Exophiala macquariensis sp. nov., a cold adapted black yeast species recovered from a hydrocarbon contaminated sub-Antarctic soil

A new black yeast species, Exophiala macquariensis is described that is a member of the ascomycete family Herpotrichiellaceae, order Chaetothyriales. The genus Exophiala is comprised of opportunistic pathogens isolated from clinical specimens as well as species recovered from hydrocarbon contaminated environments. Several species have been reported to be able to degrade benzene, toluene, ethylbenzene and xylenes. Here, a novel species of Exophiala (CZ06) previously isolated from a Sub-Antarctic, Macquarie Island soil that was spiked with Special Antarctic Blend diesel fuel (SAB) is described. This isolate has the capacity of toluene biodegradation at cold temperatures. Multilocus sequence typing showed that this fungus was closely related to the pathogenic species Exophiala salmonis and Exophiala equina. With the capacity to utilise hydrocarbons as a sole carbon source at 10 °C, this fungus has great potential for future bioremediation applications.     

Isolation and characterization of lactic acid bacteria from pobuzihi (fermented cummingcordia), a traditional fermented food in Taiwan

Lactobacillus pobuzihii is a novel species which has been previously found in pobuzihi (fermented cummingcordia), a traditional fermented food in Taiwan. However, the lactic acid bacteria (LAB) microflora in pobuzihi has not been studied in detail. In this study, LAB from pobuzihi were isolated, identified, and characterized. A total of 196 LAB were isolated; 79 cultures were isolated from the sample collected from a manufacturing factory, 38 from pobuzihi samples collected from 4 different markets, and 79 from 2 fresh cummingcordia samples. These isolates were characterized phenotypically and then divided into eight groups (A to H) by restriction fragment length polymorphism analysis and sequencing of 16S ribosomal DNA. Lactobacillus plantarum was the most abundant LAB found in most samples during the fermentation of pobuzihi. On the other hand, Enterococcus casseliflavus and Weissella cibaria were, respectively, the major species found in the two fresh cummingcordia samples. A potential novel species or subspecies of lactococcal strain was found. In addition, seven L. plantarum and five W. cibaria strains showed inhibitory activity against the indicator strain Lactobacillus sakei JCM 1157^T. This is the first report describing the distribution and varieties of LAB existing in the pobuzihi during its fermentation process and the final product on the market.     

Diterpene acids from Helianthus species and their microbiological conversion by Gibberella fujikuroi, mutant B1-41a

The diterpene acid content in 10 species of Helianthus has been investigated. Ent-12,16-cyclokauranoic acid, isolated from H. annuus, is converted into a series of 12,16-cyclogibberellins by cultures of Gibberella fujikuroi, mutant B1-41a, and 12,16-cyclogibberellins A₉, and A₁₂ have been isolated. Ent-12β-acetoxykaurenoic acid and ent-13(S)-angeloxyatisenoic acid have been isolated from H. decapetalus; the metabolism of ent-13(S)-hydroxyatisenoic acid and atisenoic acid by B1-41a is also described.     

Iridoid mono- and di-glycosides in Mentzelia

Eight species of Mentzelia (Loasaceae) have been investigated for iridoid glycosides. In addition to the known glucosides deutzioside, decaloside, mongolioside, loganin and sweroside, several novel compounds have been isolated and characterized by chemical and spectroscopic means. 6′-O-Acetyl deutzioside was found in a single species, while the diglycosidic compounds glucosyl-decaloside, allosyl-decaloside and quinovosyl-decaloside were each isolated from one or more species. In addition, a novel compound, epoxydecaloside (= 11-hydroxy-deutzioside), together with glucosyl-epoxydecaloside, allosyl-epoxydecaloside and mentzelosyl-epoxydecaloside are described. The last compound contains a 4-deoxy-α-l-erythro-pentopyranosyl moiety, whose parent sugar, named mentzelose, has not been encountered so far in nature. A non-glycosidic iridoid, mentzetriol, has been characterized solely by spectroscopic means and a structure is proposed. The secoiridoid secoxyloganin has been found for the first time in a plant source, and the coumarin glucoside scopolin has been isolated from two species of Mentzelia. ¹³C and ¹H NMR spectra of several iridoid compounds are presented. The biosynthesis of the compounds is considered and the systematic position of Loasaceae discussed concluding in a possible derivation from Cornalean ancestors.     

