TY - JOUR AU - Engelbrecht, C. J. AU - Harrington, T. C. AU - Alfenas, A. PY - 2007 DA - 2007// TI - Ceratocystis wilt of cacao-a disease of increasing importance JO - Phytopathology VL - 97 UR - https://doi.org/10.1094/PHYTO-97-12-1648 DO - 10.1094/PHYTO-97-12-1648 ID - Engelbrecht2007 ER - TY - CHAP AU - Cabrera, O. G. ED - Bailey, A. B. ED - Meinhardt, W. L. PY - 2016 DA - 2016// TI - Ceratocystis wilt pathogens: history and biology—highlighting C. cacaofunesta, the causal agent of wilt disease of cacao BT - Cacao diseases: a history of old enemies and new encounters PB - Springer International Publishing CY - Cham UR - https://doi.org/10.1007/978-3-319-24789-2_12 DO - 10.1007/978-3-319-24789-2_12 ID - Cabrera2016 ER - TY - JOUR AU - Ploetz, R. C. PY - 2007 DA - 2007// TI - Cacao diseases: important threats to chocolate production worldwide JO - Phytopathology VL - 97 UR - https://doi.org/10.1094/PHYTO-97-12-1634 DO - 10.1094/PHYTO-97-12-1634 ID - Ploetz2007 ER - TY - JOUR AU - Baker, C. J. PY - 2003 DA - 2003// TI - Genetic variability and host specialization in the Latin American Clade of Ceratocystis fimbriata JO - Phytopathology VL - 93 UR - https://doi.org/10.1094/PHYTO.2003.93.10.1274 DO - 10.1094/PHYTO.2003.93.10.1274 ID - Baker2003 ER - TY - JOUR AU - De Beer, Z. W. AU - Duong, T. A. AU - Barnes, I. AU - Wingfield, B. D. AU - Wingfield, M. J. PY - 2014 DA - 2014// TI - Redefining Ceratocystis and allied genera JO - Stud Mycol VL - 79 UR - https://doi.org/10.1016/j.simyco.2014.10.001 DO - 10.1016/j.simyco.2014.10.001 ID - De Beer2014 ER - TY - JOUR AU - Clérivet, A. AU - Déon, V. AU - Alami, I. AU - Lopez, F. AU - Geiger, J. P. AU - Nicole, M. PY - 2000 DA - 2000// TI - Tyloses and gels associated with cellulose accumulation in vessels are responses of plane tree seedlings (Platanus× acerifolia) to the vascular fungus Ceratocystis fimbriata f. sp platani JO - Trees VL - 15 UR - https://doi.org/10.1007/s004680000063 DO - 10.1007/s004680000063 ID - Clérivet2000 ER - TY - JOUR AU - van Wyk, M. PY - 2007 DA - 2007// TI - Ceratocystis manginecans sp. nov., causal agent of a destructive mango wilt disease in Oman and Pakistan JO - Fungal Divers VL - 27 ID - van Wyk2007 ER - TY - CHAP AU - Kile, G. A. ED - Wingfield, M. J. ED - Seifert, K. A. ED - Webber, J. A. PY - 1993 DA - 1993// TI - Plant diseases caused by species of Ceratocystis Sensu stricto and Chalara BT - Ceratocystis and Ophiostoma:taxonomy, ecology and pathogenicity PB - APS Press CY - Saint Paul, MN ID - Kile1993 ER - TY - CHAP PY - 2015 DA - 2015// TI - Ceratocystis Fimbriata (original text by Harrington, T. C. And baker, C.) BT - Crop protection compendium PB - CAB International CY - Wallingford ID - ref9 ER - TY - BOOK AU - Harrington, T. C. PY - 2013 DA - 2013// TI - Ceratocystis diseases. Infectious Forest diseases ID - Harrington2013 ER - TY - JOUR AU - Mazón, M. AU - Díaz, F. AU - Gaviria, J. C. PY - 2013 DA - 2013// TI - Effectiveness of different trap types for control of bark and ambrosia beetles (Scolytinae) in Criollo cacao farms of Mérida, Venezuela JO - International Journal of Pest Management VL - 59 UR - https://doi.org/10.1080/09670874.2013.810794 DO - 10.1080/09670874.2013.810794 ID - Mazón2013 ER - TY - JOUR AU - Harrington, T. C. AU - Thorpe, D. J. AU - Alfenas, A. C. PY - 2011 DA - 2011// TI - Genetic variation and variation in aggressiveness to native and exotic hosts among Brazilian populations of Ceratocystis fimbriata JO - Phytopathology VL - 101 UR - https://doi.org/10.1094/PHYTO-08-10-0228 DO - 10.1094/PHYTO-08-10-0228 ID - Harrington2011 ER - TY - JOUR AU - Ioannou, N. AU - Scheneider, R. W. AU - Grogan, R. G. PY - 1977 DA - 1977// TI - Effect of oxygen, carbon dioxide and ethylene on growth, sporulation and production of microsclerotia by Verticillium dahliae JO - Phytopathology VL - 67 UR - https://doi.org/10.1094/Phyto-67-645 DO - 10.1094/Phyto-67-645 ID - Ioannou1977 ER - TY - JOUR AU - Araujo, L. PY - 2014 DA - 2014// TI - Histopathological aspects of mango resistance to the infection process of Ceratocystis fimbriata JO - Plant Pathol VL - 63 UR - https://doi.org/10.1111/ppa.12208 DO - 10.1111/ppa.12208 ID - Araujo2014 ER - TY - JOUR AU - Santos, R. M. F. PY - 2013 DA - 2013// TI - Kinetics and histopathology of the cacao-Ceratocystis cacaofunesta interaction JO - Trop Plant Biol VL - 6 UR - https://doi.org/10.1007/s12042-012-9115-8 DO - 10.1007/s12042-012-9115-8 ID - Santos2013 ER - TY - JOUR AU - Wilken, P. M. AU - Steenkamp, E. T. AU - Wingfield, M. J. AU - De Beer, Z. W. AU - Wingfield, B. D. PY - 2014 DA - 2014// TI - DNA loss at the Ceratocystis fimbriata mating locus results in self-sterility JO - PLoS One VL - 9 UR - https://doi.org/10.1371/journal.pone.0092180 DO - 10.1371/journal.pone.0092180 ID - Wilken2014 ER - TY - JOUR AU - Witthuhn, R. C. AU - Harrington, T. C. AU - Wingfield, B. D. AU - Steimel, J. P. AU - Wingfield, M. J. PY - 2000 DA - 2000// TI - Deletion of the MAT-2 mating-type gene during uni-directional mating-type switching in Ceratocystis JO - Curr Genet VL - 38 UR - https://doi.org/10.1007/s002940000131 DO - 10.1007/s002940000131 ID - Witthuhn2000 ER - TY - JOUR AU - Engelbrecht, C. J. B. AU - Harrington, T. C. PY - 2005 DA - 2005// TI - Intersterility, morphology and taxonomy of Ceratocystis fimbriata on sweet potato, cacao and sycamore JO - Mycologia VL - 97 UR - https://doi.org/10.1080/15572536.2006.11832839 DO - 10.1080/15572536.2006.11832839 ID - Engelbrecht2005 ER - TY - CHAP AU - Beaver, R. A. ED - Wilding, N. ED - Collins, N. ED - Hammond, P. ED - Webber, J. PY - 1989 DA - 1989// TI - Insect-fungus relationships in the bark and ambrosia beetles BT - Insect-fungus interactions PB - Academic Press CY - London UR - https://doi.org/10.1016/B978-0-12-751800-8.50011-2 DO - 10.1016/B978-0-12-751800-8.50011-2 ID - Beaver1989 ER - TY - JOUR AU - Engelbrecht, C. J. B. AU - Harrington, T. C. AU - Steimel, J. AU - Capretti, P. PY - 2004 DA - 2004// TI - Genetic variation in eastern north American and putatively introduced populations of Ceratocystis fimbriataf. platani JO - Mol Ecol VL - 13 UR - https://doi.org/10.1111/j.1365-294X.2004.02312.x DO - 10.1111/j.1365-294X.2004.02312.x ID - Engelbrecht2004 ER - TY - JOUR AU - Al-Sadi, A. M. PY - 2010 DA - 2010// TI - Histological changes in mango seedlings following infection with Ceratocystis manginecans, the cause of mango decline JO - J Phytopathol VL - 158 UR - https://doi.org/10.1111/j.1439-0434.2010.01691.x DO - 10.1111/j.1439-0434.2010.01691.x ID - Al-Sadi2010 ER - TY - JOUR AU - Ma, L. -. J. PY - 2010 DA - 2010// TI - Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium JO - Nature VL - 464 UR - https://doi.org/10.1038/nature08850 DO - 10.1038/nature08850 ID - Ma2010 ER - TY - STD TI - Klosterman SJ, et al. Comparative genomics yields insights into niche adaptation of plant vascular wilt pathogens. PLoS Pathog. 2011;7(7) ID - ref23 ER - TY - BOOK AU - Kim, K. T. AU - Jeon, J. AU - Choi, J. AU - Cheong, K. AU - Song, H. AU - Choi, G. AU - Lee, Y. H. PY - 2016 DA - 2016// TI - Kingdom-wide analysis of fungal small secreted proteins (SSPs) reveals their potential role in host association. Frontiers in plant science, 7 ID - Kim2016 ER - TY - JOUR AU - Krijger, J. -. J. PY - 2014 DA - 2014// TI - Compositions of fungal secretomes indicate a greater impact of phylogenetic history than lifestyle adaptation JO - BMC Genomics VL - 15 UR - https://doi.org/10.1186/1471-2164-15-722 DO - 10.1186/1471-2164-15-722 ID - Krijger2014 ER - TY - JOUR AU - Fernandez-Acero, F. J. AU - Carbú, M. AU - Garrido, C. AU - Vallejo, I. AU - Cantoral, J. M. PY - 2007 DA - 2007// TI - Proteomic advances in phytopathogenic fungi JO - Current Proteomics VL - 4 UR - https://doi.org/10.2174/157016407782194620 DO - 10.2174/157016407782194620 ID - Fernandez-Acero2007 ER - TY - STD TI - Ghannoum, Mahmoud A. “Potential role of phospholipases in virulence and fungal pathogenesis.” Clin Microbiol Rev 13.1 (2000): 122-143. ID - ref27 ER - TY - CHAP AU - Salyers, A. AU - Witt, D. ED - Salyers, A. ED - Witt, D. PY - 1994 DA - 1994// TI - Virulence factors that promote colonization BT - Bacterial pathogenesis: a molecular approach PB - ASM Press CY - Washington, D.C. ID - Salyers1994 ER - TY - JOUR AU - Balla, T. PY - 2013 DA - 2013// TI - Phosphoinositides: tiny lipids with giant impact on cell regulation JO - Physiol Rev VL - 93 UR - https://doi.org/10.1152/physrev.00028.2012 DO - 10.1152/physrev.00028.2012 ID - Balla2013 ER - TY - JOUR AU - Heinz, D. W. AU - Essen, L. O. AU - Williams, R. L. PY - 1998 DA - 1998// TI - Structural and mechanistic comparison of prokaryotic and eukaryotic phosphoinositide-specific phospholipases C JO - J Mol Biol VL - 275 UR - https://doi.org/10.1006/jmbi.1997.1490 DO - 10.1006/jmbi.1997.1490 ID - Heinz1998 ER - TY - JOUR AU - Griffith, O. H. AU - Ryan, M. PY - 1999 DA - 1999// TI - Bacterial phosphatidylinositol-specific phospholipase C: structure, function, and interaction with lipids JO - Biochimica Biophysica Acta VL - 1441 UR - https://doi.org/10.1016/S1388-1981(99)00153-5 DO - 10.1016/S1388-1981(99)00153-5 ID - Griffith1999 ER - TY - STD TI - Dangerfield, John A., and Christoph Metzner, eds. GPI Membrane Anchors-the Much Needed Link. Bentham Science Publishers, 2010. p. 43. ID - ref32 ER - TY - JOUR AU - Katan, M. PY - 1998 DA - 1998// TI - Families of phosphoinositide-specifc phospholipase C: structure and function JO - Biochim Biophys Acta VL - 1436 UR - https://doi.org/10.1016/S0005-2760(98)00125-8 DO - 10.1016/S0005-2760(98)00125-8 ID - Katan1998 ER - TY - JOUR AU - Flick, J. S. AU - Thorner, J. PY - 1993 DA - 1993// TI - Genetic and biochemical characterization of a phosphatidylinositol-specific phospholipase C in Saccharomyces cerevisiae JO - Mol Cell Biol VL - 13 UR - https://doi.org/10.1128/MCB.13.9.5861 DO - 10.1128/MCB.13.9.5861 ID - Flick1993 ER - TY - JOUR AU - Chung, H. J. PY - 2006 DA - 2006// TI - A gene encoding phosphatidyl inositol-specific phospholipase C from Cryphonectria parasitica modulates the lac1 expression JO - Fungal Genet Biol VL - 43 UR - https://doi.org/10.1016/j.fgb.2005.12.009 DO - 10.1016/j.fgb.2005.12.009 ID - Chung2006 ER - TY - JOUR AU - Choi, J. AU - Kim, K. S. AU - Rho, H. S. AU - Lee, Y. H. PY - 2011 DA - 2011// TI - Differential roles of the phospholipase C genes in fungal development and pathogenicity of Magnaporthe oryzae JO - Fungal Genet Biol VL - 48 UR - https://doi.org/10.1016/j.fgb.2011.01.001 DO - 10.1016/j.fgb.2011.01.001 ID - Choi2011 ER - TY - STD TI - Gao Q, Jin K, Ying SH, Zhang Y, Xiao G, Shang Y, Peng G. Genome sequencing and comparative transcriptomics of the model entomopathogenic fungi Metarhizium anisopliae and M. acridum. PLoS Genet, 1. 