Divergence, diversity and species of the Australasian Callitris (Cupressaceae) and allied genera: evidence from ITS sequence data

Callitris Vent. is the most speciose of the Southern Hemisphere genera of Cupressaceae, occupying a diverse range of habitats within Australia and New Caledonia and is closely allied to Actinostrobus Miq. and the monotypic New Caledonian genus Neocallitropsis Florin. Results of phylogenetic analyses of 18S–26S rDNA internal transcribed spacer region sequences for representatives of 12 of the 18 currently recognised species of Callitris, two of the three Actinostrobus species and the single known species of Neocallitropsis help to clarify major lineages and relationships in this group. ITS data provide strong evidence against the monophyly of Callitris as currently circumscribed, with the strongest evidence being for the inclusion of the New Caledonian monotypic species Neocallitropsis pancheri (Carriere) de Laubenfels. This species shares a close relationship with C. sulcata (Parl.) Schltr. Three representatives of Actinostrobus are monophyletic and are placed in a polytomy with C.�drummondii (Parl.) F.Muell., although indels provide some support for the early divergence of Actinostrobus in this group. Remaining sampled members of Callitris form a weakly supported clade, with C. macleayana (F.Muell.) F.Muell. sister to a highly robust core Callitris. Relationships within this core Callitris are unresolved; however, the following seven lineages are supported: C. rhomboidea R.Br. ex Rich.; C. muelleri (Parl.) F.Muell., C. oblonga Rich. and C. endlicheri (Parl.) F.M. Bailey; C. gracilis R.T. Baker, C. glaucophylla Thompson & Johnson and C.�tuberculata R.Br. ex R.T. Baker & Smith; C. intratropica Baker & Smith; and C. columellaris F.Muell. There has been a marked increase in the rate of divergence of ITS sequences during the evolution of those populations assigned to C. intratropica, which perhaps reflects speciation processes within this widely distributed group.

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Phallus haitangensis, a new species of stinkhorn from Yunnan Province, China

Phytotaxa ◽

10.11646/phytotaxa.280.2.2 ◽

2016 ◽

Vol 280 (2) ◽

pp. 116 ◽

Cited By ~ 1

Author(s):

HUILI LI ◽

XUELAN MA ◽

PETER E. MORTIMER ◽

SAMANTHA C. KARUNARATHNA ◽

JIANCHU XU ◽

...

Keyword(s):

New Species ◽

Related Species ◽

Internal Transcribed Spacer ◽

Yunnan Province ◽

Sequence Data ◽

Phylogenetic Analyses ◽

Its Sequence ◽

Closely Related Species ◽

Line Drawings ◽

A New Species

Four specimens of Phallus were collected during surveys in a Pinus armandii forest in Baoshan, Yunnan Province, China. Macro- and micro-characteristics, together with Internal Transcribed Spacer (ITS) sequence data, showed that the four specimens belong to a new species, here named Phallus haitangensis. The ITS phylogenetic analyses, morphological descriptions, color photographs, and line drawings are provided, and compared with closely related species in the genus.

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Kamalia indica, a new genus and species belonging to Diaporthales (Ascomycota, Fungi) described based on morphology and molecular phylogeny

Phytotaxa ◽

10.11646/phytotaxa.425.4.4 ◽

2019 ◽

Vol 425 (4) ◽

pp. 233-243

Author(s):

SHIWALI RANA ◽

SANJAY KUMAR SINGH

Keyword(s):

Dna Sequences ◽

Internal Transcribed Spacer ◽

New Genus ◽

Sequence Data ◽

Phylogenetic Analyses ◽

Large Subunit ◽

Type Specimen ◽

Morphological Description ◽

Fungal Culture ◽

Internal Transcribed Spacer Region

A fungal taxa isolated from leaf spots of Mallotus philippensis from Kangra district of North-Western Himalayan region of India is established as a new genus based on morphological characters of asexual-morphs, cultural characteristics and phylogenetic analyses of the partial nuclear ribosomal 28S large subunit (LSU) and internal transcribed spacer (ITS) rDNA sequence data. The generic placement of the genus has been determined based on DNA sequences from authenticated isolates. The present taxon has turned out to be distinct, showing nearly 90% identity with other known genera in Diaporthales based on nrDNA internal transcribed spacer region. The morphological description is provided for the new taxa and compared with the similar taxa belonging to the order Diaporthales. The culture was found to show heavy sporulation in all kind of media. The type specimen and ex type culture have been deposited in the Ajrekar Mycological Herbarium (AMH) and National Fungal Culture Collection of India (NFCCI-WDCM 932), respectively.

