New evidence for laurasian corystosperms: Umkomasia from the Upper Triassic of Northern China

Recent finds of remarkable fossil plants from the Upper Triassic Yangcaogou Formation in Liaoning Province, PR China include branched, cupule-bearing structures referable to the corystosperm ovulate organ Umkomasia. This material is described and assigned to the proposed new species Umkomasia asiatica. The collection includes numerous isolated cupules and fragments of ultimate cupule-bearing axes. Two specimens consisting of portions of the main axis with attached, cupulate lateral axes have also been found. The main axis was at least 6.5 cm long, with each lateral axis bearing one to at least three pairs of stalked, ovoid cupules. The new Umkomasia is similar to U. franconica from the Jurassic of Germany, which is the only other known laurasian species, but the cupules are smaller and more elongated. It is also similar to many gondwanan forms, including the type species U. macleanii. Leaves associated with the Chinese Umkomasia species are tentatively referred to Thinnfeldia, and may have been produced by the same plant. Associated ovoid seeds with elongated, curved micropyles are similar to those of gondwanan species of Umkomasia. The fossils described here are, therefore, significant in representing the first report of corystosperm reproductive structures from Asia, and only the second report of Umkomasia from the entire northern hemisphere. The new Chinese fossils also support leaf-based evidence that the Corystospermales were present in Laurasia as early as the Late Triassic.     

Latisemenia longshania,gen. et sp. nov., a new Late Devonian seed plant from China

The earliest known ovules in the Late Devonian (Famennian) are borne terminally on fertile branches and are typically enclosed in a cupule. Among these ovules are some that have terete integumentary lobes with little or no fusion. Here, we report a new taxon, Latisemenia longshania, from the Famennian of South China, which bears cupulate ovules that are terminal as well as opposite on the fertile axis. Each ovule has four broad integumentary lobes, which are extensively fused to each other and also to the nucellus. The cupule is uniovulate, and the five flattened cupule segments of each terminal ovule are elongate cuneate and shorter than the ovule. Associated but not attached pinnules are laminate and Sphenopteris-like, with an entire or lobate margin. Latisemenia is the earliest known plant with ovules borne on the side of the fertile axis and may foreshadow the diverse ovule arrangements found among younger seed plant lineages that emerge in the Carboniferous. Following the telome theory, Latisemenia demonstrates derived features in both ovules and cupules, and the shape and fusion of integumentary lobes suggest effective pollination and protection to the nucellus. Along with other recent discoveries from China, Latisemenia extends the palaeogeographic range of the earliest seed plants.     

Geminicoccus roseus gen. nov., sp. nov., an aerobic phototrophic Alphaproteobacterium isolated from a marine aquaculture biofilter

A Gram-negative, strictly aerobic, diplococcoid bacterium (strain D2-3^T) was isolated from the biofilter of a recirculating marine aquaculture system. Phylogenetic analysis of the 16S rRNA gene sequence of D2-3^T indicated that the new organism occupied a novel lineage within the -1 subclass of Proteobacteria and was related to the genera Rhodothalassium, Azospirillum, Craurococcus, Acidiphilium, and Tistrella. The highest sequence similarity (90.8%) of the 16S rRNA gene sequence of D2-3^T was to that of Candidatus “Alysiosphaera europaea”. D2-3^T was mesophilic, heterotrophic, required sea salt, and had a pH optimum of 8.0. Growth in the presence of light resulted in the formation of pink colonies, a 25% increased cell yield, and a slightly increased growth rate. D2-3^T contained carotenoids and low amounts of bacteriochlorophyll a. Membranes of D2-3^T contained b-type cytochromes. The G+C content of the DNA was 60.3±0.1 mol%. Phylogenetic, morphological, physiological, and biochemical analyses demonstrated that D2-3^T represented a new aerobic phototrophic genus, for which the name Geminicoccus roseus gen. nov., sp. nov. is proposed for the type species (D2-3^T=DSM 18922^T=ATCC BAA-1445^T).     

