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Publications of Francois M. Lutzoni    :chronological  alphabetical  combined  bibtex listing:

Books

  1. Taylor, J. W., Spatafora, J., O’Donnell, K., Lutzoni, F., James, T., Hibbett, D. S., Geiser, D., Bruns, T. D. and Blackwell, M., The Fungi, in Assembling the Tree of Life, edited by J. Cracraft and M. J. Donoghue (2004), pp. 171-194, Oxford University Press, Oxford, UK
  2. Lutzoni, F., Lichens, in Encyclopedia of Evolution, edited by M. Pagel, vol. 2 (2002), pp. 618-622, Oxford University Press, Oxford, UK
  3. Pagel, M. and Lutzoni, F., Accounting for phylogenetic uncertainty in comparative studies of evolution and adaptation, in Biological Evolution and Statistical Physics, edited by M. Laessig and A. Valleriani (2002), pp. 151-164, Springer Verlag, Berlin, Germany
  4. Kranner, I., and Lutzoni, F., Evolutionary consequences of transition to a lichen symbiotic state and physiological adaptation to oxidative damage associated with poikilohydry, in Plant response to environmental stresses: From phytohormones to genome reorganization., edited by H. R. Lerner (1999), pp. 591-698, Marcel Dekker, New York

Papers Published

  1. U'Ren, JM; Lutzoni, F; Miadlikowska, J; Zimmerman, NB; Carbone, I; May, G; Arnold, AE, Host availability drives distributions of fungal endophytes in the imperilled boreal realm., Nature Ecology and Evolution, vol. 3 no. 10 (October, 2019), pp. 1430-1437 [doi]  [abs]
  2. Armaleo, D; Müller, O; Lutzoni, F; Andrésson, ÓS; Blanc, G; Bode, HB; Collart, FR; Dal Grande, F; Dietrich, F; Grigoriev, IV; Joneson, S; Kuo, A; Larsen, PE; Logsdon, JM; Lopez, D; Martin, F; May, SP; McDonald, TR; Merchant, SS; Miao, V; Morin, E; Oono, R; Pellegrini, M; Rubinstein, N; Sanchez-Puerta, MV; Savelkoul, E; Schmitt, I; Slot, JC; Soanes, D; Szövényi, P; Talbot, NJ; Veneault-Fourrey, C; Xavier, BB, The lichen symbiosis re-viewed through the genomes of Cladonia grayi and its algal partner Asterochloris glomerata., Bmc Genomics, vol. 20 no. 1 (July, 2019), pp. 605 [doi]  [abs]
  3. Carbone, I; White, JB; Miadlikowska, J; Arnold, AE; Miller, MA; Magain, N; U'Ren, JM; Lutzoni, F, T-BAS Version 2.1: Tree-Based Alignment Selector Toolkit for Evolutionary Placement of DNA Sequences and Viewing Alignments and Specimen Metadata on Curated and Custom Trees., Microbiology Resource Announcements, vol. 8 no. 29 (July, 2019) [doi]  [abs]
  4. Chagnon, PL; Magain, N; Miadlikowska, J; Lutzoni, F, Species diversification and phylogenetically constrained symbiont switching generated high modularity in the lichen genus Peltigera, Journal of Ecology, vol. 107 no. 4 (July, 2019), pp. 1645-1661 [doi]  [abs]
  5. Chen, K-H; Liao, H-L; Bellenger, J-P; Lutzoni, F, Differential gene expression associated with fungal trophic shifts along the senescence gradient of the moss Dicranum scoparium., Environmental Microbiology, vol. 21 no. 7 (March, 2019), pp. 2273-2289 [doi]  [abs]
  6. Lutzoni, F; Nowak, MD; Alfaro, ME; Reeb, V; Miadlikowska, J; Krug, M; Arnold, AE; Lewis, LA; Swofford, DL; Hibbett, D; Hilu, K; James, TY; Quandt, D; Magallón, S, Contemporaneous radiations of fungi and plants linked to symbiosis., Nature Communications, vol. 9 no. 1 (December, 2018), pp. 5451 [doi]  [abs]
  7. Miadlikowska, J; Magain, N; Pardo-De La Hoz, CJ; Niu, D; Goward, T; Sérusiaux, E; Lutzoni, F, Species in section Peltidea (aphthosa group) of the genus Peltigera remain cryptic after molecular phylogenetic revision, Plant and Fungal Systematics, vol. 63 no. 2 (December, 2018), pp. 45-64 [doi]  [abs]
  8. Hoz, CJPDL; Magain, N; Lutzoni, F; Goward, T; Restrepo, S; Miadlikowska, J, Contrasting Symbiotic Patterns in Two Closely Related Lineages of Trimembered Lichens of the Genus Peltigera, Frontiers in Microbiology, vol. 9 no. NOV (November, 2018), FRONTIERS MEDIA SA [doi]  [abs]
  9. Korotkin, HB; Swenie, RA; Miettinen, O; Budke, JM; Chen, K-H; Lutzoni, F; Smith, ME; Matheny, PB, Stable isotope analyses reveal previously unknown trophic mode diversity in the Hymenochaetales., American Journal of Botany, vol. 105 no. 11 (November, 2018), pp. 1869-1887 [doi]  [abs]
  10. Magain, N; Truong, C; Goward, T; Niu, D; Goffinet, B; Sérusiaux, E; Vitikainen, O; Lutzoni, F; Miadlikowska, J, Species delimitation at a global scale reveals high species richness with complex biogeography and patterns of symbiont association in peltigera section peltigera (Lichenized ascomycota: Lecanoromycetes), Taxon, vol. 67 no. 5 (October, 2018), pp. 836-870, WILEY [doi]  [abs]
  11. Lu, J; Magain, N; Miadlikowska, J; Coyle, JR; Truong, C; Lutzoni, F, Bioclimatic factors at an intrabiome scale are more limiting than cyanobiont availability for the lichen-forming genus Peltigera., American Journal of Botany, vol. 105 no. 7 (July, 2018), pp. 1198-1211 [doi]  [abs]
