Duke Herbarium

Publications of Francois M Lutzoni

• Books

  • • Taylor, J. W., Spatafora, J., O’Donnell, K., Lutzoni, F., James, T., Hibbett, D. S., Geiser, D., Bruns, T. D. and Blackwell, M..
    • (2004).
    • The Fungi.
    • Oxford University Press, Oxford, UK.
  • • Lutzoni, F..
    • (2002).
    • Lichens.
    • Oxford University Press, Oxford, UK.
  • • Pagel, M. and Lutzoni, F..
    • (2002).
    • Accounting for phylogenetic uncertainty in comparative studies of evolution and adaptation.
    • Springer Verlag, Berlin, Germany.
  • • Kranner, I., and Lutzoni, F..
    • (1999).
    • Evolutionary consequences of transition to a lichen symbiotic state and physiological adaptation to oxidative damage associated with poikilohydry.
    • Marcel Dekker, New York.

• Papers Published

  • • Geml, J., Kauff, F., Brochmann, C., Lutzoni, F., Laursen, G., Redhead, S.A., and Taylor, D.L..
    • (2012).
    • Frequent circumarctic and rare transequatorial dispersals in the lichenised agaric genus Lichenomphalia (Hygrophoraceae, Basidiomycota).
    • Fungal Biology
    • ,
    • 116
    • ,
    • 388-400.
  • • Prieto, M., Martínez, I., Aragón, G., Gueidan, C. & Lutzoni, F..
    • (2012).
    • Molecular phylogeny of Heteroplacidium, Placidium and related catapyrenioid genera (Verrucariaceae, lichen-forming Ascomycota).
    • American Journal of Botany
    • ,
    • 99
    • ,
    • 23-35.
  • • McDonald, T., Dietrich, F., and Lutzoni, F..
    • (2012).
    • Multiple horizontal gene transfers of ammonium transporters/ammonia permeases from prokaryotes to eukaryotes: toward a new functional and evolutionary classification.
    • Molecular Biology and Evolution
    • ,
    • 29
    • ,
    • 51-60.
  • • Gaya, E., Högnabba, F., Holguin, A., Molnar, K., Fernandez–Brime, S., Stenroos, S., Arup, U., Søchting, U., Van den Boom, P., Lücking, R., Sipman, H. J. M., Lutzoni, F..
    • (2012).
    • Implementing a cumulative supermatrix approach for a comprehensive phylogenetic study of the Teloschistales (Pezizomycotina, Ascomycota).
    • Molecular Phylogenetics and Evolution
    • ,
    • 63
    • ,
    • 374-387.
  • • Hodkinson, B. P., Gottel, N. R., Schadt, C. W., and Lutzoni, F..
    • (2012).
    • Photoautotrophic symbiont and geography are major factors affecting highly-structured and diverse bacterial communities in the lichen microbiome.
    • Environmental Microbiology
    • ,
    • 14
    • ,
    • 147-161.
    • (Special issue entitled "Omics Driven Microbial Ecology”)
  • • Sliwa, L., Miadlikowska, J., Redelings, B. D., Molnar, K., Lutzoni, F..
    • (2012).
    • Are widespread morphospecies from the Lecanora dispersa group (lichen-forming Ascomycota) monophyletic?.
    • The Bryologist
    • ,
    • 115
    • ,
    • 265-277.
  • • Gazis, R., Miadlikowska, J., Lutzoni, F., Arnold, E. and Chaverri, P..
    • (2012).
    • Culture-based study of endophytes associated with rubber trees in Peru reveals a new class of Pezizomycotina: Xylonomycetes.
    • Molecular Phylogenetics and Evolution
    • ,
    • 65
    • ,
    • 294-304.
  • • Thüs, H., Muggia, L., Pérez–Ortega, S., Favero–Longo, S. E., Joneson, S., O’Brien, H., Nelsen, M. P., Duque–Thüs, R., Grube, M., Friedl, T., Brodie, J., Andrew, C. J., Lücking, R., Lutzoni, F., and Gueidan, C..
    • (2011).
    • Revisiting photobiont diversity in the lichen family Verrucariaceae (Ascomycota).
    • European Journal of Phycology
    • ,
    • 46
    • ,
    • 399-415.
  • • Miadlikowska, J., Schoch, C., Kageyama, S., Molnar, K., Lutzoni, F., and McCune, B..
    • (2011).
    • Hypogymnia phylogeny, including Cavernularia, reveals biogeographic structure.
    • The Bryologist
    • ,
    • 114
    • ,
    • 392-400.
  • • Gaya, E., Redelings, B., Navarro-Rosinés, P., Llimona, X., De Cáceres, M., and Lutzoni, F..
