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Tokyo Office, TechnoSuruga Co. Ltd., Ogawamachi Kita Building 4F, Kanda Ogawamachi 1-8-3, Chiyoda-ku, Tokyo 101-0052, Japan
Kentaro Hosaka
Department of Botany, The Field Museum, 1400 S. Lake Shore Drive, Chicago, Illinois 60605-2496
Sung-Oui Suh
Department of Biological Sciences, Louisiana State University, Baton Rouge, Louisiana 70803
| ABSTRACT |
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The early diverging Ascomycota lineage, detected primarily from nSSU rDNA sequence-based phylogenetic analyses, includes enigmatic key taxa important to an understanding of the phylogeny and evolution of higher fungi. At the moment six representative genera of early diverging ascomycetes (i.e. Taphrina, Protomyces, Saitoella, Schizosaccharomyces, Pneumocystis and Neolecta) have been assigned to "Archiascomycetes" sensu Nishida and Sugiyama (1994)
or the subphylum "Taphrinomycotina" sensu Eriksson and Winka (1997)
. The group includes fungi that are ecologically and morphologically diverse, and it is difficult therefore to define the group based on common phenotypic characters. Bayesian analyses of nSSU rDNA or combined nSSU and nLSU rDNA sequences supported previously published Ascomycota frameworks that consist of three major lineages (i.e. a group of early diverging Ascomycota [Taphrinomycotina], Saccharomycotina and Pezizomycotina); Taphrinomycotina is the sister group of Saccharomycotina and Pezizomycotina. The 50% majority rule consensus of 18 000 Bayesian MCMCMC-generated trees from multilocus gene sequences of nSSU rDNA, nLSU rDNA (D1/D2), RPB2 and ß-tubulin also showed the monophyly of the three subphyla and the basal position of Taphrinomycotina in Ascomycota with significantly higher statistical support. However to answer controversial questions on the origin, monophyly and evolution of the Taphrinomycotina, additional integrated phylogenetic analyses might be necessary using sequences of more genes with broader taxon sampling from the early diverging Ascomycota.
Key words: basal Ascomycota, classification, evolution, molecular phylogeny
| INTRODUCTION |
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As stated above Nishida and Sugiyama (1993
, 1994b
) initially treated their provisional class "Archiascomycetes" as monophyletic, accommodating five genera Taphrina, Protomyces, Saitoella, Schizosaccharomyces and Pneumocystis. The common characters of the five genera are: (i) A sexually reproductive state (not present in Saitoella) is ascogenous but ascogenous hyphae are not formed; (ii) asexual reproduction is by budding or fission; (iii) neither ascomata nor conidiomata are formed; and (iv) the vegetative state is hyphal or yeast-like (TABLE I
). On the basis of nSSU rDNA sequence analyses Landvik et al (1993)
and Landvik (1996)
subsequently included the apothecial ascomycete genus Neolecta in the early diverging ascomycete lineage defined by Berbee and Taylor (1993
, 1995)
, and Sjamsuridzal et al (1997)
confirmed the addition of Neolecta into the group based on the same gene, thus causing an evolutionary enigma. Characteristics of all the representative genera and other ascomycete yeasts and filamentous ascomycetes are compared (TABLE I
); these phenotypic characters used to circumscribe the Taphrinomycotina are unclear with the inclusion of Neolecta in the group.
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Here we briefly describe the respective biological profiles of six genera of early diverging ascomycetes (i.e. Taphrina Fr., Protomyces Unger, Saitoella Goto et al, Schizosaccharomyces Lindner, Pneumocystis P. Delanoë & Delanoë and Neolecta Speg.).
Taphrina.
