Phylogeny of the European Collema species (Peltigerales, Lecanoromycetes)
Authors/Creators
- 1. Department of Botany, Swedish Museum of Natural History, Stockholm, Sweden
- 2. Unaffiliated, Trångsviken, Sweden
Description
The phylogenetic relationships and morphological diversity within European Collema s. str. species were investigated. A total of 104 new sequences (four molecular markers; mtSSU, b-tub, MCM7, and RPB2 genes) from 28 specimens were generated, and analysed and used for multi-locus phylogenetic analyses. Our results suggest that Collema is only monophyletic if Collema glebulentum is considered part of Leptogium s. str. where it originally was described. This is supported by its paraplectenchymatous thallus. Degelius´ informal Collema "Flaccidum"- and "Nigrescens"-groups are not natural, as the "Flaccidum"-group is nested within the "Nigrescens"-group. Based on our findings, seven currently accepted Collema occur in Europe: C. flaccidum, C. subflaccidum, C. curtisporum, C. furfuraceum, C. nigrescens, C. ryssoleum, and C. subnigrescens. Collema furfuraceum is further non-monophyletic, suggesting a need for taxonomic revision.
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References
- Degelius G (1954) The lichen genus Collema in Europe. Symbolae Botanicae Upsalienses 13: 1–499.
- Degelius G (1974) The lichen genus Collema with special reference to the extra-European species. Symbolae Botanicae Upsalienses 20: 1–215.
- Edgar RC (2004) MUSCLE: Multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 32(5): 1792–1797. https://doi.org/10.1093/nar/gkh340
- Ekman S, Wedin M, Lindblom L, Jørgensen PM (2014) Extended phylogeny and a revised generic classification of the Pannariaceae (Peltigerales, Ascomycota). Lichenologist 46(5): 627–656. https://doi.org/10.1017/S002428291400019X
- Jørgensen PM (2007) Collemataceae. Nordic Lichen Flora 3: 14–45.
- Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M, Sturrock S, Buxton S, Cooper A, Markowitz S, Duran C, Thierer T, Ashton B, Meintjes P, Drummond A (2012) Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 28(12): 1647–1649. https://doi.org/10.1093/bioinformatics/bts199
- Košuthová A, Fernández-Brime S, Westberg M, Wedin M (2016) Collolechia revisited, and a re-assessment of ascus characteristics in Placynthiaceae (Peltigerales, Ascomycota). Lichenologist 48(1): 3–12. https://doi.org/10.1017/S0024282915000432
- Košuthová A, Westberg M, Otálora MAG, Wedin M (2019) Rostania revised: Testing generic delimitations in Collemataceae (Peltigerales, Lecanoromycetes). MycoKeys 47: 17–33. https://doi.org/10.3897/mycokeys.47.32227
- Larsson A (2014) AliView: A fast and lightweight alignment viewer and editor for large datasets. Bioinformatics 30(22): 3276–3278. https://doi.org/10.1093/bioinformatics/btu531
- Liu YJ, Whelen S, Hall BD (1999) Phylogenetic relationships among ascomycetes: Evidence from an RNA polymerse II subunit. Molecular Biology and Evolution 16(12): 1799–1808. https://doi.org/10.1093/oxfordjournals.molbev.a026092
- Miadlikowska J, Lutzoni F (2004) Phylogenetic classification of peltigeralean fungi (Peltigerales, Ascomycota) based on ribosomal RNA small and large subunits. American Journal of Botany 91(3): 449–464. https://doi.org/10.3732/ajb.91.3.449
- 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 (2014) A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 312 genera and 66 families. Molecular Phylogenetics and Evolution 79: 132–168. https://doi.org/10.1016/j.ympev.2014.04.003
- 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). New Orleans, LA, 1–8. https://doi.org/10.1109/GCE.2010.5676129
- Myllys L, Lohtander K, Tehler A (2001) β-Tubulin, ITS and group I intron sequences challenge the species pair concept in Physcia aipolia and P. caesia. Mycologia 93(2): 335–343. https://doi.org/10.1080/00275514.2001.12063165
- Otálora MAG, Aragón G, Molina MC, Martínez I, Lutzoni F (2010) Disentangling the Collema-Leptogium complex through a molecular phylogenetic study of the Collemataceae (Peltigerales, lichen-forming Ascomycota). Mycologia 102(2): 279–290. https://doi.org/10.3852/09-114
- Otálora MAG, Aragón G, Martínez I, Wedin M (2013a) Cardinal characters on a slippery slope-a re-evaluation of phylogeny, character evolution, and evolutionary rates in the jelly lichens (Collemataceae s. str.). Molecular Phylogenetics and Evolution 68(2): 185–198. https://doi.org/10.1016/j.ympev.2013.04.004
- Otálora MAG, Jørgensen PM, Wedin M (2013b) A revised classification of the jelly lichens, Collemataceae. Fungal Diversity 64 [2014]: 275–293. https://doi.org/10.1007/s13225-013-0266-1
- Schmitt I, Crespo A, Divarak PK, Fankhauser JD, Herman-Sackett E, Kalb K, Nelsen MP, Nelsen NA, Rivas-Plata E, Shimp AD, Widhelm T, Lumbsh HT (2009) New primers for promising single-copy genes in fungal phylogenetics and systematics. Persoonia 23(1): 35–40. https://doi.org/10.3767/003158509X470602
- 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
- Thiers B (2018) [Continuously updated] Index Herbariorum: A Global Directory of Public Herbaria and Associated Staff. New York Botanical Garden's Virtual Herbarium. http:// sweetgum.nybg.org/science/ih/
- Wedin M, Wiklund E, Jørgensen PM, Ekman S (2009) Slippery when wet: Phylogeny and character evolution in the gelatinous cyanobacterial lichens (Peltigerales, Ascomycetes). Molecular Phylogenetics and Evolution 53(3): 862–871. https://doi.org/10.1016/j.ympev.2009.08.013
- Weerakoon G, Aptroot A, Wedin M, Ekman E (2018) Leightoniella zeylanensis belongs to the Pannariaceae. Nordic Journal of Botany 36(7): 1–6. https://doi.org/10.1111/njb.01880
- Wiklund E, Wedin M (2003) The phylogenetic relationships of the cyanobacterial lichens in the Lecanorales suborder Peltigerineae. Cladistics 19(5): 419–431. https://doi.org/10.1111/j.1096-0031.2003.tb00312.x
- Zhang Z, Schwartz S, Wagner L, Miller W (2000) A greedy algorithm for aligning DNA sequences. Journal of Computational Biology 7(1–2): 203–214. https://doi.org/10.1089/10665270050081478
- 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