Three new anascosporic genera of the Saccharomycotina: Danielozyma gen. nov., Deakozyma gen. nov. and Middelhovenomyces gen. nov

Three new non-ascosporic, ascomycetous yeast genera are proposed based on their isolation from currently described species and genera. Phylogenetic placement of the genera was determined from analysis of nuclear gene sequences for D1/D2 large subunit rRNA, small subunit rRNA, translation elongation factor-1α and RNA polymerase II, subunits B1 and B2. The new taxa are: Deakozyma gen. nov., type species Deakozyma indianensis sp. nov. (type strain NRRL YB-1937, CBS 12903); Danielozyma gen. nov., type species Danielozyma ontarioensis comb. nov. (type strain NRRL YB-1246, CBS 8502); D. litseae comb. nov. (type strain NRRL YB-3246, CBS 8799); Middelhovenomyces gen. nov., type species Middelhovenomyces tepae comb. nov. (type strain NRRL Y-17670, CBS 5115) and M. petrohuensis comb. nov. (type strain NRRL Y-17663, CBS 8173).     

Falsocalcifolium nov. gen. and revision of the tribe Calcifolieae (Mississippian, incertae sedis algae)

A new genus, Falsocalcifolium is described. The type species is F. punctatum (Maslov) emend. The genus is placed in the tribe Calcifolieae Shuysky emend. of the family Calcifoliaceae Termier, Termier and Vachard nomen translat. Consequently, the generic make-up of the tribe is emended, and is now considered to be composed of Frustulata Saltovskaya emend., Falsocalcifolium nov. gen., and Calcifolium Shvetsov and Birina emend. Evolution within the tribe is shown by the progressive development of more petaloid morphologies and changes in the number and relationships of the internal structures called filaments (interpreted here as the emplacements containing endosymbiotic cyanobacteria). This evolution is also related to palaeoecological factors. The representatives of the tribe are considered excellent biostratigraphic markers in several western Tethyan regions (e.g. Great Britain, Ireland, southern France, southern Spain), where they are widely represented, but their geographical distribution in other basins seems to be incomplete, and thus their use in biostratigraphic correlation is at the moment limited.     

Additions to the silicified upper devonian/lower carboniferous flora from ballyheigue,Ireland

Continuing study of the uppermost Devonian flora from Ballyheigue, County Kerry, Ireland (Tn1a-Tn1b) has resulted in the addition of four taxa. Two plants, Tristichia sp. and cf. Tetrastichia bupatides, are described for the first time from Ireland. Tetrastichia also occurs in Scotland and Tristichia has been described from Scotland and France. New genera include Kerryoxylon hexalobatum gen. et sp. nov. (called “Plant A” in a previous paper), a probable lyginopterid pteridosperm, and Rhizoxylon ambiguum gen. et sp. nov., a new organ genus for seed fern roots similar to Kaloxylon.     

Lunnomidinium scaniense Lindström, gen. et sp. nov., a new suessiacean dinoflagellate cyst from the Rhaetian of Scania, southern Sweden

The dinoflagellate cyst Lunnomidinium scaniense gen. et sp. nov. is present in the lower part of a thin sequence of Rhaetian sedimentary rocks exposed in the Lunnom Coal and Clay Pit in NW Scania, southern Sweden. It occurs in diverse, Rhaetian palynomorph assemblages, dominated by spores and pollen, but with rare specimens of the dinoflagellate cysts Rhaetogonyaulax rhaetica (Sarjeant) Loeblich and Loeblich 1968, Shublikodinium sp. and Beaumontella? caminuspina (Wall) Below 1987. Lunnomidinium scaniense is characterized by an epicystal {tAtItP} archeopyle, a large number of paraplates arranged in seven or eight latitudinal series, and intratabular ornamentation in some but not all of the paraplate series. Thus, L. scaniense is assignable to the family Suessiaceae. Lunnomidinium scaniense can be subdivided into two different morphological varieties, based on the autophragm ornamentation and cyst size.     