This genus usually has been placed in the monotypic family Taphrinaceae in the Taphrinales (e.g. Kramer 1973
e.g. Kramer 1987
; Kurtzman and Sugiyama 2001
; Kirk et al 2001
). Species of Taphrina are pathogenic primarily on ferns and higher plants (particularly the Rosales and Fagales). They are dimorphic with a saprobic haploid uninucleate yeast state (von Arx et al 1982
), which is assignable to the anamorph genus Lalaria R.T. Moore (1990)
. This genus accommodates 95 species (Kirk et al 2001
). Two representative species in the genus are well known: T. wiesneri Ráthay (=T. cerasi [Fuckel] Sadeb.), attacking Japanese cherry ("Sakura") tree and causing witches brooms, and T. deformans, causing peach leaf curl. The life cycle of the latter species is well studied cytologically (Alexopoulos et al 1996
). The yeast (budding) states of species of genera Taphrina, Protomyces and Saitoella are morphologically, biochemically and chemotaxonomically similar (Sugiyama and Nishida 1995
, Kurtzman and Sugiyama 2001
, Lopandic et al 2005
). Most published nSSU rDNA (Sjamsuridzal et al 1997
, Bacigálová et al 2003
) and nLSU rDNA (D1/D2) (Rodrigues and Fonseca 2003
, Inácio et al 2004
) phylogenies confirmed the monophyly of the genus with the probable exception of T. vestergrenii Giesenhagen to be mentioned later.
Protomyces.
This genus usually is placed in the Protomycetaceae in the order Protomycetales with four other genera (Reddy and Kramer 1975
). The phylogenetic hypothesis proposed for the Protomycetales (Reddy and Kramer 1975
) has not been tested, and only the genus Protomyces is included in our study. The remaining taxa, including Burenia, Protomycopsis, Taphridium and Volkartia, remain to be sampled. Species of Protomyces are also parasitic on higher plants, mainly the Apiaceae (=Umbelliferae) and Asteraceae (=Compositae), and the species can be cultured on artificial media like Taphrina spp. Biological and cultural properties of Protomyces inouyei, P. lactucae-debilis Sawada and P. pachydermus von Thümen have been characterized by Tubaki (1957)
. nSSU rDNA sequence phylogeny demonstrated that these three Protomyces spp. and P. macro-sporus Unger form a monophyletic group (Sjamsuridzal et al 1997
). In addition a core group comprising Taphrina (including T. vestergrenii) and Protomyces spp. always appeared to be monophyletic with strong bootstrap support (100%) (Sjamsuridzal et al 1997
, Bacigálová et al 2003
). As Kurtzman (1993)
pointed out, the Protomycetales might be synonymous with the Taphrinales. Kirk et al (2001)
and Eriksson (2005)
have accommodated the two families, Taphrinomycetaceae and Protomycetaceae, into the order Taphrinales.
Saitoella.
This genus usually has been treated as incertae sedis among the early diverging ascomycetes (Eriksson 2005
, Sugiyama 2005
). Kurtzman and Sugiyama (2001)
accommodated it within the Protomycetaceae based on nSSU rDNA sequence-based phylogeny and the primary phenotypic characteristics (e.g. Sjamsuridzal et al 1997
, Sugiyama 1998
). The genus comprises only the type species S. complicata, which is a saprobic soil-living yeast the lacks true hyphae and is superficially similar to Rhodotorula glutinis (Fres.) F.C. Harrison, a basidiomycetous asexual yeast. It lacks a meiotic cycle. Saitoella shares some characteristics typical of both ascomycetes and basidiomycetes (Goto et al 1987
). The history of studies on Saitoella was fully described by Sugiyama et al (1993)
. Although previous phylogenetic studies using nSSU rDNA sequences elucidated the identity of S. complicata as an ascomycete (Nishida and Sugiyama 1993
, 1994b
; Nishida et al 1993
) its evolutionary relationship to other members in the Taphrinomycotina remains unresolved.
Schizosaccharomyces.
Kurtzman (1993)
and Eriksson et al (1993)
placed the genus Schizosaccharomyces in the monotypic family Schizosaccharomycetaceae and the order Schizosaccharomycetales. The genus contains only three species, which inhabit sugar-rich plant materials, such as fruits and honey (Vaughan-Martini and Martini 1998
, Barnett et al 2000
). The type species, Schizosaccharomyces pombe, is saprobic and is characterized by exclusive fission-type of vegetative reproduction and Q-10 as the major ubiquinone system. The circumscription and classification of S. pombe and allied taxa were reviewed by Kurtzman and Sugiyama (2001)
.
Pneumocystis.