    • (2011).
    • Align, or not to align? Resolving species complexes within the Caloplaca saxicola group as a case study.
    • Mycologia
    • ,
    • 103
    • ,
    • 361-378.
    • [web]
  • • Joneson, S., Armaleo, D., and Lutzoni, F..
    • (2011).
    • Fungal and algal gene expression in early developmental stages of lichen symbiosis.
    • Mycologia
    • ,
    • 103
    • ,
    • 291-306.
    • [web]
  • • Hestmark, G., Miadlikowska, J., Kauff, F., Fraker, E., Molnar, K., and Lutzoni, F..
    • (2011).
    • Single origin and subsequent diversification of Central Andean endemic Umbilicaria species.
    • Mycologia
    • ,
    • 103
    • ,
    • 45-56.
    • [web]
  • • Schmull, M., Miadlikowska, J., Pelzer, M., Stocker-Wörgötter, E., Hofstetter, V., Fraker, E., Hodkinson, B. P., Reeb, V., Kukwa, M., Lumbsch, H. T., Kauff, F., and Lutzoni, F..
    • (2011).
    • Phylogenetic affiliations of members of the heterogeneous lichen-forming fungi of the genus Lecidea sensu Zahlbruckner (Lecanoromycetes, Ascomycota).
    • Mycologia
    • ,
    • 103
    • ,
    • 983-1003.
  • • Fernández-Brime, S., Llimona, X., Molnar, K., Stenroos, S., Högnabba, F., Björk, C., Lutzoni, F., and Gaya, E..
    • (2011).
    • Expansion of the Stictidaceae by the addition of the saxicolous lichen-forming genus Ingvariella.
    • Mycologia
    • ,
    • 103
    • ,
    • 755-763.
  • • U'Ren, J., Lutzoni, F., Miadlikowska, J., and Arnold, A. E..
    • (2010).
    • Community analysis reveals close affinities between endophytic and endolichenic fungi in mosses and lichens.
    • Microbial Ecology
    • ,
    • 60
    • ,
    • 340-353.
  • • Otalora, M. A. G., Martinez, I., O’Brien, H., Molina, M. C., Aragon, G., and Lutzoni F..
    • (2010).
    • Multiple origins of high reciprocal symbiotic specificity at an intercontinental spatial scale among gelatinous lichens (Collemataceae, Lecanoromycetes).
    • Molecular Phylogenetics and Evolution
    • ,
    • 56
    • ,
    • 1089-1095.
  • • Prieto, M., Martinez, I., Aragon, G., Otalora, M. A. G., and Lutzoni, F..
    • (2010).
    • Phylogenetic study of Catapyrenium s.str. (Verrucariaceae, lichen-forming Ascomycota) and related genus Placidiopsis.
    • Mycologia
    • ,
    • 102
    • ,
    • 291-304.
  • • Otalora, M. A. G., aragon, G., Molina, M. C., Martinez, I., and Lutzoni, F..
    • (2010).
    • Disentangling the Collema-Leptogium complex through a molecular phylogenetic study of the Collemataceae (Peltigerales, lichen-forming Ascomycota).
    • Mycologia
    • ,
    • 102
    • ,
    • 279-290.
  • • Crespo, A., Kauff, F., Divakar, P. K., del Prado, R., Pérez-Ortega, S., Amo de Paz, G., Ferencova, Z., Blanco, O., Roca-Valiente, B., Núnez-Zapata, J., Cubas, P., Argüello, A., Elix, J. A., Esslinger, T. L., Hawksworth, D. L., Millanes, A., Molina, C., 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, J.-E., Messuti, M. I., Miadlikowska, J., Piercey-Normore, M., Rico, V. J., Sipman, H. J. M., Schmitt, I., Spribille, T., Thell, A., Thor, G., Upreti, D. K., and Lumbsch, H. T..
    • (2010).
    • Phylogenetic generic classification of parmelioid lichens (Parmeliaceae, Ascomycota) based on molecular, morphological, and chemical evidence.
    • Taxon
    • ,
    • 59
    • ,
    • 1735-1753.
  • • Joneson, S., and Lutzoni, F..
    • (2009).
    • Revisiting compatibility and thigmotropism in the lichen symbiosis.
    • Symbiosis
    • ,
    • 47
    • ,
    • 109-115.
  • • O’Brien, H. E., Miadlikowska, J., and Lutzoni, F..
    • (2009).
    • Assessing reproductive isolation in highly diverse communities of the lichen-forming fungus Peltigera.
    • Evolution
    • ,
    • 63
    • ,
    • 2076-2086.
