Molecular phylogeny of Ustilago and Sporisorium species (Basidiomycota, Ustilaginales) based on internal transcribed spacer (ITS) sequences

2003 ◽  
Vol 81 (9) ◽  
pp. 976-984 ◽  
Author(s):  
Matthias Stoll ◽  
Meike Piepenbring ◽  
Dominik Begerow ◽  
Franz Oberwinkler
Keyword(s):  
Molecular Phylogeny ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Region ◽  
Morphological Characters ◽  
Smut Fungi ◽  
Bayesian Inferences ◽  
Dna Sequence Data ◽  
Sporisorium Scitamineum ◽  
Nomenclatural Change

DNA sequence data from the internal transcribed spacer (ITS) region of the nuclear rDNA genes were used to determine a phylogenetic relationship between the graminicolous smut genera Ustilago and Sporisorium (Ustilaginales). Fifty-three members of both genera were analysed together with three related outgroup genera. Neighbor-joining and Bayesian inferences of phylogeny indicate the monophyly of a bipartite genus Sporisorium and the monophyly of a core Ustilago clade. Both methods confirm the recently published nomenclatural change of the cane smut Ustilago scitaminea to Sporisorium scitamineum and indicate a putative connection between Ustilago maydis and Sporisorium. Overall, the three clades resolved in our analyses are only weakly supported by morphological characters. Still, their preferences to parasitize certain subfamilies of Poaceae could be used to corroborate our results: all members of both Sporisorium groups occur exclusively on the grass subfamily Panicoideae. The core Ustilago group mainly infects the subfamilies Pooideae or Chloridoideae.Key words: basidiomycete systematics, ITS, molecular phylogeny, Bayesian analysis, Ustilaginomycetes, smut fungi.

scholarly journals Four new species of Tremella (Tremellales, Basidiomycota) based on morphology and DNA sequence data

MycoKeys ◽  
2019 ◽  
Vol 47 ◽  
pp. 75-95 ◽  
Author(s):  
Ying Zhao ◽  
Xin-zhan Liu ◽  
Feng-yan Bai
Keyword(s):  
Phylogenetic Analysis ◽  
New Species ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Region ◽  
Morphological Characters ◽  
Dna Sequence Data ◽  
D2 Domain ◽  
High Species Diversity ◽  
Molecular Phylogenetic

In the present study, a total of 33 Tremella specimens in China were collected and examined using molecular phylogenetic analysis based on a combined sequence dataset of the nuc rDNA internal transcribed spacer (ITS) region and nuc 28S rDNA D1/D2 domain in conjunction with the morphological characters. Four new species, namely Tremellabasidiomaticola, T.cheejenii, T.erythrina, and T.salmonea, are newly described based on their distinct phylogenetic relationships and the comparison of morphological characters with known Tremella species. Our results indicate a high species diversity of Tremella waiting to be discovered.

Pilea nonggangensis (Urticaceae), a new species from Guangxi, China

Phytotaxa ◽  
2017 ◽  
Vol 313 (1) ◽  
pp. 130 ◽  
Author(s):  
LONG-FEI FU ◽  
SHI-LIAN HUANG ◽  
ALEX K. MONRO ◽  
YING LIU ◽  
FANG WEN ◽  
...  
Keyword(s):  
New Species ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Species Conservation ◽  
Its Region ◽  
Systematic Position ◽  
Molecular Evidence ◽  
Conservation Assessment ◽  
Dna Sequence Data ◽  
A New Species

Pilea nonggangensis Y. G. Wei, L. F. Fu & A. K. Monro, a new species from Guangxi, China is described and illustrated. The new species is morphologically most similar to P. basicordata from which it differs by being dioecious, having peltate leaf blades, membranous stipules, paired inflorescences and larger bracts. Nuclear ribosomal internal transcribed spacer (ITS) region and plastid trnL-F intron spacer (trnL-F) DNA sequence data from the new species and 20 local congeneric species are used to resolve the systematic position of the new species within Pilea. Despite vastly different morphology the molecular evidence suggests that P. nonggangensis is most closely related to P. pseudonotata. A Global Species Conservation Assessment classifies P. nonggangensis as Vulnerable (VU).

scholarly journals Three new species of Fomitiporella (Hymenochaetales, Basidiomycota) based on the evidence from morphology and DNA sequence data

