Joseph W. Spatafora - Publications

Affiliations: 
Oregon State University, Corvallis, OR 
Area:
Systematic Biology, Molecular Biology, Evolution and Development Biology, Microbiology Biology

130 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Hagestad OC, Hou L, Andersen JH, Hansen EH, Altermark B, Li C, Kuhnert E, Cox RJ, Crous PW, Spatafora JW, Lail K, Amirebrahimi M, Lipzen A, Pangilinan J, Andreopoulos W, et al. Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation. Ima Fungus. 12: 21. PMID 34372938 DOI: 10.1186/s43008-021-00072-0  1
2021 Li Y, Steenwyk JL, Chang Y, Wang Y, James TY, Stajich JE, Spatafora JW, Groenewald M, Dunn CW, Hittinger CT, Shen XX, Rokas A. A genome-scale phylogeny of the kingdom Fungi. Current Biology : Cb. PMID 33607033 DOI: 10.1016/j.cub.2021.01.074  1
2021 Chang Y, Rochon D, Sekimoto S, Wang Y, Chovatia M, Sandor L, Salamov A, Grigoriev IV, Stajich JE, Spatafora JW. Genome-scale phylogenetic analyses confirm Olpidium as the closest living zoosporic fungus to the non-flagellated, terrestrial fungi. Scientific Reports. 11: 3217. PMID 33547391 DOI: 10.1038/s41598-021-82607-4  1
2020 Miyauchi S, Kiss E, Kuo A, Drula E, Kohler A, Sánchez-García M, Morin E, Andreopoulos B, Barry KW, Bonito G, Buée M, Carver A, Chen C, Cichocki N, Clum A, ... ... Spatafora JW, et al. Large-scale genome sequencing of mycorrhizal fungi provides insights into the early evolution of symbiotic traits. Nature Communications. 11: 5125. PMID 33046698 DOI: 10.1038/s41467-020-18795-w  1
2020 Tabima JF, Trautman IA, Chang Y, Wang Y, Mondo S, Kuo A, Salamov A, Grigoriev IV, Stajich JE, Spatafora JW. Phylogenomic Analyses of Non-Dikarya Fungi Supports Horizontal Gene Transfer Driving Diversification of Secondary Metabolism in the Amphibian Gastrointestinal Symbiont, . G3 (Bethesda, Md.). PMID 32727924 DOI: 10.1534/G3.120.401516  1
2020 Gluck-Thaler E, Haridas S, Binder M, Grigoriev IV, Crous PW, Spatafora JW, Bushley K, Slot JC. The architecture of metabolism maximizes biosynthetic diversity in the largest class of fungi. Molecular Biology and Evolution. PMID 32421770 DOI: 10.1093/molbev/msaa122  1
2020 Haridas S, Albert R, Binder M, Bloem J, LaButti K, Salamov A, Andreopoulos B, Baker SE, Barry K, Bills G, Bluhm BH, Cannon C, Castanera R, Culley DE, Daum C, ... ... Spatafora JW, et al. 101 genomes: A test case for predicting lifestyles and emergence of pathogens. Studies in Mycology. 96: 141-153. PMID 32206138 DOI: 10.1016/J.Simyco.2020.01.003  1
2019 Uehling JK, Entler MR, Meredith HR, Millet LJ, Timm CM, Aufrecht JA, Bonito GM, Engle NL, Labbé JL, Doktycz MJ, Retterer ST, Spatafora JW, Stajich JE, Tschaplinski TJ, Vilgalys RJ. Microfluidics and Metabolomics Reveal Symbiotic Bacterial-Fungal Interactions Between and Include Metabolite Exchange. Frontiers in Microbiology. 10: 2163. PMID 31632357 DOI: 10.3389/Fmicb.2019.02163  1
2019 Guarnaccia V, Gehrmann T, Silva-Junior GJ, Fourie PH, Haridas S, Vu D, Spatafora J, Martin FM, Robert V, Grigoriev IV, Groenewald JZ, Crous PW. Phyllosticta citricarpa and sister species of global importance to Citrus. Molecular Plant Pathology. PMID 31512371 DOI: 10.1111/Mpp.12861  1
2019 Park H, Min B, Jang Y, Kim J, Lipzen A, Sharma A, Andreopoulos B, Johnson J, Riley R, Spatafora JW, Henrissat B, Kim KH, Grigoriev IV, Kim JJ, Choi IG. Comprehensive genomic and transcriptomic analysis of polycyclic aromatic hydrocarbon degradation by a mycoremediation fungus, Dentipellis sp. KUC8613. Applied Microbiology and Biotechnology. PMID 31482283 DOI: 10.1007/S00253-019-10089-6  1
2019 Mujic AB, Zheng N, Kim K, Spatafora JW, Castellano MA, Smith ME. The Cedrus-associated truffle Trappeindia himalayensis is a morphologically unique and phylogenetically divergent species of Rhizopogon. Mycologia. 1-10. PMID 30753119 DOI: 10.1080/00275514.2018.1542864  1
2019 Olarte RA, Menke J, Zhang Y, Sullivan S, Slot JC, Huang Y, Badalamenti JP, Quandt AC, Spatafora JW, Bushley KE. Chromosome rearrangements shape the diversification of secondary metabolism in the cyclosporin producing fungus Tolypocladium inflatum. Bmc Genomics. 20: 120. PMID 30732559 DOI: 10.1186/S12864-018-5399-X  1
2019 Davis WJ, Amses KR, Benny GL, Carter-House D, Chang Y, Grigoriev I, Smith ME, Spatafora JW, Stajich JE, James TY. Genome-scale phylogenetics reveals a monophyletic Zoopagales (Zoopagomycota, Fungi). Molecular Phylogenetics and Evolution. PMID 30639767 DOI: 10.1016/J.Ympev.2019.01.006  1
2018 Hibbett DS, Blackwell M, James TY, Spatafora JW, Taylor JW, Vilgalys R. Phylogenetic taxon definitions for and . Ima Fungus. 9: 291-298. PMID 30622884 DOI: 10.5598/imafungus.2018.09.02.05  1
