546
Views
2
CrossRef citations to date
0
Altmetric
Original Articles

Phylogeny of Fomitopsis pinicola: a species complex

, , &
Pages 925-938 | Received 26 Aug 2014, Accepted 21 Jun 2016, Published online: 20 Jan 2017

Literature cited

  • Anonymous 1979. List of plant diseases in Taiwan. Republic of China: Plant Protection Society. 404 p.
  • ChenMM. 2002. Forest fungi phytogeography: forest fungi phytogeography of China, North America, and Siberia and international quarantine of tree pathogens. Sacramento, California: Pacific Mushroom Research and Education Center. 469 p.
  • ChoWDShinHD. 2004. List of plant diseases in Korea. 4th ed. Seoul: Korean Society of Plant Pathology. 779 p.
  • DegnanJHSalterLA. 2005. Gene tree distributions under the coalescent process. Evolution 59:24–37, doi:10.1111/j.0014-3820.2005.tb00891.x
  • EdgarRC. 2004. MUSCLE: multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics 5:1–19, doi:10.1186/1471-2105-5-113
  • FlisiñskaZ. 1997. Macromycetes of the jastkowice forest reserve. Acta Mycol 32:303–313, doi:10.5586/am.1997.027
  • FlotJ-F. 2010. SEQPHASE: a web tool for interconverting PHASE input/output files and FASTA sequence alignments. Mol Ecol Resour 10:162–166, doi:10.1111/j.1755-0998.2009.02732.x
  • FriesEM. 1821. Systema mycologicum I. Lundae. 520 p.
  • GilbertsonRLRyvardenL. 1986. North American polypores. Vol. 1. Oslo, Norway: Fungiflora. 387 p.
  • HedgcockGG. 1914. Notes on some diseases of trees in our national forests—IV. Phytopathology 4:181–188.
  • HermanssonJ. 1997. Polyporaceae s. lat. and some other fungi in Pechoro-Ilych Zapovednik, Russia. Windahlia 22:67–79.
  • HögbergNHoldenreiderOStenlidJ. 1999. Population structure of the wood decay fungus Fomitopsis pinicola. Heredity 83:354–360, doi:10.1038/sj.hdy.6885970
  • HuelsenbeckJPRonquistF. 2001. MrBayes: Bayesian inference of phylogeny. Bioinformatics 17:754–755, doi:10.1093/bioinformatics/17.8.754
  • KobayashiT. 2007. Index of fungi inhabiting woody plants in Japan. Host, distribution and literature. Tokyo: Zenkoku-Noson-Kyoiku Kyokai Publishing Co. 1227 p.
  • LeachéADFujitaMK. 2010. Bayesian species delimitation in West African forest geckos (Hemidactylus fasciatus). P Roy Soc B-Biol Sci 277:3071–3077, doi:10.1098/rspb.2010.0662
  • LeavittSDEsslingerTLDivakarPKLumbschHT. 2012a. Miocene and Pliocene dominated diversification of the lichen-forming fungal genus Melanohalea (Parmeliaceae, Ascomycota) and Pleistocene population expansions. BMC Evol Biol 12:176, doi:10.1186/1471-2148-12-176
  • LeavittSDEsslingerTLLumbschHT. 2012b. Neogene-dominated diversification in neotropical montane lichens: dating divergence events in the lichen-forming fungal genus Oropogon (Parmeliaceae). Am J Bot 99:1764–1777, doi:10.3732/ajb.1200146
  • LeavittSDFankhauserJDLeavittDHPorterLDJohnsonLAClairLLS. 2011. Complex patterns of speciation in cosmopolitan “rock posy” lichens—discovering and delimiting cryptic fungal species in the lichen-forming Rhizoplaca melanophthalma species-complex (Lecanoraceae, Ascomycota). Mol Phylogenet Evol 59:587–602, doi:10.1016/j.ympev.2011.03.020
  • Le GacMGiraudT. 2008. Existence of a pattern of reproductive character displacement in Homobasidiomycota but not in Ascomycota. J Evol Biol 21:761–772, doi:10.1111/j.1420-9101.2008.01511.x
  • LegonNWHenriciARobertsPJSpoonerBMWatlingR. 2005. Checklist of the British and Irish Basidiomycota. Kew, UK: Royal Botanic Gardens. 517 p.
  • LibradoPRozasJ. 2009. DnaSP 5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:1451–1452, doi:10.1093/bioinformatics/btp187