2011;7:e1001264. ID - ref37 ER - TY - JOUR AU - Zerbino, D. R. PY - 2009 DA - 2009// TI - Pebble and rock band: heuristic resolution of repeats and scaffolding in the velvet short-read de novo assembler JO - PLoS One VL - 4 UR - https://doi.org/10.1371/journal.pone.0008407 DO - 10.1371/journal.pone.0008407 ID - Zerbino2009 ER - TY - JOUR AU - Koski, L. B. PY - 2005 DA - 2005// TI - AutoFACT: an automatic functional annotation and classification tool JO - BMC bioinformatics VL - 6 UR - https://doi.org/10.1186/1471-2105-6-151 DO - 10.1186/1471-2105-6-151 ID - Koski2005 ER - TY - JOUR AU - Smith, G. A. AU - Marquis, H. AU - Jones, S. AU - Johnston, N. C. AU - Portnoy, D. A. AU - Goldfine, H. PY - 1995 DA - 1995// TI - The two distinct phospholipases C of Listeria monocytogenes have overlapping roles in escape from a vacuole and cell-to-cell spread JO - Infect Immun VL - 63 ID - Smith1995 ER - TY - JOUR AU - Han, M. V. PY - 2013 DA - 2013// TI - Estimating gene gain and loss rates in the presence of error in genome assembly and annotation using CAFE 3 JO - Mol Biol Evol VL - 30 UR - https://doi.org/10.1093/molbev/mst100 DO - 10.1093/molbev/mst100 ID - Han2013 ER - TY - JOUR AU - Wilken, P. M. PY - 2013 DA - 2013// TI - IMA genome-F 1: Ceratocystis fimbriata: draft nuclear genome sequence for the plant pathogen, Ceratocystis fimbriata JO - IMA fungus VL - 4 UR - https://doi.org/10.5598/imafungus.2013.04.02.14 DO - 10.5598/imafungus.2013.04.02.14 ID - Wilken2013 ER - TY - JOUR AU - van der Nest, M. A. PY - 2014 DA - 2014// TI - Draft genome sequences of Diplodia sapinea, Ceratocystis manginecans, and Ceratocystis moniliformis JO - IMA Fungus VL - 5 UR - https://doi.org/10.5598/imafungus.2014.05.01.13 DO - 10.5598/imafungus.2014.05.01.13 ID - van der Nest2014 ER - TY - STD TI - Belbahri, L. (2015). Genome sequence of Ceratocystis platani, a major pathogen of plane trees. URL http://www. ncbi. nlm. nih. gov/nuccore/814603118. ID - ref44 ER - TY - JOUR AU - Leach, A. R. AU - Shoichet, B. K. AU - Peishoff, C. E. PY - 2006 DA - 2006// TI - Prediction of protein-ligand interactions JO - Docking and scoring: successes and gaps J Med Chem VL - 49 ID - Leach2006 ER - TY - JOUR AU - Moser, J. PY - 1997 DA - 1997// TI - Crystal structure of the phosphatidylinositol-specific phospholipase C from the human pathogen Listeria monocytogenes JO - J Mol Biol VL - 273 UR - https://doi.org/10.1006/jmbi.1997.1290 DO - 10.1006/jmbi.1997.1290 ID - Moser1997 ER - TY - JOUR AU - Doerks, T. AU - Copley, R. R. AU - Schultz, J. AU - Ponting, C. P. AU - Bork, P. PY - 2002 DA - 2002// TI - Systematic identification of novel protein domain families associated with nuclear functions JO - Genome Res VL - 12 UR - https://doi.org/10.1101/gr.203201 DO - 10.1101/gr.203201 ID - Doerks2002 ER - TY - JOUR AU - Zhang, S. AU - Chen, H. AU - Liu, K. AU - Sun, Z. PY - 2009 DA - 2009// TI - Inferring protein function by domain context similarities in protein-protein interaction networks JO - BMC Bioinformatics VL - 10 UR - https://doi.org/10.1186/1471-2105-10-395 DO - 10.1186/1471-2105-10-395 ID - Zhang2009 ER - TY - JOUR AU - Liepman, A. H. PY - 2007 DA - 2007// TI - Functional genomic analysis supports conservation of function among cellulose synthase-like a gene family members and suggests diverse roles of mannans in plants JO - Plant Physiol VL - 143 UR - https://doi.org/10.1104/pp.106.093989 DO - 10.1104/pp.106.093989 ID - Liepman2007 ER - TY - JOUR AU - Hannenhalli, S. S. AU - Russell, R. B. PY - 2000 DA - 2000// TI - Analysis and prediction of functional sub-types from protein sequence alignments JO - J Mol Biol VL - 303 UR - https://doi.org/10.1006/jmbi.2000.4036 DO - 10.1006/jmbi.2000.4036 ID - Hannenhalli2000 ER - TY - JOUR AU - Shapovalov, M. V. AU - Dunbrack, R. L. PY - 2011 DA - 2011// TI - A smoothed backbone-dependent rotamer library for proteins derived from adaptive kernel density estimates and regressions JO - Structure VL - 19 UR - https://doi.org/10.1016/j.str.2011.03.019 DO - 10.1016/j.str.2011.03.019 ID - Shapovalov2011 ER - TY - JOUR AU - Mbenoun, M. PY - 2015 DA - 2015// TI - Diversity and pathogenicity of the Ceratocystidaceae associated with cacao agroforests in Cameroon JO - Plant Pathol VL - 65 UR - https://doi.org/10.1111/ppa.12400 DO - 10.1111/ppa.12400 ID - Mbenoun2015 ER - TY - JOUR AU - Roux, J. AU - Wingfield, M. J. PY - 2009 DA - 2009// TI - Ceratocystis species: emerging pathogens of non-native plantation Eucalyptus and Acacia species JO - Southern Forests: a Journal of Forest Science VL - 71 UR - https://doi.org/10.2989/SF.2009.71.2.5.820 DO - 10.2989/SF.2009.71.2.5.820 ID - Roux2009 ER - TY - JOUR AU - Giraud, T. AU - Gladieux, P. AU - Gavrilets, S. PY - 2010 DA - 2010// TI - Linking the emergence of fungal plant diseases with ecological speciation JO - Trends Ecol Evol VL - 25 UR - https://doi.org/10.1016/j.tree.2010.03.006 DO - 10.1016/j.tree.2010.03.006 ID - Giraud2010 ER - TY - JOUR AU - Beaumont, H. J. PY - 2009 DA - 2009// TI - Experimental evolution of bet hedging JO - Nature VL - 462 UR - https://doi.org/10.1038/nature08504 DO - 10.1038/nature08504 ID - Beaumont2009 ER - TY - STD TI - Coghlan, A. et al., 2005. Chromosome evolution in eukaryotes: a multi-kingdom perspective. Trends Genet, 21(12), pp.673–682. Available at: http://linkinghub.elsevier.com/retrieve/pii/S0168952505003021 [Accessed November 6, 2016]. UR - http://linkinghub.elsevier.com/retrieve/pii/S0168952505003021 ID - ref56 ER - TY - JOUR AU - Amselem, J. AU - Lebrun, M. -. H. AU - Quesneville, H. PY - 2015 DA - 2015// TI - Whole genome comparative analysis of transposable elements provides new insight into mechanisms of their inactivation in fungal genomes JO - BMC Genomics VL - 16 UR - https://doi.org/10.1186/s12864-015-1347-1 