2018 Chang Y, Desirò A, Na H, Sandor L, Lipzen A, Clum A, Barry K, Grigoriev IV, Martin FM, Stajich JE, Smith ME, Bonito G, Spatafora JW. Phylogenomics of Endogonaceae and evolution of mycorrhizas within Mucoromycota. The New Phytologist. PMID 30485448 DOI: 10.1111/Nph.15613  1
2018 Murat C, Payen T, Noel B, Kuo A, Morin E, Chen J, Kohler A, Krizsán K, Balestrini R, Da Silva C, Montanini B, Hainaut M, Levati E, Barry KW, Belfiori B, ... ... Spatafora JW, et al. Pezizomycetes genomes reveal the molecular basis of ectomycorrhizal truffle lifestyle. Nature Ecology & Evolution. PMID 30420746 DOI: 10.1038/S41559-018-0710-4  1
2018 Yang X, Feng P, Yin Y, Bushley K, Spatafora JW, Wang C. Cyclosporine Biosynthesis in Benefits Fungal Adaptation to the Environment. Mbio. 9. PMID 30279281 DOI: 10.1128/Mbio.01211-18  0.01
2018 Mongkolsamrit S, Noisripoom W, Thanakitpipattana D, Wutikhun T, Spatafora JW, Luangsa-Ard J. Disentangling cryptic species with isaria-like morphs in Cordycipitaceae. Mycologia. 110: 230-257. PMID 29863995 DOI: 10.1080/00275514.2018.1446651  1
2018 Spatafora J, Aime MC, Zhang N, Seifert KA. A Festschrift in Honor of Meredith Blackwell. Mycologia. 110: 1-3. PMID 29863991 DOI: 10.1080/00275514.2018.1466586  1
2018 Quandt CA, Patterson W, Spatafora JW. Harnessing the power of phylogenomics to disentangle the directionality and signatures of interkingdom host jumping in the parasitic fungal genus Tolypocladium. Mycologia. 110: 104-117. PMID 29863984 DOI: 10.1080/00275514.2018.1442618  1
2018 Kijpornyongpan T, Mondo SJ, Barry K, Sandor L, Lee J, Lipzen A, Pangilinan J, LaButti K, Hainaut M, Henrissat B, Grigoriev IV, Spatafora JW, Aime MC. Broad genomic sampling reveals a smut pathogenic ancestry of the fungal clade Ustilaginomycotina. Molecular Biology and Evolution. PMID 29771364 DOI: 10.1093/Molbev/Msy072  1
2018 Knapp DG, Németh JB, Barry K, Hainaut M, Henrissat B, Johnson J, Kuo A, Lim JHP, Lipzen A, Nolan M, Ohm RA, Tamás L, Grigoriev IV, Spatafora JW, Nagy LG, et al. Comparative genomics provides insights into the lifestyle and reveals functional heterogeneity of dark septate endophytic fungi. Scientific Reports. 8: 6321. PMID 29679020 DOI: 10.1038/S41598-018-24686-4  1
2018 Lopez D, Ribeiro S, Label P, Fumanal B, Venisse JS, Kohler A, de Oliveira RR, Labutti K, Lipzen A, Lail K, Bauer D, Ohm RA, Barry KW, Spatafora J, Grigoriev IV, et al. Genome-Wide Analysis ofLeaf Fall Disease Putative Effectors. Frontiers in Microbiology. 9: 276. PMID 29551995 DOI: 10.3389/Fmicb.2018.00276  1
2018 Martino E, Morin E, Grelet GA, Kuo A, Kohler A, Daghino S, Barry KW, Cichocki N, Clum A, Dockter RB, Hainaut M, Kuo RC, LaButti K, Lindahl BD, Lindquist EA, ... ... Spatafora JW, et al. Comparative genomics and transcriptomics depict ericoid mycorrhizal fungi as versatile saprotrophs and plant mutualists. The New Phytologist. PMID 29315638 DOI: 10.1111/Nph.14974  1
2017 Kepler RM, Luangsa-Ard JJ, Hywel-Jones NL, Quandt CA, Sung GH, Rehner SA, Aime MC, Henkel TW, Sanjuan T, Zare R, Chen M, Li Z, Rossman AY, Spatafora JW, Shrestha B. A phylogenetically-based nomenclature for Cordycipitaceae (Hypocreales). Ima Fungus. 8: 335-353. PMID 29242779 DOI: 10.5598/imafungus.2017.08.02.08  1
2017 Spatafora JW, Aime MC, Grigoriev IV, Martin F, Stajich JE, Blackwell M. The Fungal Tree of Life: from Molecular Systematics to Genome-Scale Phylogenies. Microbiology Spectrum. 5. PMID 28917057 DOI: 10.1128/Microbiolspec.Funk-0053-2016  1
2017 Mantooth K, Hadziabdic D, Boggess S, Windham M, Miller S, Cai G, Spatafora J, Zhang N, Staton M, Ownley B, Trigiano R. Confirmation of independent introductions of an exotic plant pathogen of Cornus species, Discula destructiva, on the east and west coasts of North America. Plos One. 12: e0180345. PMID 28746379 DOI: 10.1371/Journal.Pone.0180345  0.01
2017 Mondo SJ, Dannebaum RO, Kuo RC, Louie KB, Bewick AJ, LaButti K, Haridas S, Kuo A, Salamov A, Ahrendt SR, Lau R, Bowen BP, Lipzen A, Sullivan W, Andreopoulos BB, ... ... Spatafora JW, et al. Widespread adenine N6-methylation of active genes in fungi. Nature Genetics. PMID 28481340 DOI: 10.1038/Ng.3859  1
2017 Mujic AB, Kuo A, Tritt A, Lipzen A, Chen C, Johnson J, Sharma A, Barry K, Grigoriev IV, Spatafora JW. Comparative Genomics of the Ectomycorrhizal Sister Species Rhizopogon vinicolor and Rhizopogon vesiculosus (Basidiomycota: Boletales) Reveals a Divergence of the Mating Type B Locus. G3 (Bethesda, Md.). PMID 28450370 DOI: 10.1534/G3.117.039396  1
