Showing papers on "Genus published in 2013"

Classification of the acanthocephala.

Abstract: In 1985, Amin presented a new system for the classification of the Acanthocephala in Crompton and Nickol's (1985) book 'Biology of the Acanthocephala' and recognized the concepts of Meyer (1931, 1932, 1933) and Van Cleave (1936, 1941, 1947, 1948, 1949, 1951, 1952). This system became the standard for the taxonomy of this group and remains so to date. Many changes have taken place and many new genera and species, as well as higher taxa, have been described since. An updated version of the 1985 scheme incorporating new concepts in molecular taxonomy, gene sequencing and phylogenetic studies is presented. The hierarchy has undergone a total face lift with Amin's (1987) addition of a new class, Polyacanthocephala (and a new order and family) to remove inconsistencies in the class Palaeacanthocephala. Amin and Ha (2008) added a third order (and a new family) to the Palaeacanthocephala, Heteramorphida, which combines features from the palaeacanthocephalan families Polymorphidae and Heteracanthocephalidae. Other families and subfamilies have been added but some have been eliminated, e.g. the three subfamilies of Arythmacanthidae: Arhythmacanthinae Yamaguti, 1935; Neoacanthocephaloidinae Golvan, 1960; and Paracanthocephaloidinae Golvan, 1969. Amin (1985) listed 22 families, 122 genera and 903 species (4, 4 and 14 families; 13, 28 and 81 genera; 167, 167 and 569 species in Archiacanthocephala, Eoacanthocephala and Palaeacanthocephala, respectively). The number of taxa listed in the present treatment is 26 families (18% increase), 157 genera (29%), and 1298 species (44%) (4, 4 and 16; 18, 29 and 106; 189, 255 and 845, in the same order), which also includes 1 family, 1 genus and 4 species in the class Polyacanthocephala Amin, 1987, and 3 genera and 5 species in the fossil family Zhijinitidae.

One Fungus, One Name: Defining the Genus Fusarium in a Scientifically Robust Way That Preserves Longstanding Use

Abstract: In this letter, we advocate recognizing the genus Fusarium as the sole name for a group that includes virtually all Fusarium species of importance in plant pathology, mycotoxicology, medicine, and basic research. This phylogenetically guided circumscription will free scientists from any obligation to use other genus names, including teleomorphs, for species nested within this clade, and preserve the application of the name Fusarium in the way it has been used for almost a century. Due to recent changes in the International Code of Nomenclature for algae, fungi, and plants, this is an urgent matter that requires community attention. The alternative is to break the longstanding concept of Fusarium into nine or more genera, and remove important taxa such as those in the F. solani species complex from the genus, a move we believe is unnecessary. Here we present taxonomic and nomenclatural proposals that will preserve established research connections and facilitate communication within and between research communities, and at the same time support strong scientific principles and good taxonomic practice.

A new taxonomy of the family Teloschistaceae

Abstract: The lichen family Teloschistaceae is one of the larger families of lichenized fungi. Currently it includes one very large heterogenous genus, Caloplaca, with some 1000 or more species with a vast variation in morphology, anatomy and chemistry. The rest of the family is split into 1015 smaller genera, each with 20 or fewer species. There is no modern classification of the family based on molecular data. Here we attempt a first phylogenetic evaluation of a large part of the family, including a total of 337 species. Of these, 162 were used in a combined phylogenetic analysis of the ribosomal RNA sequence markers nrITS, nrLSU and mrSSU, using Bayesian inference. We also analysed all species using nrITS data, split into four different analyses. As a result we propose a new classification of the family, where a total of 39 genera are recognized, of which 31 are newly described or resurrected. The new genera are: Athallia, Austroplaca, Bryoplaca, Calogaya, Cerothallia, Flavoplaca, Gondwania, Haloplaca, Orientophila, Pachypeltis, Parvoplaca, Rufoplaca, Shackletonia, Scutaria, Sirenophila, Solitaria, Squamulea, Stellarangia, Teloschistopsis, Usnochroma, Variospora, Villophora and Wetmoreana. Resurrected genera are Blastenia, Dufourea, Follmannia, Gyalolechia, Leproplaca, Polycauliona, Pyrenodesmia and Xanthocarpia. The species Orientophila subscopularis is described as new. A third subfamily, Teloschistoideae, is proposed to accommodate the genus Teloschistes and related genera, parallel to the two previously recognized subfamilies Xanthorioideae and Caloplacoideae. We also show the large plasticity in both morphological and anatomical characters between closely related species within genera, indicating the low value of these as evolutionary markers. The secondary chemistry is a better marker in some parts of the family. We recognize a large number of geographically delimited clades with clear centres of evolution, but often showing large variation in morphology and anatomy. (Less)

