Type 2 Quorum Sensing Monitoring,Inhibition and Biofilm Formation in Marine Microrganisms

The quorum sensing (QS) dependent behaviour of micro-organisms, in particular expression of virulence genes, biofilm formation and dispersal, have provided impetus for investigating practical approaches to interfere with microbial QS. This study tests Halomonas pacifica and Marinobacter hydrocarbonoclasticus, two halophilic marine micro-organism, for their AI-2 dependent QS signalling and the effect of two well-known quorum-sensing inhibitors (QSIs), patulin and penicillic acid, on biofilm formation. We report, for the first time, the successful amplification of a putative luxS gene in H. pacifica using degenerated primers and AI-2 dependent QS as well as inhibition using QSIs. Penicillic acid had a strong inhibitory effect on AI-2 induction of H. pacifica at non-growth inhibitory concentrations, while patulin has an adverse effect only at the highest concentration (25 μM). QSIs effect on biofilm forming capability was isolate specific, with maximum inhibition at 25 μM of patulin in H. pacifica. In M. hydrocarbonoclasticus, no adverse effects were noted at any tested concentration of either QSIs. Detection of bioluminescence and the presence of a putative luxS gene provide biochemical and genetic evidence for the production of a signalling molecule(s) which is the essential first step in characterizing H. pacifica QS. This study highlights the importance of AI-2 dependent QS in a marine setting, not previously reported. It further suggests that QSI compounds must be selected in the specific system in which they are to function, and they cannot easily be transferred from one QS system to another.     

First record of a free-living dalyellioid turbellarian from the pacific:Balgetia pacifica nov. spec.

Balgetia pacifica nov. spec. from coarse sand beaches along the west coast of San Juan Island (Washington) is described and its taxonomy discussed. The species is characterized by its large bursal apparatus with a strengthened copulatory bursa.B. pacifica is the first free-living species of the Turbellaria Dalyellioida recorded from the Pacific Ocean.     

Two new species of pyrenomycetous ascomycetes from New Caledonia

Two new species of Pyrenomycetes from forest soil in New Caledonia,Anthostomella pacifica andChaetomium novaecaledonicum, are described and illustrated.Anthostomella pacifica is characterized by non-ostiolate ascomata, cylindrical asci with an amyloid apical apparatus, and two-celled ascospores (dark apical cylindrical and hyaline basal dwarfed cells) with longitudinal germ slits.Chaetomium novae-caledonicum is characterized by ostiolate ascomata, straight terminal hairs, arcuate lateral hairs with a recurved tip, and very small, ovoid-flattened ascospores.This research was supported in part by Monbusho International Scientific Research Program: Field Research, No. 05041093.     

Partial Purification and Characterization of a Glycoprotein Cell Fusion Hormone from Griffithsia pacifica, a Red Alga

In filaments of the red alga Griffithsia, dead intercalary cells are replaced by the process of cell repair by cell fusion. This process is coordinated by a morphogenetic cell fusion hormone, rhodomorphin, which accelerates cell division and induces the production of a specialized repair cell. We have isolated rhodomorphin from Griffithsia pacifica Kylin and have purified it by concanavalin A affinity chromatography, hydrophobic interaction chromatography, and gel filtration chromatography. This molecule binds specifically to concanavalin A, is proteinase sensitive, and is inactivated by short treatments at temperatures of 50°C or above. It therefore appears that rhodomorphin from G. pacifica is a glycoprotein; its molecular weight, as estimated by gel filtration, is approximately 14,000.     

Analysis of Chromophytic and Rhodophytic Ribulose-1,5-Bisphosphate Carboxylase Indicates Extensive Structural and Functional Similarities among Evolutionarily Diverse Algae