DO - 10.1186/s12864-015-1347-1 ID - Amselem2015 ER - TY - JOUR AU - Manning, V. A. PY - 2013 DA - 2013// TI - Comparative genomics of a plant-pathogenic fungus, Pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence JO - G3 (Bethesda, Md) VL - 3 UR - https://doi.org/10.1534/g3.112.004044 DO - 10.1534/g3.112.004044 ID - Manning2013 ER - TY - JOUR AU - Fudal, I. PY - 2009 DA - 2009// TI - Repeat-induced point mutation (RIP) as an alternative mechanism of evolution toward virulence in Leptosphaeria maculans JO - Mol Plant-Microbe Interact VL - 22 UR - https://doi.org/10.1094/MPMI-22-8-0932 DO - 10.1094/MPMI-22-8-0932 ID - Fudal2009 ER - TY - JOUR AU - Barnett, A. H. L. AU - Lilly, V. G. PY - 1947 DA - 1947// TI - The relation of thiamin to the production of Perithecia by Ceratostomella fimbriata JO - Mycological Society of America VL - 39 ID - Barnett1947 ER - TY - JOUR AU - Christen, P. AU - Meza, J. C. AU - Revah, S. PY - 1997 DA - 1997// TI - Fruity aroma production in solid state fermentation by Ceratocystis fimbriata: influence of the substrate type and the presence of precursors JO - Mycol Res VL - 101 UR - https://doi.org/10.1017/S0953756297003535 DO - 10.1017/S0953756297003535 ID - Christen1997 ER - TY - JOUR AU - Lyu, X. PY - 2015 DA - 2015// TI - Comparative genomic and transcriptional analyses of the carbohydrate-active enzymes and secretomes of phytopathogenic fungi reveal their significant roles during infection and development JO - Sci Rep VL - 5 UR - https://doi.org/10.1038/srep15565 DO - 10.1038/srep15565 ID - Lyu2015 ER - TY - STD TI - Zhao, Z. et al., 2013. Comparative analysis of fungal genomes reveals different plant cell wall degrading capacity in fungi. BMC Genomics, 14(1), p.274. Available at: http://www.biomedcentral.com/1471-2164/14/274%5Cnhttp://www.ncbi.nlm.nih.gov/pubmed/24422981%5Cnhttp://www.biomedcentral.com/1471-2164/15/6/. ID - ref63 ER - TY - STD TI - Wang, X. et al., 2015. Genomic and transcriptomic analysis of the endophytic fungus Pestalotiopsis fici reveals its lifestyle and high potential for synthesis of natural products. BMC Genomics, 16(1), p.28. Available at: http://www.biomedcentral.com/1471-2164/16/28. ID - ref64 ER - TY - BOOK AU - Firmino, a. C. PY - 2013 DA - 2013// TI - First report of Ceratocystis fimbriata causing fruit-rot of Passiflora edulis in Brazil ID - Firmino2013 ER - TY - JOUR AU - Pazzagli, L. PY - 1999 DA - 1999// TI - Purification, characterization, and amino acid sequence of cerato- platanin, a new phytotoxic protein from Ceratocystis fimbriata f. sp. platani JO - J Biol Chem VL - 274 UR - https://doi.org/10.1074/jbc.274.35.24959 DO - 10.1074/jbc.274.35.24959 ID - Pazzagli1999 ER - TY - JOUR AU - Pazzagli, L. PY - 2009 DA - 2009// TI - Characterization of ordered aggregates of cerato-platanin and their involvement in fungus-host interactions JO - Biochim Biophys Acta Gen Subj VL - 1790 UR - https://doi.org/10.1016/j.bbagen.2009.07.014 DO - 10.1016/j.bbagen.2009.07.014 ID - Pazzagli2009 ER - TY - JOUR AU - Gijzen, M. AU - Nürnberger, T. PY - 2006 DA - 2006// TI - Nep1-like proteins from plant pathogens: recruitment and diversification of the NPP1 domain across taxa JO - Phytochemistry VL - 67 UR - https://doi.org/10.1016/j.phytochem.2005.12.008 DO - 10.1016/j.phytochem.2005.12.008 ID - Gijzen2006 ER - TY - JOUR AU - Bailey, B. PY - 1995 DA - 1995// TI - Purification of a protein from culture filtrates of Fusarium oxysporum that induces ethylene and necrosis in leaves of Erythroxylum coca JO - Phytopathology VL - 85 UR - https://doi.org/10.1094/Phyto-85-1250 DO - 10.1094/Phyto-85-1250 ID - Bailey1995 ER - TY - JOUR AU - Oome, S. PY - 2014 DA - 2014// TI - Nep1-like proteins from three kingdoms of life act as a microbe-associated molecular pattern in Arabidopsis JO - Proc Natl Acad Sci U S A VL - 111 UR - https://doi.org/10.1073/pnas.1410031111 DO - 10.1073/pnas.1410031111 ID - Oome2014 ER - TY - JOUR AU - Barros, R. R. O. AU - Oliveira, R. A. AU - Gottschalk, L. M. F. AU - Bon, E. P. S. PY - 2010 DA - 2010// TI - Production of cellulolytic enzymes by fungi Acrophialophora nainiana and Ceratocystis paradoxa using different carbon sources JO - Appl Biochem Biotechnol VL - 161 UR - https://doi.org/10.1007/s12010-009-8894-3 DO - 10.1007/s12010-009-8894-3 ID - Barros2010 ER - TY - JOUR AU - Haridas, S. AU - Wang, Y. AU - Lim, L. AU - Alamouti, S. M. AU - Jackman, S. AU - Docking, R. PY - 2013 DA - 2013// TI - The genome and transcriptome of the pine saprophyte Ophiostoma piceae, and a comparison with the bark beetle-associated pine pathogen Grosmannia clavigera JO - BMC Genomics VL - 14 UR - https://doi.org/10.1186/1471-2164-14-373 DO - 10.1186/1471-2164-14-373 ID - Haridas2013 ER - TY - JOUR AU - Lo Presti, L. PY - 2015 DA - 2015// TI - Fungal effectors and plant susceptibility JO - Annu Rev Plant Biol VL - 66 UR - https://doi.org/10.1146/annurev-arplant-043014-114623 DO - 10.1146/annurev-arplant-043014-114623 ID - Lo Presti2015 ER - TY - JOUR AU - Harrington, T. C. AU - Kazmi, M. R. AU - Al-Sadi, A. M. AU - Ismail, S. I. PY - 2014 DA - 2014// TI - Intraspecific and intragenomic variability of ITS rDNA sequences reveals taxonomic problems in Ceratocystis fimbriata Sensu stricto JO - Mycologia VL - 106 UR - https://doi.org/10.3852/13-189 DO - 10.3852/13-189 ID - Harrington2014 ER - TY - JOUR AU - Oliveira, L. S. AU - Harrington, T. C. AU - Ferreira, M. A. AU - Damacena, M. B. AU - Al-Sadi, A. M. AU - Al-Mahmooli, I. H. AU - Alfenas, A. C. PY - 2015 DA - 