The genus Pneumocystis has been accommodated in the monotypic family Pneumocystidaceae, order Pneumocystidales (Eriksson 1994
). This genus comprises three or more species that can infect humans and other animals; they are unculturable on routine laboratory media. Pneumocystis is a principal causal agent of pneumonia in patients with HIV infections. This organism was considered to be a protozoan until Edman et al (1988)
found it is a fungus based on nSSU rRNA sequence comparisons. Nishida and Sugiyama (1994b)
placed the genus within the Archiascomycetes. The life cycle of P. carinii, including mitosis and cytoplasmic fission, was illustrated by Yoshida (1989)
and Dei-Cas and Cailliez (1998)
on the basis of ultrastructural studies. Taylor et al (1994)
and Sugiyama and Nishida (1995)
discussed the similarity of life cycles between the fission saprobic yeast Schizosaccharomyces pombe (or S. octosporus) and the mammal lung pathogen P. carinii. Previously known as Pneumocystis carinii, the human pathogen has been reclassified in another species, P. jirovecii Frenkel (cf. Redhead et al 2006
). The nomenclatural problems associated with the genus Pneumocystis also were discussed by Redhead et al (2006)
.
Neolecta.
The genus Neolecta has been assigned to the monotypic family Neolectaceae, order Neolectales (Landvik et al 1993
). This genus contains three species that are saprobic or weakly parasitic on plant rootlets, but their ecology is little known (Landvik et al 2001
). The species are characterized by clavate and stalked apothecia, and cylindrical, aparaphysate and eight-spored asci. Neolecta spp. recently have been characterized morphologically, including ultrastructural morphology, by Landvik et al (2003)
(cf. TABLE I
). Landviks (1996)
cladistic analyses with nSSU and nLSU rDNA sequences demonstrated that both N. vitellina and N. irregularis grouped together in the branch with the early diverging Ascomycota defined by Berbee and Taylor (1993)
. Sjamsuridzal et al (1997)
, Liu et al (1999)
and Landvik et al (2001)
subsequently confirmed the position of Neolecta among the early diverging Ascomycota with nSSU rDNA, RPB2 and ß-tubulin genes sequences, respectively. Taxonomically Eriksson and Winka (1997)
and Eriksson (2005)
have accommodated Neolecta in the Neolectomycetes/Taphrinomycotina, whereas Sugiyama (2005)
placed it within the Neolectales/ "Archiascomycetes".
The aim of this paper is to shed light on the enigmatic evolutionary relationships of the Taphrinomycotina and to contribute to a taxonomic or systematic framework of the early diverging Ascomycota taxa. We report the use of protein coding genes in addition to rDNA to clarify the relationships of these genera.
| MATERIALS AND METHODS |
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+I model was used. The same model was applied for the dataset of protein coding genes (RPB2 and ß-tubulin), but they were partitioned further according to the codon position. The support for nodes was tested by posterior probabilities obtained from majority rule consensus after deleting the trees during burn-in.
Parsimony analyses (MP) were conducted using PAUP*4.0b10 (Swofford 2002
) with the heuristic search option (TBR and MULTREES on) and 1000 replicates of random addition sequence. Support for individual nodes was tested by bootstrapping of 500 replicates with the heuristic search option (TBR and MULTREES on) with five random addition sequences. Neighbor joining (NJ) analyses were conducted using PAUP*4.0b10 with the GTR model and a gamma shape set to 0.5. Support for individual nodes was tested by bootstrap analysis under the same settings. For both MP and NJ criteria, two independent analyses were conducted with or without the third codon position.
| RESULTS AND DISCUSSION |
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A consensus of eight parsimony trees with 1000 bootstrap replications generated from a dataset of nSSU rDNA+nLSU rDNA (D1/D2 region) sequences (tree not shown) also supported the principal topology resulting from the nSSU rDNA sequence analyses mentioned above; however the branch leading to the Taphrinomycotina received only 56% bootstrap value.