Ribulose-1,5-bisphosphate carboxylase (Rubisco) from the algae Olisthodiscus luteus (chromophyte) and Griffithsia pacifica (rhodophyte) are remarkably similar to each other. However, both enzymes differ significantly in the structure and function when compared to Rubisco from green algae and land plants. Analysis of purified Rubisco from O. luteus and G. pacifica indicates that the size of the holoenzyme and stoichiometry of the 55 and 15 kilodalton subunit polypeptides are approximately 550 kilodaltons and eight:eight for both algae. Antigenic determinants are highly conserved between the O. luteus and G. pacifica enzymes and differ from those of the spinach subunit polypeptides. Sequence similarity between the two algal large subunits has been further confirmed by one-dimensional peptide mapping. Substrate ribulose bisphosphate has no effect on the rate of CO₂/Mg²⁺ activation of O. luteus and G. pacifica enzymes which contrasts to the extensive inhibition of spinach Rubisco activation at similar concentrations of this compound. In addition, the Michaelis constant for CO₂ and the inhibition constant for 6-phosphogluconate are similar for the O. luteus and G. pacifica catalyzed carboxylation reaction. Both values are intermediate to those observed for the tight binding spinach enzyme and weak binding prokaryotic (Rhodospirillum rubrum) enzyme. The biochemical similarities documented between O. luteus and G. pacifica may be due to a common evolutionary origin on the chromophytic and rhodophytic chloroplast but could also result from the fact that both subunit polypeptides are chloroplast DNA encoded in these algal taxa.     

Extracellular and Mixotrophic Symbiosis in the Whale-Fall Mussel Adipicola pacifica: A Trend in Evolution from Extra- to Intracellular Symbiosis

Background

Deep-sea mussels harboring chemoautotrophic symbionts from hydrothermal vents and seeps are assumed to have evolved from shallow-water asymbiotic relatives by way of biogenic reducing environments such as sunken wood and whale falls. Such symbiotic associations have been well characterized in mussels collected from vents, seeps and sunken wood but in only a few from whale falls.

Methodology/Principal Finding

Here we report symbioses in the gill tissues of two mussels, Adipicola crypta and Adipicola pacifica, collected from whale-falls on the continental shelf in the northwestern Pacific. The molecular, morphological and stable isotopic characteristics of bacterial symbionts were analyzed. A single phylotype of thioautotrophic bacteria was found in A. crypta gill tissue and two distinct phylotypes of bacteria (referred to as Symbiont A and Symbiont C) in A. pacifica. Symbiont A and the A. crypta symbiont were affiliated with thioautotrophic symbionts of bathymodiolin mussels from deep-sea reducing environments, while Symbiont C was closely related to free-living heterotrophic bacteria. The symbionts in A. crypta were intracellular within epithelial cells of the apical region of the gills and were extracellular in A. pacifica. No spatial partitioning was observed between the two phylotypes in A. pacifica in fluorescence in situ hybridization experiments. Stable isotopic analyses of carbon and sulfur indicated the chemoautotrophic nature of A. crypta and mixotrophic nature of A. pacifica. Molecular phylogenetic analyses of the host mussels showed that A. crypta constituted a monophyletic clade with other intracellular symbiotic (endosymbiotic) mussels and that A. pacifica was the sister group of all endosymbiotic mussels.

Conclusions/Significance

These results strongly suggest that the symbiosis in A. pacifica is at an earlier stage in evolution than other endosymbiotic mussels. Whale falls and other modern biogenic reducing environments may act as refugia for primal chemoautotrophic symbioses between eukaryotes and prokaryotes since the extinction of ancient large marine vertebrates.     

Grazing and Metabolism of Euphausia pacifica in the Yellow Sea

Grazing and metabolism of Euphausia pacifica in the Yellow Sea were studied from September 2006 to August 2007. Euphausia pacifica is a selective-feeding omnivore and grazing rates among different months were monitored using a Coulter Counter and batch culture feeding experiments. Euphausia pacifica mainly grazed microzooplankton in August and September, which resulted in an increase in chlorophyll a concentration. Oxygen consumption rate of E. pacifica was 38.7–42.5 μmol O₂ g^-1 DW h^-1 in March, which was four times higher than the oxygen consumption rates in September and December. The vigorous metabolism of E. pacifica in March consumed 3.1% of body carbon daily, which is likely related to its high reproduction and grazing rate. Respiration and metabolism of E. pacifica in September and December were similar and were lower. O:N ratio of E. pacifica was the highest (17.3–23.8) in March when spawning activity occurred and when food was abundant. The energetic source of E. pacifica during September and December was mostly protein from eating a carnivorous diet, including such items as microzooplankton. Euphausia pacifica was found in cold water at the bottom of the Yellow Sea in summer and autumn and maintained a low consumption status. O:N ratios of E. pacifica in March, September, and December were negatively correlated with SSTs and no significant correlation was found between O:N ratios and chlorophyll a concentration. Seawater temperature is clearly the most important parameter influencing the metabolism of E. pacifica.     