Molecular phylogeny, evolution and classification of the Hydrophilidae (Coleoptera)

Abstract: The phylogeny and evolutionary history of the water scavenger beetles (Coleoptera: Hydrophilidae) are inferred from comprehensive analyses of DNA sequence data from the mitochondrial genes COI, COII and 16S and the nuclear genes 18S, 28S and arginine kinase. Bayesian and maximum parsimony analyses included 151 taxa, representing all subfamilies, tribes and subtribes that have ever been proposed in the family, as well as representatives of the hydrophiloid families Helophoridae, Hydrochidae, Spercheidae, Epimetopidae and Georissidae. The resulting well-supported trees strongly disagree with prior classifications of the Hydrophilidae, suggesting that the smaller subfamilies (Horelophinae, Horelophopsinae and Sphaeridiinae) are derived from within the larger Hydrophilinae. The existing tribal classification is more compatible with our results, but many significant differences are evident. Here, we present a new classification of the Hydrophilidae comprising 6 subfamilies and 12 tribes. Each subfamily and tribe is reviewed in detail with (i) a morphological diagnosis, including known or putative morphological synapomorphies, (ii) its taxonomic circumscription, including genera not included in our analyses, and (iii) a review of its general biology and geographic distribution. A new identification key to subfamily and tribe based on adult morphology is also provided. The newly adopted classification requires the following taxonomic changes: the subfamily Hydrophilinae sensu n. is redefined to include only the tribes Amphiopini stat.n. (removed from the synonymy with the Chaetarthriini), Berosini, Laccobiini, Hydrophilini and Hydrobiusini (= Sperchopsini syn.n.); the subfamily Chaetarthriinae stat.n. is removed from synonymy with the Hydrophilinae and includes the tribes Chaetarthriini and Anacaenini (= Horelophinae syn.n.); the Acidocerinae stat.n. (= Horelophopsinae syn.n.) and Rygmodinae stat.n. (= Andotypini syn.n., Borborophorini syn.n. and Tormissini syn.n.) are elevated to subfamily rank; and the subfamily Enochrinae subfam.n. is established for the genus Enochrus and its relatives. The implications for the morphological evolution, ecological transitions and biogeography of the family are discussed.

Taxonomic revision of the olingos (Bassaricyon), with description of a new species, the Olinguito

Abstract: We present the first comprehensive taxonomic revision and review the biology of the olingos, the endemic Neotropical procyonid genus Bassaricyon, based on most specimens available in museums, and with data derived from anatomy, morphometrics, mitochondrial and nuclear DNA, field observations, and geographic range modeling. Species of Bassaricyon are primarily forest-living, arboreal, nocturnal, frugivorous, and solitary, and have one young at a time. We demonstrate that four olingo species can be recognized, including a Central American species (Bassaricyon gabbii), lowland species with eastern, cis-Andean (Bassaricyon alleni) and western, trans-Andean (Bassaricyon medius) distributions, and a species endemic to cloud forests in the Andes. The oldest evolutionary divergence in the genus is between this last species, endemic to the Andes of Colombia and Ecuador, and all other species, which occur in lower elevation habitats. Surprisingly, this Andean endemic species, which we call the Olinguito, has never been previously described; it represents a new species in the order Carnivora and is the smallest living member of the family Procyonidae. We report on the biology of this new species based on information from museum specimens, niche modeling, and fieldwork in western Ecuador, and describe four Olinguito subspecies based on morphological distinctions across different regions of the Northern Andes.

