Publications of Jolanta M. Miadlikowska

Papers Published

  1. U'Ren, JM; Oita, S; Lutzoni, F; Miadlikowska, J; Ball, B; Carbone, I; May, G; Zimmerman, NB; Valle, D; Trouet, V; Arnold, AE, Environmental drivers and cryptic biodiversity hotspots define endophytes in Earth's largest terrestrial biome., Current biology : CB, vol. 34 no. 5 (March, 2024), pp. 1148-1156.e7
  2. Magain, N; Miadlikowska, J; Goffinet, B; Goward, T; Pardo-De la Hoz, CJ; Jüriado, I; Simon, A; Mercado-Díaz, JA; Barlow, T; Moncada, B; Lücking, R; Spielmann, A; Canez, L; Wang, LS; Nelson, P; Wheeler, T; Lutzoni, F; Sérusiaux, E, High species richness in the lichen genus Peltigera (Ascomycota, Lecanoromycetes): 34 species in the dolichorhizoid and scabrosoid clades of section Polydactylon, including 24 new to science, Persoonia: Molecular Phylogeny and Evolution of Fungi, vol. 51 (December, 2023), pp. 1-88
  3. Miadlikowska, J; Magain, N; Medeiros, ID; Pardo-De La Hoz, CJ; Carbone, I; Lagreca, S; Barlow, T; Myllys, L; Schmull, M; Lutzoni, F, Towards a nomenclatural clarification of the Peltigera ponojensis/monticola clade including metagenomic sequencing of type material and the introduction of P. globulata Miadl. & Magain sp. nov., Lichenologist, vol. 55 no. 5 (September, 2023), pp. 315-324
  4. Pardo-De la Hoz, CJ; Magain, N; Piatkowski, B; Cornet, L; Dal Forno, M; Carbone, I; Miadlikowska, J; Lutzoni, F, Ancient Rapid Radiation Explains Most Conflicts Among Gene Trees and Well-Supported Phylogenomic Trees of Nostocalean Cyanobacteria., Systematic biology, vol. 72 no. 3 (June, 2023), pp. 694-712
  5. McMullin, RT; Miadlikowska, J, Two rare Peltigera species new to the Canadian Arctic, P. islandica and P. lyngei, Plant and Fungal Systematics, vol. 67 no. 1 (July, 2022), pp. 17-23
  6. Franco, MEE; Wisecaver, JH; Arnold, AE; Ju, Y-M; Slot, JC; Ahrendt, S; Moore, LP; Eastman, KE; Scott, K; Konkel, Z; Mondo, SJ; Kuo, A; Hayes, RD; Haridas, S; Andreopoulos, B; Riley, R; LaButti, K; Pangilinan, J; Lipzen, A; Amirebrahimi, M; Yan, J; Adam, C; Keymanesh, K; Ng, V; Louie, K; Northen, T; Drula, E; Henrissat, B; Hsieh, H-M; Youens-Clark, K; Lutzoni, F; Miadlikowska, J; Eastwood, DC; Hamelin, RC; Grigoriev, IV; U'Ren, JM, Ecological generalism drives hyperdiversity of secondary metabolite gene clusters in xylarialean endophytes., The New phytologist, vol. 233 no. 3 (February, 2022), pp. 1317-1330
  7. Pardo-De la Hoz, CJ; Medeiros, ID; Gibert, JP; Chagnon, P-L; Magain, N; Miadlikowska, J; Lutzoni, F, Phylogenetic structure of specialization: A new approach that integrates partner availability and phylogenetic diversity to quantify biotic specialization in ecological networks., Ecology and evolution, vol. 12 no. 3 (February, 2022), pp. e8649
  8. Crous, PW; Hernández-Restrepo, M; Schumacher, RK; Cowan, DA; Maggs-Kölling, G; Marais, E; Wingfield, MJ; Yilmaz, N; Adan, OCG; Akulov, A; Duarte, EÁ; Berraf-Tebbal, A; Bulgakov, TS; Carnegie, AJ; de Beer, ZW; Decock, C; Dijksterhuis, J; Duong, TA; Eichmeier, A; Hien, LT; Houbraken, JAMP; Khanh, TN; Liem, NV; Lombard, L; Lutzoni, FM; Miadlikowska, JM; Nel, WJ; Pascoe, IG; Roets, F; Roux, J; Samson, RA; Shen, M; Spetik, M; Thangavel, R; Thanh, HM; Thao, LD; van Nieuwenhuijzen, EJ; Zhang, JQ; Zhang, Y; Zhao, LL; Groenewald, JZ, New and Interesting Fungi. 4., Fungal systematics and evolution, vol. 7 (June, 2021), pp. 255-343