  • • Hodkinson, B. P. and Lutzoni, F..
    • (2009).
    • A microbiotic survey of lichen-associated bacteria reveals a new lineage from the Rhizobiales.
    • Symbiosis
    • ,
    • 49
    • ,
    • 163-180.
  • • Lutzoni, F. and Miadlikowska, J..
    • (2009).
    • Lichens.
    • Current Biology
    • ,
    • 19
    • ,
    • R502-R503.
  • • Ertz, D., Miadlikowska, J., Lutzoni, F., Dessein, S., Raspé, O., Vigneron, N., Hofstetter, V., Diederich, P..
    • (2009).
    • Towards a new classification of the Arthoniales (Ascomycota) based on a three-gene phylogeny focusing on the genus Opegrapha.
    • Mycological Research
    • ,
    • 113
    • ,
    • 141-152.
  • • Schoch, C. L., G.-H. Sung, F. López-Giráldez, J. P. Townsend, J. Miadlikowska, V. Hofstetter, B. Robbertse, P. B. Matheny, F. Kauff, Z. Wang, C. Gueidan, R. M. Andrie, K. Trippe, L. M. Ciufetti, A. Wynns, E. Fraker, B. P. Hodkinson, G. Bonito, R. Yahr, J. Z. Groenewald, M. Arzanlou, G. S. de Hoog, P. W. Crous, D. Hewitt, D. H. Pfister, K. Peterson, M. Gryzenhout, M. J. Wingfield, A. Aptroot, S.-O. Suh, M. Blackwell, D. M. Hillis, G. W. Griffith, L. A. Castlebury, A. Y. Rossman, H. T. Lumbsch, R. Lücking, B. Büdel, A. Rauhut, P. Diederich, D. Ertz, D. M. Geiser, K. Hosaka, P. Inderbitzin, J. Kohlmeyer, B. Volkmann-Kohlmeyer, L. Mostert, K. O’Donnell, H. Sipman, J. D. Rogers, R. A. Shoemaker, J. Sugiyama, R. C. Summerbell, W. Untereiner, P. Johnston, S. Stenroos, A. Zuccaro, P. Dyer, P. Crittenden, M. S. Cole, K. Hansen, J. M. Trappe , F. Lutzoni and J. W. Spatafora.
    • (2009).
    • The Ascomycota tree of life: A phylum wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits.
    • Systematic Biology
    • ,
    • 58
    • ,
    • 224-239.
  • • Gueidan, C., Savic, S., Thüs, H., Roux, C., Keller, C., Tibell, L., Pietro, M., Heidmarsson, S., Breuss, O., Orange, A., Fröberg, L., Amtoft-Wynns, A., Navarro-Rosinés, P., Kristinsson, H., Krzewicka, B., Pykälä, J., Grube, M., Lutzoni, F..
    • (2009).
    • Generic classification of the Verrucariaceae (Ascomycota) based on molecular and morphological evidence: recent progress and remaining challenges.
    • Taxon
    • ,
    • 58
    • ,
    • 184-208.
  • • Arnold, A. E., Miadlikowska, J., Higgins, K. L., Sarvate, S. D., Gugger, P., Way, A., Hofstetter, V., Kauff, F., Lutzoni, F..
    • (2009).
    • A phylogenetic estimation of trophic transition networks for ascomycetous fungi: Are lichens cradles of symbiotrophic fungal diversification?.
    • Systematic Biology
    • ,
    • 58
    • ,
    • 283-297.
  • • Ruibal, C., Gueidan, C., Selbmann, L., Gorbushina, A., Crous, P. W., Groenewald, J. Z., Muggia, L., Grube, M., Isola, D., Schoch, C. L., Staley, J. T., Lutzoni, F., and de Hoog, G. S..
    • (2009).
    • Phylogeny of rock-inhabiting fungi related to Dothideomycetes.
    • Studies in Mycology
    • ,
    • 64
    • ,
    • 123-133.
  • • McLaughlin, D. J., Hibbett, D. S., Lutzoni, F., Spatafora, J. W., and Vilgalys, R..
    • (2009).
    • The search for the fungal tree of life.
    • Trends in Microbiology
    • ,
    • 17
    • ,
    • 488-497.
  • • Gaya, E., Navarro-Rosinés, P., Llimona, X., Hladun, N. and Lutzoni, F..
    • (2008).
    • Phylogenetic reassessment of the Teloschistaceae (lichen-forming Ascomycota, Lecanoromycetes)..
    • Mycological Research
    • ,
    • 112
    • ,
    • 528-546.
  • • Gueidan, C., Ruibal Villasenor, C., de Hoog, S., Gorbushina, A., Untereiner, W. A., Lutzoni, F..