Agerasphaera nov. gen., an ‘Eisenackia’-like dinoflagellate cyst from the thanet sands (paleocene) of southeast England

Agerasphaera margarita nov. gen. et nov. sp. from the Thanet Sands (Paleocene) of southeast England differs from Eisenackia in possessing penitabular membranes rather than raised paraplate areas separated by fossae. A. circumtabulata (Drugg) nov. comb. is nominated as type species. The possible subfamilial relationships of Agerasphaera, Eisenackia and Hystrichokolpoma are discussed and the stratigraphical significance of A. margarita is indicated.     

Age, distribution and abundance of viable resting eggs of Acartia pacifica (Copepoda: Calanoida) in Xiamen Bay, China

The distribution and abundance of viable resting eggs of copepod Acartia pacifica in Xiamen Bay, China, were determined in the laboratory by the presence of nauplii hatched from the sediments. Sediment cores to a depth of 30 cm, sliced at 1.0 cm intervals, showed that most viable resting eggs of A. pacifica occurred near the sediment surface (0-5 cm), and the number of viable eggs sharply decreased with depth of the sediment, although resting eggs remained viable as deep as 23 cm. ²¹⁰Pb analyses of the sediments indicated that the maximum age of viable eggs of A. pacifica was 20.5 years and the mean egg age was 4.3 years. The egg mortality of A. pacifica in the sediment was 0.1408 year⁻¹, or 85.92% annual egg survival, calculated by regressing ln(egg density) on the age of the sediment. The horizontal distribution of viable resting eggs ranged from 2.27×10³ to 3.85×10⁵ m⁻², with a mean value of 9.49×10⁴ m⁻². Regressions between viable eggs of A. pacifica and all fine-fraction particle size classes (at 2 μm intervals) were not significant. The accumulation of viable resting eggs that can persist for an extended period of time provided evidence for the existence of an egg bank of A. pacifica in the seabed of Xiamen Bay.     

Chemical variation in a new bromochamigrene derivative from the red seaweed Laurencia pacifica

The secondary metabolite chemistry of the red seaweed Laurencia pacifica Kylin varies geographically. The La Jolla, Calif. population (type locality) contains the sesquiterpene prepacifenol, while L. pacifica collected south of Ensenada, Mexico contains a new bromochamigrene derivative, the structure of which is described herein. Since chamigrene synthesis in Laurencia species has been demonstrated to be reasonably species-specific, L. pacifica may be a mixture of morphologically similar forms.     

A review of certain non-tabulate Cretaceous hystrichospherid dinocysts

Species assignable to three Cretaceous non-tabulate hystrichospherid dinocysts genera, Kleithriasphaeridium, Florentinia and Silicisphaera gen. nov. are reviewed and five new species proposed: K. loffrensis, F. resex, S. buspina, S. tenera and S? torulosa. Members of these genera are basically spherical in shape, possess either a precingular (3″) or combination precingular (3″)-apical archaeopyle and a variable number of differently shaped intratabular processes. Specific differentiation is based mainly on variation in process number and size. Much of the new information given in this paper is derived from the study of material from (1) the Ryazanian and Valanginian of eastern England, and (2) the Late Albian to Senonian of the Loffre Borehole, northern France. The stratigraphic ranges of all the species are discussed; since a succession of stratigraphic appearances and extinctions occurs in the Cretaceous and the ranges of individual species are fairly limited, careful identification of species will give fine stratigraphic control. The new genus, Silicisphaera, first appears in the mid-Turonian and apparently becomes extinct by the close of the Senonian. Florentinia and Silicisphaera are considered to be ancestral to the Tertiary Diphyes and Hystrichokolpoma.     

Post-breeding densities,population sizes and lake size partitioning of loon species in western Chukotka,Russia

Loons (family Gaviidae) breed in small ponds and lakes across Arctic landscapes and are high level predators in the lake ecosystems. As such, they may serve as sentinel species, warning humans of alterations in habitat and ecosystem integrity in a region that is undergoing vast change due to climate warming. Here, we characterized the abundance and habitat use of four arctic breeding species of loons in the plains and surrounding mountains of western Chukotka, Russia. Loon surveys were conducted on foot and by boat from 2009–2015. Loon species differed in their use of the four lacustrine habitat types within the study area. In yedoma habitat, the yellow-billed loon (Gavia. adamsii) was the most abundant (0.593 birds/km²); on fluvial plain habitat, Pacific loons (G. pacifica) outnumbered other loons (0.701 birds/km²); mountain valleys were inhabited similarly by pacifica (0.354 birds/km²) and red-throated loons (G.stellata; 0.307); and maritime tundra was used only by pacifica (1.13) and Arctic loons (G. arctica; 0.553). G. adamsii was not observed in mountain valleys or maritime tundra. Mountainous portions of rivers were predominantly occupied by stellata and pacifica, and lowland rivers by stellata, pacifica and arctica. There was a significant difference in the size of lakes occupied by the four congeners. The largest loon, adamsii, occupied the largest lakes (0.69 km²), 80% larger than lakes utilized by pacifica (0.39 km²) and arctica (0.38 km²), and 35 times larger than stellata (0.02 km²). Most lakes were occupied by a single loon species (125/162, 77.2%).     