Chirognathia dracula gen. et spec. nov. (Gnathostomulida) from the west coast of North America

A new gnathostomulid genus and species, Chirognathia dracula gen. et spec. nov., is described from intertidal surf grass (Phyllospadix) rhizomes on high-energy coasts of Vancouver Island (Canada) and Bodega Bay (California). The characteristics of the reproductive system place the new genus in Bursovaginoidea-Scleroperalia and features of the mouth parts (except for the absence of a jugum) assign it to the family Gnathostomulidae. Chirognathia nov. gen. is characterized by a delicate, transverse shield-shaped basal plate and by jaws with three tooth rows, of which the median appears as a bundle.     

Molecular phylogeny and taxonomic revision of Chlamydomonas (Chlorophyta). I. Emendation of Chlamydomonas Ehrenberg and Chloromonas Gobi, and description of Oogamochlamys gen. nov. and Lobochlamys gen. nov

The genus Chlamydomonas (including Chloromonas) is one of the largest green algal genera comprising more than 600 species. To initiate a comprehensive analysis of the phylogeny and systematics of the genus, we determined nuclear-encoded SSU rRNA sequences from 32 strains of Chlamydomonas, Chloromonas and Chlorogonium with emphasis on oogamous taxa and related strains, and incorporated these into global molecular phylogenetic analyses of 132 strains of Chlorophyceae. In addition, we studied the morphology and reproduction of oogamous and related strains by light microscopy. We recognize and designate 18 monophyletic lineages (clades) within the Chlorophyceae, 11 of which are confined to the CW (basal bodies displaced clockwise) subgroup. The majority of clades recognized within the Chlorophyceae do not correspond to any of the traditional classification systems, which are still largely based on the organization level. Strains assigned to Chlamydomonas and Chloromonas were found in seven different clades confirming the polyphyly of the two genera as presently conceived. To initiate the taxonomic revision of Chlamydomonas, C. reinhardtii is proposed as the conserved type of the genus. In consequence, species in clades other than the clade containing C. reinhardtii must be transferred to other genera, a process initiated in this contribution. The oogamous strains studied represent a monophyletic lineage, which is described as Oogamochlamys gen. nov. comprising three species (O. gigantea, O. zimbabwiensis and O. ettlii spec. nov.). The sister clade to Oogamochlamys consists of isogamous strains characterized by chloroplasts with incisions and is described as Lobochlamys gen. nov. with two species (L. culleus and L. segnis). Another clade is characterized by asteroid or perforated, parietal chloroplasts and contains the type species of Chloromonas (C. reticulata). Thus, the polyphyletic Chloromonas (traditionally defined as “Chlamydomonas without pyrenoids”) can be legitimized as a monophyletic genus by restriction to this clade and is here emended on the basis of chloroplast characters (the clade contains strains with or without pyrenoids thus rejecting the character “absence of pyrenoids”).     

Studies on the cupulate seed genus Hydrasperma Long from Berwickshire and East Lothian in Scotland and County Kerry in Ireland

Twelve petrified cupules containing seeds of Hydrasperma tenuis Long from the Upper-Devonian/ Lower Carboniferous Transition Series from Ballyheigue, Kerry Head, Ireland have been studied. The cupules containing 2–6 seeds are borne in pairs. Each cupule is campanulate and composed of up to 24 oval to terete units. The axis of the cupule is forked, each resultant branch dividing in an alternate monopodial fashion producing six major axes. These divide repeatedly, each terminating in a narrow rounded tip. A reconstruction of a four-seeded cupule is presented. Hydrasperma longii sp. nov. is proposed for the first 'named' Scottish cupulate seeds named by Long as Hydrasperma cf. tenuis. Hydrasperma longii differs from H. tenuis: comparison of H. tenuis with other cupulate Lower Carboniferous seeds indicates that two major branching patterns of the cupule occur in early seed plants. Following an initial dichotomy, branching may either be entirely dichotomous, or alternately monopodial. The Aneurophytales appears to have the branching patterns consistent with its position as the ancestral group.     