Phylogenetic analysis of various combinations of multigene sequence data available for the Taphrinomycotina included these genes: nSSU rDNA, nLSU rDNA, RPB1, RPB2, EF-1
, ATP6 and ß-tubulin. The tree topologies within the Taphrinomycotina lineage varied among trees depending on the combination of genes used in the analyses; these results will be published elsewhere. Among the seven genes targeted only the sequences of nSSU rDNA, nLSU rDNA, RPB2 and ß-tubulin were available for sufficient numbers of taxa to cover most known genera of the Taphrinomycotina. We therefore performed Bayesian analyses for the combined dataset of the four gene sequences with GTR+
+I model for a total of eight data partitions (i.e. nSSU rDNA, nLSU rDNA and the respective codon positions of RBP2 and ß-tubulin). The alignment of 23 nSSU rDNA sequences included 1870 sites, of which 1568 were included, and a total of 194 were potentially parsimony informative. The alignment of 23 nLSU rDNA sequences included 649 sites, of which 395 were included, and a total of 131 were potentially parsimony informative. The final RPB2 dataset included 19 sequences and had a total length of 1539 sites after excluding ambiguously aligned regions and spliceosomal introns, of which 855 sites were potentially parsimony informative. The final ß-tubulin gene dataset included 19 sequences and had a total length of 872 sites after excluding ambiguously aligned regions and spliceosomal introns, of which 176 sites were potentially parsimony informative. The tree generated from these data is provided (FIG. 2
) with the changes in topology with or without the third codon position of two protein-coding genes noted. The Taphrinomycotina as well as the Saccharomycotina, Pezizomycotina and Saccharomycotina plus Pezizomycotina were monophyletic in the 50% majority rule consensus of 18 000 Bayesian MCMCMC trees. The detection of these three major lineages agreed with those of the previous studies (e.g. Berbee and Taylor 1993
, 2001
; Nishida and Sugiyama 1994b
; Sjamsuridzal et al 1997
; Sugiyama 1998
; Kurtzman and Sugiyama 2001
; Tehler et al 2003
). Some nSSU rDNA phylogenies (e.g. Sugiyama 1998
, Bacigálová et al 2003
, Lopandic et al 2005
) showed the monophyly of Taphrinomycotina with 7694% bootstrap support although the branching order was different among the Taphrinomycotina lineage. On the other hand Landvik et al (2001)
, Lutzoni et al (2004)
and Taylor et al (2004)
showed the basal paraphyly of the Taphrinomycotina.
|
95% posterior probability or
70% bootstrap values) with the Bayesian tree (FIG. 2
(Tanabe et al 2004
Our Bayesian analysis showed Neolecta as sister taxon of Schizosaccharomyces and Pneumocystis, which is more or less consistent with that of Landvik et al (2001)
although their trees indicated a sister relationship of Neolecta and Pneumocystis, not including Schizosaccharomyces. These relationships were not supported in any other analyses (i.e. parsimony or NJ). On the other hand Sjamsuridzal et al (1997)
showed a sister relationship of Neolecta and Saitoella. Species of Neolecta (Redhead 1977
) and Saitoella (Goto et al 1987
) might share the budding state as already suggested by Sugiyama (1998)
. The newest molecular phylogeny of fungi, based on Bayesian analysis of the combined six gene (nSSU rDNA, nLSU rDNA, ITS, EF-1
, RPB1 and RPB2) dataset by Timothy Y. James (personal communication), suggested the Taphrinomycotina, although lacking taxon sampling from Saitoella and Neolecta, is monophyletic with strong bootstrap support. However further discussion should wait until the accumulation of more genes and sequences from more taxon samples.
| CONCLUSIONS |
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| ACKNOWLEDGMENTS |
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| FOOTNOTES |
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1 Corresponding author. E-mail: jsugiyam{at}tecsrg.co.jp
| LITERATURE CITED |
|---|
|
|
|---|
Bacigálová K, Lopandic K, Rodrigues MG, Fonseca Á, Herzberg M, Pinsker W, Prillinger H. 2003. Phenotypic and genotypic identification and phylogenetic characterization of Taphrina fungi on alder. Mycol Prog 2:179196.[CrossRef]
Barnett JA, Payne RW, Yarrow D. 2000. Yeasts: characteristics and identification. 3rd ed. Cambridge, UK. 1150 p.
Berbee ML, Taylor JW. 1993. Dating the evolutionary radiations of the true fungi. Can J Bot 71:11141127.
, . 1995. From 18S ribosomal sequence data to evolution of morphology among the fungi. Can J Bot 73(1):S677S683.[CrossRef]
, . 2001. Fungal molecular evolution: gene trees and geologic time. In: McLaughlin DJ, McLaughlin EG, Lemke PA, eds. The Mycota. Vol VII Part B (systematic and evolution). Berlin: Springer-Verlag. p 229245.
