Understanding the evolution of phenotypical characters in the Micarea prasina group (Pilocarpaceae) and descriptions of six new species within the group
Guzow-Krzemińska, Beata; Sérusiaux, Emmanuël; van den Boom, Pieter P.G.et al.
Sérusiaux, Emmanuël ; Université de Liège - ULiège > Département de Biologie, Ecologie et Evolution > Département de Biologie, Ecologie et Evolution
van den Boom, Pieter P.G.
Brand, Maarten
Launis, Annina
Łubek, Anna
Kukwa, Martin
Language :
English
Title :
Understanding the evolution of phenotypical characters in the Micarea prasina group (Pilocarpaceae) and descriptions of six new species within the group
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. Journal of Molecular Biology 215(3): 403–410. https://doi.org/10.1016/S0022-2836(05)80360-2
Andersen HL, Ekman S (2004) Phylogeny of the Micareaceae inferred from nrSSU DNA sequences. Lichenologist 36(1): 27–35. https://doi.org/10.1017/S0024282904013507
Andersen HL, Ekman S (2005) Disintegration of the Micareaceae (lichenized Ascomycota): a molecular phylogeny based on mitochondrial rDNA sequences. Mycological Research 109(1): 21–30. https://doi.org/10.1017/S0953756204001625
Andersen HL (2004) Phylogeny and classification of Micarea. PhD Thesis, University of Bergen, Norway.
Aptroot A, Cáceres MED (2014) New lichen species from termite nests in rainforest in Brazilian Rondonia and adjacent Amazonas. Lichenologist 46(3): 365–372. https://doi.org/10.1017/S0024282913000340
Barton J, Lendemer JC (2014) Micarea micrococca and Micarea prasina, the first assessment of two very similar species in eastern North America. Bryologist 117(3): 223–231. https://doi.org/10.1639/0007-2745-117.3.223
Brand AM, Van Den Boom PPG, Sérusiaux E (2014) Unveiling a surprising diversity in the lichen genus Micarea (Pilocarpaceae) in Réunion (Mascarenes archipelago, Indian Ocean). Lichenologist 46(3): 413–439. https://doi.org/10.1017/S0024282913000911
Brodo IM (1978) Changing concepts regarding chemical diversity in lichens. Lichenologist 10(1): 1–111. https://doi.org/10.1017/S0024282978000031
Brodo IM (1986) Interpreting chemical variation in lichens for systematic purposes. Bryologist 89(2): 132–138. https://doi.org/10.2307/3242753
Buschbom J, Mueller GM (2006) Testing “species pair” hypotheses: Evolutionary processes in the lichen-forming species complex Porpidia flavocoerulescens and Porpidia melinodes. Molecular Biology and Evolution 23(3): 574–586. https://doi.org/10.1093/molbev/msj063
Cáceres MED, Mota DA, de Jesus LS, Aptroot A (2013) The new lichen species Micarea corallothallina from Serra da Jiboia, an Atlantic rainforest enclave in Bahia, NE Brazil. Lichenologist 45(3): 371–373. https://doi.org/10.1017/S0024282912000886
Coppins BJ (1983) A taxonomic study of the lichen genus Micarea in Europe. Bulletin of the British Museum (Natural History), Botany series 11(2): 17–214.
Coppins BJ (2009) Micarea. In: Smith CW, Aptroot A, Coppins BJ, Fletcher A, Gilbert OL, James PW, Wolseley PA (Eds) The Lichens of Great Britain and Ireland. British Lichen Society, London, 583–606.
Coppins BJ, Tønsberg T (2001) A new xanthone-containing Micarea from Northwest Europe and the Pacific Northwest of North America. Lichenologist 33(2): 93–96. https://doi.org/10.1006/lich.2000.0311
Czarnota P. (2007) The lichen genus Micarea (Lecanorales, Ascomycota) in Poland. Polish Botanical Studies 23: 1–199.