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

Australian Systematic Botany ◽

10.1071/sb00039 ◽

2002 ◽

Vol 15 (1) ◽

pp. 49 ◽

Cited By ~ 82

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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Rhexocercosporidium camporesii sp. nov. (Ploettnerulaceae, Helotiales) from Italy

Phytotaxa ◽

10.11646/phytotaxa.482.1.2 ◽

2021 ◽

Vol 482 (1) ◽

pp. 14-24

Author(s):

KUNTHIDA PHUTTHACHAROEN ◽

K.W. THILINI CHETHANA ◽

RUNGTIWA PHOOKAMSAK ◽

ERIC H.C. MCKENZIE ◽

KEVIN D. HYDE

Keyword(s):

New Species ◽

Sequence Data ◽

Phylogenetic Analyses ◽

Gene Analysis ◽

Morphological Description ◽

Its Sequence ◽

A New Species

A new species, Rhexocercosporidium camporesii was collected from dead branches of Scabiosa maritima (Caprifoliaceae) in Forlì-Cesena, Italy. The new species is characterized by a lack of setae surrounding the apothecia and by fusiform, aseptate ascospores containing multiple guttules. Rhexocercosporidium camporesii has larger asci and ascospores than other species of Rhexocercosporidium. Phylogenetic analyses using a combined gene analysis of LSU and ITS sequence data indicated that the new species belongs to Ploettnerulaceae (Helotiales). A detailed morphological description and illustration of the new species are provided.

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Amanita mansehraensis, a new species in section Vaginatae from Pakistan

Phytotaxa ◽

10.11646/phytotaxa.409.4.1 ◽

2019 ◽

Vol 409 (4) ◽

pp. 189-201 ◽

Cited By ~ 1

Author(s):

MALKA SABA ◽

DANNY HAELEWATERS ◽

MUHAMMAD FIAZ ◽

ABDUL NASIR KHALID ◽

DONALD H. PFISTER

Keyword(s):

New Species ◽

Ribosomal Rna ◽

Internal Transcribed Spacer ◽

Sequence Data ◽

Large Subunit ◽

Pine Forests ◽

Evolutionary Relationships ◽

Internal Transcribed Spacer Region ◽

Bayesian Inferences ◽

A New Species

A new species of Amanita subgenus Amanita sect. Vaginatae is described and illustrated based on material collected in pine forests in district Mansehra, Khyber Pakhtoonkhaw, Pakistan. Amanita mansehraensis is recognized by the presence of a light brown or light greyish olive pileus with strong brown or deep brown pileus center; non-appendiculate, rimose, sulcate or plicate striate pileus margin; subglobose to ellipsoid basidiospores; and a saccate volva. The internal transcribed spacer region (ITS) and large subunit of the nuclear ribosomal RNA gene (nrLSU) were used for the delimitation of this species based on sequence data. The evolutionary relationships of A. mansehraensis with other species of Amanita were inferred by means of Maximum Likelihood and Bayesian inferences of the nrLSU dataset and concatenated ITS+nrLSU dataset. Amanita mansehraensis is most closely related to A. brunneofuliginea, A. pseudovaginata, and the recently described A. glarea.

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Urocystis cumminsii sp. nov., a smut fungus on Themidaceae from Arizona

Mycotaxon ◽

10.5248/134.591 ◽

2020 ◽

Vol 134 (4) ◽

pp. 591-599

Author(s):

Kyryll G. Savchenko ◽

Sylena R. Harper ◽

Lori M. Carris ◽

Lisa A. Castlebury

Keyword(s):

United States ◽

Sequence Data ◽

Phylogenetic Analyses ◽

First Record ◽

Smut Fungi ◽

Its Sequence ◽

Sequence Analyses ◽

Molecular Phylogenetic ◽

A New Species ◽

Basal Position

The morphology and phylogenetic relationships of a species of Urocystis on Dichelostemma capitatum (Themidaceae, Asparagales) collected in the Tucson Mountains in Arizona, United States, were studied using microscopy and ITS rDNA sequence analyses. This is a first record for smut fungi on hosts from Themidaceae. Molecular phylogenetic analyses based on ITS sequence data revealed its basal position in relation to species on Poaceae. As a result, the smut in leaves of Dichelostemma capitatum is described and illustrated here as a new species, Urocystis cumminsii.

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Diversity of Diatrypaceae Species Associated with Dieback of Grapevines in South Africa, with the Description of Eutypa cremea sp. nov.