The Wild Relative of Rice: Genomes and Genomics

Abstract: The wild species of the genus Oryza serve as a virtually untapped reservoir of genetic diversity that can be used to improve the world’s most important food crop—rice. The genus is composed of two domesticated (O. sativa and O. glaberrima) and 22 wild species and represents between 15 and 25 million years of evolutionary diversification.

A phylogenetic analysis of the grape genus (Vitis L.) reveals broad reticulation and concurrent diversification during neogene and quaternary climate change

Abstract: Grapes are one of the most economically important fruit crops. There are about 60 species in the genus Vitis. The phylogenetic relationships among these species are of keen interest for the conservation and use of this germplasm. We selected 309 accessions from 48 Vitis species,varieties, and outgroups, examined ~11 kb (~3.4 Mb total) of aligned nuclear DNA sequences from 27 unlinked genes in a phylogenetic context, and estimated divergence times based on fossil calibrations. Vitis formed a strongly supported clade. There was substantial support for species and less for the higher-level groupings (series). As estimated from extant taxa, the crown age of Vitis was 28 Ma and the divergence of subgenera (Vitis and Muscadinia) occurred at ~18 Ma. Higher clades in subgenus Vitis diverged 16 – 5 Ma with overlapping confidence intervals, and ongoing divergence formed extant species at 12 – 1.3 Ma. Several species had species-specific SNPs. NeighborNet analysis showed extensive reticulation at the core of subgenus Vitis representing the deeper nodes, with extensive reticulation radiating outward. Fitch Parsimony identified North America as the origin of the most recent common ancestor of extant Vitis species. Phylogenetic patterns suggested origination of the genus in North America, fragmentation of an ancestral range during the Miocene, formation of extant species in the late Miocene-Pleistocene, and differentiation of species in the context of Pliocene-Quaternary tectonic and climatic change. Nuclear SNPs effectively resolved relationships at and below the species level in grapes and rectified several misclassifications of accessions in the repositories. Our results challenge current higher-level classifications, reveal the abundance of genetic diversity in the genus that is potentially available for crop improvement, and provide a valuable resource for species delineation, germplasm conservation and use.

Frischella perrara gen. nov., sp. nov., a gammaproteobacterium isolated from the gut of the honeybee, Apis mellifera

Abstract: The gut of the Western honeybee, Apis mellifera, is colonized by a characteristic set of bacteria. Two distinct gammaproteobacteria are consistent members of this unique microbial community, and one has recently been described in a new genus and species with the name Gilliamella apicola . Here, we present the isolation and characterization of PEB0191T, a strain belonging to the second gammaproteobacterial species present in the honeybee gut microbiota, formerly referred to as ‘Gammaproteobacterium-2’. Cells of strain PEB0191T were mesophilic and had a mean length of around 2 µm, and optimal growth was achieved under anaerobic conditions. Growth was not obtained under aerobic conditions and was reduced in a microaerophilic environment. Based on 16S rRNA gene sequence analysis, strain PEB0191T belongs to the family Orbaceae , and its closest relatives, with around 95 % sequence similarity, are species of the genera Orbus and Gilliamella . Phylogenetic analyses suggest that PEB0191T is more closely related to the genus Orbus than to the genus Gilliamella . In accordance with its evolutionary relationship, further similarities between strain PEB0191T and other members of the family Orbaceae were revealed based on the respiratory quinone type (ubiquinone 8), the fatty acid profile and the DNA G+C content. Interestingly, like strains of the genus Gilliamella , PEB0191T exhibited a high level of resistance to oxytetracycline. The similar levels of sequence divergence from the genera Gilliamella and Orbus and its uncertain phylogenetic position within the family Orbaceae indicate that strain PEB0191T represents a novel species of a new genus, with the proposed name Frischella perrara gen. nov., sp. nov. The type strain of Frischella perrara is PEB0191T ( = NCIMB 14821T = ATCC BAA-2450T).

