Reclassification of Eubacterium combesii and discrepancies in the nomenclature of botulinum neurotoxin-producing clostridia: Challenging Opinion 69. Request for an Opinion.

To clarify the taxonomic position of Eubacterium combesii, the whole genome of its type strain, DSM 20696T, was sequenced. Comparison of this sequence with known sequences of other bacteria confirmed that E. combesii represented a member of the Clostridium sporogenes/Clostridium botulinum Group I clade. However, the results of phylogenetic analysis also demonstrated that the latter two species did not form the same genetic entity and that E. combesii was in the C. botulinum Group I subclade. Meanwhile, we showed that E. combesii DSM 20696T did not produce botulinum neurotoxins (BoNTs) and thus should be identified as a strain of C. sporogenes in accordance with the current nomenclature of BoNT-producing clostridia, which is based, in particular, on Opinion 69 issued by the Judicial Commission of the ICSB. However, review of the corresponding Request for an Opinion revealed that it had been based on an erroneous statement. Therefore, we request reconsideration of Opinion 69 and propose to reclassify Eubacterium combesii as a later synonym of Clostridium botulinum. The results of phylogenetic analysis of the other five groups of BoNT-producing clostridia indicated that all the groups were far distant from each other. However, the members of Groups IV-VI are classified as strains of different species, while all members of Groups I-III are designated C. botulinum. Meanwhile, similarly to Group I, Groups II and III are also polyphyletic and appear to consist of two and four species, respectively. These results demonstrate, once again, discrepancies in the nomenclature of BoNT-producing bacteria and corroborate our request for reconsideration of Opinion 69.

Three new species of arbuscular mycorrhizal fungi (Glomeromycota) and Acaulospora gedanensis revised.

Studies of the morphology and the 45S nuc rDNA phylogeny of three potentially undescribed arbuscular mycorrhizal fungi (phylum Glomeromycota) grown in cultures showed that one of these fungi is a new species of the genus Diversispora in the family Diversisporaceae; the other two fungi are new Scutellospora species in Scutellosporaceae. Diversispora vistulana sp. nov. came from maritime sand dunes of the Vistula Spit in northern Poland, and S. graeca sp. nov. and S. intraundulata sp. nov. originally inhabited the Mediterranean dunes of the Peloponnese Peninsula, Greece. In addition, the morphological description of spores of Acaulospora gedanensis, originally described in 1988, was emended based on newly found specimens, and the so far unknown phylogeny of this species was determined. The phylogenetic analyses of 45S sequences placed this species among Acaulospora species with atypical phenotypic and histochemical features of components of the two inner germinal walls.

Reinstatement of species rank for Grimmialimprichtii (Bryophyta, Grimmiaceae) based on molecular and morphological data.

The genus Grimmia Hedw. has been considered taxonomically difficult because of its great morphological variability, and its treatments by different specialists have led to incongruent results. One of the debates in the genus is the species status of Grimmialimprichtii Kern, an Asian-European disjunct moss species that has been considered identical to Grimmiaanodon Bruch & Schimp. or Grimmiatergestina Tomm ex Bruch & Schimp. It has also been regarded as the muticous-leaved male plants of G.tergestina. Based on a detailed analysis of the type and many non-type specimens combining the molecular and morphological data, the reinstatement of species rank for G.limprichtii is proposed. The diagnostic characteristics of G.limprichtii and its distinction from some closely related species, with which it may be confused, are discussed. Grimmiaobtusifolia C. Gao & T. Cao is considered a synonym of G.limprichtii based on molecular and morphological data.

A new order, Entrophosporales, and three new Entrophospora species in Glomeromycota.

