Meiothermus rufus sp. nov., a new slightly thermophilic red-pigmented species and emended description of the genus Meiothermus

Four red-pigmented isolates, with optimum growth temperatures of approximately 55–60 °C and an optimum pH for growth between 7.5 and 8.5, were recovered from hot springs in Central France. Phylogenetic analysis of the 16S rRNA gene sequences showed that these organisms represented a new species of the genus Meiothermus. The new isolates could be distinguished from other strains of the species of the genus Meiothermus primarily by the glycolipid profile and fatty acid composition because these organisms lacked the hydroxy fatty acids and the glycolipid variant GL-1a found in all other isolates of the species of Meiothermus examined. On the basis of the results presented here we propose the name Meiothermus rufus for the new species, which is represented by strains CAL-4^T (=DSM 22234^T=LMG 24878^T) and CAL-12 (=DSM 22235=LMG 24879). We also propose emending the genus Meiothermus to include strains that have only one glycolipid instead of two glycolipid variants.     

Zopfochytrium is a new genus in the Chytridiales with distinct zoospore ultrastructure

While surveying chytrid diversity in lakes and streams, we found on cellulosic bait a chytrid that had both monocentric and polycentric thallus forms. We brought this chytrid into axenic culture from three sites in eastern North America, studied its thallus development and zoospore ultrastructure, and compared its 28S rDNA sequence with those of other members of the Chytridiomycota. Thallus morphology matched that described for the rare chytrid, Cladochytrium polystomum Zopf. Sporangia were spherical and produced numerous long discharge tubes. After discharge, zoospores remained in spherical clusters at the tips of the inoperculate openings of discharge tubes. After 10–30 min zoospores either swam away or encysted in place. Zoospore ultrastructural features included a cell coat, flagellar plug, and paracrystalline inclusion, features typical of members of the Chytridiales. However, the flagellar apparatus structure and organellar organization differed from that of zoospores previously described. Based on its molecular phylogeny and its zoospore ultrastructural features, we classify C. polystomum as a member of the Chytridiaceae in the Chytridiales. Because its thallus development and its ribosomal DNA sequences diverged decidedly from those of Cladochytrium tenue Nowak, the type species of Cladochytrium, we erected Zopfochytrium as a new genus for this chytrid.     

A phylogenetic and morphological overview of sections Bohusia, Sanguinolenti, and allied sections within Agaricus subg. Pseudochitonia with three new species from France,Iran, and Portugal

The genus Agaricus was recently rearranged to accommodate numerous tropical taxa. Accordingly, the genus was split into six subgenera and 22 sections of which 12 are included in A. subg. Pseudochitonia. Preliminary data indicated that three putative new species belong to this subgenus. Our objectives were to describe these species, to determine to which sections they belong, and to experience the interest of some traditional traits in this new context. We morphologically described Agaricus coniferarum from France and Portugal, Agaricus iranicus from Iran, and Agaricus lusitanicus from Portugal. Multi-gene phylogenetic analyses based on ITS, LSU, and tef1 sequence data of representatives of the 12 sections clearly indicated that A. coniferarum and A. lusitanicus are placed in Agaricus sect. Bohusia, while A. iranicus is in A. sect. Sanguinolenti. Incidentally, we replaced the illegitimate name Agaricus magnivelaris by Agaricus fiardianus. In a phylogenetic tree, based on all available ITS sequence data and focussing on six related sections, we examined the phylogenetic distribution of various characters. The intensity of red discolouration when the sporocarp is rubbed or cut appeared as a phylogenetically weak informative trait. We propose a determination key leading to a group of three hardly distinguishable sections (Bohusia, Nigrobrunnescentes, and Sanguinolenti).     

Analysis of core genes supports the reclassification of strains Agrobacterium radiobacter K84 and Agrobacterium tumefaciens AKE10 into the species Rhizobium rhizogenes

Some strains of the former genus Agrobacterium have high biotechnological interest and are currently misclassified. Consequently, in this study, the taxonomic status of the non-pathogenic strain Agrobacterium radiobacter K84, used in biological control, and the tumourigenic strain Agrobacterium tumefaciens AKE10, able to regenerate tobacco transgenic plants, was revised. The phylogenetic analysis of the chromosomal genes rrs, atpD and recA showed that they should be reclassified into Rhizobium rhizogenes. The analysis of virulence genes located in the Ti plasmid (pTi) outside T-DNA showed a common phylogenetic origin among strains AKE10, R. rhizogenes 163C and A. tumefaciens (currently R. radiobacter) C58. However, the genes located inside the T-DNA, mainly the 6b gene, of strain AKE10 were phylogenetically close to those of strain 163C but divergent from those of strain C58. Furthermore, the T-DNA of tumourigenic strains from R. rhizogenes conferred on them the ability to regenerate tumour tissue resembling fasciation in tobacco plants. These results showed the existence of a highly mosaic genetic organization in tumourigenic strains of the genus Rhizobium and provided evidence of the involvement of T-DNA from tumourigenic strains of R. rhizogenes in fasciation of Nicotiana leaves. The data further suggested that pathogenic strains of Rhizobium could be good models to analyse bacterial evolution.     

