.contributor.author","Salamov, Asaf A."],["dc.contributor.author","Schmutz, Jeremy"],["dc.contributor.author","Solheim, Halvor"],["dc.contributor.author","Stahlberg, Jerry"],["dc.contributor.author","Velez, Heriberto"],["dc.contributor.author","de Vries, Ronald P."],["dc.contributor.author","Wiebenga, A. D."],["dc.contributor.author","Woodward, Steve"],["dc.contributor.author","Yakovlev, Igor"],["dc.contributor.author","Garbelotto, Matteo"],["dc.contributor.author","Martin, Francis M."],["dc.contributor.author","Grigoriev, Igor V."],["dc.contributor.author","Stenlid, Jan"],["dc.date.accessioned","2018-11-07T09:10:07Z"],["dc.date.available","2018-11-07T09:10:07Z"],["dc.date.issued","2012"],["dc.description.abstract","Parasitism and saprotrophic wood decay are two fungal strategies fundamental for succession and nutrient cycling in forest ecosystems. An opportunity to assess the trade-off between these strategies is provided by the forest pathogen and wood decayer Heterobasidion annosum sensu lato. We report the annotated genome sequence and transcript profiling, as well as the quantitative trait loci mapping, of one member of the species complex: H similar to irregulare. Quantitative trait loci critical for pathogenicity, and rich in transposable elements, orphan and secreted genes, were identified. A wide range of cellulose-degrading enzymes are expressed during wood decay. By contrast, pathogenic interaction between H similar to irregulare and pine engages fewer carbohydrate-active enzymes, but involves an increase in pectinolytic enzymes, transcription modules for oxidative stress and secondary metabolite production. Our results show a trade-off in terms of constrained carbohydrate decomposition and membrane transport capacity during interaction with living hosts. Our findings establish that saprotrophic wood decay and necrotrophic parasitism involve two distinct, yet overlapping, processes."],["dc.identifier.doi","10.1111/j.1469-8137.2012.04128.x"],["dc.identifier.isi","000303435400014"],["dc.identifier.pmid","22463738"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/26422"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Wiley"],["dc.relation.issn","1469-8137"],["dc.relation.issn","0028-646X"],["dc.title","Insight into trade-off between wood decay and parasitism from the genome of a fungal forest pathogen"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","736"],["dc.bibliographiccitation.issue","3"],["dc.bibliographiccitation.journal","New Phytologist"],["dc.bibliographiccitation.lastpage","750"],["dc.bibliographiccitation.volume","182"],["dc.contributor.author","Courty, Pierre-Emmanuel"],["dc.contributor.author","Hoegger, Patrick J."],["dc.contributor.author","Kilaru, Sreedhar"],["dc.contributor.author","Kohler, A."],["dc.contributor.author","Buee, Marc"],["dc.contributor.author","Garbaye, J."],["dc.contributor.author","Martin, Francis M."],["dc.contributor.author","Kuees, Ursula"],["dc.date.accessioned","2018-11-07T08:35:15Z"],["dc.date.available","2018-11-07T08:35:15Z"],["dc.date.issued","2009"],["dc.description.abstract","In forest soils, ectomycorrhizal and saprotrophic Agaricales differ in their strategies for carbon acquisition, but share common gene families encoding multi-copper oxidases (MCOs). These enzymes are involved in the oxidation of a variety of soil organic compounds. The MCO gene family of the ectomycorrhizal fungus Laccaria bicolor is composed of 11 genes divided into two distinct subfamilies corresponding to laccases (lcc) sensu stricto (lcc1 to lcc9), sharing a high sequence homology with the coprophilic Coprinopsis cinerea laccase genes, and to ferroxidases (lcc10 and lcc11) that are not present in C. cinerea. The fet3-like ferroxidase genes lcc10 and lcc11 in L. bicolor are each arranged in a mirrored tandem orientation with an ftr gene coding for an iron permease. Unlike C. cinerea, L. bicolor