Plant Disease ◽

10.1094/pdis-05-17-0738-re ◽

2018 ◽

Vol 102 (1) ◽

pp. 220-230 ◽

Cited By ~ 6

Author(s):

Providence Moyo ◽

Lizel Mostert ◽

Christoffel F.J. Spies ◽

Ulrike Damm ◽

Francois Halleen

Keyword(s):

South Africa ◽

Cross Section ◽

Internal Transcribed Spacer ◽

Dominant Species ◽

Phylogenetic Analyses ◽

Morphological Characters ◽

Internal Transcribed Spacer Region ◽

Canker Pathogen ◽

Grapevine Canker ◽

First Time

Recent studies in grape-growing areas including Australia, California, and Spain have revealed an extensive diversity of Diatrypaceae species on grapevines showing dieback symptoms and cankers. However, in South Africa, little is known regarding the diversity of these species in vineyards. The aim of this study was, therefore, to identify and characterize Diatrypaceae species associated with dieback symptoms of grapevine in South Africa. Isolates were collected from dying spurs of grapevines aged 4 to 8 years old, grapevine wood showing wedge-shaped necrosis when cut in cross section as well as from perithecia on dead grapevine wood. The collected isolates were identified based on morphological characters and phylogenetic analyses of the internal transcribed spacer region (ITS) and β-tubulin gene. Seven Diatrypaceae species were identified on grapevine, namely Cryptovalsa ampelina, C. rabenhorstii, Eutypa consobrina, E. lata, E. cremea sp. nov., Eutypella citricola, and E. microtheca. The dying spurs yielded the highest diversity of species when compared with the wedge-shaped necrosis and/or perithecia. C. ampelina was the dominant species in the dying spurs, followed by E. citricola, whereas E. lata was the dominant species isolated from the wedge-shaped necroses and perithecia. These results confirm E. lata as an important grapevine canker pathogen in South Africa, but the frequent association of C. ampelina with spur dieback suggests that this pathogen plays a more prominent role in dieback than previously assumed. In some cases, more than one species were isolated from a single symptom, which suggests that interactions may be occurring leading to decline of grapevines. C. rabenhorstii, E. consobrina, E. citricola, E. microtheca, and E. cremea are reported for the first time on grapevine in South Africa.

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Phylogenetic relationships of Australian Scirtidae (Coleoptera) based on mitochondrial and nuclear sequences

Invertebrate Systematics ◽

10.1071/is13046 ◽

2014 ◽

Vol 28 (6) ◽

pp. 628 ◽

Cited By ~ 3

Author(s):

Steven J. B. Cooper ◽

Christopher H. S. Watts ◽

Kathleen M. Saint ◽

Remko Leijs

Keyword(s):

Sequence Data ◽

Phylogenetic Analyses ◽

Elongation Factor ◽

Nuclear Gene ◽

Species Complexes ◽

Close Relationship ◽

Molecular Phylogenetic ◽

Coi Sequences ◽

Elongation Factor 1 ◽

Combined Data

Scirtidae is a cosmopolitan group of beetles with aquatic or saproxylic larvae. A large diversity of species has recently been described from Australia, but their systematics is uncertain. There is evidence that current genera are polyphyletic and that Australian species were wrongly placed in northern hemisphere genera. Here we investigate the systematics of Australian Scirtidae using molecular phylogenetic analyses of combined data from the mitochondrial cytochrome c oxidase subunit 1 (COI) and nuclear gene elongation factor 1-α (EF1-α) genes. We also assess the current taxonomy of Australian Scirtidae using partial COI sequences. Bayesian phylogenetic analyses of COI and EF1-α sequence data from 81 taxa show that the Australian genera Contacyphon, Pseudomicrocara and Prionocyphon are polyphyletic. There is no close relationship between Australian and Eurasian genera, with the exception of Scirtes. Phylogenetic analyses of partial COI data from Australian Scirtidae generally support the current α taxonomy, with the exception of several species that may be associated with species complexes. Geographically a high proportion of species lineages are restricted to relict patches of wet forest suggesting that they may be relict populations. The phylogeny and sequence data presented here provide a sound basis for further systematic and biogeographical studies of the Scirtidae.

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A new concept for Dictyostelium sphaerocephalum based on morphology and phylogenetic analysis of nuclear ribosomal internal transcribed spacer region sequences

Canadian Journal of Botany ◽

10.1139/b06-147 ◽

2007 ◽

Vol 85 (1) ◽

pp. 104-110 ◽

Cited By ~ 2

Author(s):

Maria Romeralo ◽

Omar Fiz-Palacios ◽

Carlos Lado ◽

James C. Cavender

Keyword(s):

Phylogenetic Analysis ◽

Phylogenetic Relationships ◽

Internal Transcribed Spacer ◽

Phylogenetic Analyses ◽

Morphological Plasticity ◽

Branching Pattern ◽

Classical Concept ◽

Internal Transcribed Spacer Region

Three dictyostelid isolates were found in Spain and Argentina that are morphologically different from known species. These isolates have some features similar to Dictyostelium sphaerocephalum (Oudem.) Sacc., Marchal & É.J. Marchal, but differ in size and sorocarp branching pattern. We sequenced the nuclear ribosomal internal transcribed spacer region to explore phylogenetic relationships among this group of species, including the three new isolates and their closest relatives. In all phylogenetic analyses performed, sequences of all three isolates group together with sequences from “typical” D. sphaerocephalum samples. This result supports previous observations of the morphological plasticity in dictyostelids, especially D. sphaerocephalum, leading us to broaden the classical concept of this species.

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