    • (2008).
    • An extremotolerant rock-inhabiting ancestor for mutualistic and pathogen-rich fungal lineages.
    • Studies in Mycology
    • ,
    • 61
    • ,
    • 111-119.
  • • Amtoft, A., Lutzoni, F. and Miadlikowska, J..
    • (2008).
    • Dermatocarpon (Verrucariaceae) in the Ozark Highlands, North America.
    • The Bryologist
    • ,
    • 111
    • ,
    • 1-40.
  • • Otalora, M. A. G., Martinez, I., Molina, C., Aragon, G., and Lutzoni, F..
    • (2008).
    • Phylogenetic relationships and taxonomy of the Leptogium lichenoides group (Collemataceae, Ascomycota) in Europe.
    • Taxon
    • ,
    • 57
    • ,
    • 907-921.
  • • Savic, S., Tibell, L., Gueidan, C., and Lutzoni, F..
    • (2008).
    • Molecular phylogeny and systematics of Polyblastia (Verrucariaceae, Eurotiomycetes) and allied genera.
    • Mycological Research
    • ,
    • 112
    • ,
    • 1307-1318.
  • • Hibbett, D. S., Binder, M., Bischoff, J. F., Blackwell, M., Cannon, P. F., Eriksson, O., Huhndorf, S., James, T., Kirk, P. M., Lücking, R., Lumbsch, T., Lutzoni, F., Matheny, P. B., McLaughlin, D. J., Powell, M. J., Redhead, S., Schoch, C. L., Spatafora, J. W., Stalpers, J. A., Vilgalys, R., Aime, M. C., Aptroot, A., Bauer, R., Begerow, D., Benny, G. L., Castlebury, L. A., Crous, P. W., Dai, Y.-C., Gams, W., Geiser, D. M., Griffith, G. W., Gueidan, C., Hawksworth, D. L., Hestmark, G., Hosaka, K., Humber, R. A., Hyde, K., Koljalg, U., Kurtzman, C. P., Larsson, K.-H., Lichtward, R., Longcore, J., Miadlikowska, J., Miller, A., Monclavo, J.-M., Mozley-Standridge, S., Oberwinkler, F., Parmasto, E., Reeb, V., Rogers, J. D., Roux, C., Ryvarden, L., Sampaio, J. P., Schuessler, A., Sugiyama, J., Thorn, R. G., Tibell, L., Untereiner, W. A., Walker, C., Wang, Z., Weir, A., Weiss, M., White, M., Winka, K., Yao, Y.-J., Zhang, N..
    • (2007).
    • A higher-level phylogenetic classification of the Fungi.
    • Mycological Research
    • ,
    • 111
    • ,
    • 509-547.
  • • Litaker, R. W., Vandersea, M. W., Kibler, S. R., Reece, K. S., Stokes, N. A., Lutzoni, F. M., Yonish, B. A., West, M. A., Black, M. N. D., and Tester, P. A..
    • (2007).
    • Recognizing dinoglagellate species using ITS rDNA sequences.
    • Journal of Phycology
    • ,
    • 43
    • ,
    • 344-355.
  • • Gueidan, C., Roux, C., and Lutzoni, F..
    • (2007).
    • Using a multigene analysis to assess generic delineation and character evolution in the Verrucariaceae (Verrucariales, Ascomycota)..
    • Mycological Research
    • ,
    • 110
    • ,
    • 1147-1170.
  • • Higgins, K. L., Arnold, A. E., Miadlikowska, J. M., Sarvate, S. D., and Lutzoni, F..
    • (2007).
    • Phylogenetic relationships, host affinity, and geographic structure of boreal and arctic endophytes from three major plant lineages.
    • Molecular Phylogenetics and Evolution
    • ,
    • 42
    • ,
    • 543-555.
  • • Arnold, A. E., Henk, D. A., Eells, R. L., Lutzoni, F. and Vilgalys, R..
    • (2007).
    • Diversity and phylogenic affinities of foliar fungal endophytes in loblolly pine inferred by culturing and environmental PCR.
    • Mycologia
    • ,
    • 99
    • ,
    • 185-206.
  • • Kauff, F., Cox, C., and Lutzoni, F..
    • (2007).
    • WASABI: An Automated Sequence Processing System for Multi-Gene Phylogenies.
    • Systematic Biology
    • ,
    • 56
    • ,
    • 523-531.
  • • Arnold, A. E. and Lutzoni F..
    • (2007).
    • Diversity and host range of foliar fungal endophytes: Are tropical leaves biodiversity hotspots?.
