Brasier CM: Recent genetic changes in the Ophiostoma ulmi population: the threat to the future of the elm. Populations of plant pathogens: Their dynamics and Genetics. Edited by: Wolfe MS, Caten CE. 1987, Oxford: Blackwell Publ, 213-226.
Google Scholar
Brasier CM: Ophiostoma novo-ulmi sp. nov., causative agent of current Dutch elm disease pandemics. Mycopathologia. 1991, 115: 151-161. 10.1007/BF00462219.
Google Scholar
Lieutier F, Day KR, Battisti A, Grégoire JC, Evans HF: Bark and Wood Boring Insects in Living Trees in Europe, A Synthesis. 2007, : Springer, 2nd printing, 1
Google Scholar
Gagné P, Yang DQ, Hamelin RC, Bernier L: Genetic variability of Canadian populations of the sapstain fungus ophiostoma piceae. Phytopathology. 2001, 91: 369-376. 10.1094/PHYTO.2001.91.4.369.
PubMed
Google Scholar
Massoumi Alamouti S, Kim J-J, Humble LM, Uzunovic A, Breuil C: Ophiostomatoid fungi associated with the northern spruce engraver, Ips perturbatus, in western Canada. Antonie Van Leeuwenhoek. 2007, 91: 19-34.
CAS
PubMed
Google Scholar
Temple B, Pines PA, Hintz WE: A nine-year genetic survey of the causal agent of Dutch elm disease, Ophiostoma novo-ulmi in Winnipeg, Canada. Mycol Res. 2006, 110: 594-600. 10.1016/j.mycres.2006.01.005.
CAS
PubMed
Google Scholar
Martín JA, Solla A, Coimbra MA, Gil L: Metabolic distinction of Ulmus minor xylem tissues after inoculation with Ophiostoma novo-ulmi. Phytochemistry. 2005, 66: 2458-2467. 10.1016/j.phytochem.2005.08.004.
PubMed
Google Scholar
Bleiker KP, Six DL: Effects of water potential and solute on the growth and interactions of two fungal symbionts of the mountain pine beetle. Mycol Res. 2009, 113: 3-15. 10.1016/j.mycres.2008.06.004.
CAS
PubMed
Google Scholar
Hubbes M: The American elm and Dutch elm disease. Forestry Chronicle. 1999, 75: 265-273.
Google Scholar
Burges HD, Grove JF, Pople M: The internal microbial flora of the elm bark beetle, Scolytus scolytus, at all stages of its development. J Invertebr Pathol. 1979, 34: 21-25. 10.1016/0022-2011(79)90049-1.
Google Scholar
Brasier CM, Kirk SA: Designation of the EAN and NAN races of Ophiostoma novo-ulmi as subspecies. Mycol Res. 2001, 105: 547-554. 10.1017/S0953756201004087.
Google Scholar
Jeng R, Hintz WE, Bowden CG, Horgen PA, Hubbes M: A comparison of the nucleotide sequence of the cerato-ulmin gene and the rDNA ITS between aggressive and non-aggressive isolates of Ophiostoma ulmi sensu lato, the causal agent of Dutch elm disease. Curr Genet. 1996, 29: 168-173. 10.1007/BF02221581.
CAS
PubMed
Google Scholar
Abraham LD, Breuil C: Isolation and characterization of a subtilisin-like serine proteinase secreted by the sap-staining fungus Ophiostoma piceae. Enzyme Microb Technol. 1996, 18: 133-140. 10.1016/0141-0229(95)00098-4.
CAS
PubMed
Google Scholar
Del Sorbo G, Scala F, Parrella G, Lorito M, Comparini C, Ruocco M, Scala A: Functional expression of the gene cu, encoding the phytotoxic hydrophobin cerato-ulmin, enables Ophiostoma quercus, a nonpathogen on elm, to cause symptoms of Dutch elm disease. Mol Plant Microbe Interact. 2000, 13: 43-53. 10.1094/MPMI.2000.13.1.43.
CAS
PubMed
Google Scholar
Pazzagli L, Cappugi G, Manao G, Camici G, Santini A, Scala A: Purification, characterization, and amino acid sequence of cerato-platanin, a new phytotoxic protein from Ceratocystis fimbriata f. sp. platani. J Biol Chem. 1999, 274: 24959-24964. 10.1074/jbc.274.35.24959.
CAS
PubMed
Google Scholar
Hong Y, Cole TE, Brasier CM, Buck KW: Evolutionary relationships among putative RNA-dependent RNA polymerases encoded by a mitochondrial virus-like RNA in the Dutch elm disease fungus, Ophiostoma novo-ulmi, by other viruses and virus-like RNAs and by the Arabidopsis mitochondrial genome. Virology. 1998, 246: 158-169. 10.1006/viro.1998.9178.
