Structure of the digestive tract of tornaria larva inEnteropneusta (Hemichordata)

The ultrastructure of the digestive tract of tornaria larva of enteropneusts was investigated. It showed that the digestive tract consists of three parts: esophagus, stomach, and intestine. The esophagus epithelium consists of two types of multiciliated epithelial cells and solitary muscle cells. Axonal tracts and neurons were found in the ventral wall of the esophagus. The cardiac sphincter contains an anterior band of strongly ciliated cells and a posterior band of cells with long vacuolized processes which partition the sphincter lumen. The stomach consists of three cell types: (1) cells with electron-opaque cytoplasm, bearing a fringed border on their apical sides; (2, 3) sparse cells with electron-light cytoplasm and different patterns of apical microvilli. Cells of the pyloric sphincter bear numerous cilia and almost no microvilli. The intestine consists of three parts. The anterior part is formed of multiciliated cells which bear the fringed border. The middle part consists of flattened cells bearing rare cilia and vast numbers of mace-like microvilli. The posterior part of the intestine is formed of cells bearing numerous cilia and few microvilli. Muscle cells were not found in either stomach or intestine epithelium. One noticed that the structure of the digestive tract of enteropneust tornaria larva differs from that of echinoid pluteus larva.     

Corollonema thylogale n. g., n. sp. (Nematoda: Strongyloidea), parasitic in the pademelons Thylogale thetis and T. stigmatica (Marsupialia: Macropodidae) from Queensland, Australia

Corollonema thylogale n. g., n. sp. is described from the stomachs of Thylogale thetis and T. stigmatica from south-eastern Queensland. The new genus is characterised by four branches to the dorsal ray, a J-shaped ovejector, a cylindrical buccal capsule reduced to a posterior, thickened annulus and a leaf-crown of eight elements originating from the base of the buccal capsule. On the basis of these features, the new genus is placed in the subfamily Cloacininae Stossich, 1899 and the tribe Coronostrongylinea Beveridge, 1986. The presence of an internal leaf crown is unique within the tribe and the new genus is erected on this basis.     

On the homologous relationship between the variable and the constant parts of immunoglobulins

The amino acid sequences from variable and constant parts of immunoglobulin chains have been compared by the method of Fitch. The data reveal that the variable parts are always much more homologous to the constant parts of heavy chains (and particularly to the constant part of the Fd fragment) than to the constant part of light chains. The significance of the findings is discussed, and a tentative scheme of evolution of immunoglobulins is presented.This work was carried out under contract 007-71 ABIB between Euratom and the University of Brussels.Researcher at the Fonds National de la Recherche Scientifique.     

A study of periodicity in the primary structure of spidroin 1 and spidroin 2 from spiders belonging to various species

Sequences of spidroin 1 and 2 from spiders belonging to various species were analyzed by Fourier analysis. Specific periodical patterns were found in various segments of the sequences. These characteristic periodicities vary within the same proteins as well as between spidroin 1 and spidroin 2 sequences. It is possible that alterations in periodicity help to recognize contact sites between the molecules. Spidroins of 2 type have similar sequence structure consisting of four parts with a particular periodical pattern. These parts are a constant C-terminal part, a long-periodical part, a short-periodical part, and a constant N-terminal part.     

Calyculin-A increases the level of protein phosphorylation and changes the shape of 3T3 fibroblasts.

Calyculin-A, an inhibitor of type 1 and 2A phosphatases, was applied extracellularly to 3T3 fibroblasts. At 0.1 microM, calyculin-A caused a marked increase in protein phosphorylation in both the cytosolic and insoluble cellular fractions. This effect was independent of external Ca2+. An immunoprecipitate, formed with an antibody to myosin, contained several cytoskeletal components. Increased phosphorylation following treatment with calyculin-A was observed in vimentin, the 20-kD myosin light chain, and an unidentified 440-kD component. An enhanced level of vimentin phosphorylation was found in intermediate filament preparations from treated cells. Calyculin-A also caused marked shape changes of 3T3 cells. Within minutes after addition of calyculin-A (0.1 microM) cells became rounded and lost attachment to the substratum. Stress fibers, intermediate filaments, and microtubules, prominent in the attached control cells, were not evident in the rounded cells. Shape changes were reversible and after removal of calyculin-A the rounded cells attached to the substratum, resumed a flattened shape, and were active mitotically. In the cells treated with calyculin-A an unusual "ball-like" structure was observed with transmission electron microscopy. This unique structure was 2-3 microM in diameter and was located close to the nucleus. The use of calyculin-A adds further support to the idea that cell shape is controlled, at least in part, by concerted actions of a kinase-phosphatase couple.     