    • Ecology
    • ,
    • 88
    • ,
    • 541-549.
  • • Reeb, V., Haugen, P., Bhattacharya, D. and Lutzoni, F..
    • (2007).
    • Evolution of Pleopsidium (lichenized Ascomycota) S943 group I introns and the phylogeography of an intron-encoded putative homing endonuclease.
    • Journal of Molecular Evolution
    • ,
    • 64
    • ,
    • 285-298.
  • • Hofstetter, V., Miadlikowska, J., Kauff, F., and Lutzoni, F..
    • (2007).
    • Phylogenetic comparison of protein-coding versus ribosomal RNA-coding sequence data: A case study of the Lecanoromycetes (Ascomycota)..
    • Molecular Phylogenetics and Evolution
    • ,
    • 44
    • ,
    • 412-426.
  • • Rydholm, C., Dyer, P. S., and Lutzoni, F..
    • (2007).
    • DNA sequence characterization and molecular evolution of MAT1 and MAT2 mating-type loci of the self-compatible ascomycete mold Neosartorya fischeri..
    • Eukaryotic Cell
    • ,
    • 6
    • ,
    • 868-874.
  • • Fernández, F. A., Miller, A. N., Huhndorf, S. M., Lutzoni, F. M., and Zoller, S..
    • (2006).
    • Systematics of the genus Chaetosphaeria and its allied genera: morphological and phylogenetic diversity in north temperate and neotropical taxa.
    • Mycologia
    • ,
    • 98
    • ,
    • 121-130.
  • • Rydholm, C., Szakacs, G., and Lutzoni, F..
    • (2006).
    • Low genetic variation and no detectable population structure in Aspergillus fumigatus compared to the closely related Neosartorya species.
    • Eukaryotic Cell
    • ,
    • 5
    • ,
    • 650-657.
  • • James, T. Y., Kauff, F., Schoch, C., Matheny, P. B., Hofstetter, V., Cox, C. J., Celio, G., Gueidan, C., Fraker, E., Miadlikowska, J., Lumbsch, T., Rauhut, A., Reeb, V., Arnold, A. E., Amtoft, A., Stajich, J. E., Hosaka, K., Sung, G.-H., Johnson, D., O’Rourke, B., Binder, M., Curtis, J. M., Slot, J. C., Wang, Z., Wilson, A. W., Schüßler, A., Longcore, J. E., O’Donnell, K., Mozley-Standridge, S., Porter, D., Letcher, P. M., Powell, M. J., Taylor, J. W., White, M. M., Griffith, G. W., Davies, D. R., Sugiyama, J., Rossman, A. Y., Rogers, J. D., Pfister, D. H., Hewitt, D., Hansen, K., Hambleton, S., Shoemaker, R. A., Kohlmeyer, J., Volkmann-Kohlmeyer, B., Spotts, R. A., Serdani, M., Crous, P. W., Hughes, K. W., Matsuura, K., Langer, E., Langer, G., Untereiner, W. A., Lücking, R., Büdel, B., Geiser, D. M., Aptroot, A., Buck, W. R., Cole, M. S., Diederich, P., Printzen, C., Schmitt, I., Schultz, M., Yahr, R., Zavarzin, A., Hibbett, D. H., Lutzoni, F., McLaughlin, D. J., Spatafora, J. W., Vilgalys, R..
    • (2006).
    • Reconstructing the early evolution of the Fungi using a six-gene phylogeny.
    • Nature
    • ,
    • 443
    • ,
    • 818-822.
  • • Miadlikowska, J., Kauff, F., Hofstetter, V., Fraker, E., Grube, M., Hafellner, J., Reeb, V., Hodkinson, B. P., Kukwa, M., Lücking, R., Hestmark, G., Otalora, M. A. G., Rauhut, A., Büdel, B., Scheidegger, C., Timdal, I., Stenroos, S., Brodo, I., Perlmutter, G., Ertz, D., Diederich, P., Lendemer, J. C., Tripp, E., Yahr, R., May, P., Gueidan, C., Arnold, A. E., Robertson, C., and Lutzoni, F..
    • (2006).
    • New insights into classification and evolution of the Lecanoromycetes (Pezizomycotina, Ascomycota) from phylogenetic analyses of three ribosomal RNA- and two protein-coding genes.
    • Mycologia
    • ,
    • 98
    • ,
    • 1090-1103.
  • • Geiser, D. M., Gueidan, Miadlikowska, J., Kauff, F., Hofstetter, V., Fraker, E., Schoch, C. L., Tibell, L., Untereiner, W. A., Aptroot, A., Lutzoni, F..
    • (2006).
