Specific probes efficiently distinguish root-knot nematode species using signature sequences in the ribosomal intergenic spacer

Ont été établies des sondes moléculaires - destinées à identifier les espèces de #Meloidogyne - grâce à des différences spécifiques dans l'espaceur intergénique (IGS) de l'ADN ribosomal. Les séquences de nucléotides de l'IGS ont été obtenues en séquençant l'ADN amplifiée par PCR. L'alignement des séquences de l'IGS de #M. chitwoodi et #M. fallax a révélé plusieurs régions contenant des différences localisées. Des amorces PCR ont été synthétisées qui ont donné des produits d'amplification spécifiques lorsqu'utilisées avec des produits d'amorce non spécifiques, ont pu être séparés par leur taille dans un gel d'agarose, procurant ainsi un test fiable et précis ne nécessitant pas de restriction enzymatique. L'amplification de l'ADN d'un nématode juvénile ou d'un oeuf par PCR multiplex a permis d'identifier #M. chitwoodi et #M. fallax et de les séparer de #M. hapla, #M. javanica, #M. arenaria et #M. mayaguensis$. (Résumé d'auteur

FlexOracle: predicting flexible hinges by identification of stable domains

<p>Abstract</p> <p>Background</p> <p>Protein motions play an essential role in catalysis and protein-ligand interactions, but are difficult to observe directly. A substantial fraction of protein motions involve hinge bending. For these proteins, the accurate identification of flexible hinges connecting rigid domains would provide significant insight into motion. Programs such as GNM and FIRST have made global flexibility predictions available at low computational cost, but are not designed specifically for finding hinge points.</p> <p>Results</p> <p>Here we present the novel FlexOracle hinge prediction approach based on the ideas that energetic interactions are stronger <it>within </it>structural domains than <it>between </it>them, and that fragments generated by cleaving the protein at the hinge site are independently stable. We implement this as a tool within the Database of Macromolecular Motions, MolMovDB.org. For a given structure, we generate pairs of fragments based on scanning all possible cleavage points on the protein chain, compute the energy of the fragments compared with the undivided protein, and predict hinges where this quantity is minimal. We present three specific implementations of this approach. In the first, we consider only pairs of fragments generated by cutting at a <it>single </it>location on the protein chain and then use a standard molecular mechanics force field to calculate the enthalpies of the two fragments. In the second, we generate fragments in the same way but instead compute their free energies using a knowledge based force field. In the third, we generate fragment pairs by cutting at <it>two </it>points on the protein chain and then calculate their free energies.</p> <p>Conclusion</p> <p>Quantitative results demonstrate our method's ability to predict known hinges from the Database of Macromolecular Motions.</p

Characterization of Bi4Ge3O12 single crystal by impedance spectroscopy

Bi4Ge3O12 (bismuth germanate - BGO) single crystals were produced by the Czochralski technique and their electrical and dielectric properties were investigated by impedance spectroscopy. The isothermal ac measurements were performed for temperatures from room temperature up to 750 °C, but only the data taken above 500 °C presented a complete semicircle in the complex impedance diagrams. Experimental data were fitted to a parallel RC equivalent circuit, and the electrical conductivity was obtained from the resistivity values. Conductivity values from 5.4 × 10(9) to 4.3 × 10-7 S/cm were found in the temperature range of 500 to 750 °C. This electrical conductivity is thermally activated, following the Arrhenius law with an apparent activation energy of (1.41 ± 0.04) eV. The dielectric properties of BGO single crystal were also studied for the same temperature interval. Permittivity values of 20 ± 2 for frequencies higher than 10³ Hz and a low-frequency dispersion were observed. Both electric and dielectric behavior of BGO are typical of systems in which the conduction mechanism dominates the dielectric response

Systems biology and multi-omics integration: Viewpoints from the metabolomics research community

10.3390/metabo9040076Metabolites947

Increased fecundity resulting from semen donor selection based upon in vitro sperm motility

Semen donors were selected from a population of 100 roosters based upon the extent to which sperm penetrated 6% (wt/vol) Accudenz from an overlay of extended semen. Semen donors categorized by average or high sperm motility (n = 5 per phenotype) were ejaculated weekly, their ejaculates pooled by phenotype, and pooled semen extended. A subsample of each sperm suspension was overlaid on 6% (wt/vol) Accudenz in a cuvette, the cuvette was placed in a 41 C water bath, and the absorbance of the Accudenz layer was measured after a 5-min incubation. The remainder of the sperm suspension was inseminated (n = 55 hens per phenotype). Each hen was inseminated weekly with 50 x 10(6) sperm for 14 wk. The hatchability of eggs laid by hens inseminated with sperm from the high motility phenotype was 10% greater (P or = 0.05) or a motility by dose interaction (P > or = 0.05). A posteriori comparison among means revealed that the maximal fertility obtained with sperm from average roosters was 9% less (P < or = 0.05) than that obtained with only 25% as many sperm from the high motility phenotype. These experiments demonstrated that the fecundity of artificially inseminated hens can be increased when sperm penetration of Accudenz is used as a selection criterion for semen donors