Description of a new species of the genus Anochetus Mayr (Hymenoptera: Formicidae) from Orchid Island,Taiwan

A trap-jaw ant Anochetus lanyuensis sp. nov., belonging to the graeffei species group Brown, 1978, is described on the basis of worker and gyne castes from Orchid Island (Lanyu), Taiwan. A. lanyuensis sp. nov. is easily distinguishable from the other species in the graeffei species group by the large size of its eye, longitudinal striae on the pronotal disc, and concave dorsal margin of the petiolar node in the frontal view.     

Molecular phylogeny of Phoma and allied anamorph genera: Towards a reclassification of the Phoma complex

The present generic concept of Phoma is broadly defined, with nine sections being recognised based on morphological characters. Teleomorph states of Phoma have been described in the genera Didymella, Leptosphaeria, Pleospora and Mycosphaerella, indicating that Phoma anamorphs represent a polyphyletic group. In an attempt to delineate generic boundaries, representative strains of the various Phoma sections and allied coelomycetous genera were included for study. Sequence data of the 18S nrDNA (SSU) and the 28S nrDNA (LSU) regions of 18 Phoma strains included were compared with those of representative strains of 39 allied anamorph genera, including Ascochyta, Coniothyrium, Deuterophoma, Microsphaeropsis, Pleurophoma, Pyrenochaeta, and 11 teleomorph genera. The type species of the Phoma sections Phoma, Phyllostictoides, Sclerophomella, Macrospora and Peyronellaea grouped in a subclade in the Pleosporales with the type species of Ascochyta and Microsphaeropsis. The new family Didymellaceae is proposed to accommodate these Phoma sections and related anamorph genera. The present study demonstrated that Phoma radicina, the type species of Phoma sect. Paraphoma and Phoma heteromorphospora, the type species of Phoma sect. Heterospora can be assigned to the Phaeosphaeriaceae and Leptosphaeriaceae respectively.     

Towards a phylogeny and definition of species at the molecular level within the genus Mycobacterium

16S rRNA sequences from Mycobacterium tuberculosis, M. avium, M. gastri, M. kansasii, M. marinum, M. chelonae, M. smegmatis, M. terrae, M. gordonae, M. scrofulaceum, M. szulgai, M. intracellulare, M. nonchromogenicum, M. xenopi, M. malmoense, M. simiae, M. flavescens, M. fortuitum, and M. paratuberculosis were determined and compared. The sequence data were used to infer a phylogenetic tree, which provided the basis for a systematic phylogenetic analysis of the genus Mycobacterium. The groups of slow- and fast-growing mycobacteria could be differentiated as distinct entities. We found that M. simiae occupies phylogenetically an intermediate position between these two groups. The phylogenetic relatedness within the slow-growing species did not reflect the Runyon classification of photochromogenic, scotchromogenic, and nonchromogenic mycobacteria. In general, the phylogenetic units identified by using rRNA sequences confirmed the validity of phenotypically defined species; an exception was M. gastri, which was indistinguishable from M. kansasii when this kind of analysis was used.     

Taxonomic significance of the epicuticular wax composition in species of the genus Clusia from Panama

We attempted to separate species of the genus Clusia according to the concentration of linear alkanes (C25 and C35), and the presence and diversity of terpenes in epicuticular wax extracts. We collected leaves of 15 Clusia species growing in mountain forests of Panama (Cerro Jefe 1007 m and Altos de Campana 800 m a.s.l.) and from cultivated plants at two lowland sites. Leaf surfaces were washed gently with hexane to extract epicuticular waxes, which were analyzed using gas chromatography and mass spectrometry. The predominant alkanes were C29, C31, and C33. In the extract the ratio C31/C29 was ≤1 in 6 of the 15 species analyzed: Clusia multiflora, Clusia peninsulae (Hammel ined.), Clusia stenophylla, Clusia liesneri, Clusia coclensis, and Clusia triflora. The concentrations of C29 and C33 were inversely related, the latter being above 10% in Clusia divaricata, Clusia pratensis, Clusia rosea, Clusia uvitana, and Clusia valerioi. Proportion of triterpenes was less than 5% in the species C. minor, C. pratensis, C. uvitana, C. rosea, Clusia cylindrica, C. divaricata, and C. valerioi. The rest contained squalene, and specific triterpenes such as β-amyrine in C. liesneri, betuline in Clusia osseocarpa, taraxerol in C. stenophylla, and lupeol in C. multiflora. The variety of triterpenes was higher in Clusia liesneri (5) and C. multiflora (3). The results suggest that groups of species can be distinguished within the genus according to the presence of terpenes and ratios of linear alkanes. These groups overlap with those generated by other classifications using morphology and nuclear ribosomal DNA.     