Morphological and molecular phylogenetic analysis of two Saprolegnia sp. (Oomycetes) isolated from silver crucian carp and zebra fish

Two Saprolegnia isolates, JY isolated from silver crucian carp (Carassius auratus gibelio Bloch) and BMY isolated from zebra fish (Brachydanio rerio Hamilton) came from infections occurring concurrently in different locations in China. To confirm whether the two isolates were from the same Saprolegnia clone, comparative studies have been carried out based on their morphological, physiological and molecular characteristics. Observations showed that morphologically (both asexual and sexual organs) the two isolates were broadly similar and both isolates underwent repeated zoospore emergence. Comparing 704 base pairs of internal transcribed spacer (ITS) region and the 5.8S rDNA, we found isolates JY and BMY shared an identical ITS sequence with a minor variation (99.6 % similarity). Forty available sequences for representatives Saprolegnia spp. belonged to four phylogenetically separate clades. The two studied isolates fell within clade I that comprised a group of isolates which showed almost an identical ITS sequence but had been identified as a number of different morphological species. Our findings suggest that isolates JY and BMY appear to belong to the S. ferax clade and this clade (I) contains a number of closely related phylogenetic species. This is distinct from the more common fish pathogenic isolates, which belong to the S. parasitica clade (III) and are characterized by having cysts decorated by bundles of long hooked hairs and two further clades (II and IV) containing largely saprotrophic or soil born species.     

Triterpenes of five euphorbiaceae species of Sri Lanka

Five endemic species of Euphorbiaceae have been investigated. Aleuritolic acid and its derivatives were isolated from P. thwaitesii. A. cardiosperma had friedelan derivatives. The Glochidion species contained the same triterpenes, viz. glochidonol, lup-20(29)-ene-3α,23-diol and glochidiol. The bark extractives of a new Glochidion species had, in addition, glochidone and probably lup-20(29)-ene-1α,3α,23-triol. The latter is a new natural product. Glochidone was isolated for the first time outside the genus Glochidion from Bridelia moonii.     

Quaternary alkaloids of Fumaria indica

Dehydrocheilanthifoline, a phenolic protoberberine alkaloid has been isolated from the whole plant of Fumaria indica together with coptisine. This is the second report of the natural occurrence of dehydrocheilanthifoline and first from any Fumaria species.     

Taxonomic hierarchy of the phylum <Emphasis Type="Italic">Firmicutes</Emphasis> and novel <Emphasis Type="Italic">Firmicutes</Emphasis> species originated from various environments in Korea

This study assessed the taxonomic hierarchy of the phylum Firmicutes as well as elucidated the isolation and classification states of novel Firmicutes species isolated from Korean territory. The hierarchical classification system of the phylum Firmicutes has been developed since 1872 when the genus Bacillus was first reported and has been generally adopted since 2001. However, this taxonomic hierarchy is still being modified. Until Feb. 2017, the phylum Firmicutes consisted of seven classes (Bacilli, Clostridia, Erysipelotrichia, Limnochordia, Negativicutes, Thermolithobacteria, and Tissierellia), 13 orders, 45 families, and 421 genera. Firmicutes species isolated from various environments in Korea have been reported from 2000, and 187 species have been approved as of Feb. 2017. All Firmicutes species were affiliated with three classes (Bacilli, Clostridia, and Erysipelotrichia), four orders (Bacillales, Lactobacillales, Clostridiales, and Erysipelotrichales), 17 families, and 54 genera. A total of 173 species belong to the class Bacilli, of which 151 species were affiliated with the order Bacillales and the remaining 22 species with the order Lactobacillales. Twelve species belonging to the class Clostridia were affiliated within only one order, Clostridiales. The most abundant family was Bacillaceae (67 species), followed by the family Paenibacillaceae (56 species). Thirteen novel genera were created using isolates from the Korean environment. A number of Firmicutes species were isolated from natural environments in Korean territory. In addition, a considerable number of species were isolated from artificial resources such as fermented foods. Most Firmicutes species, belonging to the families Bacillaceae, Planococcaceae, and Staphylococcaceae, isolated from Korean fermented foods and solar salterns were halophilic or halotolerant. Firmicutes species were isolated from the whole territory of Korea, especially large numbers from Provinces Gyeonggi, Chungnam, and Daejeon.     

A tropone derivative from orobanche rapum-genistae

A new tropone,3,8-dimethyl-5-isopropyl-2,3- dihydro(1H)azulen-6-one, named orobanone, has been isolated for the first time from a plant (Orobanche rapum-genistae, Orobanchaceae). This tropone is synthesized by the parasite and exists, with other related compounds, in various species of broom-rapes.     