2016 Spatafora JW, Chang Y, Benny GL, Lazarus K, Smith ME, Berbee ML, Bonito G, Corradi N, Grigoriev I, Gryganskyi A, James TY, O'Donnell K, Roberson RW, Taylor TN, Uehling J, et al. A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data. Mycologia. 108: 1028-1046. PMID 27738200 DOI: 10.3852/16-042  1
2016 Marsberg A, Kemler M, Jami F, Nagel JH, Postma-Smidt A, Naidoo S, Wingfield MJ, Crous PW, Spatafora J, Hesse CN, Robbertse B, Slippers B. Botryosphaeria dothidea: A latent pathogen of global importance to woody plant health. Molecular Plant Pathology. PMID 27682468 DOI: 10.1111/Mpp.12495  1
2016 Miettinen O, Riley R, Barry K, Cullen D, de Vries RP, Hainaut M, Hatakka A, Henrissat B, Hildén K, Kuo R, LaButti K, Lipzen A, Mäkelä MR, Sandor L, Spatafora JW, et al. Draft Genome Sequence of the White-Rot Fungus Obba rivulosa 3A-2. Genome Announcements. 4. PMID 27634999 DOI: 10.1128/Genomea.00976-16  1
2016 Peter M, Kohler A, Ohm RA, Kuo A, Krützmann J, Morin E, Arend M, Barry KW, Binder M, Choi C, Clum A, Copeland A, Grisel N, Haridas S, Kipfer T, ... ... Spatafora JW, et al. Ectomycorrhizal ecology is imprinted in the genome of the dominant symbiotic fungus Cenococcum geophilum. Nature Communications. 7: 12662. PMID 27601008 DOI: 10.1038/Ncomms12662  1
2016 Walker AK, Frasz SL, Seifert KA, Miller JD, Mondo SJ, LaButti K, Lipzen A, Dockter RB, Kennedy MC, Grigoriev IV, Spatafora JW. Erratum for Walker et al., Full Genome of Phialocephala scopiformis DAOMC 229536, a Fungal Endophyte of Spruce Producing the Potent Anti-Insectan Compound Rugulosin. Genome Announcements. 4. PMID 27231381 DOI: 10.1128/Genomea.00510-16  1
2016 David AS, Haridas S, LaButti K, Lim J, Lipzen A, Wang M, Barry K, Grigoriev IV, Spatafora JW, May G. Draft Genome Sequence of Microdochium bolleyi, a Dark Septate Fungal Endophyte of Beach Grass. Genome Announcements. 4. PMID 27125481 DOI: 10.1128/Genomea.00270-16  1
2016 Walker AK, Frasz SL, Seifert KA, Miller JD, Mondo SJ, LaButti K, Lipzen A, Dockter RB, Kennedy MC, Grigoriev IV, Spatafora JW. Full Genome of Phialocephala scopiformis DAOMC 229536, a Fungal Endophyte of Spruce Producing the Potent Anti-Insectan Compound Rugulosin. Genome Announcements. 4. PMID 26950333 DOI: 10.1128/Genomea.01768-15  1
2016 Quandt CA, Di Y, Elser J, Jaiswal P, Spatafora JW. Differential Expression of Genes Involved in Host Recognition, Attachment, and Degradation in the Mycoparasite Tolypocladium ophioglossoides. G3 (Bethesda, Md.). 6: 731-41. PMID 26801645 DOI: 10.1534/G3.116.027045  1
2016 Gazis R, Kuo A, Riley R, LaButti K, Lipzen A, Lin J, Amirebrahimi M, Hesse CN, Spatafora JW, Henrissat B, Hainaut M, Grigoriev IV, Hibbett DS. The genome of Xylona heveae provides a window into fungal endophytism. Fungal Biology. 120: 26-42. PMID 26693682 DOI: 10.1016/J.Funbio.2015.10.002  1
2015 Spatafora JW, Quandt CA, Kepler RM, Sung GH, Shrestha B, Hywel-Jones NL, Luangsa-Ard JJ. New 1F1N Species Combinations in Ophiocordycipitaceae (Hypocreales). Ima Fungus. 6: 357-62. PMID 26734546 DOI: 10.5598/imafungus.2015.06.02.07  1
2015 Sanjuan TI, Franco-Molano AE, Kepler RM, Spatafora JW, Tabima J, Vasco-Palacios AM, Restrepo S. Five new species of entomopathogenic fungi from the Amazon and evolution of neotropical Ophiocordyceps. Fungal Biology. 119: 901-16. PMID 26399185 DOI: 10.1016/J.Funbio.2015.06.010  1
2015 Mujic AB, Durall DM, Spatafora JW, Kennedy PG. Competitive avoidance not edaphic specialization drives vertical niche partitioning among sister species of ectomycorrhizal fungi. The New Phytologist. PMID 26391726 DOI: 10.1111/Nph.13677  1
2015 Quandt CA, Bushley KE, Spatafora JW. The genome of the truffle-parasite Tolypocladium ophioglossoides and the evolution of antifungal peptaibiotics. Bmc Genomics. 16: 553. PMID 26215153 DOI: 10.1186/S12864-015-1777-9  1
2015 Min B, Park H, Jang Y, Kim JJ, Kim KH, Pangilinan J, Lipzen A, Riley R, Grigoriev IV, Spatafora JW, Choi IG. Genome sequence of a white rot fungus Schizopora paradoxa KUC8140 for wood decay and mycoremediation. Journal of Biotechnology. PMID 26188242 DOI: 10.1016/J.Jbiotec.2015.06.426  1
2015 Spatafora JW, Bushley KE. Phylogenomics and evolution of secondary metabolism in plant-associated fungi. Current Opinion in Plant Biology. 26: 37-44. PMID 26116974 DOI: 10.1016/J.Pbi.2015.05.030  1
2015 Chang Y, Wang S, Sekimoto S, Aerts AL, Choi C, Clum A, LaButti KM, Lindquist EA, Yee Ngan C, Ohm RA, Salamov AA, Grigoriev IV, Spatafora JW, Berbee ML. Phylogenomic Analyses Indicate that Early Fungi Evolved Digesting Cell Walls of Algal Ancestors of Land Plants. Genome Biology and Evolution. 7: 1590-601. PMID 25977457 DOI: 10.1093/Gbe/Evv090  1