Phylogenetic classification of the Drosophilidae Rondani (Diptera): the role of morphology in the postgenomic era

Abstract: Molecular sequences now overwhelm morphology in phylogenetic inference. Nonetheless, most molecular studies are conducted on a limited number of taxa, as DNA rarely can be analysed from old museum types or fossils. During the last 20 years, more than 150 molecular studies have challenged the current phylogenetic classification of the family Drosophilidae Rondani based on morphological characters. Most studies concerned a single genus, Drosophila Fallen, and included only few representative species from 17 out of the 78 genera of the family. Therefore, these molecular studies were unable to provide an alternative classification scheme. A supermatrix analysis of seven nuclear and one mitochondrial genes (8248 bp) for 33 genera was conducted using outgroups from one calyptrate and four ephydroid families. The Bayesian phylogeny was consistent with previous molecular studies including whole genome sequences and divided the Drosophilidae into four monophyletic clades. Morphological characters, mostly male genitalia, then were compared thoroughly between the four clades and homologous character states were identified. These states were then checked for 70 genera and a revised phylogenetic, family-group classification for the Drosophilidae is proposed. Two genera –Cladochaeta Coquillett and Diathoneura Duda – of the tribe Cladochaetini Grimaldi are transferred to the family Ephydridae. The Drosophilidae is divided into two subfamilies: Steganinae Hendel (30 genera) and Drosophilinae Rondani (43 genera). A further two genera, Apacrochaeta Duda and Sphyrnoceps de Meijere, are incertae sedis, and Palmophila Grimaldi, is synonymized with Drosophilasyn.n. The Drosophilinae is subdivided into two tribes: the re-elevated Colocasiomyini Okada (nine genera) and Drosophilini Okada. The paraphyly of the genus Drosophila was not resolved to avoid affecting the binomina of important laboratory model species; however, its subgeneric classification was revised in light of molecular and morphological data. Three subgenera, namely Chusqueophila Brncic, Phloridosa Sturtevant and Psilodorha Okada, were synonymized with the subgenus Drosophila (Drosophila) Fallen syns.n. Among the 45 species groups and 5 species complexes of Drosophila (Drosophila), 22 groups and 1 complex were transferred to the subgenus Drosophila (Siphlodora) Patterson & Mainland and 6 groups, 2 species subgroups and 3 complexes are considered incertae sedis within the genus Drosophila. Different morphological characters provide different signals at different phylogenetic scales: thoracic characters (wing venation and presternal shape) discriminate families; grasping and erection-related characters discriminate subfamilies to tribes; whereas phallic paraphyses, i.e. auxiliary intromittent organs, discriminate genera and Drosophila subgenera. The study shows the necessity of analysing morphological characters within a molecular phylogenetic framework to translate molecular phylogenies into taxonomically-comprehensive classifications.

A revision of the Mexican and Central American species of Vanilla Plumier ex Miller with a characterization of their ITS region of the nuclear ribosomal DNA

Abstract: We present a revision of the Mexican and Central American species of Vanilla. There are 15 different species in the area; Vanilla costaricensis, V. cribbiana, V. dressleri, V. martinezii and V. sarapiquensis are here proposed as new taxa, and V. pompona subsp. pittieri and V. pompona subsp. grandiflora are recognized at subspecific rank. Vanilla calyculata, V. hartii, V. helleri, V. inodora, V. insignis, V. odorata, V. phaeantha, V. planifolia, V. pompona and V. trigonocarpa are also described, illustrated, and their nomenclature, typification, distribution, and other aspects of interest are discussed. Additionally, we include a key to the species. Several Mexican and Central American species of Vanilla are closely related to V. planifolia, V. x tahitensis, and V. pompona, the cultivated species of the genus, and these are thus important in plant breeding. We also include a cladistic analysis of nucleotidic sequences of the internal transcribed spacer region of the nuclear ribosomal DNA, showing that this popular molecular marker is of sufficient variation to allow for species discrimination, permitting, with some exceptions that are discussed, the recognition of sterile samples and indicating that it is a good molecular marker to infer the phylogeny of this group. The similarity and relationship between V. x tahitensis* and V. odorata is discussed.