has no sid1/sidA gene for siderophore biosynthesis. Transcript profiling using whole-genome expression arrays and quantitative reverse transcriptase-polymerase chain reaction (qRT-PCR) revealed that some transcripts were very abundant in ectomycorrhizas (lcc3 and lcc8), in fruiting bodies (lcc7) or in the free-living mycelium grown on agar medium (lcc9 and lcc10), suggesting a specific function of these MCOs. The amino acid composition of the MCO substrate binding sites suggests that L. bicolor MCOs interact with substrates different from those of saprotrophic fungi. New Phytologist (2009) 182: 736-750 doi: 10.1111/j.1469-8137.2009.02774.x."],["dc.identifier.doi","10.1111/j.1469-8137.2009.02774.x"],["dc.identifier.isi","000265229400018"],["dc.identifier.pmid","19243515"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/18019"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Wiley-blackwell Publishing, Inc"],["dc.relation.issn","0028-646X"],["dc.title","Phylogenetic analysis, genomic organization, and expression analysis of multi-copper oxidases in the ectomycorrhizal basidiomycete Laccaria bicolor"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","199"],["dc.bibliographiccitation.issue","3"],["dc.bibliographiccitation.journal","Fungal Genetics and Biology"],["dc.bibliographiccitation.lastpage","209"],["dc.bibliographiccitation.volume","49"],["dc.contributor.author","Plett, Jonathan M."],["dc.contributor.author","Gibon, Julien"],["dc.contributor.author","Kohler, Annegret"],["dc.contributor.author","Duffy, Kecia"],["dc.contributor.author","Hoegger, Patrick J."],["dc.contributor.author","Velagapudi, Rajesh"],["dc.contributor.author","Han, James"],["dc.contributor.author","Kuees, Ursula"],["dc.contributor.author","Grigoriev, Igor V."],["dc.contributor.author","Martin, Francis M."],["dc.date.accessioned","2018-11-07T09:12:48Z"],["dc.date.available","2018-11-07T09:12:48Z"],["dc.date.issued","2012"],["dc.description.abstract","Hydrophobins are morphogenetic, small secreted hydrophobic fungal proteins produced in response to changing development and environmental conditions. These proteins are important in the interaction between certain fungi and their hosts. In mutualistic ectomycorrhizal fungi several hydrophobins form a subclass of mycorrhizal-induced small secreted proteins that are likely to be critical in the formation of the symbiotic interface with host root cells. In this study, two genomes of the ectomycorrhizal basidiomycete Laccaria bicolor strains S238N-H82 (from North America) and 81306 (from Europe) were surveyed to construct a comprehensive genome-wide inventory of hydrophobins and to explore their characteristics and roles during host colonization. The S238N-H82 L bicolor hydrophobin gene family is composed of 12 genes while the 81306 strain encodes nine hydrophobins, all corresponding to class I hydrophobins. The three extra hydrophobin genes encoded by the S238N-H82 genome likely arose via gene duplication and are bordered by transposon rich regions. Expression profiles of the hydrophobin genes oft. bicolor varied greatly depending on life stage (e.g. free living mycelium vs. root colonization) and on the host root environment. We conclude from this study that the complex diversity and range of expression profiles of the Laccaria hydrophobin multi-gene family have likely been a selective advantage for this mutualist in colonizing a wide range of host plants. (C) 2012 Elsevier Inc. All rights reserved."],["dc.identifier.doi","10.1016/j.fgb.2012.01.002"],["dc.identifier.isi","000301881100002"],["dc.identifier.pmid","22293303"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/27027"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Academic Press Inc Elsevier Science"],["dc.relation.issn","1087-1845"],["dc.title","Phylogenetic, genomic organization and expression analysis of hydrophobin genes in the