    • Eurotiomycetes: Eurotiomycetidae and Chaetothyriomycetidae.
    • Mycologia
    • ,
    • 98
    • ,
    • 1055-1066.
  • • Spatafora, J. W., Sung, G.-H., Johnson, D., O’Rourke, B., Serdani, M., Spotts, R., Lutzoni, F., Hofstetter, V., Aptroot, A., Roux, C., Miller, A., Geiser, D., Hafellner, J., Hestmark, G., Arnold, A. E., Büdel, B., Rauhut, A., Untereiner, W. A., Cole, M. S., Scheidegger, C., Schultz, M., Sipman, H., Schoch, C..
    • (2006).
    • A five-gene phylogeny of Pezizomycotina.
    • Mycologia
    • ,
    • 98
    • ,
    • 1020-1030.
  • • Bhattacharya, D., Reeb, V., Simon, D., and Lutzoni, F..
    • (2005).
    • Phylogenetic analyses suggest reverse splicing spread of group I introns in fungal ribosomal DNA.
    • BMC Evolutionary Biology
    • ,
    • 5
    • (68)
    • .
  • • Paoletti, M., Rydholm, C., Schwier, E., Anderson, M. J., Szakacs, G., Lutzoni, F., Debeaupuis, J.-P, Latgé, J.-P., Denning, D. W., Dyer, P. S..
    • (2005).
    • Evidence for sexuality in the opportunistic fungal pathogen Aspergillus fumigatus..
    • Current Biology
    • ,
    • 15
    • ,
    • 1242-1248.
  • • O’Brien, H., Miadlikowska, J., and Lutzoni, F..
    • (2005).
    • Assessing host specialization in symbiotic Cyanobacteria associated with four closely related species of the lichen fungus Peltigera.
    • European Journal of Phycology
    • ,
    • 40
    • ,
    • 363-378.
  • • Miadlikowska, J. and Lutzoni, F..
    • (2004).
    • Phylogenetic classification of peltigeralean fungi (Peltigerales, Ascomycota) based on ribosomal RNA small and large subunits.
    • American Journal of Botany
    • ,
    • 91
    • ,
    • 449-464.
  • • Haugen, P., Reeb, V., Lutzoni, F., Bhattacharya, D..
    • (2004).
    • The evolution of homing endonuclease genes and group I introns in nuclear rDNA..
    • Molecular Biology and Evolution
    • ,
    • 21
    • ,
    • 105-116.
  • • Reeb, V., Lutzoni, F., and Roux, C.
    • (2004).
    • Contribution of RPB2 to multilocus phylogenetic studies of the Pezizomycotina (euascomycetes, Fungi) with special emphasis on the lichen-forming Acarosporaceae and evolution of polyspory.
    • Molecular Phylogenetics and Evolution
    • ,
    • 32
    • ,
    • 1036-1060.
  • • Lutzoni, F., Kauff, F., Cox, C., McLaughlin, D., Celio, G., Dentinger, B., Padamsee, M., Hibbett, D., James, T., Baloch, E., Grube, M., Reeb, V., Hofstetter, V., Shcoch, C., Arnold, A. E., Miadlikowska, J., Spatafora, J., Johnson, D., Hambleton, S., et al.
    • (2004).
    • Assembling the fungal tree of life: Progress, classification, and evolution of subcellular traits.
    • American Journal of Botany
    • ,
    • 91
    • ,
    • 1446-1480.
  • • Alfaro, M, Zoller, S, and Lutzoni, F..
    • (2003).
    • 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
    • ,
    • 20
    • ,
    • 255-266.
  • • McDonald, T., Miadlikowska, J., and Lutzoni, F..
    • (2003).
    • The lichen genus Sticta in the Great Smoky Mountains: A phylogenetic study of morphological, chemical, and molecular data.
    • The Bryologist
    • ,
    • 106
    • ,
    • 61-79.
  • • Gaya, E., Lutzoni, F., Zoller, S., and Navarro-Rosinés, P..
    • (2003).
    • Phylogenetic study of Fulgensia and allied Caloplaca, and Xanthoria species (Teloschistaceae, lichen-forming Ascomycota).
    • American Journal of Botany
    • ,
    • 90
    • ,
    • 1095-1103.
  • • Zoller, S., and Lutzoni, F..
    • (2003).
    • Slow algae, fast fungi: Exceptionally high nucleotide substitution rate differences between lichenized fungi Omphalina and their symbiotic green algae Coccomyxa.
    • Molecular Phylogenetics and Evolution
    • ,
    • 29
    • ,
    • 629-640.
  • • Søchting, U. and Lutzoni, F..
    • (2003).