Coprolites from shallow marine deposits of the Nanjemoy Formation,Lower Eocene of Virginia,USA

The Eocene Nanjemoy Formation crops out on the Maryland and Virginia Coastal Plain, along the eastern coast of the United States. This formation is composed of sands, silts and clays and is divided into the Potapaco and Woodstock members. Remains of fishes, reptiles, birds, mammals, molluscs, fruits and seeds are common in the Potapaco Member, in addition to vertebrate coprolites. Here, we present an analysis of more than 2000 coprolites from the Fisher/Sullivan Site in Virginia. The chemical composition (phosphatic) and the type of inclusions (fish bones) indicate that only scats of carnivorous animals were preserved. The analysed specimens were grouped into six morphotypes: (1) the cylindrical morphotype is a cylinder with rounded ends; (2) the segmented morphotype is a cylinder segmented with rounded ends, and occasionally one end is concave; (3) the oval morphotype represents a bean‐shaped coprolite; (4) the scroll morphotype is cylindrical to conical in lateral view and has coils seen only at the ends; (5) the folded morphotype is a spiral that is concentrically folded; and (6) the sinuous morphotype is serpentine, with rounded ends. Coprophagy‐related scrape traces occur in different morphotypes and represent both invertebrate burrows and bite traces made by fishes. The mineralogical and chemical analyses indicate an early precipitation of phosphate and pyrite minerals, probably induced by the microbial community. All coprolites at the Fisher/Sullivan Site were produced by fishes: carcharhiniform sharks for the scroll morphotype and lamniform sharks, probably the genus Carcharias, for the folded morphotype; the oval, cylindrical and segmented morphotypes were likely produced by actinopterygian fishes.     

Musculature in three species of <Emphasis Type="Italic">Proales</Emphasis> (Monogononta,Rotifera) stained with phalloidin-labeled fluorescent dye

The musculature in the rotifer species Proales daphnicola, P. reinhardti and P. fallaciosa was stained with phalloidin-labeled fluorescent dye and compared using confocal laser scanning microscopy. All three species share several homologous muscle systems, but each systems detailed morphology varies among the species both concerning appearance, number and location. The obtained results were compared with data from other rotifers and it was concluded that the muscles pars coronalis and the corona sphincter probably represent conditions in Ploima or Monogononta, while incomplete circular muscles and dorsal and ventral trunk retractors might be part of the eurotatorian ground pattern.     

Origin of the Coleorhiza in Cycad Seedlings and its Structural Homology with That of the Poaceae

In the literature there is disagreement about the existence of a coleorhiza in cycad embryos. In this paper the terminology of the cycad ovule, seed and embryo is revised. It was confirmed that the cycad ovule and seed are pachychalazal and that the seed coat is exclusively formed by the pachychalaza. The term ‘pleurotesta’ as a substitute for the so-called ‘endotesta’ is suggested to describe the inner, membranous part of the seed coat. The anatomy of the cycad embryo was studied in comparison with the grass embryo and it was found that a coleorhiza does exist in cycad embryos and derives from the distal part of the suspensor. It is postulated that the coleorhiza in grasses also derives from the distal part of the suspensor and that the two structures are therefore structurally homologous.     

Nucleotide sequence of a 'truncated rRNA operon' of the Euglena gracilis chloroplast genome.

An extra 16S rRNA gene (s-16S rDNA) from the Euglena gracilis chloroplast genome and several hundred positions of its flanking regions have been sequenced. The structural part has 1486 positions and is to 98% homologous in its sequence with the 16S rRNA gene in functional chloroplast rRNA operons. Sequences of about 200 positions upstream and 15 positions downstream of the structural part of the s-16S rRNA gene region are highly homologous with corresponding parts in the functional operon. Neither tRNA genes (A1a, I1e) nor parts of the 23S and 5S rRNA genes are found within 557 positions after the 3' end of the s-16S rRNA gene, i.e., the 330 bp homology, observed in electron microscopic studies of heteroduplexes (4), between the s-16S rDNA downstream region and the 6.2 kb repeated segment containing the functional rRNA operon, must be due to a DNA stretch in the interoperon spacer. A structural model of the "truncated rRNA operon" is presented. Results from S-1 endonuclease analysis suggest that the s-16S rDNA region is probably not transcribed into stable s-16S rRNA.     

Functional Complexity in Organisms: Parts as Proxies

The functional complexity, or the number of functions, of organisms hasfigured prominently in certain theoretical and empirical work inevolutionary biology. Large-scale trends in functional complexity andcorrelations between functional complexity and other variables, such assize, have been proposed. However, the notion of number of functions hasalso been operationally intractable, in that no method has been developedfor counting functions in an organism in a systematic and reliable way.Thus, studies have had to rely on the largely unsupported assumption thatnumber of functions can be measured indirectly, by using number ofmorphological, physiological, and behavioral parts as a proxy. Here, amodel is developed that supports this assumption. Specifically, the modelpredicts that few parts will have many functions overlapping in them, andtherefore the variance in number of functions per part will be low. If so,then number of parts is expected to be well correlated with number offunctions, and we can use part counts as proxies for function counts incomparative studies of organisms, even when part counts are low. Alsodiscussed briefly is a strategy for identifying certain kinds of parts inorganisms in a systematic way.     