2015// TI - Species or genotypes? Reassessment of four recently described species of the Ceratocystis wilt pathogen, Ceratocystis fimbriata, on Mangifera indica JO - Phytopathology VL - 105 UR - https://doi.org/10.1094/PHYTO-03-15-0065-R DO - 10.1094/PHYTO-03-15-0065-R ID - Oliveira2015 ER - TY - JOUR AU - Balesdent, M. -. H. PY - 2013 DA - 2013// TI - The dispensable chromosome of Leptosphaeria maculans shelters an effector gene conferring avirulence towards Brassica rapa JO - New Phytol VL - 198 UR - https://doi.org/10.1111/nph.12178 DO - 10.1111/nph.12178 ID - Balesdent2013 ER - TY - JOUR AU - Tsuge, T. PY - 2016 DA - 2016// TI - Evolution of pathogenicity controlled by small, dispensable chromosomes in Alternaria alternata pathogens JO - Physiol Mol Plant Pathol VL - 95 UR - https://doi.org/10.1016/j.pmpp.2016.02.009 DO - 10.1016/j.pmpp.2016.02.009 ID - Tsuge2016 ER - TY - JOUR AU - Williams, A. H. PY - 2016 DA - 2016// TI - Comparative genomics and prediction of conditionally dispensable sequences in legume–infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors JO - BMC Genomics VL - 17 UR - https://doi.org/10.1186/s12864-016-2486-8 DO - 10.1186/s12864-016-2486-8 ID - Williams2016 ER - TY - JOUR AU - Rech, G. E. PY - 2014 DA - 2014// TI - Natural selection on coding and noncoding DNA sequences is associated with virulence genes in a plant pathogenic fungus JO - Genome Biology and Evolution VL - 6 UR - https://doi.org/10.1093/gbe/evu192 DO - 10.1093/gbe/evu192 ID - Rech2014 ER - TY - JOUR AU - De Jonge, R. PY - 2013 DA - 2013// TI - Extensive chromosomal reshuffling drives evolution of virulence in an asexual pathogen JO - Genome Res VL - 23 UR - https://doi.org/10.1101/gr.152660.112 DO - 10.1101/gr.152660.112 ID - De Jonge2013 ER - TY - JOUR AU - Sharom, F. J. AU - Lehto, M. T. PY - 2002 DA - 2002// TI - Glycosylphosphatidylinositol-anchored proteins: structure, function, and cleavage by phosphatidylinositol-specific phospholipase C JO - Biochem Cell Biol VL - 80 UR - https://doi.org/10.1139/o02-146 DO - 10.1139/o02-146 ID - Sharom2002 ER - TY - JOUR AU - Ahyayauch, H. AU - Sot, J. AU - Collado, M. I. AU - Huarte, N. AU - Requejo-Isidro, J. AU - Alonso, A. AU - Goñi, F. M. PY - 2015 DA - 2015// TI - End-product Diacylglycerol enhances the activity of PI-PLC through changes in membrane domain structure JO - Biophys J VL - 108 UR - https://doi.org/10.1016/j.bpj.2015.02.020 DO - 10.1016/j.bpj.2015.02.020 ID - Ahyayauch2015 ER - TY - JOUR AU - Wei, Z. AU - Zenewicz, L. A. AU - Goldfine, H. PY - 2005 DA - 2005// TI - Listeria monocytogenes phosphatidylinositol-specific phospholipase C has evolved for virulence by greatly reduced activity on GPI anchors JO - Proc Natl Acad Sci U S A VL - 102 UR - https://doi.org/10.1073/pnas.0501725102 DO - 10.1073/pnas.0501725102 ID - Wei2005 ER - TY - JOUR AU - Ikezawa, H. PY - 2002 DA - 2002// TI - Glycosylphosphatidylinositol (GPI)-anchored proteins JO - Biol Pharm Bull VL - 25 UR - https://doi.org/10.1248/bpb.25.409 DO - 10.1248/bpb.25.409 ID - Ikezawa2002 ER - TY - JOUR AU - Brul, S. AU - King, A. AU - Van der Vaart, J. M. AU - Chapman, J. AU - Klis, F. AU - Verrips, C. T. PY - 1997 DA - 1997// TI - The incorporation of mannoproteins in the cell wall of S. cerevisiae and filamentous Ascomycetes JO - Antonie Van Leeuwenhoek VL - 72 UR - https://doi.org/10.1023/A:1000429208049 DO - 10.1023/A:1000429208049 ID - Brul1997 ER - TY - JOUR AU - Gilbert, N. M. AU - Baker, L. G. AU - Specht, C. A. AU - Lodge, J. K. PY - 2012 DA - 2012// TI - A glycosylphosphatidylinositol anchor is required for membrane localization but dispensable for cell wall association of chitin deacetylase 2 in Cryptococcus neoformans JO - MBio VL - 3 UR - https://doi.org/10.1128/mBio.00007-12 DO - 10.1128/mBio.00007-12 ID - Gilbert2012 ER - TY - JOUR AU - Dünkler, A. AU - Walther, A. AU - Specht, C. A. AU - Wendland, J. PY - 2005 DA - 2005// TI - Candida albicans CHT3 encodes the functional homolog of the Cts1 chitinase of Saccharomyces cerevisiae JO - Fungal Genet Biol VL - 42 UR - https://doi.org/10.1016/j.fgb.2005.08.001 DO - 10.1016/j.fgb.2005.08.001 ID - Dünkler2005 ER - TY - JOUR AU - Alcazar-Fuoli, L. AU - Clavaud, C. AU - Lamarre, C. AU - Aimanianda, V. AU - Seidl-Seiboth, V. AU - Mellado, E. AU - Latgé, J. P. PY - 2011 DA - 2011// TI - Functional analysis of the fungal/plant class chitinase family in Aspergillus fumigatus JO - Fungal Genet Biol VL - 48 UR - https://doi.org/10.1016/j.fgb.2010.12.007 DO - 10.1016/j.fgb.2010.12.007 ID - Alcazar-Fuoli2011 ER - TY - JOUR AU - Hoyer, L. L. AU - Fundyga, R. AU - Hecht, J. E. PY - 2001 DA - 2001// TI - Characterization of agglutinin-like sequence genes from non-albicans Candida and phylogenetic analysis of the ALS family JO - Genetics VL - 157 ID - Hoyer2001 ER - TY - JOUR AU - Frieman, M. B. AU - McCaffery, J. M. AU - Cormack, B. P. PY - 2002 DA - 2002// TI - Modular domain structure in the Candida glabrata adhesin Epa1p, a β1,6-glucan cross-linked cell wall protein JO - Mol Microbiol VL - 46 UR - https://doi.org/10.1046/j.1365-2958.2002.03166.x DO - 10.1046/j.1365-2958.2002.03166.x ID - Frieman2002 ER - TY - JOUR AU - Mouyna, I. AU - Fontaine, T. AU - Vai, M. PY - 2000 DA - 2000// TI - Glycosylphosphatidylinositol-anchored glucanosyltransferases play an active role in the biosynthesis of the fungal cell wall JO - J Biol Chem VL - 275 ID - Mouyna2000 ER - TY - JOUR AU - Hartl, L. AU - Gastebois, A. AU - Aimanianda, V. AU - Latgé, J. P. PY - 2011 DA - 2011// TI - Characterization of the GPI-anchored endo β-1, 3-glucanase Eng2 of Aspergillus fumigatus JO - Fungal Genet Biol VL - 48 UR - https://doi.org/10.1016/j.fgb.2010.06.011 DO - 10.1016/j.fgb.2010.06.011 ID - Hartl2011 ER - TY - JOUR AU - Gillmor, C. S. AU - Lukowitz, W. AU - Brininstool, G. AU - Sedbrook, J. C. AU - Hamann, T. AU - Poindexter, P. AU - Somerville, C. PY - 2005 DA - 2005// TI - Glycosylphosphatidylinositol-anchored proteins are required for cell wall synthesis and morphogenesis in Arabidopsis JO - Plant Cell VL - 17 UR - https://doi.org/10.1105/tpc.105.031815 DO - 10.1105/tpc.105.031815 ID - Gillmor2005 ER - TY - JOUR AU - De Micco, V. AU - Balzano, A. AU - Wheeler, E. A. AU - Baas, P. PY - 2016 DA - 2016// TI - Tyloses and gums: a review of structure, function and occurrence of vessel occlusions JO - IAWA J VL - 37 UR - https://doi.org/10.1163/22941932-20160130 DO - 10.1163/22941932-20160130 ID - De Micco2016 ER - TY - BOOK AU - Collins, B. AU - Parke, J. PY - 2008 DA - 2008// TI - Spatial and temporal aspects of tylosis formation in tanoak inoculated with Phytophthora ramorum ID - Collins2008 ER - TY - JOUR AU - Michell, R. H. PY - 2008 DA - 2008// TI - Inositol derivatives: evolution and functions JO - Nat Rev Mol Cell Biol VL - 9 UR - https://doi.org/10.1038/nrm2334 DO - 10.1038/nrm2334 ID - Michell2008 ER - TY - JOUR AU - Loewus, F. A. AU - PN Murthy, P. PY - 2000 DA - 2000// TI - Myo-Inositol metabolism in plants JO - Plant Sci VL - 150 UR - https://doi.org/10.1016/S0168-9452(99)00150-8 DO - 10.1016/S0168-9452(99)00150-8 ID - Loewus2000 ER - TY - JOUR AU - Xue, C. AU - Tada, Y. AU - Dong, X. AU - Heitman, J. PY - 2007 DA - 2007// TI - The human fungal pathogen Cryptococcus can complete its sexual cycle during a pathogenic association with plants JO - Cell Host Microbe VL - 1 UR - https://doi.org/10.1016/j.chom.2007.05.005 DO - 10.1016/j.chom.2007.05.005 ID - Xue2007 ER - TY - JOUR AU - Li, C. AU - Lev, S. AU - Saiardi, A. AU - Desmarini, D. AU - Sorrell, T. C. AU - Djordjevic, J. T. PY - 2016 DA - 2016// TI - Inositol polyphosphate kinases, fungal virulence and drug discovery JO - Journal of Fungi VL - 2 UR - https://doi.org/10.3390/jof2030024 DO - 10.3390/jof2030024 ID - Li2016 ER - TY - JOUR AU - Ambrosio, A. B. AU - do Nascimento, L. C. AU - Oliveira, B. V. AU - Teixeira, P. J. P. AU - Tiburcio, R. A. AU - Thomazella, D. P. T. AU - Meinhardt, L. W. PY - 2013 DA - 2013// TI - Global analyses of Ceratocystis cacaofunesta mitochondria: from genome to proteome JO - BMC Genomics VL - 14 UR - https://doi.org/10.1186/1471-2164-14-91 DO - 10.1186/1471-2164-14-91 ID - Ambrosio2013 ER - TY - JOUR AU - Boetzer, M. PY - 2011 DA - 2011// TI - Scaffolding pre-assembled contigs using SSPACE JO - Bioinformatics VL - 27 UR - https://doi.org/10.1093/bioinformatics/btq683 DO - 10.1093/bioinformatics/btq683 ID - Boetzer2011 ER - TY - JOUR AU - Dobin, A. PY - 2013 DA - 2013// TI - STAR: ultrafast universal RNA-seq aligner JO - Bioinformatics (Oxford, England) VL - 29 UR - https://doi.org/10.1093/bioinformatics/bts635 DO - 10.1093/bioinformatics/bts635 ID - Dobin2013 ER - TY - JOUR AU - Ter-Hovhannisyan, V. PY - 2008 DA - 2008// TI - Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training JO - Genome Res VL - 18 UR - https://doi.org/10.1101/gr.081612.108 DO - 10.1101/gr.081612.108 ID - Ter-Hovhannisyan2008 ER - TY - JOUR AU - Hoff, K. J. PY - 2016 DA - 2016// TI - BRAKER1: unsupervised RNA-Seq-based genome annotation with GeneMark-ET and AUGUSTUS: table 1 JO - Bioinformatics VL - 32 UR - https://doi.org/10.1093/bioinformatics/btv661 DO - 10.1093/bioinformatics/btv661 ID - Hoff2016 ER - TY - JOUR AU - Camacho, C. PY - 2009 DA - 2009// TI - BLAST+: architecture and applications JO - BMC Bioinformatics VL - 10 UR - https://doi.org/10.1186/1471-2105-10-421 DO - 10.1186/1471-2105-10-421 ID - Camacho2009 ER - TY - JOUR AU - Stanke, M. AU - Tzvetkova, A. AU - Morgenstern, B. PY - 2006 DA - 2006// TI - AUGUSTUS at EGASP: using EST, protein and genomic alignments for improved gene prediction in the human genome JO - Genome Biol VL - 7 UR - https://doi.org/10.1186/gb-2006-7-s1-s11 DO - 10.1186/gb-2006-7-s1-s11 ID - Stanke2006 ER - TY - JOUR AU - Haas, B. J. PY - 2008 DA - 2008// TI - Automated eukaryotic gene structure annotation using EVidenceModeler and the program to assemble spliced alignments JO - Genome Biol VL - 9 UR - https://doi.org/10.1186/gb-2008-9-1-r7 DO - 10.1186/gb-2008-9-1-r7 ID - Haas2008 ER - TY - JOUR AU - Kanehisa, M. AU - Goto, S. PY - 2000 DA - 2000// TI - KEGG: kyoto encyclopedia of genes and genomes JO - Nucleic Acids Res VL - 28 UR - https://doi.org/10.1093/nar/28.1.27 DO - 10.1093/nar/28.1.27 ID - Kanehisa2000 ER - TY - JOUR AU - Suzek, B. E. PY - 2007 DA - 2007// TI - UniRef: comprehensive and non-redundant UniProt reference clusters JO - Bioinformatics (Oxford, England) VL - 23 UR - https://doi.org/10.1093/bioinformatics/btm098 DO - 10.1093/bioinformatics/btm098 ID - Suzek2007 ER - TY - JOUR AU - Bateman, A. PY - 2002 DA - 2002// TI - The Pfam protein families database JO - Nucleic Acids Res VL - 30 UR - https://doi.org/10.1093/nar/30.1.276 DO - 10.1093/nar/30.1.276 ID - Bateman2002 ER - TY - JOUR AU - Conesa, A. PY - 2005 DA - 2005// TI - Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research JO - Bioinformatics VL - 21 UR - https://doi.org/10.1093/bioinformatics/bti610 DO - 10.1093/bioinformatics/bti610 ID - Conesa2005 ER - TY - JOUR AU - Yin, Y. PY - 2012 DA - 2012// TI - dbCAN: a web