SPATIAL DISTRIBUTION PATTERN OF HOPLOPLEURA PACIFICA (ANOPLURA: HOPLOPLEURIDAE) ON ITS DOMINANT RAT HOST, RATTUS FLAVIPECTUS IN YUNNAN, CHINA

Hoplopleura pacifica is a dominant species of ectoparasitic sucking lice on the body surface of a common rat species, Rattus flavipectus in Yunan province of China. To illustrate the spatial distribution pattern of H. pacifica among the individuals of R. flavipectus, Iwao's linear regression method and a significance test of random deviation for the method were used, and a regression equation was established in the light of Iwao's method. The established equation is M*= 12.10 + 4.76M (r= 0.75, P < 0.01) where both α and β are considerably higher than 0 and 1, the border values for determining spatial pattern of populations. The calculated F value is F= 6.07 (P < 0.05) in the significance test of random deviation. The spatial distribution pattern of H. pacifica among the individuals of R. flavipectus is of aggregated distribution. The result suggests that the individuals of H. pacifica have a tendency to congregate together and form different individual groups instead of evenly distributing on the body surface of every rat host.     

New triterpenoid saponins from the roots of Gypsophila pacifica Kom.

Six new triterpenoid saponins (1-6) have been isolated from the roots of Gypsophila pacifica Kom. Their structures were established on the basis of extensive NMR (¹H, ¹³C, TOCSY, HSQC, and HMBC) and ESIMS studies.     

The 3D Structure of the Apical Complex and Association with the Flagellar Apparatus Revealed by Serial TEM Tomography in Psammosa pacifica,a Distant Relative of the Apicomplexa

The apical complex is one of the defining features of apicomplexan parasites, including the malaria parasite Plasmodium, where it mediates host penetration and invasion. The apical complex is also known in a few related lineages, including several non-parasitic heterotrophs, where it mediates feeding behaviour. The origin of the apical complex is unclear, and one reason for this is that in apicomplexans it exists in only part of the life cycle, and never simultaneously with other major cytoskeletal structures like flagella and basal bodies. Here, we used conventional TEM and serial TEM tomography to reconstruct the three dimensional structure of the apical complex in Psammosa pacifica, a predatory relative of apicomplexans and dinoflagellates that retains the archetype apical complex and the flagellar apparatus simultaneously. The P. pacifica apical complex is associated with the gullet and consists of the pseudoconoid, micronemes, and electron dense vesicles. The pseudoconoid is a convex sheet consisting of eight short microtubules, plus a band made up of microtubules that originate from the flagellar apparatus. The flagellar apparatus consists of three microtubular roots. One of the microtubular roots attached to the posterior basal body is connected to bypassing microtubular strands, which are themselves connected to the extension of the pseudoconoid. These complex connections where the apical complex is an extension of the flagellar apparatus, reflect the ancestral state of both, dating back to the common ancestor of apicaomplexans and dinoflagellates.     

The flightless marine midge Pontomyia (Diptera: Chironomidae): ecology,distribution, and molecular phylogeny

Pontomyia Edwards, 1926 (Diptera: Chironomidae) is a genus of exclusively marine flightless midges. There are four described species from the Indo‐Pacific, and one undescribed species known only from females, pupal skins, and larvae from the Atlantic/Caribbean. They are poorly known owing to their small size (～1.0 mm), extremely short adult life (< 3 h), and unusual habitat for an insect (coastal lagoons, bays, or rock pools). We reviewed scattered literature on their biology and systematics, presented photomicrographs of the male hypogium, and updated the geographic distribution of each species. We carried out the first molecular study to elucidate relationships among and within three of the species. Results from our four‐gene phylogenetic reconstruction using combined gene tree and species tree approaches showed that Pontomyia natans, Pontomyia oceana, and Pontomyia pacifica are each well‐supported clades, with P. natans as sister to P. oceana + P. pacifica. Genetic distances based on mitochondrial cytochrome oxidase I are extraordinarily large within P. natans and P. pacifica, which suggests that they may be cryptic species complexes. © 2011 The Linnean Society of London, Zoological Journal of the Linnean Society, 2011, 162 , 443–456.     