MycoKeys ◽  
2018 ◽  
Vol 30 ◽  
pp. 73-89 ◽  
Author(s):  
Xiao-Hong Ji ◽  
Josef Vlasák ◽  
Xue-Mei Tian ◽  
Yu-Cheng Dai
Keyword(s):  
New Species ◽  
Dna Sequence ◽  
Sequence Data ◽  
Large Subunit ◽  
Its Region ◽  
Morphological Characters ◽  
White Rot ◽  
Molecular Evidence ◽  
Dna Sequence Data ◽  
Three New Species

Fomitiporella austroasiana, F. mangrovei and F. vietnamensis are described and illustrated as new species based on morphological characters and molecular evidence. They have annual to perennial, mostly resupinate basidiomata with grayish fresh pores, an indistinct subiculum, lack any kind of setae, have brownish, thick-walled basidiospores, and cause a white rot. The distinctive morphological characters of the new species and their related species are discussed. Phylogenies based on the nuclear ribosomal large subunit (28S) and the nuclear ribosomal ITS region show that these three new species form three distinct lineages in the Fomitiporella clade. A key to known species of Fomitiporella is given.

scholarly journals Michaelmoelleria (Gesneriaceae), a new lithophilous dwelling genus and species with zigzag corolla tube from southern Vietnam

PhytoKeys ◽  
2020 ◽  
Vol 146 ◽  
pp. 89-107
Author(s):  
Fang Wen ◽  
Zi-Bing Xin ◽  
Long-Fei Fu ◽  
Shu Li ◽  
Lan-Ying Su ◽  
...  
Keyword(s):  
Internal Transcribed Spacer ◽  
New Genus ◽  
Sequence Data ◽  
Its Region ◽  
Corolla Tube ◽  
Single Species ◽  
Molecular Evidence ◽  
Conservation Assessment ◽  
Dna Sequence Data ◽  
Southern Vietnam

Michaelmoelleria, a new genus from southern Vietnam is described with a single species, M. vietnamensis. The new genus is morphologically most similar to Deinostigma and Tribounia but it differs from the latter two by having four fertile stamens. Nuclear ribosomal internal transcribed spacer (ITS) region and plastid trnL-F intron spacer (trnL-F) DNA sequence data from the new genus and eighty-seven species representing 42 genera within tribe Didymocarpeae are used to resolve its generic placement. The molecular evidence reveals that it is most closely related to Cathayanthe rather than Deinostigma and Tribounia. The chromosome number is counted as 2n = 36 that further clarified its distinction comparing to the related genera within tribe Didymocarpeae. A global conservation assessment is also performed and classifies Michaelmoelleria vietnamensis as Critically Endangered (CR).

scholarly journals A comparison of populations of Armillaria hinnulea in New Zealand and Australia

2008 ◽  
Vol 61 ◽  
pp. 41-47 ◽  
Author(s):  
T.D. Ramsfield ◽  
M.W.P. Power ◽  
G.S. Ridley
Keyword(s):  
New Zealand ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Region ◽  
The Other ◽  
Dna Sequence Data ◽  
Nothofagus Forests ◽  
Preliminary Study ◽  
Decaying Wood ◽  
The Relationship

Armillaria hinnulea has been recorded from the northwest quadrant of the South Island of New Zealand Tasmania and Australia In New Zealand A hinnulea is rare being restricted to decaying wood in South Island Nothofagus forests A preliminary study of the relationship between the populations of A hinnulea was performed using DNA sequence data from the internal transcribed spacer (ITS) region of the ribosomal DNA Two major ITS clades were observed each of which included representative sequences from Australian collections Within one ITS clade one Australian sequence was 100 identical with the New Zealand isolates while in the other ITS clade eight New Zealand isolates representing five locations were 100 identical but the Australian sequence differed by five base substitutions and was in a separate subclade These results suggest at least two introductions of A hinnulea have occurred one relatively recently and one in the more distant past

Molecular phylogeny confirms the placement of enigmatic Stachys persepolitana in Lamium (Lamiaceae; subfam. Lamioideae)

Phytotaxa ◽  
2015 ◽  
Vol 192 (4) ◽  
pp. 254
Author(s):  
Yasaman Salmaki ◽  
MIKA BENDIKSBY ◽  
GÜNTHER HEUBL
Keyword(s):  
Molecular Phylogeny ◽  
Dna Sequence ◽  
Sequence Data ◽  
Nuclear Data ◽  
Morphological Characters ◽  
Morphological Features ◽  
Phylogenetic Position ◽  
Rps16 Intron ◽  
Dna Sequence Data ◽  
Anterior Pair