ectomycorrhizal basidiomycete Laccaria bicolor"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","11889"],["dc.bibliographiccitation.issue","26"],["dc.bibliographiccitation.journal","PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA"],["dc.bibliographiccitation.lastpage","11894"],["dc.bibliographiccitation.volume","107"],["dc.contributor.author","Stajich, Jason E."],["dc.contributor.author","Wilke, Sarah K."],["dc.contributor.author","Ahren, Dag"],["dc.contributor.author","Au, Chun Hang"],["dc.contributor.author","Birren, Bruce W."],["dc.contributor.author","Borodovsky, Mark"],["dc.contributor.author","Burns, Claire"],["dc.contributor.author","Canback, Bjorn"],["dc.contributor.author","Casselton, Lorna A."],["dc.contributor.author","Cheng, C. K."],["dc.contributor.author","Deng, Jixin"],["dc.contributor.author","Dietrich, Fred S."],["dc.contributor.author","Fargo, David C."],["dc.contributor.author","Farman, Mark L."],["dc.contributor.author","Gathman, Allen C."],["dc.contributor.author","Goldberg, Jonathan"],["dc.contributor.author","Guigo, Roderic"],["dc.contributor.author","Hoegger, Patrick J."],["dc.contributor.author","Hooker, James B."],["dc.contributor.author","Huggins, Ashleigh"],["dc.contributor.author","James, Timothy Y."],["dc.contributor.author","Kamada, Takashi"],["dc.contributor.author","Kilaru, Sreedhar"],["dc.contributor.author","Kodira, Chinnappa D."],["dc.contributor.author","Kuees, Ursula"],["dc.contributor.author","Kupfert, Doris"],["dc.contributor.author","Kwan, Hoi Shan"],["dc.contributor.author","Lomsadze, Alexandre"],["dc.contributor.author","Li, Weixi"],["dc.contributor.author","Lilly, Walt W."],["dc.contributor.author","Ma, Li-Jun"],["dc.contributor.author","Mackey, Aaron J."],["dc.contributor.author","Manning, Gerard"],["dc.contributor.author","Martin, Francis M."],["dc.contributor.author","Muraguchi, Hajime"],["dc.contributor.author","Natvig, Donald O."],["dc.contributor.author","Palmerini, Heather"],["dc.contributor.author","Ramesh, Marilee A."],["dc.contributor.author","Rehmeyer, Cathy J."],["dc.contributor.author","Roe, Bruce A."],["dc.contributor.author","Shenoy, Narmada"],["dc.contributor.author","Stanke, Mario"],["dc.contributor.author","Ter-Hovhannisyan, Vardges"],["dc.contributor.author","Tunlid, Anders"],["dc.contributor.author","Velagapudi, Rajesh"],["dc.contributor.author","Vision, Todd J."],["dc.contributor.author","Zeng, Qiandong"],["dc.contributor.author","Zolan, Miriam E."],["dc.contributor.author","Pukkila, Patricia J."],["dc.date.accessioned","2018-11-07T08:42:09Z"],["dc.date.available","2018-11-07T08:42:09Z"],["dc.date.issued","2010"],["dc.description.abstract","The mushroom Coprinopsis cinerea is a classic experimental model for multicellular development in fungi because it grows on defined media, completes its life cycle in 2 weeks, produces some 10(8) synchronized meiocytes, and can be manipulated at all stages in development by mutation and transformation. The 37-megabase genome of C. cinerea was sequenced and assembled into 13 chromosomes. Meiotic recombination rates vary greatly along the chromosomes, and retrotransposons are absent in large regions of the genome with low levels of meiotic recombination. Single-copy genes with identifiable orthologs in other basidiomycetes are predominant in low-recombination regions of the chromosome. In contrast, paralogous multicopy genes are found in the highly recombining regions, including a large family of protein kinases (FunK1) unique to multicellular fungi. Analyses of P450 and hydrophobin gene families confirmed that local gene duplications drive the expansions of paralogous copies and the expansions occur in independent lineages of Agaricomycotina fungi. Gene-expression patterns from microarrays were used to dissect the transcriptional program of dikaryon formation (mating). Several members of the FunK1 kinase family are differentially