External Anatomy of the Female Genital (Eighth) Limbs and the Setose Openings in Myodocopid Ostracodes (Cypridinidae)

The external anatomy of various cypridinid female genital (8th) limbs is described. Scanning electron microscopy shows that each female cypridinid genital limb has a medial depression and associated pore (= spermatophore pore); over all of which a male cements a spermatophore. The limb terminates laterally in a superficially smooth rounded knob bearing an additional small opening (= lateral pore). Dorsolateral to this genital limb there are grouped setae, previously called "brush organs", that are really paired, slit–like posterolateral openings, which are probably subdermally united to the female genital limbs. The "brush organs" of all myodocopid females also are likely to be the setose openings. The setose openings are probably homologous to the setose central lobe of male cypridinid copulatory limbs, but not homologous to the limb–like "brush organ" described for some podocopid males. We speculate that the eggs are fertilized via the spermatophore pore associated with the attached spermatophore, and that they are released from the slightly larger and more lateral setose openings into the brood chamber of the posterodorsal area of the bivalved carapace.     

Ayenia saligna (Sterculiaceae), a new species from Colombia

Ayenia saligna from Colombia is described and illustrated. It is remarkable for having foliar nectaries, which now are known to occur in seven of the 75–80 species in the genus. The petals ofAyenia are structurally complex and the inconsistent use of terminology to describe their parts is noted. In addition, the relationship ofA. saligna to other species ofAyenia is discussed.     

First Record of Bourgelatia diducta (Nematoda: Chabertiidae) from Wild Boars in the Republic of Korea

This study describes the first record of Bourgelatia diducta (Nematoda: Chabertiidae) from wild boars in the Republic of Korea (=South Korea). Gastrointestinal tracts of 87 Korean wild boars (Sus scrofa coreanus) hunted in mountains in the south-western part of South Korea between 2009 and 2012 were examined for their visceral helminths. B. diducta, as identified by morphological characteristics of the head and tail, were recovered from the large intestine of 47 (54%) wild boars. The average length of adult female worms was 11.3±0.87 mm and the thickest part of the body measured 0.54±0.04 mm in maximum width, while those of males were 9.8±0.72 and 0.45±0.03 mm, respectively. The characteristic J-shaped type II ovejector was observed in females, and the type II dorsal ray with 2 rami on each side of the median fissure was uniquely seen in males. The buccal capsule was small, relatively thin-walled, cylindrical, very short, and ring-shaped. The externodorsal ray arose from a common stem with the dorsal ray. The cervical groove was absent. The anterior extremity was equipped with 20-22 external corona radiata, 4 cephalic papillae and 2 lateral amphids around the mouth. The eggs were 66.0×38.9 µm in average size. By the present study, B. diducta (Nematoda: Chabertiidae) is recorded for the first time in South Korea. Additionally, morphological characteristics and identification keys provided in the present study will be helpful in the faunistic or taxonomic studies for strongylid nematodes related.     

Molecular standardization of mating type terminology in the Gibberella fujikuroi species complex.

Mating type in the Gibberella fujikuroi species complex is controlled by a single locus with two alleles and is usually identified following sexual crosses with standard, female-fertile tester isolates. The mating type alleles have been arbitrarily designated "+" and "-" within each biological species, and the nomenclature is tied to the standard tester strains. We developed a pair of PCR primers that can be used to amplify a unique fragment of one of the mating type alleles (MAT-2) from at least seven of the biological species in this species complex. Based on the amplification pattern, we propose a replacement for the existing, arbitrary +/- terminology that is presently in use. The new terminology is based on DNA sequence similarities between the mating type allele fragments from the biological species of the G. fujikuroi species complex and the corresponding fragments from other filamentous ascomycetes.     

The performances of the chi-square test and complexity measures for signal recognition in biological sequences

With large amounts of experimental data, modern molecular biology needs appropriate methods to deal with biological sequences. In this work, we apply a statistical method (Pearson's chi-square test) to recognize the signals appear in the whole genome of the Escherichia coli. To show the effectiveness of the method, we compare the Pearson's chi-square test with linguistic complexity on the complete genome of E. coli. The results suggest that Pearson's chi-square test is an efficient method for distinguishing genes (coding regions) form pseudogenes (noncoding regions). On the other hand, the performance of the linguistic complexity is much lower than the chi-square test method. We also use the Pearson's chi-square test method to determine which parts of the Open Reading Frame (ORF) have significant effect on discriminating genes form pseudogenes. Moreover, different complexity measures and Pearson's chi-square test applied on the genes with high value of Pearson's chi-square statistic. We also compute the measures on homologous of these genes. The results illustrate that there is a region near the start codon with high value of chi-square statistic and low complexity that is conserve between homologous genes.     