Czarnota P, Guzow-Krzemińska B (2010) A phylogenetic study of the Micarea prasina group shows that Micarea micrococca includes three distinct lineages. Lichenologist 42(1): 7–21. https://doi.org/10.1017/S0024282909990211
Divakar PK, Molina MC, Lumbsch HT, Crespo A (2005) Parmelia barrenoae, a new lichen species related to Parmelia sulcata (Parmeliaceae) based on molecular and morphological data. Lichenologist 37(1): 37–46. https://doi.org/10.1017/S0024282904014641
Divakar PK, Crespo A, Blanco O, Lumbsch HT (2006) Phylogenetic significance of morphological characters in the tropical Hypotrachyna clade of parmelioid lichens (Parmeliaceae, Ascomycota). Molecular Phylogenetics and Evolution 40(2): 448–458. https://doi.org/10.1016/j.ympev.2006.03.024
Döring H, Clerc P, Grube M, Wedin M (2000) Mycobiont-specific PCR primers for the amplification of nuclear ITS and LSU rDNA from lichenized ascomycetes. Lichenologist 32(2): 200–204. https://doi.org/10.1006/lich.1999.0250
Elix JA, Jones AJ, Lajide L, Coppins BJ, James PW (1984) 2 new diphenyl ethers and a new depside from the lichen Micarea prasina Fr. Australian Journal of Chemistry 37(11): 2349–2364. https://doi.org/10.1071/CH9842349
Elix JA, Corush J, Lumbsch HT (2009) Triterpene chemosyndromes and subtle morphological characters characterise lineages in the Physcia aipolia group in Australia (Ascomycota). Sys-tematics and Biodiversity 7(4): 479–487. https://doi.org/10.1017/S1477200009990223
Galtier N, Gouy M, Gautier C (1996) SEAVIEW and PHYLO_WIN: Two graphic tools for sequence alignment and molecular phylogeny. Computer Applications in the Biosciences 12(6): 543–548. https://doi.org/10.1093/bioinformatics/12.6.543
Gardes M, Bruns TD (1993) ITS primers with enhanced specificity for basidiomycetes – application to the identification of mycorrhizae and rusts. Molecular Ecology 2(2): 113–118. https://doi.org/10.1111/j.1365-294X.1993.tb00005.x
Gargas A, DePriest PT (1996) A nomenclature for PCR primers with examples from intron-containing SSU rDNA. Mycologia 88(5): 745–748. https://doi.org/10.1080/00275514.1996.12026712
Goffinet B, Miadlikowska J (1999) Peltigera phyllidiosa (Peltigeraceae, Ascomycotina), a new species from the Southern Appalachians corroborated by its sequences. Lichenologist 31(3): 247–256. https://doi.org/10.1006/lich.1998.0201
Gouy M, Guindon S, Gascuel O (2010) SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Molecular Biology and Evolution 27(2): 221–224. https://doi.org/10.1093/molbev/msp259
Guzow-Krzemińska B, Węgrzyn G (2000) Potential use of restriction analysis of PCR-amplified DNA fragments in construction of molecular data-based identification keys of lichens. Mycotaxon 76: 305–313.
Guzow-Krzemińska B, Czarnota P, Łubek A, Kukwa M (2016) Micarea soralifera sp. nov., a new sorediate species in the M. prasina group. Lichenologist 48(3): 161–169. https://doi.org/10.1017/S0024282916000050
Guzow-Krzemińska B, Flakus A, Kosecka M, Jabłońska M, Rodriguez-Flakus P, Kukwa M (2019) New species and new records of lichens from Bolivia. Phytotaxa 397(4): 257–279. https://doi.org/10.11646/phytotaxa.397.4.1
Huelsenbeck JP, Ronquist F (2001) MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17(8): 754–755. https://doi.org/10.1093/bioinformatics/17.8.754
Huneck S, Yoshimura Y (1996) Identification of lichen substances. Springer, Berlin Heidelberg New York, 1–493. https://doi.org/10.1007/978-3-642-85243-5_1
Kantvilas G (2018) Micarea kartana sp. nov. (lichenized Ascomycetes) from Kangaroo Island, South Australia. Swainsona 31: 55–58.