CAS
PubMed
Google Scholar
Tadesse Y, Bernier L, Hintz WE, Horgen PA: Real time RT-PCR quantification and Northern analysis of cerato-ulmin (CU) gene transcription in different strains of the phytopathogens Ophiostoma ulmi and O. novo-ulmi. Mol Genet Genomics. 2003, 269: 789-796. 10.1007/s00438-003-0890-7.
CAS
PubMed
Google Scholar
Pipe ND, Brasier CM, Buck KW: Two natural cerato-ulmin (CU)-deficient mutants of Ophiostoma novo-ulmi: one has an introgressed O. ulmi cu gene, the other has an O. novo-ulmi cu gene with a mutation in an intron splice consensus sequence. Mol Plant Pathol. 2000, 1: 379-382. 10.1046/j.1364-3703.2000.00042.x.
CAS
PubMed
Google Scholar
Paoletti M, Buck KW, Brasier CM: Cloning and sequence analysis of the MAT-B (MAT-2) genes from the three Dutch elm disease pathogens, Ophiostoma ulmi, O. novo-ulmi, and O. himal-ulmi. Mycol Res. 2005, 109: 983-991. 10.1017/S0953756205003308.
CAS
PubMed
Google Scholar
Paoletti M, Buck KW, Brasier CM: Selective acquisition of novel mating type and vegetative incompatibility genes via interspecies gene transfer in the globally invading eukaryote Ophiostoma novo-ulmi. Mol Ecol. 2006, 15: 249-262.
CAS
PubMed
Google Scholar
Huang CB, Jeng R, Sain M, Saville B, Hubbes M: Production, characterization, and mechanical properties of starch modified by ophiostoma SPP. BioResources. 2007, 1: 257-269.
Google Scholar
Suzuki H, MacDonald J, Syed K, Salamov A, Hori C, Aerts A, Henrissat B, Wiebenga A, VanKuyk PA, Barry K, Lindquist E, LaButti K, Lapidus A, Lucas S, Coutinho P, Gong Y, Samejima M, Mahadevan R, Abou-Zaid M, de Vries RP, Igarashi K, Yadav JS, Grigoriev IV, Master ER: Comparative genomics of the white-rot fungi, Phanerochaete carnosa and P. chrysosporium, to elucidate the genetic basis of the distinct wood types they colonize. BMC Genomics. 2012, 13: 444-10.1186/1471-2164-13-444.
PubMed Central
CAS
PubMed
Google Scholar
Hintz W, Pinchback M, Bastide P, Burgess S, Jacobi V, Hamelin R, Breuil C, Bernier L: Functional categorization of unique expressed sequence tags obtained from the yeast-like growth phase of the elm pathogen Ophiostoma novo-ulmi. BMC Genomics. 2011, 12: 431-10.1186/1471-2164-12-431.
PubMed Central
CAS
PubMed
Google Scholar
Hesse-Orce U, DiGuistini S, Keeling CI, Wang Y, Li M, Henderson H, Docking TR, Liao NY, Robertson G, Holt RA, Jones SJM, Bohlmann J, Breuil C: Gene discovery for the bark beetle-vectored fungal tree pathogen Grosmannia clavigera. BMC Genomics. 2010, 11: 536-10.1186/1471-2164-11-536.
PubMed Central
PubMed
Google Scholar
DiGuistini S, Wang Y, Liao NY, Taylor G, Tanguay P, Feau N, Henrissat B, Chan SK, Hesse-Orce U, Alamouti SM, Tsui CKM, Docking RT, Levasseur A, Haridas S, Robertson G, Birol I, Holt RA, Marra MA, Hamelin RC, Hirst M, Jones SJM, Bohlmann J, Breuil C: Genome and transcriptome analyses of the mountain pine beetle-fungal symbiont Grosmannia clavigera, a lodgepole pine pathogen. PNAS. 2011, 108 (9): 2504-2509.
PubMed Central
CAS
PubMed
Google Scholar
Galagan JE, Calvo SE, Borkovich KA, Selker EU, Read ND, Jaffe D, FitzHugh W, Ma L-J, Smirnov S, Purcell S, Rehman B, Elkins T, Engels R, Wang S, Nielsen CB, Butler J, Endrizzi M, Qui D, Ianakiev P, Bell-Pedersen D, Nelson MA, Werner-Washburne M, Selitrennikoff CP, Kinsey JA, Braun EL, Zelter A, Schulte U, Kothe GO, Jedd G, Mewes W: The genome sequence of the filamentous fungus Neurospora crassa. Nature. 2003, 422: 859-868. 10.1038/nature01554.