resource for automated carbohydrate-active enzyme annotation JO - Nucleic Acids Res VL - 40 UR - https://doi.org/10.1093/nar/gks479 DO - 10.1093/nar/gks479 ID - Yin2012 ER - TY - JOUR AU - Emanuelsson, O. PY - 2007 DA - 2007// TI - Locating proteins in the cell using TargetP, SignalP and related tools JO - Nat Protoc VL - 2 UR - https://doi.org/10.1038/nprot.2007.131 DO - 10.1038/nprot.2007.131 ID - Emanuelsson2007 ER - TY - JOUR AU - McGinnis, S. AU - Madden, T. L. PY - 2004 DA - 2004// TI - BLAST: at the core of a powerful and diverse set of sequence analysis tools JO - Nucleic Acids Res VL - 32 UR - https://doi.org/10.1093/nar/gkh435 DO - 10.1093/nar/gkh435 ID - McGinnis2004 ER - TY - JOUR AU - Neumann, M. J. AU - Dobinson, K. F. PY - 2003 DA - 2003// TI - Sequence tag analysis of gene expression during pathogenic growth and microsclerotia development in the vascular wilt pathogen Verticillium dahliae JO - Fungal Genet Biol VL - 38 UR - https://doi.org/10.1016/S1087-1845(02)00507-8 DO - 10.1016/S1087-1845(02)00507-8 ID - Neumann2003 ER - TY - JOUR AU - Hanna, S. L. AU - Sherman, N. E. AU - Kinter, M. T. AU - Goldberg, J. B. PY - 2000 DA - 2000// TI - Comparison of proteins expressed by Pseudomonas Aeruginosa strains representing initial and chronic isolates from a cystic fibrosis patient: an analysis by 2-D gel electrophoresis and capillary column liquid chromatography–tandem mass spectrometry JO - Microbiology VL - 146 UR - https://doi.org/10.1099/00221287-146-10-2495 DO - 10.1099/00221287-146-10-2495 ID - Hanna2000 ER - TY - JOUR AU - Paes Leme, A. F. PY - 2012 DA - 2012// TI - Hemorrhagic activity of HF3, a snake venom metalloproteinase: insights from the proteomic analysis of mouse skin and blood plasma JO - J Proteome Res VL - 11 UR - https://doi.org/10.1021/pr2006439 DO - 10.1021/pr2006439 ID - Paes Leme2012 ER - TY - JOUR AU - Escalante, T. PY - 2009 DA - 2009// TI - Wound exudates as a proteomic window to reveal different mechanisms of tissue damage by snake venom toxins JO - J Proteome Res VL - 8 UR - https://doi.org/10.1021/pr900489m DO - 10.1021/pr900489m ID - Escalante2009 ER - TY - JOUR AU - Eming, S. A. PY - 2010 DA - 2010// TI - Differential proteomic analysis distinguishes tissue repair biomarker signatures in wound exudates obtained from normal healing and chronic wounds JO - J Proteome Res VL - 9 UR - https://doi.org/10.1021/pr100456d DO - 10.1021/pr100456d ID - Eming2010 ER - TY - JOUR AU - Pierleoni, A. PY - 2008 DA - 2008// TI - Pier Luigi Martelli, and Rita Casadio. “PredGPI: a GPI-anchor predictor.” JO - BMC bioinformatics VL - 9 UR - https://doi.org/10.1186/1471-2105-9-392 DO - 10.1186/1471-2105-9-392 ID - Pierleoni2008 ER - TY - STD TI - Li, Li, Christian J. Stoeckert, and David S. Roos. “OrthoMCL: identification of ortholog groups for eukaryotic genomes.” Genome Res 13.9 (2003): 2178-2189. ID - ref121 ER - TY - JOUR AU - Katoh, K. PY - 2005 DA - 2005// TI - MAFFT version 5: improvement in accuracy of multiple sequence alignment JO - Nucleic Acids Res VL - 33 UR - https://doi.org/10.1093/nar/gki198 DO - 10.1093/nar/gki198 ID - Katoh2005 ER - TY - JOUR AU - Gotoh, O. PY - 1995 DA - 1995// TI - A weighting system and algorithm for aligning many phylogenetically related sequences JO - Computer applications in the biosciences : CABIOS VL - 11 ID - Gotoh1995 ER - TY - JOUR AU - Notredame, C. AU - Holm, L. AU - Higgins, D. G. PY - 1998 DA - 1998// TI - COFFEE: an objective function for multiple sequence alignments JO - Bioinformatics (Oxford, England) VL - 14 UR - https://doi.org/10.1093/bioinformatics/14.5.407 DO - 10.1093/bioinformatics/14.5.407 ID - Notredame1998 ER - TY - JOUR AU - Finn, R. D. AU - Clements, J. AU - Eddy, S. R. PY - 2011 DA - 2011// TI - HMMER web server: interactive sequence similarity searching JO - Nucleic Acids Res VL - 39 UR - https://doi.org/10.1093/nar/gkr367 DO - 10.1093/nar/gkr367 ID - Finn2011 ER - TY - JOUR AU - Librado, P. AU - Vieira, F. G. AU - Rozas, J. PY - 2012 DA - 2012// TI - BadiRate: estimating family turnover rates by likelihood-based methods JO - Bioinformatics VL - 28 UR - https://doi.org/10.1093/bioinformatics/btr623 DO - 10.1093/bioinformatics/btr623 ID - Librado2012 ER - TY - JOUR AU - Stamatakis, A. PY - 2014 DA - 2014// TI - RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies JO - Bioinformatics VL - 30 UR - https://doi.org/10.1093/bioinformatics/btu033 DO - 10.1093/bioinformatics/btu033 ID - Stamatakis2014 ER - TY - JOUR AU - Ronquist, F. PY - 2012 DA - 2012// TI - MrBayes 3.2: efficient Bayesian Phylogenetic inference and model choice across a large model space JO - Syst Biol VL - 61 UR - https://doi.org/10.1093/sysbio/sys029 DO - 10.1093/sysbio/sys029 ID - Ronquist2012 ER - TY - JOUR AU - Darriba, D. PY - 2012 DA - 2012// TI - jModelTest 2: more models, new heuristics and parallel computing JO - Nat Methods VL - 9 UR - https://doi.org/10.1038/nmeth.2109 DO - 10.1038/nmeth.2109 ID - Darriba2012 ER - TY - JOUR AU - Drummond, A. J. AU - Rambaut, A. PY - 2007 DA - 2007// TI - BEAST: Bayesian evolutionary analysis by sampling trees JO - BMC Evol Biol VL - 7 UR - https://doi.org/10.1186/1471-2148-7-214 DO - 10.1186/1471-2148-7-214 ID - Drummond2007 ER - TY - JOUR AU - Capella-Gutierrez, S. AU - Silla-Martinez, J. M. AU - Gabaldon, T. PY - 2009 DA - 2009// TI - trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses JO - Bioinformatics VL - 25 UR - https://doi.org/10.1093/bioinformatics/btp348 DO - 10.1093/bioinformatics/btp348 ID - Capella-Gutierrez2009 