    • Molecular phylogenetic studies at the generic boundary between the lichen-forming fungi Caloplaca and Xanthoria (Ascomycota, Teloschistaceae).
    • Mycological Research
    • ,
    • 107
    • ,
    • 1266-1276.
  • • Miadlikowska, J., Lutzoni, F., Goward, T., Zoller, S. and Posada, D..
    • (2003).
    • New approach to an old problem: Incorporating signal from gap-rich regions of ITS and nrDNA large subunit into phylogenetic analyses to resolve the Peltigera canina species complex.
    • Mycologia
    • ,
    • 95
    • ,
    • 1181-1203.
  • • Redhead, SA, Lutzoni, F, Moncalvo, J-M, and Vilgalys, R..
    • (2002).
    • Phylogeny of agarics: partial systematics systematics solutions for core omphalinoid genera in the Agaricales (euagarics)..
    • Mycotaxon
    • ,
    • 83
    • ,
    • 19-57.
  • • Miadlikowska, J., McCune, B., and Lutzoni, F..
    • (2002).
    • Pseudocyphellaria perpetua, a new lichen from Western North America.
    • The Bryologist
    • ,
    • 105
    • ,
    • 1-10.
  • • Redhead, SA, Moncalvo, J-M, Vilgalys, R and Lutzoni, F.
    • (2002).
    • Phylogeny of agarics: partial systematics solutions for bryophilous omphalinoid agarics outside of the Agaricales (Euagarics).
    • Mycotaxon
    • ,
    • 82
    • ,
    • 151-168.
  • • Barker, F.K. and Lutzoni, F..
    • (2002).
    • The utility of the incongruence length difference test..
    • Systematic Biology
    • ,
    • 51
    • ,
    • 625-637.
  • • Kauff, F. and Lutzoni, F..
    • (2002).
    • 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
    • ,
    • 25
    • ,
    • 138-156.
  • • O'Donnell, K., Lutzoni, F., Ward, T., and Benny G..
    • (2001).
    • Evolutionary relationships among mucoralean fungi (Zygomycota): Evidence for family polyphyly on a large scale.
    • Mycologia
    • ,
    • 93
    • ,
    • 286-296.
  • • F.M. Lutzoni, M. Pagel, and V. Reeb.
    • (2001).
    • Major fungal lineages are derived from lichen symbiotic ancestors.
    • Nature
    • ,
    • 411
    • ,
    • 937-940.
  • • Moncalvo, J-M., Lutzoni, F.M., Rehner, S.A., Johnson, J., and Vilgalys, R..
    • (2000).
    • Phylogenetic relationships of agaric fungi based on nuclear large subunit ribosomal.
    • Systematic Biology
    • ,
    • 49
    • ,
    • 278-305.
  • • Wu, Q-X., Mueller, G.M., Lutzoni F.M., Huang, Y-Q. and Guo, S-Y..
    • (2000).
    • Phylogenetic and biogeographic relationships of eastern Asain and eastern North American disjunct Suillus species (Fungi)as inferred from ITS sequences of nuclear ribosomal RNA ITS sequences.
    • Molecular Phylogenetics and Evolution
    • ,
    • 17
    • ,
    • 37-47.
  • • Miadlikowska, J., and Lutzoni, F..
    • (2000).
    • Phylogenetic revision of the genus Peltigera (lichen-forming ascomycetes) based on morphological, chemical, and large subunit nuclear ribosomal DNA data.
    • International Joukrnal of Plant Sciences
    • ,
    • 161
    • ,
    • 925-958.
  • • F.M. Lutzoni, Wagner, P., Reeb, V., and Zoller, S..
    • (2000).
    • Integrating ambiguously aligned regions of DNA sequences in phylogenetic analyses without violating positional homology.
    • Systematic Biology
    • ,
    • 49
    • ,
    • 628-651.
  • • Bhattacharya, D., Lutzoni, F., Reeb, V., Simon, D., Nason, J., Fernandez, F..
    • (2000).
    • Widespread occurrence of spliceosomal introns in the rDNA genes of ascomycetes.
    • Molecular Biology and Evolution
    • ,
    • 17
    • ,
    • 1971-1984.
  • • Zoller, S., Lutzoni F., and Scheidegger, C..
    • (1999).
    • Genetic variability within and among populations of the threatened foliose lichen Lobaria pulmonaria (L.).
    • Molecular Ecology
    • ,
    • 8
    • ,
    • 2049-2060.
    • Hoffm. in Switzerland..
  • • Lutzoni, F., and Barker, F. K.
    • (1999).
    • Sampling confidence envelopes of phylogenetic trees for combinability testing: A reply to Rodrigo.