2015 Quandt CA, Kohler A, Hesse CN, Sharpton TJ, Martin F, Spatafora JW. Metagenome sequence of Elaphomyces granulatus from sporocarp tissue reveals Ascomycota ectomycorrhizal fingerprints of genome expansion and a Proteobacteria-rich microbiome. Environmental Microbiology. PMID 25753751 DOI: 10.1111/1462-2920.12840  1
2014 Quandt CA, Kepler RM, Gams W, Araújo JP, Ban S, Evans HC, Hughes D, Humber R, Hywel-Jones N, Li Z, Luangsa-Ard JJ, Rehner SA, Sanjuan T, Sato H, Shrestha B, ... ... Spatafora JW, et al. Phylogenetic-based nomenclatural proposals for Ophiocordycipitaceae (Hypocreales) with new combinations in Tolypocladium. Ima Fungus. 5: 121-34. PMID 25083412 DOI: 10.5598/imafungus.2014.05.01.12  1
2014 Nagy LG, Ohm RA, Kovács GM, Floudas D, Riley R, Gácser A, Sipiczki M, Davis JM, Doty SL, de Hoog GS, Lang BF, Spatafora JW, Martin FM, Grigoriev IV, Hibbett DS. Latent homology and convergent regulatory evolution underlies the repeated emergence of yeasts. Nature Communications. 5: 4471. PMID 25034666 DOI: 10.1038/Ncomms5471  1
2014 Toome M, Kuo A, Henrissat B, Lipzen A, Tritt A, Yoshinaga Y, Zane M, Barry K, Grigoriev IV, Spatafora JW, Aime MC. Draft Genome Sequence of a Rare Smut Relative, Tilletiaria anomala UBC 951. Genome Announcements. 2. PMID 24926052 DOI: 10.1128/Genomea.00539-14  1
2014 Myburg AA, Grattapaglia D, Tuskan GA, Hellsten U, Hayes RD, Grimwood J, Jenkins J, Lindquist E, Tice H, Bauer D, Goodstein DM, Dubchak I, Poliakov A, Mizrachi E, Kullan AR, ... ... Spatafora JW, et al. The genome of Eucalyptus grandis. Nature. 510: 356-62. PMID 24919147 DOI: 10.1038/Nature13308  1
2014 Sanjuan T, Tabima J, Restrepo S, Læssøe T, Spatafora JW, Franco-Molano AE. Entomopathogens of Amazonian stick insects and locusts are members of the Beauveria species complex (Cordyceps sensu stricto). Mycologia. 106: 260-75. PMID 24782494 DOI: 10.3852/106.2.260  1
2014 Sanjuan TI, Tabima J, Spatafora JW, Laessoe T, Restrepo S, Franco Molano AE. Entomopathogens of Amazonian stick insects and locusts are members of the Beauveria species complex (Cordyceps sensu stricto). Mycologia. PMID 24459123 DOI: 10.3852/13-020  1
2014 Mujic AB, Hosaka K, Spatafora JW. Rhizopogon togasawariana sp. nov., the first report of Rhizopogon associated with an Asian species of Pseudotsuga. Mycologia. 106: 105-12. PMID 24396108 DOI: 10.3852/13-055  1
2014 Toome M, Ohm RA, Riley RW, James TY, Lazarus KL, Henrissat B, Albu S, Boyd A, Chow J, Clum A, Heller G, Lipzen A, Nolan M, Sandor L, Zvenigorodsky N, ... ... Spatafora JW, et al. Genome sequencing provides insight into the reproductive biology, nutritional mode and ploidy of the fern pathogen Mixia osmundae. The New Phytologist. 202: 554-64. PMID 24372469 DOI: 10.1111/Nph.12653  1
2013 Ohm RA, Feau N, Henrissat B, Schoch CL, Horwitz BA, Barry KW, Condon BJ, Copeland AC, Dhillon B, Glaser F, Hesse CN, Kosti I, LaButti K, Lindquist EA, Lucas S, ... ... Spatafora JW, et al. Correction: Diverse Lifestyles and Strategies of Plant Pathogenesis Encoded in the Genomes of Eighteen Dothideomycetes Fungi. Plos Pathogens. 9. PMID 29364945 DOI: 10.1371/annotation/fcca88ac-d684-46e0-a483-62af67e777bd  1
2013 Kepler R, Ban S, Nakagiri A, Bischoff J, Hywel-Jones N, Owensby CA, Spatafora JW. The phylogenetic placement of hypocrealean insect pathogens in the genus Polycephalomyces: an application of One Fungus One Name. Fungal Biology. 117: 611-22. PMID 24012301 DOI: 10.1016/J.Funbio.2013.06.002  1
2013 Bushley KE, Li Y, Wang WJ, Wang XL, Jiao L, Spatafora JW, Yao YJ. Isolation of the MAT1-1 mating type idiomorph and evidence for selfing in the Chinese medicinal fungus Ophiocordyceps sinensis. Fungal Biology. 117: 599-610. PMID 24012300 DOI: 10.1016/J.Funbio.2013.06.001  1
2013 Hibbett DS, Stajich JE, Spatafora JW. Toward genome-enabled mycology. Mycologia. 105: 1339-49. PMID 23928422 DOI: 10.3852/13-196  1
2013 Bushley KE, Raja R, Jaiswal P, Cumbie JS, Nonogaki M, Boyd AE, Owensby CA, Knaus BJ, Elser J, Miller D, Di Y, McPhail KL, Spatafora JW. The Genome of Tolypocladium inflatum: Evolution, Organization, and Expression of the Cyclosporin Biosynthetic Gene Cluster Plos Genetics. 9. PMID 23818858 DOI: 10.1371/Journal.Pgen.1003496  1
2013 Dunham SM, Mujic AB, Spatafora JW, Kretzer AM. Within-population genetic structure differs between two sympatric sister-species of ectomycorrhizal fungi, Rhizopogon vinicolor and R. vesiculosus. Mycologia. 105: 814-26. PMID 23709483 DOI: 10.3852/12-265  1
2013 Manning VA, Pandelova I, Dhillon B, Wilhelm LJ, Goodwin SB, Berlin AM, Figueroa M, Freitag M, Hane JK, Henrissat B, Holman WH, Kodira CD, Martin J, Oliver RP, Robbertse B, ... ... Spatafora JW, et al. Comparative genomics of a plant-pathogenic fungus, Pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence. G3 (Bethesda, Md.). 3: 41-63. PMID 23316438 DOI: 10.1534/G3.112.004044  1