Kroken S, Taylor JW (2001) A gene genealogical approach to recognize phylogenetic species boundaries in the lichenized fungus Letharia. Mycologia 93(1): 38–53. https://doi.org/10.2307/3761604
Lanfear R, Calcott B, Ho SY, Guindon S (2012) PartitionFinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses. Molecular Biology and Evolution, 29(6): 1695–1701. https://doi.org/10.1093/molbev/mss020
Lanfear R, Frandsen PB, Wright AM, Senfeld T, Calcott B (2016) PartitionFinder 2: new methods for selecting partitioned models of evolution for molecular and morphological phylogenetic analyses. Molecular Biology and Evolution 34(3): 772–773. https://doi. org/10.1093/molbev/msw260
Launis A, Pykälä J, van den Boom P, Sérusiaux E, Myllys L (2019a) Four new epiphytic species in the Micarea prasina group from Europe. Lichenologist 51(1): 7–25. https://doi.org/10.1017/S0024282918000555
Launis A, Malícek J, Sérusiaux E, Svensson M, Tsurykau A, Myllys L (2019b) Sharpening species boundaries in the Micarea prasina group with notes on the type species M. prasina. Mycologia https://doi.org/10.1080/00275514.2019.1603044
Leavitt SD, Johnson LA, Goward T, St. Clair LL (2011) Species delimitation in taxonomically difficult lichen-forming fungi: an example from morphologically and chemically diverse Xanthoparmelia (Parmeliaceae) in North America. Molecular Phylogenetics and Evolution 60(3): 317–332. https://doi.org/10.1016/j.ympev.2011.05.012
Lendemer JC, Allen JL, Noell N (2015) The Parmotrema acid test: a look at species delineation in the P. perforatum group 40 y later. Mycologia 107(6): 1120–1129. https://doi.org/10.3852/14-263
Lumbsch HT (1998) The use of metabolic data in the lichenology at the species and subspecific levels. Lichenologist 30(4–5): 357–367. https://doi.org/10.1006/lich.1998.0147
Lumbsch HT, Schmitt I, Barker D, Pagel M (2006) Evolution of micromorphological and chemical characters in the lichen-forming fungal family Pertusariaceae. Biological Journal of the Linnean Society 89(4): 615–626. https://doi.org/10.1111/j.1095-8312.2006.00696.x
Lutsak T, Fernandez-Mendoza F, Nadyeina O, Senkardesler A, Printzen C (2017) Testing the correlation between norstictic acid content and species evolution in the Cetraria aculeata group in Europe. Lichenologist 49(1): 39–56. https://doi.org/10.1017/S0024282916000566
Maddison WP, Maddison DR (2018) Mesquite: a modular system for evolutionary analysis. Version 3.5 http://www.mesquiteproject.org.