Ultrastructure of the eye of Urastoma cyprinae (Turbellaria,Alloeocoela)

Summary Urastoma cyprinae (Graff) is a microturbellarian which has been recorded both as a free-living organism by Westblad (1955) and Marcus (1951) and as a commensal in various lamellibranch molluscs (see Burt & Drinnan 1968). The material used in this study came from oysters, Crassostroea virginica, collected off the coast of Prince Edward Island, in which hosts it occurs in large numbers especially during the summer months when the oysters are spawning (Fleming et al. 1981). When U. cyprinae is exposed to light as happens, for example, when an oyster is opened, it shows a marked negative phototactic response.Preliminary work on the fine structure of the photoreceptors in U. cyprinae shows that the two eyes each consists of: (1) a single cup cell full of relatively large, electron-dense pigment granules; (2) a tripartite conical lens system; and (3) what appear to be two photosensitive rhabdomes. The pigment cup cell has a single, well defined nucleus situated basally and close to the membrane of the pigment cell furthest away from the rhabdomeres. The lens system consists of a cone made up of three, separate but equal, parts. Each part has two, flat inner surfaces which join at an angle of 120°, an outer rounded surface, and a rounded upper surface. When these three parts fit together, the cone-shaped lens is formed with the apex of the lens within the cup of the pigment cell and the rounded, convex, broad end of the cone lying more or less at the same level as the top of the pigment cup and below the epidermis layer. The rhabdomeres lie between the electron dense lenses and the inside of the pigment cup. They show connections to the visual cells which are bipolar: one extension joining the rhabdomeres; the other constituting the axon which extends into the centrally situated brain or into the longitudinal, lateral nerves. The axons that enter the brain, form connections with other axons from the other eye. The axons that extend posteriorly in a lateral position, presumably play a role in facilitating the avoidance reaction.The chemical nature of the unusual lens has not yet been determined. This is presently under investigation and will be reported later at which time our work will be discussed in relation to other types of rhabdomeric eyes in the Turbellaria.     

A pairwise alignment algorithm which favors clusters of blocks.

Pairwise sequence alignments aim to decide whether two sequences are related and, if so, to exhibit their related domains. Recent works have pointed out that a significant number of true homologous sequences are missed when using classical comparison algorithms. This is the case when two homologous sequences share several little blocks of homology, too small to lead to a significant score. On the other hand, classical alignment algorithms, when detecting homologies, may fail to recognize all the significant biological signals. The aim of the paper is to give a solution to these two problems. We propose a new scoring method which tends to increase the score of an alignment when "blocks" are detected. This so-called Block-Scoring algorithm, which makes use of dynamic programming, is worth being used as a complementary tool to classical exact alignments methods. We validate our approach by applying it on a large set of biological data. Finally, we give a limit theorem for the score statistics of the algorithm.     

Identification by phage display and characterization of two neutralizing chimpanzee monoclonal antibodies to the hepatitis E virus capsid protein

Two monoclonal antibodies (MAbs) against the ORF2 protein of the SAR-55 strain of hepatitis E virus (HEV) were isolated by phage display from a cDNA library of chimpanzee (Pan troglodytes) gamma1/kappa antibody genes. Both MAbs, HEV#4 and HEV#31, bound to reduced, denatured open reading frame 2 (ORF2) protein in a Western blot, suggesting that they recognize linear epitopes. The affinities (equilibrium dissociation constants, K(d)) for the SAR-55 ORF2 protein were 1.7 nM for HEV#4 and 5.4 nM for HEV#31. The two MAbs also reacted in an enzyme-linked immunosorbent assay with recombinant ORF2 protein from a heterologous HEV, the Meng strain. Each MAb blocked the subsequent binding of the other MAb to homologous ORF2 protein in indirect competition assays, suggesting that they recognize the same or overlapping epitopes. Radioimmunoprecipitation assays suggested that at least part of the linear epitope(s) recognized by the two MAbs is located between amino acids 578 and 607. MAbs were mixed with homologous HEV in vitro and then inoculated into rhesus monkeys (Macaca mulatta) to determine their neutralizing ability. Whereas all control animals developed hepatitis (elevated liver enzyme levels in serum) and seroconverted to HEV, those receiving an inoculum incubated with either HEV#4 or HEV#31 were not infected. Therefore, each MAb neutralized the SAR-55 strain of HEV in vitro.