regulated during sexual morphogenesis, and coordinate regulation of adjacent duplications is rare. The genomes of C. cinerea and Laccaria bicolor, a symbiotic basidiomycete, share extensive regions of synteny. The largest syntenic blocks occur in regions with low meiotic recombination rates, no transposable elements, and tight gene spacing, where orthologous single-copy genes are overrepresented. The chromosome assembly of C. cinerea is an essential resource in understanding the evolution of multicellularity in the fungi."],["dc.identifier.doi","10.1073/pnas.1003391107"],["dc.identifier.isi","000279332300043"],["dc.identifier.pmid","20547848"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/19639"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Natl Acad Sciences"],["dc.relation.issn","0027-8424"],["dc.title","Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea (Coprinus cinereus)"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","17501"],["dc.bibliographiccitation.issue","43"],["dc.bibliographiccitation.journal","PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA"],["dc.bibliographiccitation.lastpage","17506"],["dc.bibliographiccitation.volume","109"],["dc.contributor.author","Morin, Emmanuelle"],["dc.contributor.author","Kohler, Annegret"],["dc.contributor.author","Baker, Adam R."],["dc.contributor.author","Foulongne-Oriol, Marie"],["dc.contributor.author","Lombard, Vincent"],["dc.contributor.author","Nagy, Laszlo G."],["dc.contributor.author","Ohm, Robin A."],["dc.contributor.author","Patyshakuliyeva, Aleksandrina"],["dc.contributor.author","Brun, Annick"],["dc.contributor.author","Aerts, Andrea L."],["dc.contributor.author","Bailey, Andrew M."],["dc.contributor.author","Billette, Christophe"],["dc.contributor.author","Coutinho, Pedro M."],["dc.contributor.author","Deakin, Greg"],["dc.contributor.author","Doddapaneni, Harshavardhan"],["dc.contributor.author","Floudas, Dimitrios"],["dc.contributor.author","Grimwood, Jane"],["dc.contributor.author","Hilden, Kristiina"],["dc.contributor.author","Kuees, Ursula"],["dc.contributor.author","LaButti, Kurt M."],["dc.contributor.author","Lapidus, Alla"],["dc.contributor.author","Lindquist, Erika A."],["dc.contributor.author","Lucas, Susan M."],["dc.contributor.author","Murat, Claude"],["dc.contributor.author","Riley, Robert W."],["dc.contributor.author","Salamov, Asaf A."],["dc.contributor.author","Schmutz, Jeremy"],["dc.contributor.author","Subramanian, Venkataramanan"],["dc.contributor.author","Wosteng, Han A. B."],["dc.contributor.author","Xu, J."],["dc.contributor.author","Eastwood, Daniel C."],["dc.contributor.author","Foster, Gary D."],["dc.contributor.author","Sonnenberg, Anton S. M."],["dc.contributor.author","Cullen, Dan"],["dc.contributor.author","de Vries, Ronald P."],["dc.contributor.author","Lundell, Taina"],["dc.contributor.author","Hibbett, David S."],["dc.contributor.author","Henrissat, Bernard"],["dc.contributor.author","Burton, Kerry S."],["dc.contributor.author","Kerrigan, Richard W."],["dc.contributor.author","Challen, Michael P."],["dc.contributor.author","Grigoriev, Igor V."],["dc.contributor.author","Martin, Francis M."],["dc.date.accessioned","2018-11-07T09:04:27Z"],["dc.date.available","2018-11-07T09:04:27Z"],["dc.date.issued","2012"],["dc.description.abstract","Agaricusbisporus is the model fungus for the adaptation, persistence, and growth in the humic-rich leaf-litter environment. Aside from its ecological role, A. bisporus has been an important component of the human diet for over 200 y and worldwide cultivation of the \"button mushroom\" forms a multibillion dollar industry. We present two A. bisporus genomes, their gene repertoires and transcript profiles on compost and during mushroom formation. The genomes encode a full repertoire of polysaccharide-degrading enzymes similar to that of wood-decayers. Comparative transcriptomics of mycelium