As a result of phylogenomic, phylogenetic, and morphological analyses of members of the genus Claroideoglomus, four potential new glomoid spore-producing species and Entrophospora infrequens, a new order, Entrophosporales, with one family, Entrophosporaceae (=Claroideoglomeraceae), was erected in the phylum Glomeromycota. The phylogenomic analyses recovered the Entrophosporales as sister to a clade formed by Diversisporales and Glomeraceae. The strongly conserved entrophosporoid morph of E. infrequens, provided with a newly designated epitype, was shown to represent a group of cryptic species with the potential to produce different glomoid morphs. Of the four potential new species, three enriched the Entrophosporales as new Entrophospora species, E. argentinensis, E. glacialis, and E. furrazolae, which originated from Argentina, Sweden, Oman, and Poland. The fourth fungus appeared to be a glomoid morph of the E. infrequens epitype. The physical association of the E. infrequens entrophosporoid and glomoid morphs was reported and illustrated here for the first time. The phylogenetic analyses, using nuc rDNA and rpb1 concatenated sequences, confirmed the previous conclusion that the genus Albahypha in the family Entrophosporaceae sensu Oehl et al. is an unsupported taxon. Finally, the descriptions of the Glomerales, Entrophosporaceae, and Entrophospora were emended and new nomenclatural combinations were introduced.

Out of the blue: A new rain frog species of the genus Pristimantis (Anura: Craugastoridae) from the northern Cordillera Central in Colombia.

Continuous sampling in well studied areas may lead to new amphibian species discoveries, because population dynamics allow rare species to go unnoticed for years. Based on recent sampling of frogs in the northeastern region of Colombia, here we provide genetic, morphological, and bioacoustics evidence to support the description of a new species of the genus Pristimantis. Phylogenetic analysis suggests the new species is a member of the P. lacrimosus species group, a clade of 25 species that is highly diverse in Ecuador and Peru. This new species is more closely related to allopatric species from Peru and Guyana (i.e. P. olivaceus, P. pluvialis, P. pulchridormientes, and an undetermined Pristimantis). The new species has green-yellow coloration and a remarkable brown interocular band, which is unusual in the genus and which inspired the epithet. Pristimantis zorro sp. nov. has only been found at one locality at 1860 m s.a.l., on the eastern flank of the northern Cordillera Central in Department of Antioquia, Colombia. The new species inhabits the ecotone between the humid cloud forest and open areas. Repeated visits to the type locality suggest high variation in population abundance and/or species detection, because we have occasionally observed many individuals in briefs periods of times. In addition, we discuss the biogeographical and systematic implications of our species discovery.

Geographically structured genetic variation in Ptychozoon lionotum (Squamata: Gekkonidae) and a new species from an isolated volcano in Myanmar.

A molecular phylogenetic analysis of Parachute Geckos (Genus Ptychozoon Kuhl van Hasselt, 1822) based on the mitochondrial gene ND2 indicates that a newly discovered population from the Mt. Popa volcano-a habitat island in the northern portion of the Bago Yoma mountains, Myanmar-is a new species, P. popaense sp. nov. This species is part of a clade that contains P. bannanense Wang, Wang, Liu, 2016 and P. lionotum Annandale, 1905 of Indochina. Ptychozoon popaense sp. nov. is morphologically most similar to its sister species P. lionotum  which manifests considerable geographic substructuring of genetic variation but differs from the nominate taxon by an uncorrected pairwise sequence divergence of 16.0-17.1% and by discrete differences in morphology and color pattern. This discovery highlights the unique, insular nature of the Bago Yoma mountains of the Ayeyarwady Basin, which support other endemic gekkonids. It also underscores the growing diversity in this highly derived clade of cryptic, parachuting, geckos characterized by highly divergent genetic lineages, which may indicate the presence of additional, unrecognized species.

A re-description of Cyrtodactylus chrysopylos Bauer (Squamata: Gekkonidae) with comments on the adaptive significance of orange coloration in hatchlings and descriptions of two new species from eastern Myanmar (Burma).