  12. Chagnon, PL; Magain, N; Miadlikowska, J; Lutzoni, F, Strong specificity and network modularity at a very fine phylogenetic scale in the lichen genus Peltigera., Oecologia, vol. 187 no. 3 (July, 2018), pp. 767-782, Springer Nature [doi]  [abs]
  13. Chen, K-H; Liao, H-L; Arnold, AE; Bonito, G; Lutzoni, F, RNA-based analyses reveal fungal communities structured by a senescence gradient in the moss Dicranum scoparium and the presence of putative multi-trophic fungi., The New Phytologist, vol. 218 no. 4 (June, 2018), pp. 1597-1611, WILEY [doi]  [abs]
  14. Kauff, F; Bachran, A; Schultz, M; Hofstetter, V; Lutzoni, F; Büdel, B, Molecular data favours a monogeneric Peltulaceae (Lichinomycetes), Lichenologist, vol. 50 no. 3 (May, 2018), pp. 313-327, Cambridge University Press (CUP) [doi]  [abs]
  15. Magain, N; Miadlikowska, J; Mueller, O; Gajdeczka, M; Truong, C; Salamov, AA; Dubchak, I; Grigoriev, IV; Goffinet, B; Sérusiaux, E; Lutzoni, F, Conserved genomic collinearity as a source of broadly applicable, fast evolving, markers to resolve species complexes: A case study using the lichen-forming genus Peltigera section Polydactylon., Molecular Phylogenetics and Evolution, vol. 117 (December, 2017), pp. 10-29 [doi]  [abs]
  16. Heiđmarsson, S; Gueidan, C; Miadlikowska, J; Lutzoni, F, Multi-locus phylogeny supports the placement of endocarpon pulvinatum within staurothele s. Str. (lichenised ascomycetes, eurotiomycetes, verrucariaceae), Phytotaxa, vol. 306 no. 1 (May, 2017), pp. 37-48, MAGNOLIA PRESS [doi]  [abs]
  17. Carbone, I; White, JB; Miadlikowska, J; Arnold, AE; Miller, MA; Kauff, F; U'Ren, JM; May, G; Lutzoni, F, T-BAS: Tree-Based Alignment Selector toolkit for phylogenetic-based placement, alignment downloads and metadata visualization: an example with the Pezizomycotina tree of life., Bioinformatics (Oxford, England), vol. 33 no. 8 (April, 2017), pp. 1160-1168 [doi]  [abs]
  18. Darnajoux, R; Zhang, X; McRose, DL; Miadlikowska, J; Lutzoni, F; Kraepiel, AML; Bellenger, J-P, Biological nitrogen fixation by alternative nitrogenases in boreal cyanolichens: importance of molybdenum availability and implications for current biological nitrogen fixation estimates., The New Phytologist, vol. 213 no. 2 (January, 2017), pp. 680-689 [doi]  [abs]
  19. van Nieuwenhuijzen, EJ; Miadlikowska, JM; Houbraken, JAMP; Adan, OCG; Lutzoni, FM; Samson, RA, Wood staining fungi revealed taxonomic novelties in Pezizomycotina: New order Superstratomycetales and new species Cyanodermella oleoligni., Studies in Mycology, vol. 85 (September, 2016), pp. 107-124 [doi]  [abs]
  20. Hestmark, G; Lutzoni, F; Miadlikowska, J, Photobiont associations in co-occurring umbilicate lichens with contrasting modes of reproduction in coastal Norway, Lichenologist, vol. 48 no. 5 (September, 2016), pp. 545-557, Cambridge University Press (CUP) [doi]  [abs]
  21. Chagnon, PL; U’Ren, JM; Miadlikowska, J; Lutzoni, F; Arnold, AE, Erratum to: Interaction type influences ecological network structure more than local abiotic conditions: evidence from endophytic and endolichenic fungi at a continental scale (Oecologia, (2016), 180, 181-191, DOI 10.1007/s00442-015-3457-5), Oecologia, vol. 181 no. 2 (June, 2016), pp. 633, Springer Nature [doi]
  22. U'Ren, JM; Miadlikowska, J; Zimmerman, NB; Lutzoni, F; Stajich, JE; Arnold, AE, Contributions of North American endophytes to the phylogeny, ecology, and taxonomy of Xylariaceae (Sordariomycetes, Ascomycota)., Molecular Phylogenetics and Evolution, vol. 98 (May, 2016), pp. 210-232 [doi]  [abs]
  23. Chagnon, P-L; U'Ren, JM; Miadlikowska, J; Lutzoni, F; Arnold, AE, Interaction type influences ecological network structure more than local abiotic conditions: evidence from endophytic and endolichenic fungi at a continental scale., Oecologia, vol. 180 no. 1 (January, 2016), pp. 181-191, ISSN 0029-8549 [doi]  [abs]
  24. Darnajoux, R; Lutzoni, F; Miadlikowska, J; Bellenger, J-P, Determination of elemental baseline using peltigeralean lichens from Northeastern Canada (Québec): Initial data collection for long term monitoring of the impact of global climate change on boreal and subarctic area in Canada., The Science of the Total Environment, vol. 533 (November, 2015), pp. 1-7, ISSN 0048-9697 [doi]  [abs]
  25. Oono, R; Lefèvre, E; Simha, A; Lutzoni, F, A comparison of the community diversity of foliar fungal endophytes between seedling and adult loblolly pines (Pinus taeda)., Fungal Biology, vol. 119 no. 10 (October, 2015), pp. 917-928, ISSN 1878-6146 [doi]  [abs]