grown on defined medium, casing-soil, and compost revealed genes encoding enzymes involved in xylan, cellulose, pectin, and protein degradation are more highly expressed in compost. The striking expansion of heme-thiolate peroxidases and beta-etherases is distinctive from Agaricomycotina wood-decayers and suggests a broad attack on decaying lignin and related metabolites found in humic acid-rich environment. Similarly, up-regulation of these genes together with a lignolytic manganese peroxidase, multiple copper radical oxidases, and cytochrome P450s is consistent with challenges posed by complex humic-rich substrates. The gene repertoire and expression of hydrolytic enzymes in A. bisporus is substantially different from the taxonomically related ectomycorrhizal symbiont Laccaria bicolor. A common promoter motif was also identified in genes very highly expressed in humic-rich substrates. These observations reveal genetic and enzymatic mechanisms governing adaptation to the humic-rich ecological niche formed during plant degradation, further defining the critical role such fungi contribute to soil structure and carbon sequestration in terrestrial ecosystems. Genome sequence will expedite mushroom breeding for improved agronomic characteristics."],["dc.identifier.doi","10.1073/pnas.1206847109"],["dc.identifier.isi","000311147800043"],["dc.identifier.pmid","23045686"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/25119"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Natl Acad Sciences"],["dc.relation.issn","0027-8424"],["dc.title","Genome sequence of the button mushroom Agaricus bisporus reveals mechanisms governing adaptation to a humic-rich ecological niche"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.issue","10"],["dc.bibliographiccitation.journal","PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA"],["dc.bibliographiccitation.volume","110"],["dc.contributor.author","Morin, Emmanuelle"],["dc.contributor.author","Kohler, Annegret"],["dc.contributor.author","Baker, Adam R."],["dc.contributor.author","Foulongne-Oriol, Marie"],["dc.contributor.author","Lombard, Vincent"],["dc.contributor.author","Nagy, Laszlo G."],["dc.contributor.author","Ohm, Robin A."],["dc.contributor.author","Patyshakuliyeva, Aleksandrina"],["dc.contributor.author","Brun, Annick"],["dc.contributor.author","Aerts, Andrea L."],["dc.contributor.author","Bailey, Andrew M."],["dc.contributor.author","Billette, Christophe"],["dc.contributor.author","Coutinho, Pedro M."],["dc.contributor.author","Deakin, Greg"],["dc.contributor.author","Doddapaneni, Harshavardhan"],["dc.contributor.author","Floudas, Dimitrios"],["dc.contributor.author","Grimwood, Jane"],["dc.contributor.author","Hilden, Kristiina"],["dc.contributor.author","Kuees, Ursula"],["dc.contributor.author","LaButti, Kurt M."],["dc.contributor.author","Lapidus, Alla"],["dc.contributor.author","Lindquist, Erika A."],["dc.contributor.author","Lucas, Susan M."],["dc.contributor.author","Murat, Claude"],["dc.contributor.author","Riley, Robert W."],["dc.contributor.author","Salamov, Asaf A."],["dc.contributor.author","Schmutz, Jeremy"],["dc.contributor.author","Subramanian, Venkataramanan"],["dc.contributor.author","Wosten, Han A. B."],["dc.contributor.author","Xu, J."],["dc.contributor.author","Eastwood, Daniel C."],["dc.contributor.author","Foster, Gary D."],["dc.contributor.author","Sonnenberg, Anton S. M."],["dc.contributor.author","Cullen, Dan"],["dc.contributor.author","de Vries, Ronald P."],["dc.contributor.author","Lundell, Taina"],["dc.contributor.author","Hibbett, David S."],["dc.contributor.author","Henrissat, Bernard"],["dc.contributor.author","Burton, Kerry S."],["dc.contributor.author","Kerrigan, Richard W."],["dc.contributor.author","Challen, Michael P."],["dc.contributor.author","Grigoriev, Igor V."],["dc.contributor.author","Martin, Francis