Euxinocythere (Ostracoda, Cytheridae, Leptocytherinae) du Miocène supérieur du Bassin de Turiec (Slovaquie) : taxonomie et paléoécologie

Eight new species of the family Cytheridae have been identified in the Upper Miocene deposits of the Turiec Basin (Slovakia), a small isolated intermountain depression. Six species are new - Euxinocythere aphroditae, E. delicata, E. lactea, E. minuscula, E. quadricostata, E. satyrica - and two are kept in open nomenclature. Their attribution to the genus Euxinocythere is based on arrangement of the hinge elements and of anterior marginal zone. This genus is known from brackish ostracod assemblages of the Paratethys and the Eastern Mediterranean while the species from the Turiec Basin are associated to fresh-water assemblages. The Euxinocythere have been found in littoral as well in deep limnic environment.     

A novel Trichoderma species isolated from soil in Guizhou, T. guizhouense

A new species of Trichoderma, Trichoderma guizhouense, isolated from soil in Guizhou Province, is described based on morphology and phylogenetic analyses. This species exhibits characteristic Trichoderma morphology but is distinct from related species based on characters of phialides and conidia. Two DNA markers, the translation elongation factor 1 alpha (tef1) and RNA polymerase II subunit b (rpb2) were used for phylogenetic analyses. The correlation between morphological and molecular-based clustering demonstrated two studied isolates are a new species.     

Pyrrolizidine alkaloids from Senecio cacaliaster

Four pyrrolizidine alkaloids have been isolated from Senecio cacaliaster and their structures analysed by spectroscopic methods (IR, mass, ¹H, ¹³CNMR). One of them is new and the name sencalenine (3) is proposed. Alkaloids O⁷-senecioylretronecine (1) and 7-senecioyl-9-sarracinylretronecine (2) have recently been identified elsewhere. The fourth is bulgarsenine (4) which was isolated from a Senecio species before.     

Vector Affinity and Diversity of Geosmithia Fungi Living on Subcortical Insects Inhabiting Pinaceae Species in Central and Northeastern Europe

Fungi from the genus Geosmithia (Ascomycota: Hypocreales) are associated with bark beetles (Coleoptera: Scolytinae), though little is known about ecology, diversity, and distribution of these fungi across beetle and its host tree species. This study surveyed the diversity, distribution and vector affinity of Geosmithia isolated from subcortical insects that colonized trees from the family Pinaceae in Central and Northeastern Europe. Twelve Geosmithia species were isolated from 85 plant samples associated with 23 subcortical insect species (including 14 bark beetle species). Geosmithia community composition was similar across different localities and vector species; although the fungal communities associated with insects that colonized Pinus differed from that colonizing other tree species (Abies, Larix, and Picea). Ten Geosmithia species from four independent phylogenetic lineages were not reported previously from vectors feeding on other plant families and seem to be restricted to the vectors from Pinaceae only. We conclude that presence of such substrate specificity suggests a long and stable association between Geosmithia and bark beetles.     

Thecamoeba cosmophorea n. sp. (Amoebozoa,Discosea, Thecamoebida) — An example of sibling species within the genus Thecamoeba

A new species Thecamoeba cosmophorea n. sp. (Amoebozoa, Discosea, Thecamoebida) was isolated from leaf litter collected in the surroundings of Saint-Petersburg (Russia). This species resembles T. quadrilineata in light-microscopic morphology, but has certain morphological differences and significantly differs in 18S rRNA gene sequence. We performed a direct comparison of this newly isolated species with the Thecamoeba strain isolated from leaf litter in East Siberia (Russia) and identified as T. quadrilineata both at the morphological and the molecular level. There is no type strain of T. quadrilineata, and the type material on this species is represented with the stained slide by F.C. Page that he designated as neotype in 1977. The sequence of the 18S rRNA gene of this species deposited in the GenBank belongs to the isolate identified as T. quadrilineata by Rolf Michel in 1998 and deposited as CCAP 1583/10 strain. Hence we cannot be entirely sure that morphological and molecular data on T. quadrilineata belong to the same amoebae species. The use of molecular data for reliable species differentiation is getting obligate even within the amoebae genus Thecamoeba, which until recently was believed to be among few genera of naked lobose amoebae allowing morphological identification of species.     