  26. Gaya, E; Fernández-Brime, S; Vargas, R; Lachlan, RF; Gueidan, C; Ramírez-Mejía, M; Lutzoni, F, The adaptive radiation of lichen-forming Teloschistaceae is associated with sunscreening pigments and a bark-to-rock substrate shift., Proceedings of the National Academy of Sciences of the United States of America, vol. 112 no. 37 (September, 2015), pp. 11600-11605, ISSN 0027-8424 [doi]  [abs]
  27. Chen, K-H; Miadlikowska, J; Molnár, K; Arnold, AE; U'Ren, JM; Gaya, E; Gueidan, C; Lutzoni, F, Phylogenetic analyses of eurotiomycetous endophytes reveal their close affinities to Chaetothyriales, Eurotiales, and a new order - Phaeomoniellales., Molecular Phylogenetics and Evolution, vol. 85 (April, 2015), pp. 117-130, ISSN 1055-7903 [doi]  [abs]
  28. Gueidan, C; Hill, DJ; Miadlikowska, J; Lutzoni, F, Pezizomycotina: Lecanoromycetes, in Volume VII of The Mycota Part B, edited by D. J. McLaughlin and J. W. Spatafora (January, 2015), pp. 89-120, Springer Berlin Heidelberg, Berlin, Germany [doi]  [abs]
  29. Miadlikowska, J; Kauff, F; Högnabba, F; Oliver, JC; Molnár, K; Fraker, E; Gaya, E; Hafellner, J; Hofstetter, V; Gueidan, C; Otálora, MAG; Hodkinson, B; Kukwa, M; Lücking, R; Björk, C; Sipman, HJM; Burgaz, AR; Thell, A; Passo, A; Myllys, L; Goward, T; Fernández-Brime, S; Hestmark, G; Lendemer, J; Lumbsch, HT; Schmull, M; Schoch, CL; Sérusiaux, E; Maddison, DR; Arnold, AE; Lutzoni, F; Stenroos, S, A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families., Molecular Phylogenetics and Evolution, vol. 79 (October, 2014), pp. 132-168, ISSN 1055-7903 [doi]  [abs]
  30. Oono, R; Lutzoni, F; Arnold, AE; Kaye, L; U'Ren, JM; May, G; Carbone, I, Genetic variation in horizontally transmitted fungal endophytes of pine needles reveals population structure in cryptic species., American Journal of Botany, vol. 101 no. 8 (August, 2014), pp. 1362-1374, ISSN 0002-9122 [doi]  [abs]
  31. Miadlikowska, J; Richardson, D; Magain, N; Ball, B; Anderson, F; Cameron, R; Lendemer, J; Truong, C; Lutzoni, F, Phylogenetic placement, species delimitation, and cyanobiont identity of endangered aquatic Peltigera species (lichen-forming Ascomycota, Lecanoromycetes)., American Journal of Botany, vol. 101 no. 7 (July, 2014), pp. 1141-1156, ISSN 0002-9122 [doi]  [abs]
  32. Darnajoux, R; Constantin, J; Miadlikowska, J; Lutzoni, F; Bellenger, J-P, Is vanadium a biometal for boreal cyanolichens?, The New Phytologist, vol. 202 no. 3 (May, 2014), pp. 765-771, ISSN 0028-646X [doi]  [abs]
  33. Hodkinson, BP; Allen, JL; Forrest, LL; Goffinet, B; Sérusiaux, E; Andrésson, OS; Miao, V; Bellenger, JP; Lutzoni, F, Lichen-symbiotic cyanobacteria associated with Peltigera have an alternative vanadium-dependent nitrogen fixation system, European Journal of Phycology, vol. 49 no. 1 (January, 2014), pp. 11-19, Informa UK Limited [doi]  [abs]
  34. McDonald, TR; Mueller, O; Dietrich, FS; Lutzoni, F, High-throughput genome sequencing of lichenizing fungi to assess gene loss in the ammonium transporter/ammonia permease gene family., Bmc Genomics, vol. 14 (April, 2013), pp. 225 [doi]  [abs]
  35. O'Brien, HE; Miadlikowska, J; Lutzoni, F, Assessing population structure and host specialization in lichenized cyanobacteria., The New Phytologist, vol. 198 no. 2 (April, 2013), pp. 557-566 [23406441], [doi]  [abs]
  36. McDonald, TR; Gaya, E; Lutzoni, F, Twenty-five cultures of lichenizing fungi available for experimental studies on symbiotic systems, Symbiosis, vol. 59 no. 3 (March, 2013), pp. 165-171, Springer Nature, ISSN 0334-5114 [doi]  [abs]
  37. Fernández Brime, S; Llimona, X; Lutzoni, F; Gaya, E, Phylogenetic study of Diploschistes (Graphidaceae, Ostropales, lichen-forming Ascomycota), based on morphological, chemical and molecular data, Taxon, vol. 62 no. 2 (2013), pp. 267-280, ISSN 0040-0262 [doi]  [abs]
  38. Gazis, R; Miadlikowska, J; Lutzoni, F; Arnold, AE; Chaverri, P, Culture-based study of endophytes associated with rubber trees in Peru reveals a new class of Pezizomycotina: Xylonomycetes., Molecular Phylogenetics and Evolution, vol. 65 no. 1 (October, 2012), pp. 294-304, ISSN 1055-7903 [doi]  [abs]
  39. Green, MS; Ball, B; Lutzoni, F; Zi-Min, H; Lopez-Bautista, JM, TRENTEPOHLIALES (ULVOPHYCEAE, CHLOROPHYTA) FROM COASTAL SOUTH CAROLINA, Journal of Phycology, vol. 48 (August, 2012), pp. S15-S15, ISSN 0022-3646 [Gateway.cgi]
  40. Liwa, L; Miadlikowska, J; Redelings, BD; Molnar, K; Lutzoni, F, Are widespread morphospecies from the Lecanora dispersa group (lichen-forming Ascomycota) monophyletic?, The Bryologist, vol. 115 no. 2 (June, 2012), pp. 265-277, American Bryological and Lichenological Society, ISSN 0007-2745 [doi]  [abs]