ER - TY - JOUR AU - Yang, Z. PY - 2007 DA - 2007// TI - PAML 4: phylogenetic analysis by maximum likelihood JO - Mol Biol Evol VL - 24 UR - https://doi.org/10.1093/molbev/msm088 DO - 10.1093/molbev/msm088 ID - Yang2007 ER - TY - BOOK AU - Quesneville, H. PY - 2016 DA - 2016// TI - BLASTER tool. Bioinformatics and genomics PB - Institut Jacques Monod CY - Paris, France ID - Quesneville2016 ER - TY - STD TI - Smit, A.F.A., Hubley R. and Green P. 2015. Unpublished data. Current Version: open-4.0.6 (RMLib: 20160829 & Dfam: 2.0). http://www.repeatmasker.org. UR - http://www.repeatmasker.org ID - ref134 ER - TY - JOUR AU - Kohany, O. AU - Gentles, A. J. AU - Hankus, L. AU - Jurka, J. PY - 2006 DA - 2006// TI - Annotation, submission and screening of repetitive elements in Repbase: RepbaseSubmitter and censor JO - BMC Bioinformatics VL - 7 UR - https://doi.org/10.1186/1471-2105-7-474 DO - 10.1186/1471-2105-7-474 ID - Kohany2006 ER - TY - JOUR AU - Larkin, M. A. PY - 2007 DA - 2007// TI - Clustal W and Clustal X version 2.0 JO - Bioinformatics VL - 23 UR - https://doi.org/10.1093/bioinformatics/btm404 DO - 10.1093/bioinformatics/btm404 ID - Larkin2007 ER - TY - JOUR AU - Hane, J. K. AU - Oliver, R. P. PY - 2008 DA - 2008// TI - RIPCAL: a tool for alignment-based analysis of repeat-induced point mutations in fungal genomic sequences JO - BMC Bioinformatics VL - 9 UR - https://doi.org/10.1186/1471-2105-9-478 DO - 10.1186/1471-2105-9-478 ID - Hane2008 ER - TY - JOUR AU - Marchler-Bauer, A. PY - 2009 DA - 2009// TI - CDD: specific functional annotation with the conserved domain database JO - Nucleic Acids Res VL - 37 UR - https://doi.org/10.1093/nar/gkn845 DO - 10.1093/nar/gkn845 ID - Marchler-Bauer2009 ER - TY - JOUR AU - Marchler-Bauer, A. PY - 2011 DA - 2011// TI - CDD: a conserved domain database for the functional annotation of proteins JO - Nucleic Acids Res VL - 39 UR - https://doi.org/10.1093/nar/gkq1189 DO - 10.1093/nar/gkq1189 ID - Marchler-Bauer2011 ER - TY - JOUR AU - Marchler-Bauer, A. AU - Bryant, S. H. PY - 2004 DA - 2004// TI - CD-search: protein domain annotations on the fly JO - Nucleic Acids Res VL - 32 UR - https://doi.org/10.1093/nar/gkh454 DO - 10.1093/nar/gkh454 ID - Marchler-Bauer2004 ER - TY - JOUR AU - Sali, A. AU - Blundell, T. L. PY - 1993 DA - 1993// TI - Comparative protein modelling by satisfaction of spatial restraints JO - J Mol Biol VL - 234 UR - https://doi.org/10.1006/jmbi.1993.1626 DO - 10.1006/jmbi.1993.1626 ID - Sali1993 ER - TY - JOUR AU - Martí-Renom, M. A. PY - 2000 DA - 2000// TI - Comparative protein structure modeling of genes and genomes JO - Annu Rev Biophys Biomol Struct VL - 29 UR - https://doi.org/10.1146/annurev.biophys.29.1.291 DO - 10.1146/annurev.biophys.29.1.291 ID - Martí-Renom2000 ER - TY - STD TI - Eswar, N. et al. Comparative protein structure modeling using MODELLER. Curr. Protoc. Protein Sci. Chapter 2, Unit 2.9 (2007). ID - ref143 ER - TY - STD TI - Lima, G. M. A., Maluf, F. V., Guido, R. V. C. “Vitamin - Modeller GUI.” Vitamin - Modeller GUI. N.p., 4 Apr. 2016. Web. 17 Aug. 2016. ID - ref144 ER - TY - JOUR AU - Fiser, A. AU - Do, R. K. AU - Sali, A. PY - 2000 DA - 2000// TI - Modeling of loops in protein structures JO - Protein Sci VL - 9 UR - https://doi.org/10.1110/ps.9.9.1753 DO - 10.1110/ps.9.9.1753 ID - Fiser2000 ER - TY - STD TI - Schrödinger, I. Glide. (2009). https://www.schrodinger.com/glide. UR - https://www.schrodinger.com/glide ID - ref146 ER - TY - JOUR AU - Goujon, M. PY - 2010 DA - 2010// TI - A new bioinformatics analysis tools framework at EMBL-EBI JO - Nucleic Acids Res VL - 38 UR - https://doi.org/10.1093/nar/gkq313 DO - 10.1093/nar/gkq313 ID - Goujon2010 ER - TY - JOUR AU - McWilliam, H. PY - 2013 DA - 2013// TI - Analysis tool web services from the EMBL-EBI JO - Nucleic Acids Res VL - 41 UR - https://doi.org/10.1093/nar/gkt376 DO - 10.1093/nar/gkt376 ID - McWilliam2013 ER - TY - JOUR AU - Edgar, R. C. M. U. S. C. L. E. PY - 2004 DA - 2004// TI - Multiple sequence alignment with high accuracy and high throughput JO - Nucleic Acids Res VL - 32 UR - https://doi.org/10.1093/nar/gkh340 DO - 10.1093/nar/gkh340 ID - Edgar2004 ER - TY - JOUR AU - Edgar, R. C. M. U. S. C. L. E. PY - 2004 DA - 2004// TI - A multiple sequence alignment method with reduced time and space complexity JO - BMC Bioinformatics VL - 5 UR - https://doi.org/10.1186/1471-2105-5-113 DO - 10.1186/1471-2105-5-113 ID - Edgar2004 ER - TY - JOUR AU - Waterhouse, A. M. AU - Procter, J. B. AU - Martin, D. M. A. AU - Clamp, M. AU - Barton, G. J. PY - 2009 DA - 2009// TI - Jalview version 2--a multiple sequence alignment editor and analysis workbench JO - Bioinformatics VL - 25 UR - https://doi.org/10.1093/bioinformatics/btp033 DO - 10.1093/bioinformatics/btp033 ID - Waterhouse2009 ER - TY - JOUR AU - Mandels, M. AU - Reese, E. T. PY - 1957 DA - 1957// TI - Induction of cellulase in Trichoderma viride as influenced by carbon sources and metals JO - J Bacteriol VL - 73 ID - Mandels1957 ER - TY - JOUR AU - Measurement, G. T. K. PY - 1987 DA - 1987// TI - Of cellulase activities JO - Pure Appl Chem VL - 59 ID - Measurement1987 ER - TY - JOUR AU - Zampieri, D. AU - Guerra, L. AU - Camassola, M. AU - Dillon, A. J. PY - 2013 DA - 2013// TI - Secretion of endoglucanases and β-glucosidases by Penicillium echinulatum 9A02S1 in presence of different carbon sources JO - Ind Crop Prod VL - 50 UR - https://doi.org/10.1016/j.indcrop.2013.08.045 DO - 10.1016/j.indcrop.2013.08.045 ID - Zampieri2013 ER -