  9. Oita, S; Ibáñez, A; Lutzoni, F; Miadlikowska, J; Geml, J; Lewis, LA; Hom, EFY; Carbone, I; U'Ren, JM; Arnold, AE, Climate and seasonality drive the richness and composition of tropical fungal endophytes at a landscape scale., Communications biology, vol. 4 no. 1 (March, 2021), pp. 313
  10. Stone, DF; Mccune, B; Pardo-De La Hoz, CJ; Magain, N; Miadlikowska, J, Sinuicella denisonii, a new genus and species in the Peltigeraceae from western North America, Lichenologist, vol. 53 no. 2 (March, 2021), pp. 185-192
  11. Medeiros, ID; Mazur, E; Miadlikowska, J; Flakus, A; Rodriguez-Flakus, P; Pardo-De la Hoz, CJ; Cieślak, E; Śliwa, L; Lutzoni, F, Turnover of Lecanoroid Mycobionts and Their Trebouxia Photobionts Along an Elevation Gradient in Bolivia Highlights the Role of Environment in Structuring the Lichen Symbiosis., Frontiers in microbiology, vol. 12 (January, 2021), pp. 774839
  12. McCune, B; Arup, U; Breuss, O; Di Meglio, E; Di Meglio, J; Esslinger, TL; Miadlikowska, J; Miller, AE; Rosentreter, R; Schultz, M; Sheard, J; Tønsberg, T; Walton, J, Biodiversity and ecology of lichens of Kenai Fjords National Park, Alaska, Plant and Fungal Systematics, vol. 65 no. 2 (December, 2020), pp. 586-619
  13. Miadlikowska, J; Magain, N; Buck, WR; Castillo, RV; Barlow, GT; Pardo-De la Hoz, CJ; LaGreca, S; Lutzoni, F, Peltigera hydrophila (Lecanoromycetes, Ascomycota), a new semi-aquatic cyanolichen species from Chile, Plant and Fungal Systematics, vol. 65 no. 1 (June, 2020), pp. 210-218
  14. Magain, N; Goffinet, B; Simon, A; Seelan, JSS; Medeiros, ID; Lutzoni, F; Miadlikowska, J, Peltigera serusiauxii (Lecanoromycetes, Ascomycota), a new species from Papua New Guinea and Malaysia, Plant and Fungal Systematics, vol. 65 no. 1 (June, 2020), pp. 139-146
  15. Magain, N; Spribille, T; Dimeglio, J; Nelson, PR; Miadlikowska, J; Sérusiaux, E, Phylogenetic evidence for an expanded circumscription of Gabura (Arctomiaceae), Lichenologist, vol. 52 no. 1 (January, 2020), pp. 3-15
  16. Flakus, A; Etayo, J; Miadlikowska, J; Lutzoni, F; Kukwa, M; Matura, N; Rodriguez-Flakus, P, Biodiversity assessment of ascomycetes inhabiting Lobariella lichens in Andean cloud forests led to one new family, three new genera and 13 new species of lichenicolous fungi, Plant and Fungal Systematics, vol. 64 no. 2 (December, 2019), pp. 283-344
  17. 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 & evolution, vol. 3 no. 10 (October, 2019), pp. 1430-1437
  18. 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
  19. 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), pp. e00328-e00319
  20. 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
  21. 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
  22. 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
  23. 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
  24. 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
  25. 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
  26. McCune, B; Arup, U; Breuss, O; Di Meglio, ED; Di Meglio, JD; Esslinger, TL; Magain, N; Miadlikowska, J; Miller, AE; Muggia, L; Nelson, PR; Rosentreter, R; Schultz, M; Sheard, JW; Tønsberg, T; Walton, J, Biodiversity and ecology of lichens of Katmai and Lake Clark National Parks and Preserves, Alaska, Mycosphere, vol. 9 no. 4 (January, 2018), pp. 859-930
  27. 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
  28. 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