  41. U'Ren, JM; Lutzoni, F; Miadlikowska, J; Laetsch, AD; Arnold, AE, Host and geographic structure of endophytic and endolichenic fungi at a continental scale., American Journal of Botany, vol. 99 no. 5 (May, 2012), pp. 898-914, ISSN 0002-9122 [doi]  [abs]
  42. Gaya, E; Högnabba, F; Holguin, A; Molnar, K; Fernández-Brime, S; Stenroos, S; Arup, U; Søchting, U; Van den Boom, P; Lücking, R; Sipman, HJM; Lutzoni, F, Implementing a cumulative supermatrix approach for a comprehensive phylogenetic study of the Teloschistales (Pezizomycotina, Ascomycota)., Molecular Phylogenetics and Evolution, vol. 63 no. 2 (May, 2012), pp. 374-387 [22306043], [doi]  [abs]
  43. Geml, J; Kauff, F; Brochmann, C; Lutzoni, F; Laursen, GA; Redhead, SA; Taylor, DL, Frequent circumarctic and rare transequatorial dispersals in the lichenised agaric genus Lichenomphalia (Hygrophoraceae, Basidiomycota)., Fungal Biology, vol. 116 no. 3 (March, 2012), pp. 388-400, ISSN 1878-6146 [doi]  [abs]
  44. McDonald, TR; Dietrich, FS; Lutzoni, F, Multiple horizontal gene transfers of ammonium transporters/ammonia permeases from prokaryotes to eukaryotes: toward a new functional and evolutionary classification., Molecular Biology and Evolution, vol. 29 no. 1 (January, 2012), pp. 51-60 [21680869], [doi]  [abs]
  45. Hodkinson, BP; Gottel, NR; Schadt, CW; Lutzoni, F, Photoautotrophic symbiont and geography are major factors affecting highly structured and diverse bacterial communities in the lichen microbiome., Environmental Microbiology, vol. 14 no. 1 (January, 2012), pp. 147-161, ISSN 1462-2912 (Special issue entitled "Omics Driven Microbial Ecology”.) [doi]  [abs]
  46. Prieto, M; Martínez, I; Aragón, G; Gueidan, C; Lutzoni, F, Molecular phylogeny of Heteroplacidium, Placidium, and related catapyrenioid genera (Verrucariaceae, lichen-forming Ascomycota)., American Journal of Botany, vol. 99 no. 1 (January, 2012), pp. 23-35, ISSN 0002-9122 [Gateway.cgi], [doi]  [abs]
  47. Schmull, M; Miadlikowska, J; Pelzer, M; Stocker-Wörgötter, E; Hofstetter, V; Fraker, E; Hodkinson, BP; Reeb, V; Kukwa, M; Lumbsch, HT; Kauff, F; Lutzoni, F, Phylogenetic affiliations of members of the heterogeneous lichen-forming fungi of the genus Lecidea sensu Zahlbruckner (Lecanoromycetes, Ascomycota)., Mycologia, vol. 103 no. 5 (September, 2011), pp. 983-1003, ISSN 0027-5514 [doi]  [abs]
  48. Fernández-Brime, S; Llimona, X; Molnar, K; Stenroos, S; Högnabba, F; Björk, C; Lutzoni, F; Gaya, E, Expansion of the Stictidaceae by the addition of the saxicolous lichen-forming genus Ingvariella., Mycologia, vol. 103 no. 4 (July, 2011), pp. 755-763, ISSN 0027-5514 [doi]  [abs]
  49. Miadlikowska, J; Schoch, CL; Kageyama, SA; Molnar, K; Lutzoni, F; McCune, B, Hypogymnia phylogeny, including Cavernularia, reveals biogeographic structure, The Bryologist, vol. 114 no. 2 (June, 2011), pp. 392-400, American Bryological and Lichenological Society, ISSN 0007-2745 [doi]  [abs]
  50. Arnold, AE; Carbone, I; Lutzoni, F; May, G, A multidimensional study of endophytic fungal diversity, Ima Fungus, vol. 2 no. 1 (June, 2011), pp. 2-4
  51. Joneson, S; Armaleo, D; Lutzoni, F, Fungal and algal gene expression in early developmental stages of lichen-symbiosis., Mycologia, vol. 103 no. 2 (March, 2011), pp. 291-306, ISSN 0027-5514 [20943535], [doi]  [abs]
  52. Gaya, E; Redelings, BD; Navarro-Rosinés, P; Llimona, X; De Cáceres, M; Lutzoni, F, Align or not to align? Resolving species complexes within the Caloplaca saxicola group as a case study., Mycologia, vol. 103 no. 2 (March, 2011), pp. 361-378, ISSN 0027-5514 [dtl], [doi]  [abs]
  53. Thüs, H; Muggia, L; Pérez-Ortega, S; Favero-Longo, SE; Joneson, S; O’Brien, H; Nelsen, MP; Duque-Thüs, R; Grube, M; Friedl, T; Brodie, J; Andrew, CJ; Lücking, R; Lutzoni, F; Gueidan, C, Revisiting photobiont diversity in the lichen family verrucariaceae (ascomycota), European Journal of Phycology, vol. 46 no. 4 (January, 2011), pp. 399-415, Informa UK Limited, ISSN 0967-0262 [Gateway.cgi], [doi]  [abs]
  54. Hestmark, G; Miadlikowska, J; Kauff, F; Fraker, E; Molnar, K; Lutzoni, F, Single origin and subsequent diversification of central Andean endemic Umbilicaria species., Mycologia, vol. 103 no. 1 (January, 2011), pp. 45-56, ISSN 0027-5514 [dtl], [doi]  [abs]
  55. Crespo, A; Kauff, F; Divakar, PK; del Prado, R; Pérez-Ortega, S; de Paz, GA; Ferencova, Z; Blanco, O; Roca-Valiente, B; Núñez-Zapata, J; Cubas, P; Argüello, A; Elix, JA; Esslinger, TL; Hawksworth, DL; Millanes, A; Molina, MC; Wedin, M; Ahti, T; Aptroot, A; Barreno, E; Bungartz, F; Calvelo, S; Candan, M; Cole, M; Ertz, D; Goffinet, B; Lindblom, L; Lücking, R; Lutzoni, F; Mattsson, JE; Messuti, MI; Miadlikowska, J; Piercey-Normore, M; Rico, VJ; Sipman, HJM; Schmitt, I; Spribille, T; Thell, A; Thor, G; Upreti, DK; Thorsten Lumbsch, H, Phylogenetic generic classification of parmelioid lichens (Parmeliaceae, Ascomycota) based on molecular, morphological and chemical evidence, Taxon, vol. 59 no. 6 (December, 2010), pp. 1735-1753, ISSN 0040-0262 [Gateway.cgi]  [abs]