Morphological features and isoenzyme characterization of endosymbiotic algae from green hydra

Symbiotic associations are of a wide significance in evolution and biodiversity. Green hydra is a typical example of endosymbiosis. In its gastrodermal myoepithelial cells, it harbors individuals of unicellular green algae. Morphological characteristics of isolated algae determined by light and electron microscopy are presented. Cytological morphometric parameters (cell area, cell radius, chloroplast area) of isolated algae from green hydra (Cx), as well as from reference species Chlorella kessleri (Ck) and Chlorella vulgaris (Cv), revealed similarity between the isolated endosymbiont and C. kessleri. Isoenzyme patterns of esterase (EST), peroxidase (POX), and catalase (CAT) were used for the investigation of genetic variability in endosymbiotic algae isolated from green hydra. Out of 14 EST isoenzymes observed in Cx species, 9 were expressed in the Cx sample. Results of the EST isoenzyme analysis indicated a higher degree of similarity between Cx and Cv than between Cx and Ck. Due to much higher heterogeneity, EST isoenzymes seem to be more suitable genetic markers for identification of different Chlorella species than CAT and POX isoenzymes. Results obtained suggest that symbiogenesis in green hydra has probably not been terminated yet.     

β-Phenethylamine,tetrahydroisoquinoline and indole Alkaloids of Desmodium tiliaefolium

Ten alkaloids (I-X), five β-phenethylamines, two tetrahydroisoquinolines, and three indole-3-alkylamines, have been isolated from Desmodium tiliaefolium. Chemical transformations, spectral (UV,IR, NMR, MS) evidence, and in most cases comparison with reference materials established their identity as tyramine (I), hordenine (II), 3,4-dimethoxy-β-phenethylamine (III), N,N- dimethyl-3,4-dimethoxyphenethylamine (IV), N-methyl-3,4-dimethoxy-β-hydroxyphenethylamine (V), salsoline (V1), salsolidine (VII), tryptamine (VIII), abrine (IX), and hypahorine (X). Alkaloid (V) is a new naturally occurring compound, while no tetrahydroisoquinoline alkaloid has been encountered before in this genus. This is the first time that three different types of alkaloids have been reported in a single legume species. In addition to the above alkaloids, four quaternary β-phenethylamines and tetrahydroisoquinoline alkaloids have been detected, and choline and betaine have been isolated from the water-soluble alkaloid fraction of the roots.     

Construction of an infectious clone of simian foamy virus of Japanese macaque (SFVjm) and phylogenetic analyses of SFVjm isolates

Foamy viruses belong to the genus Spumavirus of the family Retroviridae and have been isolated from many mammalian species. It was reported that simian foamy viruses (SFVs) have co-evolved with host species. In this study, we isolated four strains (WK1, WK2, AR1 and AR2) of SFV (named SFVjm) from Japanese macaques (Macaca fuscata) in main island Honshu of Japan. We constructed an infectious molecular clone of SFVjm strain WK1, termed pJM356. The virus derived from the clone replicated and induced syncytia in human (human embryonic kidney 293T cells), African green monkey (Vero cells) and mouse cell lines (Mus dunni tail fibroblast cells). Phylogenetic analysis also revealed that these four SFVjm strains formed two distinct SFVjm clusters. SFVjm strains WK1 and WK2 and SFV isolated from Taiwanese macaques (Macaca cyclopis) formed one cluster, whereas strains AR1 and AR2 formed the other cluster with SFV isolated from a rhesus macaque (Macaca mulatta).     

Griseofulvin-producing Xylaria endophytes of Pinus strobus and Vaccinium angustifolium: evidence for a conifer-understory species endophyte ecology

During three decades of research on conifer endophytes of the Acadian forest, numerous insights have been gained in conifer-fungal ecology and secondary metabolite production. Recently, we have explored endophyte assemblages of understory plants commonly occurring with pine. Here we report for the first time the production of the potent antifungal compound griseofulvin by a fungal endophyte isolated from eastern white pine (Pinus strobus) needles and lowbush blueberry (Vaccinium angustifolium) stems from the Acadian forest of New Brunswick and Nova Scotia, Canada. Maximum likelihood phylogenetic analysis has placed the endophyte strains as an undescribed Xylaria sp. Our study highlights the complexity of endophyte-host lifecycles and points to the existence of a pine-blueberry ecotype. Aside from griseofulvin, piliformic acid was isolated from one of the pine endophytes. This compound has been reported from Xylaria and related species but not from Penicillium species known to produce griseofulvin.     

Catechins with (+)-epi-configuration in nature

(+)-Epicatechin has been isolated from various species of Palmae and (+)-epiafzelechin from Livinstona chinensis. This is the first time that catechins with (+)-epi-configuration have been found in natural sources.