The main purpose of this study was to test the hypothesis that Stachys persepolitana is extraneous in Stachys (tribe Stachydeae, subfam. Lamioideae, Lamiaceae) and instead belongs to the genus Lamium (Lamieae, Lamioideae). We investigated the phylogenetic position of S. persepolitana using plastid (rps16 intron, trnL-F and matK regions) and nuclear (nrITS) DNA sequence data with both parsimony and Bayesian phylogenetic approaches. Plastid and nuclear data strongly support that S. persepolitana is extraneous in Stachys and belongs in fact to the genus Lamium. Morphological characters also corroborate its placement in Lamium. Most of the morphological features used to distinguish S. persepolitana from the rest of Stachys fit with Lamium. Anterior pair of stamens bending outward after pollination, anthers hairy and mericarps triquetrous are the most important characters correlating S. persepolitana to Lamium.

The genus Marasmius (Basidiomycota, Agaricales, Marasmiaceae) from Republic of São Tomé and Príncipe, West Africa

Phytotaxa ◽  
2019 ◽  
Vol 414 (2) ◽  
pp. 55-104 ◽  
Author(s):  
CHRIS L. GRACE ◽  
DENNIS E. DESJARDIN ◽  
BRIAN A. PERRY ◽  
JACKIE E. SHAY
Keyword(s):  
Dna Sequences ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Morphological Characters ◽  
Evolutionary Relationships ◽  
Dna Sequence Data ◽  
Sao Tome And Principe ◽  
Dichotomous Key ◽  
Phylogenetic Hypotheses ◽  
New Distribution

This treatise serves as a preliminary monograph and phylogenetic treatment of Marasmius from the African island nation of São Tomé and Príncipe (ST&P), based on data generated from 30 specimens collected in 2008. Twenty-one species are described, seven of which represent species new to science (Marasmius albisubiculosus, M. diversus, M. elaeocephaliformis, M. laranja, M. leptocephalus, M. paratrichotus, M. segregatus), and all represent new distribution records for ST&P. Species are delimited based on comprehensive morphological characters and DNA sequence data. Prior to the collection of these specimens, only one Marasmius species had been documented from these islands. Phylogenetic hypotheses generated from analyses of DNA sequences of the Internal Transcribed Spacer regions (ITS1+5.8S+ITS2) are proposed to explore the evolutionary relationships amongst ST&P Marasmius and global Marasmius diversity. A dichotomous key to aid in identification, illustrations of pertinent micromorphological features, colour photographs of basidiomata, comprehensive descriptions and commentaries are provided.

Phylogenetic relationships in the tribe Alysseae (Brassicaceae) based on nuclear ribosomal ITS DNA sequences

Botany ◽  
2008 ◽  
Vol 86 (4) ◽  
pp. 315-336 ◽  
Author(s):  
Suzanne I. Warwick ◽  
Connie A. Sauder ◽  
Ihsan A. Al-Shehbaz
Keyword(s):  
Maximum Likelihood ◽  
Dna Sequences ◽  
Phylogenetic Relationships ◽  
Maximum Parsimony ◽  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Region ◽  
Morphological Characters ◽  
Data Support ◽  
Its Dna Sequences

Sequence data from the nuclear ribosomal internal transcribed spacer (ITS) region of 85 species (131 accessions) were used to determine the tribal limits, monophyly status, and phylogenetic intra-tribal relationships of genera within the tribe Alysseae (Brassicaceae). Both maximum parsimony and maximum likelihood analyses support the recognition of the tribe Alysseae s. str. (12 genera: Alyssoides , Alyssum , Aurinia , Berteroa , Bornmuellera , Clastopus , Clypeola , Degenia , Fibigia , Galitzkya , Hormathophylla , and Physoptychis ). Six well-supported clades were recognized within the Alysseae clade, including two Alyssum clades (one of which includes Clypeola ), an Alyssoides and allies clade (includes Alyssoides , Bornmuellera , Clastopus , Degenia , Fibigia , Hormathophylla , and Physoptychis ), a Berteroa and allies clade (includes Aurinia , Berteroa , and Galitzkya ), a Bornmuellera clade, and a Hormathophylla clade. Morphological and cytological support for these clades is reviewed. The ITS data support the exclusion of the following taxa from the Alysseae, with appropriate tribal assignment given in parentheses: Alyssum klimesii Al-Shehbaz (Camelineae), Asperuginoides (unresolved), Athysanus (Arabideae), Botschantzevia (Arabideae), Didymophysa (unresolved), Farsetia (Malcolmieae), Lobularia (Malcolmieae), and Ptilotrichum (Arabideae). Farsetia and Lobularia are inferred to be monophyletic, and based on molecular and morphological characters they are assigned to Malcolmieae, a recently described tribe.