2012 Ohm RA, Feau N, Henrissat B, Schoch CL, Horwitz BA, Barry KW, Condon BJ, Copeland AC, Dhillon B, Glaser F, Hesse CN, Kosti I, LaButti K, Lindquist EA, Lucas S, ... ... Spatafora JW, et al. Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi. Plos Pathogens. 8: e1003037. PMID 23236275 DOI: 10.1371/Journal.Ppat.1003037  1
2012 Floudas D, Binder M, Riley R, Barry K, Blanchette RA, Henrissat B, Martínez AT, Otillar R, Spatafora JW, Yadav JS, Aerts A, Benoit I, Boyd A, Carlson A, Copeland A, et al. The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes. Science (New York, N.Y.). 336: 1715-9. PMID 22745431 DOI: 10.1126/Science.1221748  1
2012 Spatafora JW, Owensby CA, Douhan GW, Boehm EW, Schoch CL. Phylogenetic placement of the ectomycorrhizal genus Cenococcum in Gloniaceae (Dothideomycetes). Mycologia. 104: 758-65. PMID 22453119 DOI: 10.3852/11-233  1
2012 Poinar G, Spatafora JW. A fungal-like organism associated with a wasp (Hymenoptera: Pteromalidae) in Dominican amber. Journal of Invertebrate Pathology. 110: 132-4. PMID 22418090 DOI: 10.1016/J.Jip.2012.02.013  0.01
2012 Kepler RM, Sung GH, Harada Y, Tanaka K, Tanaka E, Hosoya T, Bischoff JF, Spatafora JW. Host jumping onto close relatives and across kingdoms by Tyrannicordyceps (Clavicipitaceae) gen. nov. and Ustilaginoidea_(Clavicipitaceae). American Journal of Botany. 99: 552-61. PMID 22334447 DOI: 10.3732/Ajb.1100124  1
2012 Padamsee M, Kumar TK, Riley R, Binder M, Boyd A, Calvo AM, Furukawa K, Hesse C, Hohmann S, James TY, LaButti K, Lapidus A, Lindquist E, Lucas S, Miller K, ... ... Spatafora JW, et al. The genome of the xerotolerant mold Wallemia sebi reveals adaptations to osmotic stress and suggests cryptic sexual reproduction. Fungal Genetics and Biology : Fg & B. 49: 217-26. PMID 22326418 DOI: 10.1016/J.Fgb.2012.01.007  1
2012 Kumar TK, Healy R, Spatafora JW, Blackwell M, McLaughlin DJ. Orbilia ultrastructure, character evolution and phylogeny of Pezizomycotina. Mycologia. 104: 462-76. PMID 22075787 DOI: 10.3852/11-213  1
2012 Kepler RM, Sung GH, Ban S, Nakagiri A, Chen MJ, Huang B, Li Z, Spatafora JW. New teleomorph combinations in the entomopathogenic genus Metacordyceps. Mycologia. 104: 182-97. PMID 22067304 DOI: 10.3852/11-070  1
2011 Thrash JC, Boyd A, Huggett MJ, Grote J, Carini P, Yoder RJ, Robbertse B, Spatafora JW, Rappé MS, Giovannoni SJ. Phylogenomic evidence for a common ancestor of mitochondria and the SAR11 clade. Scientific Reports. 1: 13. PMID 22355532 DOI: 10.1038/Srep00013  1
2011 Searle CL, Biga LM, Spatafora JW, Blaustein AR. A dilution effect in the emerging amphibian pathogen Batrachochytrium dendrobatidis. Proceedings of the National Academy of Sciences of the United States of America. 108: 16322-6. PMID 21930900 DOI: 10.1073/pnas.1108490108  0.01
2011 Rhind N, Chen Z, Yassour M, Thompson DA, Haas BJ, Habib N, Wapinski I, Roy S, Lin MF, Heiman DI, Young SK, Furuya K, Guo Y, Pidoux A, Chen HM, ... ... Spatafora JW, et al. Comparative functional genomics of the fission yeasts. Science (New York, N.Y.). 332: 930-6. PMID 21511999 DOI: 10.1126/Science.1203357  1
2011 Martin F, Cullen D, Hibbett D, Pisabarro A, Spatafora JW, Baker SE, Grigoriev IV. Sequencing the fungal tree of life New Phytologist. 190: 818-821. PMID 21401614 DOI: 10.1111/J.1469-8137.2011.03688.X  1
2011 Robbertse B, Yoder RJ, Boyd A, Reeves J, Spatafora JW. Hal: an automated pipeline for phylogenetic analyses of genomic data. Plos Currents. 3: RRN1213. PMID 21327165 DOI: 10.1371/Currents.Rrn1213  1
2011 Rouxel T, Grandaubert J, Hane JK, Hoede C, van de Wouw AP, Couloux A, Dominguez V, Anthouard V, Bally P, Bourras S, Cozijnsen AJ, Ciuffetti LM, Degrave A, Dilmaghani A, Duret L, ... ... Spatafora JW, et al. Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations. Nature Communications. 2: 202. PMID 21326234 DOI: 10.1038/Ncomms1189  1
2011 Grigoriev IV, Cullen D, Goodwin SB, Hibbett D, Jeffries TW, Kubicek CP, Kuske C, Magnuson JK, Martin F, Spatafora JW, Tsang A, Baker SE. Fueling the future with fungal genomics Mycology. 2: 192-209. DOI: 10.1080/21501203.2011.584577  1
2011 Kepler RM, Kaitsu Y, Tanaka E, Shimano S, Spatafora JW. Ophiocordyceps pulvinata sp. nov., a pathogen of ants with a reduced stroma Mycoscience. 52: 39-47. DOI: 10.1007/S10267-010-0072-5  1
2010 Gadd GM, May GS, Money NP, Spatafora JW. Fungal Biology. Editorial. Fungal Biology. 114: 1. PMID 20965054 DOI: 10.1016/J.Funbio.2009.11.003  0.01