  29. 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
  30. 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
  31. 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
  32. Gryganskyi, A. P., Humber, R. A., Miadlikowska, J., Smith, M., Wu, S., Rubinstein, N., Voigt, K., Walter, G., Anihchenko, I. M., Vilgalys, R., Molecular Phylogeny of Entomophthoralean Fungi., Molecular Phylogenetics and Evolution, vol. 65 (2017), pp. 682-694
  33. Miadlikowska, J. and Lutzoni, F., Phylogenetic classification of peltigeralean fungi (Peltigerales, Ascomycota) based on ribosomal RNA small and large subunits., American Journal of Botany, vol. 91 (2017), pp. 449–464
  34. Manoharan-Basil, SS; Miadlikowska, J; Goward, T; Andrésson, ÓS; Miao, VPW, Peltigera islandica, a new cyanolichen species in section Peltigera ('P. canina group'), Lichenologist, vol. 48 no. 5 (September, 2016), pp. 451-467, Cambridge University Press (CUP)
  35. 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)
  36. 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
  37. Chagnon, P-L; 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, vol. 181 no. 2 (June, 2016), pp. 633, Springer Nature
  38. 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
  39. 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
  40. Magain, N., Sérusiaux, E., Zhurbenko, M. P., Lutzoni, F., Miadlikowska, J., Disentangling the Peltigera polydactylon species complex by recognizing two new taxa, P. polydactylon subsp. udeghe and P. seneca., Herzogia, vol. 29 (2016), pp. 514-528
  41. Divakar, PK; Crespo, A; Wedin, M; Leavitt, SD; Hawksworth, DL; Myllys, L; McCune, B; Randlane, T; Bjerke, JW; Ohmura, Y; Schmitt, I; Boluda, CG; Alors, D; Roca-Valiente, B; Del-Prado, R; Ruibal, C; Buaruang, K; Núñez-Zapata, J; Amo de Paz, G; Rico, VJ; Molina, MC; Elix, JA; Esslinger, TL; Tronstad, IKK; Lindgren, H; Ertz, D; Gueidan, C; Saag, L; Mark, K; Singh, G; Dal Grande, F; Parnmen, S; Beck, A; Benatti, MN; Blanchon, D; Candan, M; Clerc, P; Goward, T; Grube, M; Hodkinson, BP; Hur, J-S; Kantvilas, G; Kirika, PM; Lendemer, J; Mattsson, J-E; Messuti, MI; Miadlikowska, J; Nelsen, M; Ohlson, JI; Pérez-Ortega, S; Saag, A; Sipman, HJM; Sohrabi, M; Thell, A; Thor, G; Truong, C; Yahr, R; Upreti, DK; Cubas, P; Lumbsch, HT, Evolution of complex symbiotic relationships in a morphologically derived family of lichen-forming fungi., The New phytologist, vol. 208 no. 4 (December, 2015), pp. 1217-1226
  42. 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
  43. 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
  44. Gueidan, C; Hill, DJ; Miadlikowska, J; Lutzoni, F, Pezizomycotina: Lecanoromycetes (January, 2015), pp. 89-120, Springer Berlin Heidelberg
  45. Gueidan, C., Hill, D. J., Miadlikowska, J., Lutzoni, F., Chapter 4. Pezizomycotina:  Lecanoromycetes., in The Mycota, Systematics and Evolution , edited by D. J. McLaughlin and J. W. Spatafora, vol. VIIB (2015), pp. 89–120 , Springer Verlag,, Berlin, Germany
  46. 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
  47. U'Ren, JM; Riddle, JM; Monacell, JT; Carbone, I; Miadlikowska, J; Arnold, AE, Tissue storage and primer selection influence pyrosequencing-based inferences of diversity and community composition of endolichenic and endophytic fungi., Molecular ecology resources, vol. 14 no. 5 (September, 2014), pp. 1032-1048