Revised circumscription of Nothofagus and recognition of the segregate genera Fuscospora, Lophozonia, and Trisyngyne (Nothofagaceae)

Phytotaxa ◽  
2013 ◽  
Vol 146 (1) ◽  
pp. 1 ◽  
Author(s):  
PETER B. HEENAN ◽  
ROB D. SMISSEN
Keyword(s):  
Phylogenetic Analysis ◽  
South America ◽  
Papua New Guinea ◽  
New Genus ◽  
New Caledonia ◽  
Sequence Data ◽  
Morphological Characters ◽  
New Combinations ◽  
Southern South America ◽  
Dna Sequence Data

The generic taxonomy of the Nothofagaceae is revised. We present a new phylogenetic analysis of morphological characters and map these characters onto a recently published phylogenetic tree obtained from DNA sequence data. Results of these and previous analyses strongly support the monophyly of four clades of Nothofagaceae that are currently treated as subgenera of Nothofagus. The four clades of Nothofagaceae are robust and well-supported, with deep stem divergences, have evolutionary equivalence with other genera of Fagales, and can be circumscribed with morphological characters. We argue that these morphological and molecular differences are sufficient for the four clades of Nothofagaceae to be recognised at the primary rank of genus, and that this classification will be more informative and efficient than the currently circumscribed Nothofagus with four subgenera.        Nothofagus is recircumscribed to include five species from southern South America, Lophozonia and Trisyngyne are reinstated, and the new genus Fuscospora is described. Fuscospora and Lophozonia, with six and seven species respectively, occur in New Zealand, southern South America and Australia. Trisyngyne comprises 25 species from New Caledonia, Papua New Guinea and Indonesia. New combinations are provided where necessary in each of these genera.

Higher-level relationships among the eucalypts are resolved by ITS-sequence data

2002 ◽  
Vol 15 (1) ◽  
pp. 49 ◽  
Author(s):  
Dorothy A. Steane ◽  
Dean Nicolle ◽  
Gay E. McKinnon ◽  
René E. Vaillancourt ◽  
Brad M. Potts
Keyword(s):  
Internal Transcribed Spacer ◽  
Sequence Data ◽  
Its Region ◽  
Molecular Data ◽  
Nuclear Ribosomal Dna ◽  
Its Sequence ◽  
Phylogenetic Groups ◽  
Single Section ◽  
Western Australian ◽  
Genus Eucalyptus

This expanded survey of ITS sequences represents the largest analysis of molecular data ever attempted on Eucalyptus. Sequences of the internal transcribed spacer (ITS) region of the nuclear ribosomal DNA were included in an analysis of 90 species of Eucalyptus s.s. and 28 species representing eight other genera (Allosyncarpia, Angophora, Arillastrum, Corymbia, Eucalyptopsis, Stockwellia, Lophostemon and Metrosideros). The results of the study indicate that Angophora and Corymbia form a well-supported clade that is highly differentiated from Eucalyptus s.s. Corymbia species are divided between two clades, one of which may be the sister to Angophora. Allosyncarpia, Arillastrum, Eucalyptopsis and ‘Stockwellia’ are also highly differentiated from Eucalyptus s.s. If the genus Eucalyptus is to be expanded to include Angophora and Corymbia(sensu Brooker 2000), ITS data suggest that Allosyncarpia, Eucalyptopsis, ‘Stockwellia’ and potentially Arillastrum should also be included in Eucalyptus s.l. The ITS data suggest that subg. Symphyomyrtus is paraphyletic and that subg. Minutifructus should be included within it. Within subg.Symphyomyrtus, only sect. Maidenaria appears to be monophyletic. Sections Adnataria and Dumaria are probably monophyletic; sections Exsertaria and Latoangulatae are very close and probably should be combined in a single section. Section Bisectae is polyphyletic and is divided into two distinct lineages. The phylogenetic groups depicted by ITS data are consistent with the frequency of natural inter-specific hybridisations as well as data from controlled crosses within subgenus Symphyomyrtus. The ITS data illustrate that subg. Idiogenes and western Australian monocalypts are early evolutionary lines relative to E. diversifolia, E. rubiginosa (monotypic subg. Primitiva) and the eastern monocalypts and that subg. Primitiva should be sunk into subg. Eucalyptus. Subgenus Eudesmia may be monophyletic, grouping with subgenera Idiogenes and Eucalyptus. Further work is required to confirm the phylogenetic positions of the monotypic subgenera Alveolata, Cruciformes, Acerosae and Cuboidea.

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