Blackwell M, Hibbett DS, Taylor JW, Spatafora JW. 2006. Research Coordination Networks: a phylogeny for kingdom Fungi (Deep Hypha). Mycologia 98:829837.
Bowen AR, Chen-Wu JL, Momany M, Young R, Szaniszio PJ, Robbins PW. 1992. Classification of fungal chitin synthases. Proc Natl Acad Sci USA 89:519523.
Cavalier-Smith T. 1987. The origin of Fungi and pseudo-fungi. In: Rayner ADM, Brasier CM, Moore D, eds. Evolutionary biology of the fungi. Cambridge: Cambridge University Press. p 339353.
. 2001. What are Fungi? In: McLaughlin DJ, McLaughlin EG, Lemke PA, eds. The Mycota. Vol VIIA (systematic and evolution). Berlin: Springer-Verlag. p 337.
de Hoog GS, Guarro J, Gene J, Figueras MJ. 2000. Atlas of clinical fungi. Reus, Spain: Universitat Rovira i Virgili. 1126 p.
Dei-Cas E, Cailliez J-C. 1998. Editorial. FEMS Immunol Med Microbiol 22:14.[CrossRef][Medline]
Edman JC, Kovacs JA, Masur H, Santi DV, Elwood HJ, Sogin ML. 1988. Ribosomal RNA sequence shows Pneumocystis carinii to be a member of the fungi. Nature 334:519522.[CrossRef][Medline]
Eriksson OE. 1994. Pneumocystis carinii, a parasite in lungs of mammals, referred to a new family and order (Pneumocystidaceae, Pneumocystidales, Ascomycota). Systema Ascomycetum 13:165180.
. 1999. Outline of Ascomycota1999. Myconet 3:188.
. 2005. Outline of Ascomycota2005. Myconet 11:1113.
, Svedskog A, Landvik S. 1993. Molecular evidence for the evolutionary hiatus between Saccharomyces cerevisiae and Schizosaccharomyces pombe. Systema Ascomycetum 11:119162.
, Winka K. 1997. Supraordinal taxa of the Ascomycota. Myconet 1:116.
Goto S, Sugiyama J, Hamamoto M, Komagata K. 1987. Saitoella, a new anamorphic genus in the Cryptococcaceae to accommodate two Himalayan yeast isolates formally identified as Rhodotorula glutinis. J Gen Appl Microbiol 33:7585.[CrossRef]
Huelsenbeck JP, Ronquist F. 2001. MrBayes: Bayesian inference of phylogenetic trees. Bioinformatics 17:754755.
Inácio J, Rodrigues MG, Sorbral P, Fonseca Á. 2004. Characterization and classification of phylloplane yeasts from Portugal related to the genus Taphrina and description of five novel Lalaria species. FEMS Yeast Res 4:541555.[CrossRef][Medline]
James TY, Kauff F, Schoch CL, Matheny PB, Hofstetter V, Cox CJ, Celio G, Gueidan C, Fraker E, Miadlikowska J, Lumbsch HT, Rauhut A, Reeb V, Arnold AE, Amtoft A, Stajich JE, Hosaka K, Sung G-H, Johnson D, ORourke B, Crockett M, Binder M, Curtis JM, Slot JC, Wang Z, Wilson AW, Schüßler A, Longcore JE, ODonnell K, Mozley-Standridge S, Porter D, Letcher PM, Powell MJ, Taylor JW, White MM, Griffith GW, Davies DR, Humber RA, Morton JB, Sugiyama J, Rossman AY, Rogers JD, Pfister DH, Hewitt D, Hansen K, Hambleton S, Shoemaker RA, Kohlmeyer J, Volkmann-Kohlmeyer B, Spotts R, Serdani M, Crous PW, Hughes KW, Matsuura K, Langer E, Langer G, Untereiner WA, Lücking R, Büdel B, Geiser DM, Aptroot A, Diederich P, Schimitt I, Schultz M, Yahr R, Hibbett DS, Lutzoni F, McLaughlin DJ, Spatafora JW, Vilgalys R. 2006. Reconstructing the early evolution of Fungi using a six-gene phylogeny. Nature 443:818822.[CrossRef][Medline]
Jumpponen A, Johnson LC. 2005. Can rDNA analyses of diverse fungal communities in soil and roots detect effects of environmental manipulations? A case study from tall grass prairie. Mycologia 97:11771194.