Description of Gibbsiella quercinecans gen. nov., sp. nov., associated with Acute Oak Decline

Gram-negative, facultatively anaerobic bacterial strains were consistently isolated from oak trees displaying symptoms of extensive stem bleeding. In Britain, this disorder is called Acute Oak Decline (AOD). A similar condition has been noted on species of Mediterranean oak in Spain. The identity of bacterial isolates from symptomatic trees in both countries was investigated using molecular techniques and phenotypic assays. 16S rRNA gene sequencing indicated that the strains were most closely related to the genera Serratia, Kluyvera, Klebsiella and Raoultella (all>97%). Phylogenetic analysis revealed that the strains formed a distinct lineage within the family Enterobacteriaceae, which was confirmed by both gyrB- and rpoB-gene sequencing. DNA-DNA hybridization confirmed that the strains belonged to a single taxon which could also be differentiated phenotypically from its closest phylogenetic neighbours. The phylogenetic and phenotypic data both demonstrated that the strains isolated from oak represented a novel genus and species within the family Enterobacteriaceae for which the name Gibbsiella quercinecans gen. nov., sp. nov. (type strain=FRB 97(T)=LMG 25500(T)=NCPPB 4470(T)) is proposed.     

Non contiguous-finished genome sequence and description of Senegalemassilia anaerobia gen. nov., sp. nov.

Senegalemassilia anaerobia strain JC110^T sp.nov. is the type strain of Senegalemassilia anaerobia gen. nov., sp. nov., the type species of a new genus within the Coriobacteriaceae family, Senegalemassilia gen. nov. This strain, whose genome is described here, was isolated from the fecal flora of a healthy Senegalese patient. S. anaerobia is a Gram-positive anaerobic coccobacillus. Here we describe the features of this organism, together with the complete genome sequence and annotation. The 2,383,131 bp long genome contains 1,932 protein-coding and 58 RNA genes.     

Amorosia littoralis gen. sp. nov., a new genus and species name for the scorpinone and caffeine-producing hyphomycete from the littoral zone in The Bahamas

The new generic and species name Amorosia littoralis gen. sp. nov. is introduced for the conidial dematiaceous hyphomycete isolated from the littoral zone in The Bahamas and reported in 2001 to produce the novel aza-anthraquinone scorpinone, and also caffeine. No satisfactory generic placement was found at the time, but subsequent morphological and molecular investigations reveal that a new generic name is required. The new genus has some similarity to several fungi described in Trichocladium, but differs substantially from the type species of that genus in the form of the conidia and the lack of ornamentation. BLAST studies using the 18S and 28S rDNA gene sequences place the new genus in the Sporormiaceae. In addition to the morphological studies, an ultrastructural examination of the conspicuous porate septa of hyphae showed that they do not belong to a basidiomycete.     

Revision of Corallinaceae (Corallinales,Rhodophyta): recognizing Dawsoniolithon gen. nov., Parvicellularium gen. nov. and Chamberlainoideae subfam. nov. containing Chamberlainium gen. nov. and Pneophyllum

A multi‐gene (SSU, LSU, psbA, and COI) molecular phylogeny of the family Corallinaceae (excluding the subfamilies Lithophylloideae and Corallinoideae) showed a paraphyletic grouping of six monophyletic clades. Pneophyllum and Spongites were reassessed and recircumscribed using DNA sequence data integrated with morpho‐anatomical comparisons of type material and recently collected specimens. We propose Chamberlainoideae subfam. nov., including the type genus Chamberlainium gen. nov., with C. tumidum comb. nov. as the generitype, and Pneophyllum. Chamberlainium is established to include several taxa previously ascribed to Spongites, the generitype of which currently resides in Neogoniolithoideae. Additionally we propose two new genera, Dawsoniolithon gen. nov. (Metagoniolithoideae), with D. conicum comb. nov. as the generitype and Parvicellularium gen. nov. (subfamily incertae sedis), with P. leonardi sp. nov. as the generitype. Chamberlainoideae has no diagnostic morpho‐anatomical features that enable one to assign specimens to it without DNA sequence data, and it is the first subfamily to possess both Type 1 (Chamberlainium) and Type 2 (Pneophyllum) tetra/bisporangial conceptacle roof development. Two characters distinguish Chamberlainium from Spongites: tetra/biasporangial conceptacle chamber diameter (<300 μm in Chamberlainium vs. >300 μm in Spongites) and tetra/bisporangial conceptacle roof thickness (<8 cells in Chamberlainium vs. >8 cells in Spongites). Two characters also distinguish Pneophyllum from Dawsoniolithon: tetra/bisporangial conceptacle roof thickness (<8 cells in Pneophyllum vs. >8 cells in Dawsoniolithon) and thallus construction (dimerous in Pneophyllum vs. monomerous in Dawsoniolithon).     