2010 Giachini AJ, Hosaka K, Nouhra E, Spatafora J, Trappe JM. Phylogenetic relationships of the Gomphales based on nuc-25S-rDNA, mit-12S-rDNA, and mit-atp6-DNA combined sequences. Fungal Biology. 114: 224-34. PMID 20943133 DOI: 10.1016/J.Funbio.2010.01.002  1
2010 Sharanowski BJ, Robbertse B, Walker J, Voss SR, Yoder R, Spatafora J, Sharkey MJ. Expressed sequence tags reveal Proctotrupomorpha (minus Chalcidoidea) as sister to Aculeata (Hymenoptera: Insecta). Molecular Phylogenetics and Evolution. 57: 101-12. PMID 20637293 DOI: 10.1016/J.Ympev.2010.07.006  1
2009 Schoch CL, Sung GH, López-Giráldez F, Townsend JP, Miadlikowska J, Hofstetter V, Robbertse B, Matheny PB, Kauff F, Wang Z, Gueidan C, Andrie RM, Trippe K, Ciufetti LM, Wynns A, ... ... Spatafora JW, et al. The Ascomycota tree of life: a phylum-wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits. Systematic Biology. 58: 224-39. PMID 20525580 DOI: 10.1093/Sysbio/Syp020  1
2009 Suetrong S, Schoch CL, Spatafora JW, Kohlmeyer J, Volkmann-Kohlmeyer B, Sakayaroj J, Phongpaichit S, Tanaka K, Hirayama K, Jones EB. Molecular systematics of the marine Dothideomycetes. Studies in Mycology. 64: 155-173S6. PMID 20169029 DOI: 10.3114/Sim.2009.64.09  1
2009 Zhang Y, Schoch CL, Fournier J, Crous PW, de Gruyter J, Woudenberg JH, Hirayama K, Tanaka K, Pointing SB, Spatafora JW, Hyde KD. Multi-locus phylogeny of Pleosporales: a taxonomic, ecological and evolutionary re-evaluation. Studies in Mycology. 64: 85-102S5. PMID 20169024 DOI: 10.3114/Sim.2009.64.04  1
2009 Boehm EWA, Mugambi GK, Miller AN, Huhndorf SM, Marincowitz S, Spatafora JW, Schoch CL. A molecular phylogenetic reappraisal of the Hysteriaceae, Mytilinidiaceae and Gloniaceae (Pleosporomycetidae, Dothideomycetes) with keys to world species Studies in Mycology. 64: 49-83. PMID 20169023 DOI: 10.3114/Sim.2009.64.03  1
2009 Schoch CL, Crous PW, Groenewald JZ, Boehm EW, Burgess TI, de Gruyter J, de Hoog GS, Dixon LJ, Grube M, Gueidan C, Harada Y, Hatakeyama S, Hirayama K, Hosoya T, Huhndorf SM, ... ... Spatafora JW, et al. A class-wide phylogenetic assessment of Dothideomycetes. Studies in Mycology. 64: 1-15S10. PMID 20169021 DOI: 10.3114/Sim.2009.64.01  1
2009 Schoch CL, Wang Z, Townsend JP, Spatafora JW. Geoglossomycetes cl. nov., Geoglossales ord. nov. and taxa above class rank in the Ascomycota Tree of Life. Persoonia. 22: 129-38. PMID 19915689 DOI: 10.3767/003158509X461486  1
2009 Stajich JE, Berbee ML, Blackwell M, Hibbett DS, James TY, Spatafora JW, Taylor JW. The fungi. Current Biology : Cb. 19: R840-5. PMID 19788875 DOI: 10.1016/J.Cub.2009.07.004  1
2009 McLaughlin DJ, Hibbett DS, Lutzoni F, Spatafora JW, Vilgalys R. The search for the fungal tree of life. Trends in Microbiology. 17: 488-97. PMID 19782570 DOI: 10.1016/J.Tim.2009.08.001  1
2009 Boehm EW, Schoch CL, Spatafora JW. On the evolution of the Hysteriaceae and Mytilinidiaceae (Pleosporomycetidae, Dothideomycetes, Ascomycota) using four nuclear genes. Mycological Research. 113: 461-79. PMID 19422072 DOI: 10.1016/J.Mycres.2008.12.001  1
2009 Mongkolsamrit S, Luangsa-Ard JJ, Spatafora JW, Sung GH, Hywel-Jones NL. A combined ITS rDNA and beta-tubulin phylogeny of Thai species of Hypocrella with non-fragmenting ascospores. Mycological Research. 113: 684-99. PMID 19249367 DOI: 10.1016/J.Mycres.2009.02.004  1
2009 Johnson D, Sung GH, Hywel-Jones NL, Luangsa-Ard JJ, Bischoff JF, Kepler RM, Spatafora JW. Systematics and evolution of the genus Torrubiella (Hypocreales, Ascomycota). Mycological Research. 113: 279-89. PMID 18938242 DOI: 10.1016/J.Mycres.2008.09.008  1
2008 Sung GH, Poinar GO, Spatafora JW. The oldest fossil evidence of animal parasitism by fungi supports a Cretaceous diversification of fungal-arthropod symbioses. Molecular Phylogenetics and Evolution. 49: 495-502. PMID 18817884 DOI: 10.1016/J.Ympev.2008.08.028  1
2008 Bruns TD, Blackwell M, Edwards I, Taylor AFS, Horton T, Zhang N, Kõljalg U, May G, Kuyper TW, Bever JD, Gilbert G, Taylor JW, DeSantis TZ, Pringle A, Borneman J, ... ... Spatafora J, et al. Preserving accuracy in GenBank Science. 319: 1616. PMID 18356505 DOI: 10.1126/Science.319.5870.1616A  1
2008 Hosaka K, Castellano MA, Spatafora JW. Biogeography of Hysterangiales (Phallomycetidae, Basidiomycota). Mycological Research. 112: 448-62. PMID 18314317 DOI: 10.1016/J.Mycres.2007.06.004  1
2008 Andrie RM, Schoch CL, Hedges R, Spatafora JW, Ciuffetti LM. Homologs of ToxB, a host-selective toxin gene from Pyrenophora tritici-repentis, are present in the genome of sister-species Pyrenophora bromi and other members of the Ascomycota. Fungal Genetics and Biology : Fg & B. 45: 363-77. PMID 18226934 DOI: 10.1016/J.Fgb.2007.10.014  1