  56. Otálora, MAG; Martínez, I; O'Brien, H; Molina, MC; Aragón, G; Lutzoni, F, Multiple origins of high reciprocal symbiotic specificity at an intercontinental spatial scale among gelatinous lichens (Collemataceae, Lecanoromycetes)., Molecular Phylogenetics and Evolution, vol. 56 no. 3 (September, 2010), pp. 1089-1095, ISSN 1055-7903 [doi]  [abs]
  57. U'ren, JM; Lutzoni, F; Miadlikowska, J; Arnold, AE, Community analysis reveals close affinities between endophytic and endolichenic fungi in mosses and lichens., Microbial Ecology, vol. 60 no. 2 (August, 2010), pp. 340-353, ISSN 0095-3628 [doi]  [abs]
  58. Otálora, MAG; Aragón, G; Molina, MC; Martínez, I; Lutzoni, F, Disentangling the Collema-Leptogium complex through a molecular phylogenetic study of the Collemataceae (Peltigerales, lichen-forming Ascomycota)., Mycologia, vol. 102 no. 2 (March, 2010), pp. 279-290, ISSN 0027-5514 [doi]  [abs]
  59. Prieto, M; Martínez, I; Aragón, G; Otálora, MAG; Lutzoni, F, Phylogenetic study of Catapyrenium s. str. (Verrucariaceae, lichen-forming Ascomycota) and related genus Placidiopsis., Mycologia, vol. 102 no. 2 (March, 2010), pp. 291-304, ISSN 0027-5514 [doi]  [abs]
  60. Hodkinson, BP; Lutzoni, F, A microbiotic survey of lichen-associated bacteria reveals a new lineage from the Rhizobiales, Symbiosis, vol. 49 no. 2 (December, 2009), pp. 163-180, Springer Nature, ISSN 0334-5114 [doi]  [abs]
  61. McLaughlin, DJ; Hibbett, DS; Lutzoni, F; Spatafora, JW; Vilgalys, R, The search for the fungal tree of life., Trends in Microbiology, vol. 17 no. 11 (November, 2009), pp. 488-497, ISSN 0966-842X [doi]  [abs]
  62. O'Brien, HE; Miadlikowska, J; Lutzoni, F, Assessing reproductive isolation in highly diverse communities of the lichen-forming fungal genus peltigera., Evolution; International Journal of Organic Evolution, vol. 63 no. 8 (August, 2009), pp. 2076-2086 [19453383], [doi]  [abs]
  63. Lutzoni, F; Miadlikowska, J, Lichens., Current Biology : Cb, vol. 19 no. 13 (July, 2009), pp. R502-R503 [19602407], [doi]
  64. Arnold, AE; Miadlikowska, J; Higgins, KL; Sarvate, SD; Gugger, P; Way, A; Hofstetter, V; Kauff, F; Lutzoni, F, A phylogenetic estimation of trophic transition networks for ascomycetous fungi: are lichens cradles of symbiotrophic fungal diversification?, Systematic Biology, vol. 58 no. 3 (June, 2009), pp. 283-297 [20525584], [doi]  [abs]
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  72. Otálora, MAG; Martínez, I; Molina, MC; Aragón, G; Lutzoni, F, Phylogenetic relationships and taxonomy of the Leptogium lichenoides group (Collemataceae, Ascomycota) in Europe, Taxon, vol. 57 no. 3 (August, 2008), pp. 907-921, ISSN 0040-0262  [abs]
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  82. Litaker, RW; Vandersea, MW; Kibler, SR; Reece, KS; Stokes, NA; Lutzoni, FM; Yonish, BA; West, MA; Black, MND; Tester, PA, Recognizing dinoflagellate species using its rDNA sequences, Journal of Phycology, vol. 43 no. 2 (April, 2007), pp. 344-355, WILEY, ISSN 0022-3646 [doi]  [abs]
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  84. Arnold, AE; Lutzoni, F, Diversity and host range of foliar fungal endophytes: are tropical leaves biodiversity hotspots?, Ecology, vol. 88 no. 3 (March, 2007), pp. 541-549, ISSN 0012-9658 [17503580], [doi]  [abs]
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  88. Miadlikowska, J; Kauff, F; Hofstetter, V; Fraker, E; Grube, M; Hafellner, J; Reeb, V; Hodkinson, BP; Kukwa, M; Lücking, R; Hestmark, G; Otalora, MG; Rauhut, A; Büdel, B; Scheidegger, C; Timdal, E; Stenroos, S; Brodo, I; Perlmutter, GB; Ertz, D; Diederich, P; Lendemer, JC; May, P; Schoch, CL; Arnold, AE; Gueidan, C; Tripp, E; Yahr, R; Robertson, C; Lutzoni, F, New insights into classification and evolution of the Lecanoromycetes (Pezizomycotina, Ascomycota) from phylogenetic analyses of three ribosomal RNA- and two protein-coding genes., Mycologia, vol. 98 no. 6 (November, 2006), pp. 1088-1103, ISSN 0027-5514 [17486983], [doi]  [abs]
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  92. Arnold, AE; Lutzoni, F, From the leaf to the landscape: Endophyte diversity and interactions at small and large spatial scales, Phytopathology, vol. 96 no. 6 (June, 2006), pp. S136-S137, ISSN 0031-949X [Gateway.cgi]
  93. Rydholm, C; Szakacs, G; Lutzoni, F, Low genetic variation and no detectable population structure in aspergillus fumigatus compared to closely related Neosartorya species., Eukaryotic Cell, vol. 5 no. 4 (April, 2006), pp. 650-657, ISSN 1535-9778 [16607012], [doi]  [abs]