Citreicella thiooxidans gen. nov., sp. nov., a novel lithoheterotrophic sulfur-oxidizing bacterium from the Black Sea

Four strains of obligately heterotrophic bacteria isolated from the oxygen-sulfide interface of the Black Sea are characterized. The bacteria are aerobic, Gram-negative, with lemon-like, nonmotile cells. Bacteriochlorophyll a is not detected. They are mesophilic and neutrophilic with a temperature range of 8–35 °C (optimum 25) and pH range of 6.5–8.5 (optimum 7.8). Their growth is NaCl dependent within a range of 5 and 60 (optimum 20) g l⁻¹. They are able to oxidize thiosulfate, sulfide and elemental sulfur to sulfate and to use metabolic energy from these reactions (lithoheterotrophy). According to the level of DNA reassociation of more than 40%, all isolates represent a single generic group. The G+C content of the DNA was in the range of 67.5–69.2 mol%. According to phylogenetic analysis, the new isolates form a separate branch in the alpha-3 subdivision of the Proteobacteria together with two undescribed marine bacterial strains. On the basis of phenotypical and genomic properties, the new isolates are described as a new genus and species Citreicella thiooxidans gen. nov., sp. nov. The type strain is CHLG 1^T (=DSM 10146, UNIQEM U 228).     

Trichococcus flocculiformis gen. nov. sp. nov. A new gram-positive filamentous bacterium isolated from bulking sludge

Summary A new gram-positive filamentous bacterium with coccoid cells has been isolated from bulking sludge from five sewage treatment plants in West-Germany. The characteristics of five strains are described. Their fatty acids and cell wall composition are similar to the Streptococcaceae and they mainly degrade monomeric and dimeric carbon sources. They are classified as a new genus and species of the family Streptococcaceae: Trichococcus flocculiformis gen. nov. sp. nov.     

Taxonomic studies on the Chlorarachniophyta. II. Generic delimitation of the chlorarachniophytes and description of Gymnochlora stellata gen. et sp. nov. and Lotharella gen. nov.

A new chlorarachniophytan alga, Gymnochlora stellata Ishida et Y. Hara gen. et sp. nov., has been isolated from Anae Island in Guam. It is a green, star-shaped, unicellular, amoeboid organism with several filopodia that do not form a reticulopodial network. Neither zoospores nor walled coccoid cells have been observed throughout the life cycle. The chloroplast ultrastructure is similar to those of described species; however, the pyrenoid matrix, which is invaded by many tubular structures originating from the inner membrane of the chloroplast envelope, is unique. A classification system is proposed for the Chlorarachniophyta. In this system, the ultrastructural features of the pyrenoid and the location of the nucleomorph in the periplastidial compartment are used as generic criteria, while the morphological features of the vegetative cells and life cycle patterns are used for species criteria. The described species, except for Cryptochlora perforans Calderon-Saenz et Schnetter, are also reassessed under the new system, and consequent nomenclatural requirements for the genus Chlorarachnion are dealt with in this paper. The taxonomic rank of a previously described species, Chlorarachnion globosum Ishida et Y. Hara, is elevated and Lotharella globosa (Ishida et Y. Hara) Ishida et Y. Hara gen. nov. et comb. nov. is proposed.     

Viridiuvalis adhaerens gen. et sp. nov., a novel colony-forming chlorarachniophyte

Journal of Plant Research - A new chlorarachniophyte, Viridiuvalis adhaerens gen. et sp. nov. was isolated from the mucus on a coral reef from Zanpa Beach, Okinawa, Japan. The main vegetative stage...