  48. 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
  49. 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
  50. 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
  51. 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
  52. Liwa, L; Miadlikowska, J; Redelings, BD; Molnar, K; Lutzoni, F, Are widespread morphospecies from the Lecanora dispersa group (lichen-forming Ascomycota) monophyletic?, Bryologist, vol. 115 no. 2 (June, 2012), pp. 265-277, American Bryological and Lichenological Society
  53. 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
  54. McCune, B; Schoch, C; Root, HT; Kageyama, SA; Miadlikowska, J, Geographic, climatic, and chemical differentiation in the Hypogymnia imshaugii species complex (Lecanoromycetes, Parmeliaceae) in North America, Bryologist, vol. 114 no. 3 (September, 2011), pp. 526-544, American Bryological and Lichenological Society
  55. 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
  56. Miadlikowska, J; Schoch, CL; Kageyama, SA; Molnar, K; Lutzoni, F; McCune, B, Hypogymnia phylogeny, including Cavernularia, reveals biogeographic structure, Bryologist, vol. 114 no. 2 (June, 2011), pp. 392-400, American Bryological and Lichenological Society
  57. 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
  58. Sliwa, L., Miadlikowska, J., Redelings, B. D., Molnar, K., Lutzoni, F., Are morphospecies from the Lecanora dispersa group (lichenized Lecanoromycetes, Pezizomycotina) monophyletic?, The Bryologist, vol. 115 (2011), pp. 265–277
  59. 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
  60. U'Ren, J; 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 (2010), pp. 340-353
  61. 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
  62. Lutzoni, F; Miadlikowska, J, Lichens., Current biology : CB, vol. 19 no. 13 (July, 2009), pp. R502-R503
  63. 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
  64. Schoch, CL; Sung, G-H; 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; Fraker, E; Hodkinson, BP; Bonito, G; Groenewald, JZ; Arzanlou, M; de Hoog, GS; Crous, PW; Hewitt, D; Pfister, DH; Peterson, K; Gryzenhout, M; Wingfield, MJ; Aptroot, A; Suh, S-O; Blackwell, M; Hillis, DM; Griffith, GW; Castlebury, LA; Rossman, AY; Lumbsch, HT; Lücking, R; Büdel, B; Rauhut, A; Diederich, P; Ertz, D; Geiser, DM; Hosaka, K; Inderbitzin, P; Kohlmeyer, J; Volkmann-Kohlmeyer, B; Mostert, L; O'Donnell, K; Sipman, H; Rogers, JD; Shoemaker, RA; Sugiyama, J; Summerbell, RC; Untereiner, W; Johnston, PR; Stenroos, S; Zuccaro, A; Dyer, PS; Crittenden, PD; Cole, MS; Hansen, K; Trappe, JM; Yahr, R; Lutzoni, F; Spatafora, JW, The Ascomycota tree of life: a phylum-wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits., Systematic biology, vol. 58 no. 2 (April, 2009), pp. 224-239
  65. Ertz, D; Miadlikowska, J; Lutzoni, F; Dessein, S; Raspé, O; Vigneron, N; Hofstetter, V; Diederich, P, Towards a new classification of the Arthoniales (Ascomycota) based on a three-gene phylogeny focussing on the genus Opegrapha., Mycological research., vol. 113 no. Pt 1 (January, 2009), pp. 141-152
  66. Sérusiaux, E., Goffinet, B., Miadlikowska, J., Vitikainen, O., Taxonomy, phylogeny, and biogeography of the lichen genus Peltigera in Papua New Guinea, Fungal Diversity, vol. 38 (2009), pp. 185-224
  67. Amtoft, A; Lutzoni, F; Miadlikowska, J, Dermatocarpon (Verrucariaceae) in the Ozark Highlands, North America, Bryologist, vol. 111 no. 1 (March, 2008), pp. 1-40, American Bryological and Lichenological Society