McCarthy PM, Elix JA (2016) A new species of Micarea (lichenized Ascomycota, Pilocarpaceae) from alpine Australia. Telopea 19: 31–35. https://doi.org/10.7751/telopea10360
Meyer B, Printzen C (2000). Proposal for a standardized nomenclature and characterization of insoluble lichen pigments. Lichenologist 32(6): 571–583. https://doi.org/10.1006/lich.2000.0294
Miller MA, Pfeiffer W, Schwartz T (2010) Creating the CIPRES Science Gateway for inference of large phylogenetic trees. Proceedings of the Gateway Computing Environments Workshop (GCE), 14 November 2010, New Orleans, 1–8. https://doi.org/10.1109/GCE.2010.5676129
Molina MD, Crespo A, Blanco O, Lumbsch HT, Hawksworth DL (2004) Phylogenetic relationships and species concepts in Parmelia s.str. (Parmeliaceae) inferred from nuclear ITS rDNA and beta-tubulin sequences. Lichenologist 36(1): 37–54. https://doi.org/10.1017/ S0024282904013933
Mosbach K (1964) On the biosynthesis of lichen substances. Part 1. The depside gyrophoric acid. Acta Chemica Scandinavica 18: 329–334. https://doi.org/10.3891/acta.chem.scand.18-0329
Nelsen MP, Gargas A (2008). Phylogenetic distribution and evolution of secondary metabolites in the lichenized fungal genus Lepraria (Lecanorales: Stereocaulaceae). Nova Hedwigia 86(1–2): 115–131. https://doi.org/10.1127/0029-5035/2008/0086-0115
Nelsen MP, Lumbsch HT, Lücking R, Elix JA (2008) Further evidence for the polyphyly of Lepraria (Lecanorales: Stereocaulaceae). Nova Hedwigia 87(3–4): 361–371. https://doi.org/10.1127/0029-5035/2008/0087-0361
Orange A, James PW, White FJ (2001) Microchemical Methods for the Identification of Lichens. British Lichen Society, London, 101 pp.
Ossowska E, Guzow-Krzemińska B, Dudek M, Oset M, Kukwa M (2018) Evaluation of diagnostic chemical and morphological characters in five Parmelia species (Parmeliaceae, lichenized Ascomycota) with special emphasis on the thallus pruinosity. Phytotaxa 383(2): 165–180. https://doi.org/10.11646/phytotaxa.383.2.3
Prieto M, Baloch E, Tehler A, Wedin M (2013) Mazaedium evolution in the Ascomycota (Fungi) and the classification of mazaediate groups of formerly unclear relationship. Cladistics 29(3): 296–308. https://doi.org/10.1111/j.1096-0031.2012.00429.x
Rambaut A (2012) FigTree v1.4.2. http://tree.bio.ed.ac.uk/software/figtree
Rambaut A, Drummond AJ (2007) Tracer v1.6. http://beast.bio.ed.ac.uk
Spribille T, Tuovinen V, Resl P, Vanderpool D, Wolinski H, Aime MC, Schneider K, Staben-theiner E, Toome-Heller M, Thor G, Mayrhofer H, Johannesson H, McCutcheon JP (2016) Basidiomycete yeasts in the cortex of ascomycete macrolichens. Science 353(6298): 488–492. https://doi.org/10.1126/science.aaf8287
Stamatakis A (2014) RAxML Version 8: A tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30(9): 1312–1313. https://doi.org/10.1093/bioinformatics/btu033
Svensson M, Thor G (2011) Micarea capitata, a new bryophilous lichen from Sweden. Lichenologist 43(5): 401–405. https://doi.org/10.1017/S0024282911000338
van den Boom PPG, Coppins BJ (2001) Micarea viridileprosa sp. nov., an overlooked lichen species from Western Europe. Lichenologist 33(2): 87–91. https://doi.org/10.1006/lich.2000.0310
van den Boom PPG, Ertz D (2014) A new species of Micarea (Pilocarpaceae) from Madeira growing on Usnea. Lichenologist 46(3): 295–301. https://doi.org/10.1017/ S0024282913000698
van den Boom PPG, Brand AM, Coppins BJ, Sérusiaux E (2017). Two new species in the Micarea prasina group from Western Europe. Lichenologist 49(1): 13–25. https://doi.org/10.1017/S0024282916000633
White TJ, Bruns T, Lee S, Taylor JW (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innes MA, Gelfand DH, Sninsky JJ, White TJ (Eds) PCR Protocols: a Guide to Methods and Applications. Academic Press, New York, 315−322. https://doi.org/10.1016/B978-0-12-372180-8.50042-1
Zoller S, Scheidegger C, Sperisen C (1999) PCR primers for the amplification of mitochondrial small subunit ribosomal DNA of lichen-forming ascomycetes. Lichenologist 31(5): 511–516. https://doi.org/10.1006/lich.1999.0220