Ichnotaxonomic Review of Large Ornithopod Dinosaur Tracks: Temporal and Geographic Implications

BackgroundLarge ornithopod tracks are known from the Upper Jurassic to the uppermost Cretaceous rocks of all continents but Antarctica. They include the tracks historically called Iguanodon footprints, iguanodontid footprints, hadrosaur/hadrosaurid footprints, and other large ornithopod tracks that have been used to define ichnotaxa. More than 40 ichnospecies based on large ornithopod tracks have been defined, but the validity of many of them is questionable.Conclusions/SignificanceThe monospecific ichnogenus Iguanodontipus (I. burreyi) is characterized by a small, rounded heel and elongate, narrow digit impressions. Its distribution is limited to the Berriasian-Valanginian of Europe. Caririchnium consists of four ichnospecies (C. magnificum [type ichnospecies], C. kortmeyeri, C. billsarjeanti and C. lotus) with a large, rounded heel and short, wide digit impressions. This ichnogenus ranges from the Berriasian-Hauterivian to the Aptian-Albian of South America, North America, Asia and Europe. Finally, Hadrosauropodus (three ichnospecies: H. langstoni [type ichnospecies], H. leonardii and H. kyoungsookimi) shows a large, bilobed heel and short, wide digit impressions. It is known from the Aptian-Albian to the Maastrichtian of North America, Asia and Europe. The ichnofamily Iguanodontipodidae includes large iguanodontian tracks characterized mainly by mesaxonic, tridactyl and subsymmetrical pes tracks that are as wide as (or wider than) long and have one pad impression in each digit and one in the heel. Its distribution is confidently limited to the Cretaceous of Europe, Asia, North America and South America.     

Biosynthesis of coelenterazine in the deep-sea copepod, Metridia pacifica

Coelenterazine is an imidazopyrazinone compound (3,7-dihydroimidazopyrazin-3-one structure) that is widely distributed in marine organisms and used as a luciferin for various bioluminescence reactions. We have used electrospray ionization-ion trap-mass spectrometry to investigate whether the deep-sea luminous copepod Metridia pacifica is able to synthesize coelenterazine. By feeding experiments using deuterium labeled amino acids of l-tyrosine and l-phenylalanine, we have shown that coelenterazine can be synthesized from two molecules of l-tyrosine and one molecule of l-phenylalanine in M. pacifica. This is the first demonstration that coelenterazine is biosynthesized from free l-amino acids in a marine organism.     

CULTURE STUDIES ON THE RELATIONSHIP BETWEEN SCHIZYMENIA AND HAEMATOCELIS (GIGARTINALES,RHODOPHYCEAE) FROM THE PACIFIC COAST OF NORTH AMERICA1

Carpospores from Schizymenia pacifica (Kylin) Kylin (Gymnophlaeaceae) from California formed crusts anatomically identical to Haematocelis rubens J. Agardh (Cruoriaceae). Tetraspores of H. rubens from Monterey, California, and Baja California, Mexico, germinated to form basal discs from which arose upright multiaxial blades with a filamentous medulla and cortical gland cells. Pro-carps and spermatangia were present on the same blades; subsequently, cystocarps characteristic of Schizymenia pacifica developed. Re-examination of herbarium specimens suggests that the foliose tetrasporangial phases previously reported as S. pacifica are referable to Halymenia, Dilsea, Cryptonemia, or Turnerella. Schizymenia pacifica (type locality: San Juan Islands, Washington) thus is considered to be the gametophyte in the life history of Haematocelis rubens (type locality: Brest, France), which has also been reported to be the tetrasporophyte of S. dubyi (Chauvin ex Duby) J. Agardh (type locality: Cherbourg, France). Atlantic and Pacific gametophytes and tetrasporophytes are anatomically very similar, suggesting that only one species is involved, but critical studies must be made before a decision on this taxonomic question can be reached. Haematocelis zonalis Dawson et Neushul (type locality: Anacapa Island, California) is considered to be a growth form of the tetrasporangial phase of S. pacifica.