  68. Hofstetter, V; Miadlikowska, J; Kauff, F; Lutzoni, F, Phylogenetic comparison of protein-coding versus ribosomal RNA-coding sequence data: a case study of the Lecanoromycetes (Ascomycota)., Molecular phylogenetics and evolution, vol. 44 no. 1 (July, 2007), pp. 412-426
  69. Higgins, KL; Arnold, AE; Miadlikowska, J; Sarvate, SD; Lutzoni, F, Phylogenetic relationships, host affinity, and geographic structure of boreal and arctic endophytes from three major plant lineages., Molecular phylogenetics and evolution, vol. 42 no. 2 (February, 2007), pp. 543-555
  70. Hibbett, DS; Binder, M; Bischoff, JF; Blackwell, M; Cannon, PF; Eriksson, O; Huhndorf, S; James, T; Kirk, PM; Lücking, R; Lumbsch, T; Lutzoni, F; Matheny, PB; McLaughlin, DJ; Powell, MJ; Redhead, S; Schoch, CL; Spatafora, JW; Stalpers, JA; Vilgalys, R; Aime, MC; Aptroot, A; Bauer, R; Begerow, D; Benny, GL; Castlebury, LA; Crous, PW; Dai, YC; Gams, W; Geiser, DM; Griffith, GW; Gueidan, C; Hawksworth, DL; Hestmark, G; Hosaka, K; Humber, RA; Hyde, K; Koljalg, U; Kurtzman, CP; Larsson, KH; Lichtward, R; Longcore, J; Miadlikowska, J; Miller, A; Monclavo, JM; Mozley Standridge, S; Oberwinkler, F; Parmasto, E; Reeb, V; Rogers, JD; Roux, C; Ryvarden, L; Sampaio, JP; Schuessler, A; Sugiyama, J; Thorn, RG; Tibell, L; Untereiner, WA; Walker, C; Wang, Z; Weir, A; Weiss, M; White, M; Winka, K; Yao, YJ; Zhang, N, A higher-level phylogenetic classification of the Fungi, Mycological Research, vol. 111 no. Pt 5 (2007), pp. 509-547
  71. Geiser, DM; Gueidan, C; Miadlikowska, J; Lutzoni, F; Kauff, F; Hofstetter, V; Fraker, E; Schoch, CL; Tibell, L; Untereiner, WA; Aptroot, A, Eurotiomycetes: Eurotiomycetidae and Chaetothyriomycetidae., Mycologia, vol. 98 no. 6 (November, 2006), pp. 1053-1064
  72. Spatafora, JW; Sung, G-H; 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; Schmitt, I; Hosaka, K; Aptroot, A; Roux, C; Miller, AN; Geiser, DM; Hafellner, J; Hestmark, G; Arnold, AE; Büdel, B; Rauhut, A; Hewitt, D; Untereiner, WA; Cole, MS; Scheidegger, C; Schultz, M; Sipman, H; Schoch, CL, A five-gene phylogeny of Pezizomycotina., Mycologia, vol. 98 no. 6 (November, 2006), pp. 1018-1028
  73. 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
  74. James, TY; Kauff, F; Schoch, C; Matheny, PB; Hofstetter, V; Cox, CJ; Celio, G; Gueidan, C; Fraker, E; Miadlikowska, J; Lumbsch, T; Rauhut, A; Reeb, V; Arnold, AE; Amtoft, A; Stajich, JE; Hosaka, K; Sung, GH; Johnson, D; O’Rourke, B; Binder, M; Curtis, JM; Slot, JC; Wang, Z; Wilson, AW; Schüßler, A; Longcore, JE; O’Donnell, K; Mozley Standridge, S; Porter, D; Letcher, PM; Powell, MJ; Taylor, JW; White, MM; Griffith, GW; Davies, DR; Sugiyama, J; Rossman, AY; Rogers, JD; Pfister, DH; Hewitt, D; Hansen, K; Hambleton, S; Shoemaker, RA; Kohlmeyer, J; Volkmann Kohlmeyer, B; Spotts, RA; Serdani, M; Crous, PW; Hughes, KW; Matsuura, K; Langer, E; Langer, G; Untereiner, WA; Lücking, R; Büdel, B; Geiser, DM; Aptroot, A; Buck, WR; Cole, MS; Diederich, P; Printzen, C; Schmitt, I; Schultz, M; Yahr, R; Zavarzin, A; Hibbett, DH; Lutzoni, F; McLaughlin, DJ; Spatafora, JW; Vilgalys, R, Reconstructing the early evolution of the Fungi using a six-gene phylogeny, Nature, vol. 443 no. 7113 (2006), pp. 818-822
  75. 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