Kirk PM, Cannon PF, David JC, Stalpers JA. 2001. Dictionary of the fungi. 9th ed. Wallingford: CAB International. 655 p.
Kramer CL. 1973. Protomycetales and Taphrinales. In: Ainsworth GC, Sparrow FK, Sussman AS, eds. The fungi, an advanced treatise. Vol IV A. New York: Academic Press. p 3341.
.1987. The Taphrinales. In: de Hoog GS, Smith MTh, Weijman ACM, eds. The expanding realm of yeast-like fungi. Amsterdam: Elsevier. p 151166.
Kurtzman CP. 1993. Systematics of the ascomycetous yeasts assessed from ribosomal RNA sequence divergence. Antonie van Leeuwenhoek 63:165174.[CrossRef][Medline]
, Sugiyama J. 2001. Ascomycetous yeasts and yeastlike taxa. In: McLaughlin DJ, McLaughlin EG, Lemke PA, eds. The Mycota. Vol VII Part A (systematic and evolution). Berlin: Springer-Verlag. p 179200.
Landvik S. 1996. Neolecta, a fruit-body-producing genus of the basal ascomycetes, as shown by SSU and LSU rDNA sequences. Mycol Res 100:199202.
, Eriksson OE, Gargas A, Gustafsson P. 1993. Relationships of the genus Neolecta (Neolectales ordo nov., Ascomycotina) inferred from 18S rDNA sequences. Systema Ascomycetum 11:107118.
, , Berbee ML. 2001. Neolectaa fungal dinosaur? Evidence from ß-tubulin amino acid sequences. Mycologia 93:11511163.[CrossRef]
, Schumacher TK, Eriksson OE, Moss ST. 2003. Morphology and ultrastructure of Neolecta species. Mycol Res 107:10211031.[CrossRef][Medline]
Liu YJ, Whelen S, Hall BD. 1999. Phylogenetic relationships among ascomycetes: evidence from an RNA polymerase II subunit. Mol Biol Evol 16:17991808.[Abstract]
Lopandic K, Molnár O, Suzuki M, Pinsker W, Prillinger H. 2005. Estimation of phylogenetic relationships within the Ascomycota on the basis 18S rDNA sequences and chemotaxonomy. Mycol Prog 4:205214.[CrossRef]
Lutzoni F, Kauff F, Cox C, 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, Lucking R, Lumbsch T, ODonnell 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. 2004. Assembling the Fungal Tree of Life: progress, classification and evolution of subcellular traits. Am J Bot 91:14461480.
Moore RT. 1990. The genus Lalaria gen. nov.: Taphrinales anamorphosum. Mycotaxon 38:315330.
Nishida H. 2005. Diversity and evolution from the insight for genotypic information. In: Sugiyama J, ed. Diversity and evolution of fungi, bacteria and viruses. Tokyo: Shokabo Publishing. p 121133. (In Japanese.)
, Blanz PA, Sugiyama J. 1993. The higher fungus Protomyces inouyei has group I introns in the 18S rRNA gene. J Mol Evol 37:2528.[Medline]
, Sugiyama J. 1993. Phylogenetic relationships among Taphrina, Saitoella and other fungi. Mol Biol Evol 12:883886.
, . 1994a. Phylogeny and molecular evolution among higher fungi. Nippon Nogeikagaku Kaishi 68:5457. (In Japanese.)
, . 1994b. Archiascomycetes: detection of a major new lineage within the Ascomycota. Mycoscience 35:361366.[CrossRef]
Reddy MS, Kramer CL. 1975. A taxonomic revision of the Protomycetales. Mycotaxon 3:150.
Redhead SA. 1977. The genus Neolecta (Neolectaceae fam. nov., Lecanorales, Ascomycetes) in Canada. Can J Bot 55:301306.
, Cushion MT, Frenkel JK, Stringer JR. 2006. Pneumocystis and Trypanosoma cruzi: nomenclature and typification. J Eukaryot Microbiol 53:211.[CrossRef][Medline]
Rodrigues MG, Fonseca Á. 2003. Molecular systematics of the dimorphic ascomycete genus Taphrina. Int J Syst Evol Microbiol 53:607616.