  • LiuLPearlDK. 2007. Species trees from gene trees: reconstructing Bayesian posterior distributions of a species phylogeny using estimated gene tree distributions. Syst Biol 56:504–514, doi:10.1080/10635150701429982
  • LloydCG. 1915. Synopsis of the genus Fomes. Mycol Writ 4:209–288.
  • MounceI. 1929. Studies in forest pathology. II. The biology of Fomes pinicola (Fr.) Cooke. Can Dept Agric Bull No. III New Series. 56 p.
  • MounceIMacraeR. 1938. Interfertility phenomena in Fomes pinicola (Fr).Can J Res 16:354–376, doi:10.1139/cjr38c-036
  • MurrillWA. 1908. (Agaricales) Polyporaceae (conclusio). N Am Flora 9:73–131.
  • NylanderJAA. 2004. MrModeltest 2. Uppsala, Sweden: Evolutionary Biology Centre: Program distributed by the author.
  • OverholtsLO. 1915. The Polyporaceae of the middle-western United States. Vol. 3, No. 9. Washington University.
  • PandeARaoVG. 1998. A compendium fungi on legumes from India. Jodhpur, India: Scientific Publishers. 188 p.
  • QuinionesSS. 1980. Notes on the diseases of forest trees in the Philippines. Sylvatrop 5:263–271.
  • RambautA. 2002. Se-Al: sequence alignment editor. 2.0a11 Carbon. Available at http://tree.bio.ed.ac.uk/software/seal/
  • RannalaBYangZ. 2003. Bayes estimation of species divergence times and ancestral population sizes using DNA sequences from multiple loci. Genetics 164:1645–1656.
  • RaupDM. 1978. Principles of paleontology. New York: Macmillan. 481 p.
  • RonquistFHuelsenbeckJTeslenkoM. 2011. Draft MrBayes 3.2 manual: tutorials and model summaries. http://mrbayes.sourceforge.net/manual.php ( accessed 30 May 2013)
  • RyvardenL. 1991. Genera of polypores: nomenclature and taxonomy. Oslo, Norway: Synopsis Fungorum 5. 363 p.
  • RyvardenLStoklandJ. 2008. Fomitopsis ochracea nova species. Oslo, Norway: Synopsis Fungorum 25. 46 p.
  • SaccardoPA. 1888. Sylloge fungorum. Vol. 6. Patavii: Published by the author. 928 p.
  • Schmid-HeckelH. 1988. Pilze in den Berchtesgadener Alpen. Forschungsberichte Nationalpark Berchtesgaden 15:1–136.
  • ServedioMRNoorMA. 2003. The role of reinforcement in speciation: theory and data. Annu Rev Ecol Evol Syst 34:339–364, doi:10.1146/annurev.ecolsys.34.011802.132412
  • SpauldingP. 1961. Foreign diseases of forest trees of the world. Agricultural handbook no. 197. USDA. 361 p.
  • StamatakisA. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22:2688–2690, doi:10.1093/bioinformatics/btl446
  • StephensMDonnellyP. 2003. A comparison of Bayesian methods for haplotype reconstruction from population genotype data. Am J Hum Genet 73:1162–1169, doi:10.1086/379378
  • StephensMSmithNDonnellyP. 2001. A new statistical method for haplotype reconstruction from population data. Am J Hum Genet 68:978–989, doi:10.1086/319501
  • TamuraKPetersonDPetersonNStecherGNeiMKumarS. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739, doi:10.1093/molbev/msr121
  • TaylorDLBrunsTD. 1997. Independent, specialized invasions of ectomycorrhizal mutualism by two nonphotosynthetic orchids. Proc Natl Acad Sci USA 94:4510–4515, doi:10.1073/pnas.94.9.4510
  • TengSC. 1996. Fungi of China. Ithaca, New York: Mycotaxon. 586 p.
  • ThompsonJDHigginsDGGibsonTJ. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignments through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–4680, doi:10.1093/nar/22.22.4673
  • TurelliMBartonNHCoyneJA. 2001. Theory and speciation. Trends Ecol Evol 16:330–343, doi:10.1016/S0169-5347(01)02177-2
  • YangZRannalaB. 2010. Bayesian species delimitation using multilocus sequence data. Proc Natl Acad Sci USA 107:9264–926, doi:10.1073/pnas.0913022107

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.