  76. 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; Miadlikowska, J; Spatafora, J; Johnson, D; Hambleton, S; Crockett, M; Shoemaker, R; Sung, G-H; Lücking, R; Lumbsch, T; O'Donnell, K; Binder, M; Diederich, P; Ertz, D; Gueidan, C; Hansen, K; Harris, RC; Hosaka, K; Lim, Y-W; Matheny, B; Nishida, H; Pfister, D; Rogers, J; Rossman, A; Schmitt, I; Sipman, H; Stone, J; Sugiyama, J; Yahr, R; Vilgalys, R, Assembling the fungal tree of life: progress, classification, and evolution of subcellular traits., American journal of botany, vol. 91 no. 10 (October, 2004), pp. 1446-1480
  77. 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
  78. Ertz, D; Diederich, P; Miadlikowska, J, The lichenicolous Opegrapha species (Roccellaceae, Ascomycota) with 3-septate ascospores on Pertusaria and Ochrolechia, Botanical Journal of the Linnean Society, vol. 144 no. 2 (February, 2004), pp. 235-241, Oxford University Press (OUP)
  79. 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
  80. Goffinet, B; Miadlikowska, J; Goward, T, Phylogenetic inferences based on nrDNA sequences support five morphospecies within the Peltigera didactyla complex (Lichenized Ascomycota), Bryologist, vol. 106 no. 3 (January, 2003), pp. 349-364, American Bryological and Lichenological Society
  81. Ertz, D; Zhurbenko, M; Diederich, P; Miadlikowska, J, A new species of Plectocarpon (Lichenicolous Roccellaceae, Ascomycota) on Peltigera, Bryologist, vol. 106 no. 3 (January, 2003), pp. 465-467, American Bryological and Lichenological Society
  82. McDonald, T; Miadlikowska, J; Lutzoni, F, The lichen genus Sticta in the Great Smoky Mountains: A phylogenetic study of morphological, chemical, and molecular data, Bryologist, vol. 106 no. 1 (January, 2003), pp. 61-79, American Bryological and Lichenological Society
  83. Goffinet, B., Miadlikowska, J., Goward, T., Phylogenetic inferences support five morphospecies within the morphologically, chemically, and ecologically diverse Peltigera didactyla species complex (lichenized Ascomycota)., The Bryologist, vol. 106 (2003), pp. 349-364
  84. Ertz, D., Zhurbenko, M., Diederich, P., Miadlikowska, J., A new species of Plectocarpon on Peltigera (lichenicolous Roccellaceae, Ascomycota)., The Lichenologist, vol. 106 (2003), pp. 465-467
  85. Miadlikowska, J; McCune, B; Lutzoni, F, Pseudocyphellaria perpetua, a new lichen from western North America, Bryologist, vol. 105 no. 1 (January, 2002), pp. 1-10, American Bryological and Lichenological Society
  86. 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
  87. Goffinet, B; Miadlikowska, J, Peltigera phyllidiosa (Peltigeraceae, ascomycotina), a new species from the Southern Appalachians corroborated by its sequences, Lichenologist, vol. 31 no. 3 (January, 1999), pp. 247-256, Cambridge University Press (CUP)
  88. Hawksworth, DL; Miadlikowska, J, New species of lichenicolous fungi occurring on Peltigera in Ecuador and Europe, Mycological Research, vol. 101 no. 9 (January, 1997), pp. 1127-1134, Elsevier BV
  89. Hawksworth, DL; Mia̧dlikowska, J, Vagnia, a remarkable coelomycete producing a black columnar cirrus on Peltigera in Poland, Lichenologist, vol. 29 no. 1 (January, 1997), pp. 45-49, Cambridge University Press (CUP)
  90. Hawksworth, D. L. and Miadlikowska, J., Vagnia, a remarkable celeomycete producing black columnar cirrus on Peltigera in Poland., The Lichenologist, vol. 29 (1997), pp. 45-49