  94. Fernández, FA; Miller, AN; Huhndorf, SM; Lutzoni, FM; Zoller, S, Systematics of the genus Chaetosphaeria and its allied genera: morphological and phylogenetic diversity in north temperate and neotropical taxa., Mycologia, vol. 98 no. 1 (January, 2006), pp. 121-130, ISSN 0027-5514 [doi]  [abs]
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  96. Geiser, DM; Gueidan Miadlikowska, J; Kauff, F; Hofstetter, V; Fraker, E; Schoch, CL; Tibell, L; Untereiner, WA; Aptroot, A; Lutzoni, F, Eurotiomycetes: Eurotiomycetidae and Chaetothyriomycetidae, Mycologia, vol. 98 no. 6 (2006), pp. 1055-1066, ISSN 0027-5514 [doi]  [abs]
  97. Miadlikowska, J; Kauff, F; Hofstetter, V; Fraker, E; Grube, M; Hafellner, J; Reeb, V; Hodkinson, BP; Kukwa, M; Lücking, R; Hestmark, G; Otalora, MAG; Rauhut, A; Büdel, B; Scheidegger, C; Timdal, I; Stenroos, S; Brodo, I; Perlmutter, G; Ertz, D; Diederich, P; Lendemer, JC; Tripp, E; Yahr, R; May, P; Gueidan, C; Arnold, AE; Robertson, C; Lutzoni, F, New insights into classification and evolution of the Lecanoromycetes (Pezizomycotina, Ascomycota) from phylogenetic analyses of three ribosomal RNA- and two protein-coding genes, Mycologia, vol. 98 no. 6 (2006), pp. 1090-1103, ISSN 0027-5514 [17486983]  [abs]
  98. O'Brien, HE; Miadlikowska, J; Lutzoni, F, Assessing host specialization in symbiotic cyanobacteria associated with four closely related species of the lichen fungus Peltigera, European Journal of Phycology, vol. 40 no. 4 (November, 2005), pp. 363-378, Informa UK Limited, ISSN 0967-0262 [doi]  [abs]
  99. Paoletti, M; Rydholm, C; Schwier, EU; Anderson, MJ; Szakacs, G; Lutzoni, F; Debeaupuis, J-P; Latgé, J-P; Denning, DW; Dyer, PS, Evidence for sexuality in the opportunistic fungal pathogen Aspergillus fumigatus., Current Biology : Cb, vol. 15 no. 13 (July, 2005), pp. 1242-1248 [doi]  [abs]
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  103. Reeb, V; Lutzoni, F; Roux, C, Contribution of RPB2 to multilocus phylogenetic studies of the euascomycetes (Pezizomycotina, Fungi) with special emphasis on the lichen-forming Acarosporaceae and evolution of polyspory., Molecular Phylogenetics and Evolution, vol. 32 no. 3 (September, 2004), pp. 1036-1060, ISSN 1055-7903 [15288074], [doi]  [abs]
  104. Miadlikowska, J; Lutzoni, F, Phylogenetic classification of peltigeralean fungi (Peltigerales, Ascomycota) based on ribosomal RNA small and large subunits., American Journal of Botany, vol. 91 no. 3 (March, 2004), pp. 449-464, ISSN 0002-9122 [21653401], [doi]  [abs]
  105. Haugen, P; Reeb, V; Lutzoni, F; Bhattacharya, D, The evolution of homing endonuclease genes and group I introns in nuclear rDNA., Molecular Biology and Evolution, vol. 21 no. 1 (January, 2004), pp. 129-140 [doi]  [abs]
  106. Haugen, P; Reeb, V; Lutzoni, F; Bhattacharya, D, The evolution of homing endonuclease genes and group I introns in nuclear rDNA., Molecular Biology and Evolution, vol. 21 no. 1 (2004), pp. 105-116 [doi]  [abs]
  107. Zoller, S; Lutzoni, F, Slow algae, fast fungi: exceptionally high nucleotide substitution rate differences between lichenized fungi Omphalina and their symbiotic green algae Coccomyxa., Molecular Phylogenetics and Evolution, vol. 29 no. 3 (December, 2003), pp. 629-640, ISSN 1055-7903 [14615198], [doi]  [abs]
  108. Miadlikowska, J; Lutzoni, F; Goward, T; Zoller, S; Posada, D, New approach to an old problem: Incorporating signal from gap-rich regions of ITS and rDNA large subunit into phylogenetic analyses to resolve the Peltigera canina species complex., Mycologia, vol. 95 no. 6 (November, 2003), pp. 1181-1203, ISSN 0027-5514 [21149020], [doi]  [abs]
  109. Søchting, U; Lutzoni, F, Molecular phylogenetic study at the generic boundary between the lichen-forming fungi Caloplaca and Xanthoria (Ascomycota, Teloschistaceae)., Mycological Research, vol. 107 no. Pt 11 (November, 2003), pp. 1266-1276 [doi]  [abs]
  110. Gaya, E; Lutzoni, F; Zoller, S; Navarro-Rosinés, P, Phylogenetic study of Fulgensia and allied Caloplaca and Xanthoria species (Teloschistaceae, lichen-forming ascomycota)., American Journal of Botany, vol. 90 no. 7 (July, 2003), pp. 1095-1103 [doi]  [abs]
  111. Alfaro, ME; Zoller, S; Lutzoni, F, Bayes or bootstrap? A simulation study comparing the performance of Bayesian Markov chain Monte Carlo sampling and bootstrapping in assessing phylogenetic confidence., Molecular Biology and Evolution, vol. 20 no. 2 (February, 2003), pp. 255-266 [doi]  [abs]
  112. McDonald, T; Miadlikowska, J; Lutzoni, F, The lichen genus Sticta in the Great Smoky Mountains: A phylogenetic study of morphological, chemical, and molecular data, The Bryologist, vol. 106 no. 1 (January, 2003), pp. 61-79, American Bryological and Lichenological Society [doi]  [abs]