M."],["dc.date.accessioned","2018-11-07T09:28:12Z"],["dc.date.available","2018-11-07T09:28:12Z"],["dc.date.issued","2013"],["dc.format.extent","4146"],["dc.identifier.doi","10.1073/pnas.1300201110"],["dc.identifier.isi","000315812800010"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/30719"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Natl Acad Sciences"],["dc.relation.issn","0027-8424"],["dc.title","Genome sequence of the button mushroom Agaricus bisporus reveals mechanisms governing adaptation to a humic-rich ecological niche (vol 109, pg 17501, 2012)"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","9166"],["dc.bibliographiccitation.issue","22"],["dc.bibliographiccitation.journal","PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA"],["dc.bibliographiccitation.lastpage","9171"],["dc.bibliographiccitation.volume","108"],["dc.contributor.author","Duplessis, Sebastien"],["dc.contributor.author","Cuomo, Christina A."],["dc.contributor.author","Lin, Yao-Cheng"],["dc.contributor.author","Aerts, Andrea L."],["dc.contributor.author","Tisserant, Emilie"],["dc.contributor.author","Veneault-Fourrey, Claire"],["dc.contributor.author","Joly, David L."],["dc.contributor.author","Hacquard, Stephane"],["dc.contributor.author","Amselem, Joelle"],["dc.contributor.author","Cantarel, Brandi L."],["dc.contributor.author","Chiu, Readman"],["dc.contributor.author","Coutinho, Pedro M."],["dc.contributor.author","Feau, Nicolas"],["dc.contributor.author","Field, Matthew"],["dc.contributor.author","Frey, Pascal"],["dc.contributor.author","Gelhaye, Eric"],["dc.contributor.author","Goldberg, Jonathan"],["dc.contributor.author","Grabherr, Manfred G."],["dc.contributor.author","Kodira, Chinnappa D."],["dc.contributor.author","Kohler, Annegret"],["dc.contributor.author","Kuees, Ursula"],["dc.contributor.author","Lindquist, Erika A."],["dc.contributor.author","Lucas, Susan M."],["dc.contributor.author","Mago, Rohit"],["dc.contributor.author","Mauceli, Evan"],["dc.contributor.author","Morin, Emmanuelle"],["dc.contributor.author","Murat, Claude"],["dc.contributor.author","Pangilinan, Jasmyn L."],["dc.contributor.author","Park, Robert"],["dc.contributor.author","Pearson, Matthew"],["dc.contributor.author","Quesneville, Hadi"],["dc.contributor.author","Rouhier, Nicolas"],["dc.contributor.author","Sakthikumar, Sharadha"],["dc.contributor.author","Salamov, Asaf A."],["dc.contributor.author","Schmutz, Jeremy"],["dc.contributor.author","Selles, Benjamin"],["dc.contributor.author","Shapiro, Harris"],["dc.contributor.author","Tanguay, Philippe"],["dc.contributor.author","Tuskan, Gerald A."],["dc.contributor.author","Henrissat, Bernard"],["dc.contributor.author","van de Peer, Yves"],["dc.contributor.author","Rouze, Pierre"],["dc.contributor.author","Ellis, Jeffrey G."],["dc.contributor.author","Dodds, Peter N."],["dc.contributor.author","Schein, Jacqueline E."],["dc.contributor.author","Zhong, Shaobin"],["dc.contributor.author","Hamelin, Richard C."],["dc.contributor.author","Grigoriev, Igor V."],["dc.contributor.author","Szabo, Les J."],["dc.contributor.author","Martin, Francis M."],["dc.date.accessioned","2018-11-07T08:55:58Z"],["dc.date.available","2018-11-07T08:55:58Z"],["dc.date.issued","2011"],["dc.description.abstract","Rust fungi are some of the most devastating pathogens of crop plants. They are obligate biotrophs, which extract nutrients only from living plant tissues and cannot grow apart from their hosts. Their lifestyle has slowed the dissection of molecular mechanisms underlying host invasion and avoidance or suppression of plant innate immunity. We sequenced the 101-Mb genome of Melampsora larici-populina, the causal agent of poplar leaf rust, and the 89-Mb genome of Puccinia graminis f. sp. tritici, the causal agent of wheat and barley stem rust. We then compared the 16,399 predicted proteins of M. larici-populina with the 17,773 predicted proteins of P. graminis f. sp