Lepidoderma cristatosporum, a new species of myxomycete from Australia

A new species of myxomycete, Lepidoderma cristatosporum, is described from Australia. This species is represented by material collected on subantarctic Macquarie Island. Photographs of fruiting bodies and morphological features as observed under light microscopy are provided, along with micrographs of spore ornamentation as observed by scanning electron microscopy. In addition, the new species is compared with other taxa belonging to the genera Lepidoderma and Diderma, especially with the type material of Lepidoderma crustaceum, a very similar species, and Diderma ochraceum and D. sauteri, two species also muscicolous, for which microphotographs are provided.     

Morphology,zoospore ultrastructure,and phylogenetic position of Polyphlyctis willoughbyi, a new species in Chytridiales (Chytridiomycota)

The purpose of our research is to investigate the morphology, zoospore ultrastructure, and molecular phylogenetic placement of a chytrid from Australia. From a survey of chytrid fungi in New South Wales, Australia, we isolated strain PL AUS 026 and putatively identified it as Polyphlyctis unispina. Light microscopic evaluation determined strain PL AUS 026 to be similar to two other strains of P. unispina characterized in the literature but to have a more complex thallus than that of the type. Molecular phylogenetic analyses placed our strain as sister of or basal to Chytridiaceae, Chytridiales. Ultrastructural analysis of the zoospore of strain PL AUS 026 revealed unique features. On the basis of our analyses we designate strain PL AUS 026 as a new species, Polyphlyctis willoughbyi. This research extends our concept of Chytridiaceae systematics and ultrastructural variation in the Chytridiales zoospore.     

On the status of the Permian radiolarian genus Multisphaera Nazarov and Afanasieva, 2000

Based on the detailed morphological study of the type species of the genus Multisphaera Nazarov and Afanasieva, the author emends the status and diagnosis of this genus and of the subfamily Multisphaerinae Nazarov and Afanasieva. He found that the initial spicule of the type species is not multi-rayed, as initially thought, but a tetrahedral spicule. Accordingly, the genus is assigned to the former tribe Tetrentactiniini Kozur and Mostler that is herein raised to the family rank and comprises all Upper Devonian to lower Permian genera with a tetrahedral initial spicule. Consequently, the subfamily Multisphaerinae is considered a junior synonym of the family Tetrentactiniidae. To better solve the taxonomic problems of this family the author compares the morphological diversity of its members with the morphological diversity of the lower Tithonian (uppermost Jurassic) tetrahedral spicule-bearing entactinarian Radiolaria occurring in the Solnhofen area, southern Germany. Although these genera have the same type of spicule as the Paleozoic ones, they seem to belong to a new family because between the lower Tithonian and the lower Permian genera there is a long time interval of about 120 Ma in which no radiolarians with a tetrahedral initial spicule have been recorded so far. This comparison shows once more the conservative character of the initial spicule and the wide morphological diversity of the extraspicular shell.     

Entomopathogenic species of the hyphomycete genus Tolypocladium

Two entomopathogenic species of the hyphomycete genus Tolypocladium are described in detail. Tolypocladium extinguens sp. nov. was found on larvae of Arachnocampa luminosa (Diptera; Mycetophilidae) in caves in New Zealand. Tolypocladium cylindrosporum W. Gams is shown to be pathogenic to Aedes sierrensis and A. australis and is reported from Plecia nearctica (Diptera; Bibionidae). The occurrence of entomopathogenic species in this normally soil-borne genus is discussed.     

Mortierella sugadairana,a new homothallic species related to the firstly described heterothallic species in the genus

A new species, Mortierella sugadairana, is described for a fungus forming homothallic zygospores with a club-shaped macrosuspensor and a microsuspensor originating from the macrosuspensor. The species was isolated from cool regions in Japan and morphologically and phylogenetically close to a heterothallic species M. parvispora, which is the first species reported as a heterothallic species in the genus. Mycelial growth of the species was limited at 30 °C, whereas two isolates of M. parvispora can grow. This may indicate that the species and M. parvispora adapted to different climates from a common ancestor involving differentiation of the manner of reproduction.