CAS
PubMed
Google Scholar
Goffeau A, Barrell BG, Bussey H, Davis RW, Dujon B, Feldmann H, Galibert F, Hoheisel JD, Jacq C, Johnston M, Louis EJ, Mewes HW, Murakami Y, Philippsen P, Tettelin H, Oliver SG: Life with 6000 genes. Science. 1996, 274: 563-567. 546
Google Scholar
Ter-Hovhannisyan V, Lomsadze A, Chernoff YO, Borodovsky M: Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training. Genome Res. 2008, 18: 1979-1990. 10.1101/gr.081612.108.
PubMed Central
CAS
PubMed
Google Scholar
Slater GSC, Birney E: Automated generation of heuristics for biological sequence comparison. BMC Bioinformatics. 2005, 6: 31-10.1186/1471-2105-6-31.
PubMed Central
PubMed
Google Scholar
Östlund G, Schmitt T, Forslund K, Köstler T, Messina DN, Roopra S, Frings O, Sonnhammer ELL: InParanoid 7: new algorithms and tools for eukaryotic orthology analysis. Nucleic Acids Res. 2010, 38: D196-D203. 10.1093/nar/gkp931.
PubMed Central
PubMed
Google Scholar
Yang Z: PAML 4: phylogenetic analysis by maximum likelihood. Mol Biol Evol. 2007, 24: 1586-1591. 10.1093/molbev/msm088.
CAS
PubMed
Google Scholar
Zipfel RD, de Beer ZW, Jacobs K, Wingfield BD, Wingfield MJ: Multi-gene phylogenies define Ceratocystiopsis and Grosmannia distinct from Ophiostoma. Stud Mycol. 2006, 55: 75-97. 10.3114/sim.55.1.75.
PubMed Central
PubMed
Google Scholar
Langmead B, Trapnell C, Pop M, Salzberg SL: Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009, 10: R25-10.1186/gb-2009-10-3-r25.
PubMed Central
PubMed
Google Scholar
Altenhoff AM, Dessimoz C: Phylogenetic and functional assessment of orthologs inference projects and methods. PLoS Comput Biol. 2009, 5: e1000262-10.1371/journal.pcbi.1000262.
PubMed Central
PubMed
Google Scholar
Idnurm A, Howlett BJ: Pathogenicity genes of phytopathogenic fungi. Mol Plant Pathol. 2001, 2: 241-255. 10.1046/j.1464-6722.2001.00070.x.
CAS
PubMed
Google Scholar
Winnenburg R, Baldwin TK, Urban M, Rawlings C, Köhler J, Hammond-Kosack KE: PHI-base: a new database for pathogen host interactions. Nucleic Acids Res. 2006, 34: D459-D464. 10.1093/nar/gkj047.
PubMed Central
CAS
PubMed
Google Scholar
Bowden CG, Hintz WE, Jeng R, Hubbes M, Horgen PA: Isolation and characterization of the cerato-ulmin toxin gene of the Dutch elm disease pathogen, Ophiostoma ulmi. Curr Genet. 1994, 25: 323-329. 10.1007/BF00351485.
CAS
PubMed
Google Scholar
Konrad H, Kirisits T, Riegler M, Halmschlager E, Stauffer C: Genetic evidence for natural hybridization between the Dutch elm disease pathogens Ophiostoma novo-ulmi ssp. novo-ulmi and O. novo-ulmi ssp. americana. Plant Pathology. 2002, 51: 78-84. 10.1046/j.0032-0862.2001.00653.x.
Google Scholar
Dvorak M, Tomsovsky M, Jankovsky L, Novotny D: Contribution to identify the causal agents of Dutch elm disease in the Czech Republic. Plant Protection Science - UZPI. 2007, 43 (4): 142-145.
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
Punta M, Coggill PC, Eberhardt RY, Mistry J, Tate J, Boursnell C, Pang N, Forslund K, Ceric G, Clements J, Heger A, Holm L, Sonnhammer ELL, Eddy SR, Bateman A, Finn RD: The Pfam protein families database. Nucleic Acids Res. 2011, 40: D290-D301.
PubMed Central
PubMed
Google Scholar
DiGuistini S, Ralph SG, Lim YW, Holt R, Jones S, Bohlmann J, Breuil C: Generation and annotation of lodgepole pine and oleoresin-induced expressed sequences from the blue-stain fungus Ophiostoma clavigerum, a Mountain Pine Beetle-associated pathogen. FEMS Microbiol Lett. 2007, 267: 151-158. 10.1111/j.1574-6968.2006.00565.x.