tritici. Genomic features related to their obligate biotrophic lifestyle include expanded lineage-specific gene families, a large repertoire of effector-like small secreted proteins, impaired nitrogen and sulfur assimilation pathways, and expanded families of amino acid and oligopeptide membrane transporters. The dramatic up-regulation of transcripts coding for small secreted proteins, secreted hydrolytic enzymes, and transporters in planta suggests that they play a role in host infection and nutrient acquisition. Some of these genomic hallmarks are mirrored in the genomes of other microbial eukaryotes that have independently evolved to infect plants, indicating convergent adaptation to a biotrophic existence inside plant cells."],["dc.identifier.doi","10.1073/pnas.1019315108"],["dc.identifier.isi","000291106200053"],["dc.identifier.pmid","21536894"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/23039"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Natl Acad Sciences"],["dc.relation.issn","0027-8424"],["dc.title","Obligate biotrophy features unraveled by the genomic analysis of rust fungi"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","329"],["dc.bibliographiccitation.issue","2"],["dc.bibliographiccitation.journal","New Phytologist"],["dc.bibliographiccitation.lastpage","342"],["dc.bibliographiccitation.volume","180"],["dc.contributor.author","Niculita-Hirzel, Helene"],["dc.contributor.author","Labbe, Jessy"],["dc.contributor.author","Kohler, Annegret"],["dc.contributor.author","le Tacon, Francois"],["dc.contributor.author","Martin, Francis M."],["dc.contributor.author","Sanders, Ian R."],["dc.contributor.author","Kuees, Ursula"],["dc.date.accessioned","2018-11-07T11:20:29Z"],["dc.date.available","2018-11-07T11:20:29Z"],["dc.date.issued","2008"],["dc.description.abstract","In natural conditions, basidiomycete ectomycorrhizal fungi such as Laccaria bicolor are typically in the dikaryotic state when forming symbioses with trees, meaning that two genetically different individuals have to fuse or 'mate'. Nevertheless, nothing is known about the molecular mechanisms of mating in these ecologically important fungi. Here, advantage was taken of the first sequenced genome of the ectomycorrhizal fungus, Laccaria bicolor, to determine the genes that govern the establishment of cell-type identity and orchestrate mating. The L. bicolor mating type loci were identified through genomic screening. The evolutionary history of the genomic regions that contained them was determined by genome-wide comparison of L. bicolor sequences with those of known tetrapolar and bipolar basidiomycete species, and by phylogenetic reconstruction of gene family history. It is shown that the genes of the two mating type loci, A and B, are conserved across the Agaricales, but they are contained in regions of the genome with different evolutionary histories. The A locus is in a region where the gene order is under strong selection across the Agaricales. By contrast, the B locus is in a region where the gene order is likely under a low selection pressure but where gene duplication, translocation and transposon insertion are frequent."],["dc.identifier.doi","10.1111/j.1469-8137.2008.02525.x"],["dc.identifier.isi","000259526300010"],["dc.identifier.pmid","18557817"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/55547"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Wiley-blackwell"],["dc.relation.issn","0028-646X"],["dc.title","Gene organization of the mating type regions in the ectomycorrhizal fungus Laccaria bicolor reveals distinct evolution between the two mating type loci"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]