  113. Kauff, F; Lutzoni, F, Phylogeny of the Gyalectales and Ostropales (Ascomycota, Fungi): among and within order relationships based on nuclear ribosomal RNA small and large subunits., Molecular Phylogenetics and Evolution, vol. 25 no. 1 (October, 2002), pp. 138-156, ISSN 1055-7903 [doi]  [abs]
  114. Barker, FK; Lutzoni, FM, The utility of the incongruence length difference test., Systematic Biology, vol. 51 no. 4 (August, 2002), pp. 625-637 [doi]
  115. Redhead, SA; Lutzoni, F; Moncalvo, JM; Vilgalys, R, Phylogeny of agarics: Partial systematics solutions for core Omphalinoid genera in the Agaricales (Euagarics), Mycotaxon, vol. 83 (July, 2002), pp. 19-57  [abs]
  116. O'Donnell, K; Lutzoni, FM; Ward, TJ; Benny, GL, Erratum: Evolutionary relationships among mucoralean fungi (zygomycota): Evidence for family polyphyly on a large scale (Mycologia (2001) 93:2), Mycologia, vol. 93 no. 4 (January, 2002), pp. 814, ISSN 0027-5514
  117. Miadlikowska, J; McCune, B; Lutzoni, F, Pseudocyphellaria perpetua, a new lichen from western North America, The Bryologist, vol. 105 no. 1 (January, 2002), pp. 1-10, American Bryological and Lichenological Society [doi]  [abs]
  118. Redhead, SA; Moncalvo, JM; Vilgalys, R; Lutzoni, F, Phylogeny of agarics: Partial systematics solutions for bryophilous omphalinoid agarics outside of the Agaricales (euagarics), Mycotaxon, vol. 82 (2002), pp. 151-168, ISSN 0093-4666 [Gateway.cgi]
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  120. O'Donnell, K; Lutzoni, FM; Ward, TJ; Benny, GL, Evolutionary relationships among mucoralean fungi (Zygomycota): Evidence for family polyphyly on a large scale, Mycologia, vol. 93 no. 4 (July, 2001), pp. 814-814, Informa UK Limited, ISSN 0027-5514 [Gateway.cgi], [doi]
  121. Lutzoni, F; Pagel, M; Reeb, V, Major fungal lineages are derived from lichen symbiotic ancestors., Nature, vol. 411 no. 6840 (June, 2001), pp. 937-940, ISSN 0028-0836 [doi]  [abs]
  122. O'Donnell, K; Lutzoni, FM; Ward, TJ; Benny, GL, Evolutionary relationships among mucoralean fungi (Zygomycota): Evidence for family polyphyly on a large scale, Mycologia, vol. 93 no. 2 (January, 2001), pp. 286-296, JSTOR, ISSN 0027-5514 [doi]  [abs]
  123. Bhattacharya, D; Lutzoni, F; Reeb, V; Simon, D; Nason, J; Fernandez, F, Widespread occurrence of spliceosomal introns in the rDNA genes of ascomycetes., Molecular Biology and Evolution, vol. 17 no. 12 (December, 2000), pp. 1971-1984, ISSN 0737-4038 [doi]  [abs]
  124. Lutzoni, F; Wagner, P; Reeb, V; Zoller, S, Integrating ambiguously aligned regions of DNA sequences in phylogenetic analyses without violating positional homology., Systematic Biology, vol. 49 no. 4 (December, 2000), pp. 628-651 [doi]  [abs]
  125. Wu, QX; Mueller, GM; Lutzoni, FM; Huang, YQ; Guo, SY, Phylogenetic and biogeographic relationships of eastern Asian and eastern North American disjunct Suillus species (fungi) as inferred from nuclear ribosomal RNA ITS sequences., Molecular Phylogenetics and Evolution, vol. 17 no. 1 (October, 2000), pp. 37-47, ISSN 1055-7903 [doi]  [abs]
  126. Moncalvo, JM; Lutzoni, FM; Rehner, SA; Johnson, J; Vilgalys, R, Phylogenetic relationships of agaric fungi based on nuclear large subunit ribosomal DNA sequences., Systematic Biology, vol. 49 no. 2 (June, 2000), pp. 278-305, ISSN 1063-5157 [12118409], [doi]  [abs]
  127. Miadlikowska, J; Lutzoni, F, Phylogenetic revision of the genus Peltigera (lichen-forming Ascomycota) based on morphological, chemical, and large subunit nuclear ribosomal DNA data, International Journal of Plant Sciences, vol. 161 no. 6 (January, 2000), pp. 925-958, University of Chicago Press [doi]  [abs]
  128. Zoller, S; Lutzoni, F; Scheidegger, C, Genetic variation within and among populations of the threatened lichen Lobaria pulmonaria in Switzerland and implications for its conservation., Molecular Ecology, vol. 8 no. 12 (December, 1999), pp. 2049-2059, ISSN 0962-1083 [doi]  [abs]
  129. Lutzoni, F; Barker, FK, Sampling confidence envelopes of phylogenetic trees for combinability testing: a reply to Rodrigo., Systematic Biology, vol. 48 no. 3 (September, 1999), pp. 596-603 [doi]
  130. Fernández, FA; Lutzoni, FM; Huhndorf, SM, Teleomorph-anamorph connections: The new pyrenomycetous genus Carpoligna and its Pleurothecium anamorph, Mycologia, vol. 91 no. 2 (January, 1999), pp. 251-262, JSTOR [doi]  [abs]
  131. Zoller, S; Lutzoni, F; Scheidegger, C, Genetic variability within and among populations of the threatened foliose lichen Lobaria pulmonaria (L.), Molecular Ecology, vol. 8 (1999), pp. 2049-2060, Hoffm. in Switzerland.