2008 Zuccaro A, Schoch CL, Spatafora JW, Kohlmeyer J, Draeger S, Mitchell JI. Detection and identification of fungi intimately associated with the brown seaweed Fucus serratus. Applied and Environmental Microbiology. 74: 931-41. PMID 18083854 DOI: 10.1128/Aem.01158-07  1
2007 Sung GH, Hywel-Jones NL, Sung JM, Luangsa-Ard JJ, Shrestha B, Spatafora JW. Phylogenetic classification of Cordyceps and the clavicipitaceous fungi. Studies in Mycology. 57: 5-59. PMID 18490993 DOI: 10.3114/Sim.2007.57.01  1
2007 Hane JK, Lowe RG, Solomon PS, Tan KC, Schoch CL, Spatafora JW, Crous PW, Kodira C, Birren BW, Galagan JE, Torriani SF, McDonald BA, Oliver RP. Dothideomycete plant interactions illuminated by genome sequencing and EST analysis of the wheat pathogen Stagonospora nodorum. The Plant Cell. 19: 3347-68. PMID 18024570 DOI: 10.1105/Tpc.107.052829  1
2007 Dunham SM, Larsson KH, Spatafora JW. Species richness and community composition of mat-forming ectomycorrhizal fungi in old- and second-growth Douglas-fir forests of the HJ Andrews Experimental Forest, Oregon, USA. Mycorrhiza. 17: 633-45. PMID 17638027 DOI: 10.1007/S00572-007-0141-6  1
2007 Hibbett DS, Binder M, Bischoff JF, Blackwell M, Cannon PF, Eriksson OE, Huhndorf S, James T, Kirk PM, Lücking R, Thorsten Lumbsch H, Lutzoni F, Matheny PB, McLaughlin DJ, Powell MJ, ... ... Spatafora JW, et al. A higher-level phylogenetic classification of the Fungi. Mycological Research. 111: 509-47. PMID 17572334 DOI: 10.1016/J.Mycres.2007.03.004  1
2007 Sung GH, Sung JM, Hywel-Jones NL, Spatafora JW. A multi-gene phylogeny of Clavicipitaceae (Ascomycota, Fungi): identification of localized incongruence using a combinational bootstrap approach. Molecular Phylogenetics and Evolution. 44: 1204-23. PMID 17555990 DOI: 10.1016/J.Ympev.2007.03.011  1
2007 Spatafora JW, Sung GH, Sung JM, Hywel-Jones NL, White JF. Phylogenetic evidence for an animal pathogen origin of ergot and the grass endophytes. Molecular Ecology. 16: 1701-11. PMID 17402984 DOI: 10.1111/J.1365-294X.2007.03225.X  1
2007 Schoch CL, Sung GH, Volkmann-Kohlmeyer B, Kohlmeyer J, Spatafora JW. Marine fungal lineages in the Hypocreomycetidae. Mycological Research. 111: 154-62. PMID 17161942 DOI: 10.1016/J.Mycres.2006.10.005  1
2006 Wang Z, Johnston PR, Takamatsu S, Spatafora JW, Hibbett DS. Toward a phylogenetic classification of the leotiomycetes based on rDNA data. Mycologia. 98: 1065-75. PMID 17486981 DOI: 10.3852/Mycologia.98.6.1065  1
2006 Schoch CL, Shoemaker RA, Seifert KA, Hambleton S, Spatafora JW, Crous PW. A multigene phylogeny of the Dothideomycetes using four nuclear loci. Mycologia. 98: 1041-52. PMID 17486979 DOI: 10.1080/15572536.2006.11832632  1
2006 Spatafora JW, Sung GH, Johnson D, Hesse C, O'Rourke B, Serdani M, Spotts R, Lutzoni F, Hofstetter V, Miadlikowska J, Reeb V, Gueidan C, Fraker E, Lumbsch T, Lücking R, et al. A five-gene phylogeny of Pezizomycotina. Mycologia. 98: 1018-28. PMID 17486977 DOI: 10.3852/Mycologia.98.6.1018  1
2006 Hosaka K, Bates ST, Beever RE, Castellano MA, Colgan W, Domínguez LS, Nouhra ER, Geml J, Giachini AJ, Kenney SR, Simpson NB, Spatafora JW, Trappe JM. Molecular phylogenetics of the gomphoid-phalloid fungi with an establishment of the new subclass Phallomycetidae and two new orders. Mycologia. 98: 949-59. PMID 17486971 DOI: 10.3852/Mycologia.98.6.949  1
2006 Blackwell M, Hibbett DS, Taylor JW, Spatafora JW. Research Coordination Networks: a phylogeny for kingdom Fungi (Deep Hypha). Mycologia. 98: 829-37. PMID 17486960 DOI: 10.3852/Mycologia.98.6.829  1
2006 James TY, Kauff F, Schoch CL, Matheny PB, Hofstetter V, Cox CJ, Celio G, Gueidan C, Fraker E, Miadlikowska J, Lumbsch HT, Rauhut A, Reeb V, Arnold AE, Amtoft A, ... ... Spatafora JW, et al. Reconstructing the early evolution of Fungi using a six-gene phylogeny. Nature. 443: 818-22. PMID 17051209 DOI: 10.1038/Nature05110  1
2006 Wang Z, Binder M, Schoch CL, Johnston PR, Spatafora JW, Hibbett DS. Evolution of helotialean fungi (Leotiomycetes, Pezizomycotina): a nuclear rDNA phylogeny. Molecular Phylogenetics and Evolution. 41: 295-312. PMID 16837216 DOI: 10.1016/J.Ympev.2006.05.031  1
2006 Robbertse B, Reeves JB, Schoch CL, Spatafora JW. A phylogenomic analysis of the Ascomycota. Fungal Genetics and Biology : Fg & B. 43: 715-25. PMID 16781175 DOI: 10.1016/J.Fgb.2006.05.001  1
2006 Dunn SR, Phillips WS, Spatafora JW, Green DR, Weis VM. Highly conserved caspase and Bcl-2 homologues from the sea anemone Aiptasia pallida: lower metazoans as models for the study of apoptosis evolution. Journal of Molecular Evolution. 63: 95-107. PMID 16770683 DOI: 10.1007/S00239-005-0236-7  0.01