Viruses and Virus Diseases of Rubus

Abstract: Blackberry and raspberry are members of the family Rosaceae. They are classified in the genus Rubus, which comprises hundreds of species and has a center of origin in the Far East. Rubus is divided into 15 subgenera with blackberries classified in the Rubus (formerly Eubatus) and raspberries in the Idaeobatus subgenera. Rubus species are propagated vegetatively and are subject to infection by viruses during development, propagation, and fruit production stages. Reports of initial detection and symptoms of more than 30 viruses, virus-like diseases, and phytoplasmas affecting Rubus spp. were reviewed more than 20 years ago. Since the last review on Rubus viruses, significant progress has been made in the molecular characterization of many of the viruses that infect Rubus spp. Currently, reverse transcription-polymerase chain reaction detection methods are available for most of the viruses known to infect Rubus. The goals of this article are to update the knowledge on previously characterized viruses of Rubus, highlight recently described viruses, review the virus-induced symptoms, describe the advances made in their detection, and discuss our knowledge about several virus complexes that cause serious diseases in Rubus. Virus complexes have been identified recently as the major cause of diseases in blackberries and raspberries.

Flavobacterium akiainvivens sp. nov., from decaying wood of Wikstroemia oahuensis, Hawai'i, and emended description of the genus Flavobacterium.

Abstract: Strain IK-1T was isolated from decaying tissues of the shrub Wikstroemia oahuensis collected on O‘ahu, Hawai‘i. Cells were rods that stained Gram-negative. Gliding motility was not observed. The strain was oxidase-negative and catalase-positive. Zeaxanthin was the major carotenoid. Flexirubin-type pigments were not detected. The most abundant fatty acids in whole cells of IK-1T grown on R2A were iso-C15 : 0 and one or both of C16 : 1ω7c and C16 : 1ω6c. Based on comparisons of the nucleotide sequence of the 16S rRNA gene, the closest neighbouring type strains were Flavobacterium rivuli WB 3.3-2T and Flavobacterium subsaxonicum WB 4.1-42T, with which IK-1T shares 93.84 and 93.67 % identity, respectively. The G+C content of the genomic DNA was 44.2 mol%. On the basis of distance from its nearest phylogenetic neighbours and phenotypic differences, the species Flavobacterium akiainvivens sp. nov. is proposed to accommodate strain IK-1T ( = ATCC BAA-2412T = CIP 110358T) as the type strain. The description of the genus Flavobacterium is emended to reflect the DNA G+C contents of Flavobacterium akiainvivens IK-1T and other species of the genus Flavobacterium described since the original description of the genus.

A Molecular Phylogenetic Study of the Tribe Corallineae (Corallinales, Rhodophyta) with an Assessment of Genus-Level Taxonomic Features and Descriptions of Novel Genera.

Abstract: A multigene phylogeny using COI-5P (mitochondrial cytochrome c oxidase subunit 1), psbA (PSII reaction center protein D1), and EF2 (elongation factor 2) sequence data for members of the tribe Corallineae was constructed to assess generic boundaries. We determined that traditional reliance on conceptacle position as an indicator of generic affinities in the Corallineae is not supported and taxonomic changes are required. We found that species currently assigned to Pseudolithophyllum muricatum resolved within the Corallineae in all analyses. This is the first record of crustose members in the subfamily Corallinoideae. Further-more, the genus Serraticardia was polyphyletic; we propose to synonomize Serraticardia with Corallina, transfer the type species S. maxima to Corallina (C. maxima (Yendo) comb. nov.), and describe the new genus Johansenia for S. macmillanii (J. macmillanii (Yendo) comb. nov.). Our molecular data also indicate that species in the genus Marginisporum have evolutionary affinities among species of Corallina and these genera should also be synonymized. This necessitates the combinations C. aberrans (Yendo) comb. nov. for M. aberrans (Yendo) Johansen & Chihara, C. crassissima (Yendo) comb. nov. for M. crassissimum (Yendo) Ganesan, and C. declinata (Yendo) comb. nov. for M. declinata (Yendo) Ganesan. Corallina elongata was divergent from all other members of Corallina and is transferred to a new genus, Ellisolandia (E. elongata (J. Ellis & Solander) comb. nov). In addition, COI-5P and internal transcribed spacer (ITS) data combined with morphological characters were used to establish that rather than the four Corallina species recognized in Canada, there are nine.