  132. Lutzoni, F; Pagel, M, Accelerated evolution as a consequence of transitions to mutualism., Proceedings of the National Academy of Sciences of the United States of America, vol. 94 no. 21 (October, 1997), pp. 11422-11427, ISSN 0027-8424 [11038586], [doi]  [abs]
  133. Lutzoni, FM, Phylogeny of lichen- and non-lichen-forming omphalinoid mushrooms and the utility of testing for combinability among multiple data sets., Systematic Biology, vol. 46 no. 3 (September, 1997), pp. 373-406, ISSN 1063-5157 (journal cover.) [11975328], [doi]  [abs]
  134. Lutzoni, FM; Brodo, IM, A generic redelimitation of the Ionaspis-Hymenelia complex (lichenized ascomycotina), Systematic Botany, vol. 20 no. 3 (January, 1995), pp. 224-258, JSTOR [doi]
  135. Lutzoni, F; Vilgalys, R, ntegration of morphological and molecular datasets in estimating fungal phylogenies, Canadian Journal of Botany, vol. 73(Suppl. 1) (1995), pp. S649-S659
  136. Lutzoni, F; Vilgalys, R, Omphalina (Basidiomycota, Agaricales) as a model system for the study of coevolution in lichenized fungi, Special Issue of Cryptogamic Botany, vol. 5 (1995), pp. 82-97
  137. Lutzoni, FM; Brodo, IM, Proposal to conserve the name Gyalecta suaveolens Fr. (lichenized Ascomycota) with a conserved type, Taxon, vol. 43 no. 4 (December, 1994), pp. 657-659
  138. Lutzoni, FM, Ionaspis alba (Ascomycotina, Hymeneliaceae), a new lichen species from eastern North America, The Bryologist, vol. 97 no. 4 (January, 1994), pp. 393-395, JSTOR [doi]
  139. Grandtner, MM; Lutzoni, F, References on the vegetation of Québec, Excerpta Botanica Sec. B. Bd, vol. 29 no. 1 (1991), pp. 1-24
  140. Sirois, L; Lutzoni, F; Grandtner, MM, Lichens on serpentine and amphibolite on the plateau of Mt. Albert, Gaspesie, Quebec, Canadian Journal of Botany, vol. 66 no. 5 (January, 1988), pp. 851-862, Canadian Science Publishing [doi]  [abs]
  141. Sirois, L; Lutzoni, F; Grandtner, MM, Les lichens sur serpentine et amphibolite du plateau du mont Albert, Gaspésie, Québec, Canadian Journal of Botany, vol. 66 no. 5 (1988), pp. 851-862  [abs]

Papers Submitted

  1. Oono, R., Lutzoni, F., Arnold, A. E., Kaye, L., U’ren, J. M., May, G., Carbone, I., Genetic variation in horizontally transmitted symbionts of pine needles reveals population structure in cryptic species, American Naturalist (2014)
  2. Miadlikowska, J., Kauff, F., Högnabba, F., Oliver, J. C., Molnár, K., Fraker, E., Gaya, E., Hafellner, J., Hofstetter, V., Gueidan, C., Kukwa, M., Lücking, M., Björk, C., Sipman, H. J. M., Burgaz, A. R., Thell, A., Passo, A., Myllys, L., Goward, T., Fernández-Brime, S., Hestmark, G., Lendemer, J., Lumbsch, H. T., Schmull, M., Schoch, C., Sérusiaux, E., Maddison, D. R., Arnold, A. E., Stenroos, S. and Lutzoni, F., Multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 312 genera and 66 families, Molecular Phylogenetics and Evolution (2014)

Book Chapters

  1. Magain, N; Miadlikowska, J; Goffinet, B; Sérusiaux, E; Lutzoni, F, Macroevolution of Specificity in Cyanolichens of the Genus Peltigera Section Polydactylon (Lecanoromycetes, Ascomycota)., Systematic Biology, vol. 66 no. 1 (January, 2017), pp. 74-99 [doi]  [abs]
  2. Lutzoni, F; Vilgalys, R, Integration of morphological and molecular data sets in estimating fungal phytogenies, Canadian Journal of Botany, vol. 73 no. S1 (December, 1995), pp. 649-659, Canadian Science Publishing, ISSN 0008-4026 [Gateway.cgi], [doi]

Book Reviews

  1. Lutzoni, F. [Review] Stefan Ekman in Opera Botanica 127, 148 pp., 1996., The corticolous and lignicolous species of Bacidia and Bacidina in North America, The Bryologist, vol. 102 (1999), pp. 165-166

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