CAS
PubMed
Google Scholar
Noverr MC, Williamson PR, Fajardo RS, Huffnagle GB: CNLAC1 Is Required for Extrapulmonary Dissemination of Cryptococcus neoformans but Not Pulmonary Persistence. Infect Immun. 2004, 72: 1693-1699. 10.1128/IAI.72.3.1693-1699.2004.
PubMed Central
CAS
PubMed
Google Scholar
Chen H-Q, Lee M-H, Chung K-R: Functional characterization of three genes encoding putative oxidoreductases required for cercosporin toxin biosynthesis in the fungus Cercospora nicotianae. Microbiology (Reading, Engl.). 2007, 153: 2781-2790. 10.1099/mic.0.2007/007294-0.
CAS
Google Scholar
Herrgård MJ, Swainston N, Dobson P, Dunn WB, Arga KY, Arvas M, Blüthgen N, Borger S, Costenoble R, Heinemann M, Hucka M, Le Novère N, Li P, Liebermeister W, Mo ML, Oliveira AP, Petranovic D, Pettifer S, Simeonidis E, Smallbone K, Spasić I, Weichart D, Brent R, Broomhead DS, Westerhoff HV, Kirdar B, Penttilä M, Klipp E, Palsson BØ, Sauer U: A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology. Nat Biotechnol. 2008, 26: 1155-1160. 10.1038/nbt1492.
PubMed Central
PubMed
Google Scholar
Juge N: Plant protein inhibitors of cell wall degrading enzymes. Trends Plant Sci. 2006, 11: 359-367. 10.1016/j.tplants.2006.05.006.
CAS
PubMed
Google Scholar
ten Have A, Mulder W, Visser J, van Kan JA: The endopolygalacturonase gene Bcpg1 is required for full virulence of Botrytis cinerea. Mol Plant Microbe Interact. 1998, 11: 1009-1016. 10.1094/MPMI.1998.11.10.1009.
CAS
PubMed
Google Scholar
Isshiki A, Akimitsu K, Yamamoto M, Yamamoto H: Endopolygalacturonase is essential for citrus black rot caused by Alternaria citri but not brown spot caused by Alternaria alternata. Mol Plant Microbe Interact. 2001, 14: 749-757. 10.1094/MPMI.2001.14.6.749.
CAS
PubMed
Google Scholar
Temple B, Bernier L, Hintz WE: Characterisation of the polygalacturonase gene of the Dutch elm disease pathogen Ophiostoma novo-ulmi. New Zealand Journal of Forestry Science. 2009, 39: 29-37.
CAS
Google Scholar
De Lorenzo G, Ferrari S: Polygalacturonase-inhibiting proteins in defense against phytopathogenic fungi. Curr Opin Plant Biol. 2002, 5: 295-299. 10.1016/S1369-5266(02)00271-6.
CAS
PubMed
Google Scholar
Oliveira H, Sousa A, Alves A, Nogueira AJA, Santos C: Inoculation with Ophiostoma novo-ulmi subsp. americana affects photosynthesis, nutrition and oxidative stress in in vitro Ulmus minor plants. Environmental and Experimental Botany. 2012, 77: 146-155.
CAS
Google Scholar
Zerbino DR, Birney E: Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res. 2008, 18: 821-829. 10.1101/gr.074492.107.
PubMed Central
CAS
PubMed
Google Scholar
Katoh K, Misawa K, Kuma K, Miyata T: MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucl Acids Res. 2002, 30: 3059-3066. 10.1093/nar/gkf436.
PubMed Central
CAS
PubMed
Google Scholar
Hung SS, Wasmuth J, Sanford C, Parkinson J: DETECT–a density estimation tool for enzyme classification and its application to Plasmodium falciparum. Bioinformatics. 2010, 26: 1690-1698. 10.1093/bioinformatics/btq266.
CAS
PubMed
Google Scholar
Claudel-Renard C, Chevalet C, Faraut T, Kahn D: Enzyme-specific profiles for genome annotation: PRIAM. Nucleic Acids Res. 2003, 31: 6633-6639. 10.1093/nar/gkg847.
PubMed Central
CAS
PubMed
Google Scholar
Li L, Stoeckert CJ, Roos DS: OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res. 2003, 13: 2178-2189. 10.1101/gr.1224503.
PubMed Central
CAS
PubMed
Google Scholar
Barthelmes J, Ebeling C, Chang A, Schomburg I, Schomburg D: BRENDA, AMENDA and FRENDA: the enzyme information system in 2007. Nucleic Acids Res. 2007, 35 (Database issue): D511-514.
PubMed Central
CAS
PubMed
Google Scholar