Integrating multiple lines of evidence to better understand the evolutionary divergence of humpback dolphins along their entire distribution range: a new dolphin species in Australian waters?

Abstract: The conservation of humpback dolphins, distributed in coastal waters of the IndoWest Pacific and eastern Atlantic Oceans, has been hindered by a lack of understanding about the number of species in the genus (Sousa) and their population structure. To address this issue, we present a combined analysis of genetic and morphologic data collected from beach-cast, remote-biopsied and museum specimens from throughout the known Sousa range. We extracted genetic sequence data from 235 samples from extant populations and explored the mitochondrial control region and four nuclear introns through phylogenetic, population-level and population aggregation frameworks. In addition, 180 cranial specimens from the same geographical regions allowed comparisons of 24 morphological characters through multivariate analyses. The genetic and morphological data showed significant and concordant patterns of geographical segregation, which are typical for the kind of demographic isolation displayed by species units, across the Sousa genus distribution range. Based on our combined genetic and morphological analyses, there is convincing evidence for at least four species within the genus (S. teuszii in the Atlantic off West Africa, S. plumbea in the central and western Indian Ocean, S. chinensis in the eastern Indian and West Pacific Oceans, and a new as-yet-unnamed species off northern Australia).

A worldwide catalog of the family Paradoxosomatidae Daday, 1889 (Diplopoda: Polydesmida)

Abstract: A catalog of the family Paradoxosomatidae (order Polydesmida) is presented here listing a total of 198 genera with 975 valid species. Of these, 190 genera containing 960 valid species are arranged in three subfamilies and 22 tribes following Jeekel’s 1968 classification (with one addition by Jeekel in 1983). In addition, eight genera with 15 species are currently of “uncertain tribal position.” Eighty-five of the 198 paradoxosomatid genera are monotypic. Currently, 40 trinom- inals and one variety are accepted in the family. Furthermore, there are 83 species listed as “doubtful species”. The species Porcullosoma albipes , P. castaneum, P. connectens, P. jaujense, P. mamillatum and P. muticum are listed as new combinations, assigned to the genus Ergethus . For each tribe, genus and species bibliographic citations are given, including a citation of the original description and all significant subsequent citations in chronological order. Eighty-eight generic and 120 species- level synonymies are fully referenced, and presented in table form. Geographic information for each species is based mainly on the locality of the type specimen. An index to genus and species names is included. Electronic files of all valid genera, species, with author and year, as well as all generic and species-level synonyms, as well as subspecies are available from the authors.

Molecular signatures for Bacillus species: demarcation of the Bacillus subtilis and Bacillus cereus clades in molecular terms and proposal to limit the placement of new species into the genus Bacillus.