Savile DBO. 1955. A phylogeny of the Basidiomycetes. Can J Bot 33:60104.
.1968. Possible interrelationships between fungal groups. In: Ainsworth GC, Sussman AS, eds. The fungi, an advanced treatise. Vol III. New York: Academic Press. p 649675.
Schadt CW, Martin AP, Lipson DA, Schmidt SK. 2003. Seasonal dynamics of previously unknown fungal lineages in tundra soils. Science 301:13591361.
Sjamsuridzal W, Tajiri Y, Nishida H, Thuan TB, Kawasaki H, Hirata A, Yokota A, Sugiyama J. 1997. Evolutionary relationships of members of the genera Taphrina, Protomyces, Schizosaccharomyces, and related taxa within the archiascomycetes: integrated analysis of genotypic and phenotypic characters. Mycoscience 38:267280.[CrossRef]
Sugiyama J. 1998. Relatedness, phylogeny, and evolution of the fungi. Mycoscience 39:487511.[CrossRef]
. 2005. Classification system of the Fungi s. lat. In: Sugiyama J, ed. Diversity and evolution of fungi, bacteria and viruses. Tokyo: Shokabo Publishing. p 396405. (In Japanese.).
, Nishida H. 1995. The higher fungi: their evolutionary relationships and implications for fungal systematics. In: Arai R, Kato M, Doi Y, eds. Biodiversity and evolution. Tokyo: The National Science Museum Foundation. p 177195.
, , Suh S-O. 1993. The paradigm of fungal diagnoses and descriptions in the era of molecular systematics: Saitoella complicata as an example. In: Reynolds DR, Taylor JW, eds. The fungal holomorph: mitotic, meiotic and pleomorphic speciation in fungal systematics. Wallingford: CAB International. p 261269.
Swofford DL. 2002. PAUP*: phylogenetic analysis using parsimony (*and other methods). Version 4.0b10. Sunderland, Massachusetts: Sinauer Associates.
Tanabe Y, Saikawa M, Watanabe MM, Sugiyama J. 2004. Molecular phylogeny of Zygomycota based on EF-1
and RPB1 sequences: limitations and utility of alternative markers to rDNA. Mol Phylogenet Evol 30:438449.[CrossRef][Medline]
Taylor JW, Swann EC, Berbee ML. 1994. Molecular evolution of ascomycete fungi: phylogeny and conflict. In: Hawksworth DL, ed. Ascomycete systematics: problems and perspectives in the nineties. New York: Plenum Press. p 201212.
, Spatafora J, ODonnell K, Lutzoni F, James T, Hibbett DS, Geiser D, Bruns TD, Blackwell M. 2004. In: Cracraft J, Donoghue MJ, eds. Assembling the Tree of Life. New York: Oxford University Press. p 171194.
Tehler A, Little DP, Farris JS. 2003. The full-length phylogenetic tree from 1551 ribosomal sequences of chitinous fungi, Fungi. Mycol Res 107:901916.[CrossRef][Medline]
Tubaki K. 1957. Biological and cultural studies of three species of Protomyces. Mycologia 49:4454.[CrossRef]
Vandenkoornhuyse P, Baldauf SL, Leyval C, Straczek J, Young JPW. 2002. Extensive fungal diversity in plant roots. Science 295:2051.
Vaughan-Martini A, Martini A. 1998. Schizosaccharomyces Lindner. In: Kurtzman CP, Fell J, eds. The yeasts, a taxonomic study. 4th ed. Amsterdam: Elsevier. p 391394.
von Arx JA, van der Walt JP, Liebenberg NVDM. 1982. The classification of Taphrina and other fungi with yeast-like cultural states. Mycologia 74:287296.
Yoshida Y. 1989. Ultrastructural studies of Pneumocystis carinii. J Protozool 36:5360.[Medline]
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Y. Liu, J. W. Leigh, H. Brinkmann, M. T. Cushion, N. Rodriguez-Ezpeleta, H. Philippe, and B. F. Lang Phylogenomic Analyses Support the Monophyly of Taphrinomycotina, including Schizosaccharomyces Fission Yeasts Mol. Biol. Evol., January 1, 2009; 26(1): 27 - 34. [Abstract] [Full Text] [PDF] |
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