    • Systematic Biology
    • ,
    • 48
    • ,
    • 596-603.
  • • Fernandez, A., F. Lutzoni and S. M. Huhndorf.
    • (1999).
    • Teleomorph-anamorph connections: the new pyrenomycetous genus Carpoligna and its Pleurothecium anamorph.
    • Mycologia
    • ,
    • 91
    • ,
    • 251-262.
  • • Lutzoni, F., and Pagel, M.
    • (1997).
    • Accelerated evolution as a consequence of transitions to mutualism.
    • Proc. Natl. Acad. Sci
    • ,
    • 94
    • ,
    • 11422-11427.
  • • Lutzoni, F.
    • (1997).
    • Phylogeny of lichen- and non lichen-forming omphalinoid mushrooms and the utility of testing for combinability among multiple data sets.
    • Systematic Biology
    • ,
    • 46
    • ,
    • 373-406.
    • (journal cover)
  • • Lutzoni, F., and Vilgalys, R.
    • (1995b).
    • Omphalina (Basidiomycota, Agaricales) as a model system for the study of coevolution in lichenized fungi.
    • Special Issue of Cryptogamic Botany
    • ,
    • 5
    • ,
    • 82-97.
  • • Lutzoni, F., and Brodo, I. M.
    • (1995).
    • A generic redelimitation of the Ionaspis-Hymenelia complex (lichenized Ascomycotina).
    • Systematic Botany
    • ,
    • 20
    • ,
    • 224-258.
  • • Lutzoni, F., and Vilgalys, R.
    • (1995a).
    • ntegration of morphological and molecular datasets in estimating fungal phylogenies.
    • Canadian Journal of Botany
    • ,
    • 73(Suppl. 1)
    • ,
    • S649-S659.
  • • Lutzoni, F.
    • (1994).
    • Ionaspis alba (Ascomycotina, Hymeneliaceae), a new lichen species from eastern North America.
    • The Bryologist
    • ,
    • 97
    • (4)
    • ,
    • 393-395.
  • • Lutzoni, F. M. and Brodo, I. M.
    • (1994).
    • Proposal to conserve the name Gyalecta suaveolens Fr. (lichenized Ascomycota) with a conserved type.
    • Taxon
    • ,
    • 43
    • ,
    • 657-659.
  • • Grandtner, M. M. and Lutzoni, F.
    • (1991).
    • References on the vegetation of Québec.
    • Excerpta Botanica Sec. B. Bd
    • ,
    • 29
    • (1)
    • ,
    • 1-24.
  • • Sirois, L., Lutzoni, F. and Grandtner, M. M.
    • (1988).
    • Les lichens sur serpentine et amphibolite du plateau du mont Albert, Gaspésie, Québec.
    • Canadian Journal of Botany
    • ,
    • 66
    • ,
    • 851-862.

• Papers Accepted

  • • Fernández-Brime, S., Llimona, X., Lutzoni, F., and Gaya, E..
    • (2013).
    • Phylogenetic study of Diploschistes (Graphidaceae, Ostropales, lichen-forming Ascomycota), based on morphological, chemical and molecular data.
    • Taxon
    • .
  • • O’Brien, H. E., Miadlikowska, J. and Lutzoni, F..
    • (2013).
    • Assessing population structure and host specialization in lichenized cyanobacteria.
    • New Phytologist
    • .

• Papers Submitted

  • • McDonald, T. R., Dietrich, F. S., and Lutzoni, F..
    • (2013).
    • High-throughput genome sequencing of lichenizing fungi to assess gene loss in the ammonium transporters/ammonia permeases gene family.
    • BMC Genomics
    • .
  • • McDonald, T. R., Gaya, E, and Lutzoni F..
    • (2013).
    • Twenty-five aposymbiotic cultures of lichenizing fungi available for experimental studies on symbiotic systems.
    • Symbiosis
    • .
  • • Hodkinson, B. P., Allen, J. L., Forrest, L., Goffinet, B., Sérusiaux, E., Andrésson, Ó. S., Miao, V., Bellenger, J.-P., Lutzoni, F..
    • (2013).
    • Lichen-symbiotic Cyanobacteria have an alternative vanadium-dependent nitrogen fixation system.
    • New Phytologist
    • .

• Book Chapters

  • • Gueidan, C., Hill, D. J., Miadlikowska, J., and Lutzoni, F..
    • (2013).
    • Pezizomycotina: Lecanoromycetes.
    • In D. J. McLaughlin and J. W. Spatafora (Eds.),
    • Volume VII of The Mycota Part B
    • Berlin, Germany:
    • Springer Verlag.

• Book Reviews

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