Abstract: The genus Bacillus is a phylogenetically incoherent taxon with members of the group lacking a common evolutionary history Comprising aerobic and anaerobic spore-forming bacteria, no characteristics are known that can distinguish species of this genus from other similar endospore-forming genera With the availability of complete genomic data from over 30 different species from this group, we have constructed detailed phylogenetic trees to determine the relationships among Bacillus and other closely related taxa Additionally, we have performed comparative genomic analysis for the determination of molecular markers, in the form of conserved signature indels (CSIs), to assist in the understanding of relationships among species of the genus Bacillus in molecular terms Based on the analysis, we report here the identification of 11 and 6 CSIs that clearly differentiate a 'Bacillus subtilis clade' and a 'Bacillus cereus clade', respectively, from all other species of the genus Bacillus No molecular markers were identified that supported a larger clade within this genus The subtilis and the cereus clades were also the largest observed monophyletic groupings among species from the genus Bacillus in the phylogenetic trees based on 16S rRNA gene sequences and those based upon concatenated sequences for 20 conserved proteins Thus, the relationships observed among these groups of species through CSIs are independently well supported by phylogenetic analysis The molecular markers identified in this study provide a reliable means for the reorganization of the currently polyphyletic genus Bacillus into a more evolutionarily consistent set of groups It is recommended that the genus Bacillus sensu stricto should comprise only the monophyletic subtilis clade that is demarcated by the identified CSIs, with B subtilis as its type species Members of the adjoining cereus clade (referred to as the Cereus clade of bacilli), although they are distinct from the subtilis clade, will also retain the Bacillus genus name as they contain several clinically important species, and their transfer into a new genus could have serious consequences However, all other species that are currently part of the genus Bacillus and not part of these two clades should be eventually transferred to other genera We also propose that all novel species of the genus Bacillus must meet minimal requirements, foremost among which is that the branching of the prospective species with the Bacillus sensu stricto clade or the Cereus clade of bacilli should be strongly supported by 16S rRNA gene sequence trees or trees based upon concatenated protein sequences Additionally, the presence of one or more of the CSIs that are specific for these clades may be used to confirm molecularly the placement of the species into these clades The identified CSIs, in addition to their usefulness for taxonomic and diagnostic purposes, also provide novel probes for genetic and biochemical studies of these bacteria

Erythrobacter odishensis sp. nov. and Pontibacter odishensis sp. nov. isolated from dry soil of a solar saltern

Abstract: Two bacterial strains (JC130T and JA747T) were isolated from dry soils of a solar saltern. Phylogenetic analysis showed that strain JA747T clustered with species of the genus Erythrobacter belonging to the family Erythrobacteraceae of the class Alphaproteobacteria in the phylum Proteobacteria , while strain JC130T clustered with species of the genus Pontibacter belonging to the family Cytophagaceae of the phylum Bacteroidetes . Based on 16S rRNA gene sequence analysis, strain JA747T had highest similarity with Erythrobacter gangjinensis K7-2T (96.7 %) and other members of the genus Erythrobacter (<96 %). Strain JC130T had highest sequence similarity with Pontibacter korlensis X14-1T (98.1 %), Pontibacter actiniarum KMM 6156T (96.9 %) and other members of the genus Pontibacter (<96 %). However, strain JC130T showed less than 32 % DNA reassociation value (based on DNA–DNA hybridization) with Pontibacter korlensis NRRL B-51097T ( = X14-1T) and Pontibacter actiniarum LMG 23027T ( = KMM 6156T). Strain JA747T was positive for catalase and oxidase activity and negative for nitrate reduction, and hydrolysis of starch and casein. Phosphatidylglycerol, diphostatidylglycerol, phosphatidylethanolamine and phosphatidylcholine were the major polar lipids for strain JA747T. C18 : 1ω7c, C16 : 1ω6c/C16 : 1ω7c, C17 : 1ω6c and C16 : 0 were the major fatty acids of strain JA747T. Strain JC130T was positive for catalase and oxidase, and negative for gelatinase and nitrate reduction. Phosphatidylethanolamine was the major polar lipid of strain JC130T. Major fatty acids of strain JC130T were iso-C15 : 0 and summed feature 4 (anteiso-C17 : 1B/iso I). Based on the phenotypic, chemotaxonomic and molecular evidence presented, strains JA747T and JC130T are considered to represent two novel species of the genera Erythrobacter and Pontibacter , for which the names Erythrobacter odishensis sp. nov. (type strain JA747T = KCTC 23981T = NBRC 108930T) and Pontibacter odishensis sp. nov. (type strain JC130T = KCTC 23982T = LMG 26962T), respectively, are proposed. Emended descriptions of the genera Erythrobacter and Pontibacter are provided.