The karstic foothills and hilly western edge of the Shan Plateau of eastern Myanmar continue to be sources of discovery for new species of the gekkonid genus Cyrtodactylus. Two new karst-associated species within this unique landscape from Mandalay Region-C. aunglini sp. nov. from the Kyauk Nagar Cave and C. myaleiktaung sp. nov. from Mya Leik Taung Mountain-are described on the basis of color pattern, morphology, and genetics. A molecular phylogeny of the C. gansi group (defined herein) based on 1481 base pairs of the mitochondrial gene ND2 and its flanking tRNAs place C. aunglini sp. nov. as the sister species to C. gansi and C. myaleiktaung sp. nov. as the sister species of C. chrysopylos. A new population of C. chrysopylos from a boulder-strewn, karstic ridge near the village of Yane, Shan State at an elevation 951 m is reported here. Genetic and geographic variation as well as differences in natural history between it and the lowland cave population of C. chrysopylos from the type locality in the Panlaung-Pyadalin Cave Wildlife Sanctuary, Shan State at 303 m are discussed. Hatchlings of the new population from Yane are nearly uniformly bright-orange in color. We provide evidence in support of a hypothesis claiming this color functions as a mechanism for crypsis during low levels of illumination and is not involved in intraspecific communication.

Delimitation of some neotropical laccate Ganoderma (Ganodermataceae): molecular phylogeny and morphology / Delimitación de algunos Ganoderma (Ganodermataceae) lacados neotropicales: filogenia molecular y morfología

Ganoderma includes species of great economic and ecological importance, but taxonomists judge the current nomenclatural situation as chaotic and poorly studied in the neotropics. From this perspective, phylogenetic analyses inferred from ribosomal DNA sequences have aided the clarification of the genus status. In this study, 14 specimens of Ganoderma and two of Tomophagus collected in Brazil were used for DNA extraction, amplification and sequencing of the ITS and LSU regions (rDNA). The phylogenetic delimitation of six neotropical taxa (G. chalceum, G. multiplicatum, G. orbiforme, G. parvulum, G. aff. oerstedtii and Tomophagus colossus) was determined based on these Brazilian specimens and found to be distinct from the laccate Ganoderma from Asia, Europe, North America and from some specimens from Argentina. Phylogenetic reconstructions confirmed that the laccate Ganoderma is distinct from Tomophagus, although they belong to the same group. The use of taxonomic synonyms Ganoderma subamboinense for G. multiplicatum, G. boninense for G. orbiforme and G. chalceum for G. cupreum was not confirmed. However, Ganoderma parvulum was confirmed as the correct name for specimens called G. stipitatum. Furthermore, the name G. lucidum should be used only for European species. The use of valid published names is proposed according to the specimen geographical distribution, their morphological characteristics and rDNA analysis. Rev. Biol. Trop. 62 (3): 1197-1208. Epub 2014 September 01.

Ganoderma incluye especies de gran importancia económica y ecológica, sin embargo, su nomenclatura actual es caótica y poco estudiada en el neotrópico. En este estudio se utilizaron 14 muestras de Ganoderma y dos de Tomophagus recolectados en Brasil para la extracción de ADN, amplificación y secuenciación de las regiones ITS y LSU. La delimitación filogenética de seis táxones neotropicales fue discutida con base en especímenes brasileños y secuencias del GenBank. Estas especies mostraron ser distintas de los Ganoderma lacados de Asia, Europa, América del Norte y de algunos ejemplares de Argentina. Las reconstrucciones filogenéticas confirman que los Ganoderma lacados son distintos de Tomophagus, aunque pertenecen al mismo grupo. No se confirman los sinónimos de G. subamboinense a G. multiplicatum, de G. boninense a G. orbiforme y G. chalceum a G. cupreum. G. parvulum se confirma como el nombre correcto para G. stipitatum. G. lucidum sólo se debe utilizar para especies europeas. Por lo tanto, se propone el uso de nombres publicados válidamente de acuerdo con la distribución geográfica de las muestras, características morfológicas y análisis de ADNr.