2006 Schoch CL, Kohlmeyer J, Volkmann-Kohlmeyer B, Tsui CK, Spatafora JW. The halotolerant fungus Glomerobolus gelineus is a member of the Ostropales. Mycological Research. 110: 257-63. PMID 16431093 DOI: 10.1016/j.mycres.2005.10.001  1
2005 Campbell J, Volkmann-Kohlmeyer B, Gräfenhan T, Spatafora JW, Kohlmeyer J. A re-evaluation of Lulworthiales: relationships based on 18S and 28S rDNA. Mycological Research. 109: 556-68. PMID 16018310 DOI: 10.1017/S0953756205002716  1
2005 Kretzer AM, Dunham S, Molina R, Spatafora JW. Patterns of vegetative growth and gene flow in Rhizopogon vinicolor and R. vesiculosus (Boletales, Basidiomycota). Molecular Ecology. 14: 2259-68. PMID 15969712 DOI: 10.1111/J.1365-294X.2005.02547.X  1
2005 Fujimura KE, Smith JE, Horton TR, Weber NS, Spatafora JW. Pezizalean mycorrhizas and sporocarps in ponderosa pine (Pinus ponderosa) after prescribed fires in eastern Oregon, USA. Mycorrhiza. 15: 79-86. PMID 15316884 DOI: 10.1007/S00572-004-0303-8  0.01
2004 Lutzoni F, Kauff F, Cox CJ, McLaughlin D, Celio G, Dentinger B, Padamsee M, Hibbett D, James TY, Baloch E, Grube M, Reeb V, Hofstetter V, Schoch C, Arnold AE, ... ... Spatafora J, et al. Assembling the fungal tree of life: progress, classification, and evolution of subcellular traits. American Journal of Botany. 91: 1446-80. PMID 21652303 DOI: 10.3732/Ajb.91.10.1446  1
2004 Sung GH, Spatafora JW. Cordyceps cardinalis sp. nov., a new species of Cordyceps with an east Asian-eastern North American distribution. Mycologia. 96: 658-66. PMID 21148886 DOI: 10.1080/15572536.2005.11832962  1
2004 Allen E, Xie Z, Gustafson AM, Sung GH, Spatafora JW, Carrington JC. Evolution of microRNA genes by inverted duplication of target gene sequences in Arabidopsis thaliana. Nature Genetics. 36: 1282-90. PMID 15565108 DOI: 10.1038/Ng1478  1
2004 Castlebury LA, Rossman AY, Sung GH, Hyten AS, Spatafora JW. Multigene phylogeny reveals new lineage for Stachybotrys chartarum, the indoor air fungus. Mycological Research. 108: 864-72. PMID 15449591 DOI: 10.1017/S0953756204000607  1
2004 Benjamin RK, Blackwell M, Chapela IH, Humber RA, Jones KG, Klepzig KD, Lichtwardt RW, Malloch D, Noda H, Roeper RA, Spatafora JW, Weir A. Insect-and Other Arthropod-Associated Fungi Biodiversity of Fungi: Inventory and Monitoring Methods. 395-433. DOI: 10.1016/B978-012509551-8/50021-0  1
2004 Blackwell M, Spatafora JW. Fungi and Their Allies Biodiversity of Fungi: Inventory and Monitoring Methods. 7-21. DOI: 10.1016/B978-012509551-8/50004-0  1
2003 Kretzer AM, Luoma DL, Molina R, Spatafora JW. Taxonomy of the Rhizopogon vinicolor species complex based on analysis of ITS sequences and microsatellite loci. Mycologia. 95: 480-7. PMID 21156637 DOI: 10.1080/15572536.2004.11833093  1
2003 Christensen TM, Vejlupkova Z, Sharma YK, Arthur KM, Spatafora JW, Albright CA, Meeley RB, Duvick JP, Quatrano RS, Fowler JE. Conserved subgroups and developmental regulation in the monocot rop gene family. Plant Physiology. 133: 1791-808. PMID 14605221 DOI: 10.1104/Pp.103.029900  0.01
2003 Currie CR, Wong B, Stuart AE, Schultz TR, Rehner SA, Mueller UG, Sung GH, Spatafora JW, Straus NA. Ancient tripartite coevolution in the attine ant-microbe symbiosis. Science (New York, N.Y.). 299: 386-8. PMID 12532015 DOI: 10.1126/Science.1078155  1
2002 Grubisha LC, Trappe JM, Molina R, Spatafora JW. Biology of the ectomycorrhizal genus Rhizopogon. VI. Re-examination of infrageneric relationships inferred from phylogenetic analyses of ITS sequences. Mycologia. 94: 607-19. PMID 21156534 DOI: 10.1080/15572536.2003.11833189  1
2001 Zare R, Spatafora J, Gams W. A revision of Verticillium sect. Prostrata. III. Generic classification Nova Hedwigia. 72: 329-337. DOI: 10.1127/Nova.Hedwigia/72/2001/329  1
2001 Gernandt DS, Platt JL, Stone JK, Spatafora JW, Holst-Jensen A, Hamelin RC, Kohn LM. Phylogenetics of Helotiales and Rhytismatales based on partial small subunit nuclear ribosomal DNA sequences Mycologia. 93: 915-933. DOI: 10.1080/00275514.2001.12063226  0.01
2000 Kretzer AM, Bidartondo MI, Grubisha LC, Spatafora JW, Szaro TM, Bruns TD. Regional specialization of Sarcodes sanguinea (Ericaceae) on a single fungal symbiont from the Rhizopogon ellenae (Rhizopogonaceae) species complex. American Journal of Botany. 87: 1778-82. PMID 11118413 DOI: 10.2307/2656828  1
1995 Spatafora JW, Mitchell TG, Vilgalys R. Analysis of genes coding for small-subunit rRNA sequences in studying phylogenetics of dematiaceous fungal pathogens. Journal of Clinical Microbiology. 33: 1322-6. PMID 7615749 DOI: 10.1128/Jcm.33.5.1322-1326.1995  1
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