[["dc.bibliographiccitation.firstpage","762"],["dc.bibliographiccitation.issue","6043"],["dc.bibliographiccitation.journal","Science"],["dc.bibliographiccitation.lastpage","765"],["dc.bibliographiccitation.volume","333"],["dc.contributor.author","Eastwood, Daniel C."],["dc.contributor.author","Floudas, Dimitrios"],["dc.contributor.author","Binder, Manfred"],["dc.contributor.author","Majcherczyk, Andrzej"],["dc.contributor.author","Schneider, Patrick"],["dc.contributor.author","Aerts, Andrea L."],["dc.contributor.author","Asiegbu, Fred O."],["dc.contributor.author","Baker, Scott E."],["dc.contributor.author","Barry, Kerrie"],["dc.contributor.author","Bendiksby, Mika"],["dc.contributor.author","Blumentritt, Melanie"],["dc.contributor.author","Coutinho, Pedro M."],["dc.contributor.author","Cullen, Dan"],["dc.contributor.author","de Vries, Ronald P."],["dc.contributor.author","Gathman, Allen C."],["dc.contributor.author","Goodell, Barry"],["dc.contributor.author","Henrissat, Bernard"],["dc.contributor.author","Ihrmark, Katarina"],["dc.contributor.author","Kauserud, Havard"],["dc.contributor.author","Kohler, Annegret"],["dc.contributor.author","LaButti, Kurt M."],["dc.contributor.author","Lapidus, Alla"],["dc.contributor.author","Lavin, Jose L."],["dc.contributor.author","Lee, Yong-Hwan"],["dc.contributor.author","Lindquist, Erika A."],["dc.contributor.author","Lilly, Walt W."],["dc.contributor.author","Lucas, Susan M."],["dc.contributor.author","Morin, Emmanuelle"],["dc.contributor.author","Murat, Claude"],["dc.contributor.author","Oguiza, Jose A."],["dc.contributor.author","Park, Jongsun"],["dc.contributor.author","Pisabarro, Antonio G."],["dc.contributor.author","Riley, Robert W."],["dc.contributor.author","Rosling, Anna"],["dc.contributor.author","Salamov, Asaf A."],["dc.contributor.author","Schmidt, Olaf"],["dc.contributor.author","Schmutz, Jeremy"],["dc.contributor.author","Skrede, Inger"],["dc.contributor.author","Stenlid, Jan"],["dc.contributor.author","Wiebenga, A. D."],["dc.contributor.author","Xie, Xinfeng"],["dc.contributor.author","Kuees, Ursula"],["dc.contributor.author","Hibbett, David S."],["dc.contributor.author","Hoffmeister, Dirk"],["dc.contributor.author","Hogberg, Nils"],["dc.contributor.author","Martin, Francis M."],["dc.contributor.author","Grigoriev, Igor V."],["dc.contributor.author","Watkinson, Sarah C."],["dc.date.accessioned","2018-11-07T08:53:19Z"],["dc.date.available","2018-11-07T08:53:19Z"],["dc.date.issued","2011"],["dc.description.abstract","Brown rot decay removes cellulose and hemicellulose from wood-residual lignin contributing up to 30% of forest soil carbon-and is derived from an ancestral white rot saprotrophy in which both lignin and cellulose are decomposed. Comparative and functional genomics of the \"dry rot\" fungus Serpula lacrymans, derived from forest ancestors, demonstrated that the evolution of both ectomycorrhizal biotrophy and brown rot saprotrophy were accompanied by reductions and losses in specific protein families, suggesting adaptation to an intercellular interaction with plant tissue. Transcriptome and proteome analysis also identified differences in wood decomposition in S. lacrymans relative to the brown rot Postia placenta. Furthermore, fungal nutritional mode diversification suggests that the boreal forest biome originated via genetic coevolution of above- and below-ground biota."],["dc.description.sponsorship","Office of Science of the U.S. Department of Energy [DE-AC02-05CH11231]"],["dc.identifier.doi","10.1126/science.1205411"],["dc.identifier.isi","000293512100045"],["dc.identifier.pmid","21764756"],["dc.identifier.uri","https://resolver.sub.uni-goettingen.de/purl?gro-2/22381"],["dc.notes.status","zu prüfen"],["dc.notes.submitter","Najko"],["dc.publisher","Amer Assoc Advancement Science"],["dc.relation.issn","0036-8075"],["dc.title","The Plant Cell Wall-Decomposing Machinery Underlies the Functional Diversity of Forest Fungi"],["dc.type","journal_article"],["dc.type.internalPublication","yes"],["dc.type.peerReviewed","yes"],["dc.type.status","published"],["dspace.entity.type","Publication"]]