Magnaporthiopsis, a new genus in Magnaporthaceae (Ascomycota)

Abstract: The phylogenetic relationships among taxa in the Magnaporthaceae are investigated based on DNA sequences of multiple genes including SSU, ITS, LSU, MCM7, RPB1 and TEF1. The genera Magnaporthe and Gaeumannomyces are shown to be polyphyletic and their members are divided into four major groups based on the phylogenetic analyses. Considering morphological, biological and molecular data, we establish a new genus, Magnaporthiopsis. It is characterized by black and globose perithecia with a cylindrical neck, two-layered perithecial wall, clavate asci with a refractive apical ring, fusiform to fusoid and septate ascospores, simple hyphopodia, and Phialophora-like anamorph. Species in this genus are necrotrophic parasites infecting roots of grasses. Three new combinations, Magnaporthiopsis poae, M. rhizophila and M. incrustans, are proposed accordingly. Pyricularia is suggested as the generic name for the rice blast fungus over Magnaporthe, following Article 59.1 of the International Code of Nomenclature for algae, fungi and plants. A new combination, Nakataea oryzae, is proposed for the rice stem rot fungus.

A molecular phylogeny of Alpine subterranean Trechini (Coleoptera: Carabidae)

Abstract: The Alpine region harbours one of the most diverse subterranean faunas in the world, with many species showing extreme morphological modifications. The ground beetles of tribe Trechini (Coleoptera, Carabidae) are among the best studied and widespread groups with abundance of troglobionts, but their origin and evolution is largely unknown. We sequenced 3.4 Kb of mitochondrial (cox1, rrnL, trnL, nad1) and nuclear (SSU, LSU) genes of 207 specimens of 173 mostly Alpine species, including examples of all subterranean genera but two plus a representation of epigean taxa. We applied Bayesian methods and maximum likelihood to reconstruct the topology and to estimate divergence times using a priori rates obtained for a related ground beetle genus. We found three main clades of late Eocene-early Oligocene origin: (1) the genus Doderotrechus and relatives; (2) the genus Trechus sensu lato, with most anisotopic subterranean genera, including the Pyrenean lineage and taxa from the Dinaric Alps; and (3) the genus Duvalius sensu lato, diversifying during the late Miocene and including all subterranean isotopic taxa. Most of the subterranean genera had an independent origin and were related to epigean taxa of the same geographical area, but there were three large monophyletic clades of exclusively subterranean species: the Pyrenean lineage, a lineage including subterranean taxa from the eastern Alps and the Dinarides, and the genus Anophthalmus from the northeastern Alps. Many lineages have developed similar phenotypes independently, showing extensive morphological convergence or parallelism. The Alpine Trechini do not form a homogeneous fauna, in contrast with the Pyrenees, and show a complex scenario of multiple colonisations of the subterranean environment at different geological periods and through different processes. Examples go from populations of an epigean widespread species going underground with little morphological modifications to ancient, geographically widespread lineages of exclusively subterranean species likely to have diversified once fully adapted to the subterranean environment.

Taxonomic notes on some species of the Cercospora complex (V)

Abstract: Braun, U. 1999: Taxonomic notes on some species of the Cercospora complex (V). Schlechtendalia 2 : 1-28. 32 species of the genus Cercospora s.lat. have been re-examined, reassessed, and placed in Mycovellosiella, Passalora, Phaeoramularia, and Pseudocercospora . The species concerned are described, illustrated, and the nomenclature of some of these taxa is discussed. Furthermore, a second collection of Pseudocercospora lippiae-albae on a new host species is recorded. Zusammenfassung: Braun, U. 1999: Taxonomic notes on some species of the Cercospora complex (V). Schlechtendalia 2 : 1-28. 32 Arten der Gattung Cercospora s.lat. sind untersucht, neu bewertet und in die Gattungen Mycovellosiella, Passalora, Phaeoramularia und Pseudocercospora uberfuhrt worden. Diese Arten werden beschrieben und abgebildet, und die Nomenklatur einiger Taxa wird diskutiert. Weiterhin wird uber eine zweite Kollektion von Pseudocercospora lippiae-albae auf einer neuen Wirtsart berichtet.