Comparison of metabolomics of Dendrobium officinale in different habitats by UPLC-Q-TOF-MS

Dendrobium officinale has been considered over past centuries to be extremely valuable for use as an herbal medicine in South Asian countries. In this work, the chemical profiles of D. officinale from different habitats were systematically characterized using ultra-performance liquid chromatography time-of-flight mass spectrometry (UPLC-Q-TOF-MS) and multivariate analysis. The principal component analysis (PCA), partial least squares discriminate analysis (PLS-DA) and orthogonal partial least squares analysis (OPLS-DA) of UPLC-Q-TOF-MS data displayed an obvious separation. Several flavonoids and terpenoids derivatives contribute to the quantitative chemotypic variation within and between the samples as observed. These findings lead to a better understanding of the phytochemical variation of D. officinale which can aid in quality control of raw material.     

Characterization of surface binding sites in glycoside hydrolases: A computational study

Structural properties of carbohydrate surface binding sites (SBSs) were investigated with computational methods. Eighty‐five SBSs of 44 enzymes in 119 Protein Data Bank (PDB) files were collected as a dataset. On the basis of SBSs shape, they were divided into 3 categories: flat surfaces, clefts, and cavities (types A, B, and C, respectively). Ligand varieties showed the correlation between shape of SBSs and ligands size. To reduce cut‐off differences in each SBSs with different ligand size, molecular docking were performed. Molecular docking results were used to refine SBSs classification and binding sites cut‐off. Docking results predicted putative ligands positions and displayed dependence of the ligands binding mode to the structural type of SBSs. Physicochemical properties of SBSs were calculated for all docking results with YASARA Structure. The results showed that all SBSs are hydrophilic, while their charges could vary and depended to ligand size and defined cut‐off. Surface binding sites type B had highest average values of solvent accessible surface area. Analysis of interactions showed that hydrophobic interactions occur more than hydrogen bonds, which is related to the presence of aromatic residues and carbohydrates interactions.     

pH Biosensing by PI4P Regulates Cargo Sorting at the TGN

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Uptake and distribution of calcium, magnesium and potassium in cucumber of different age

Uptake and distribution of Ca⁺, Mg²⁺ and K²⁺ were investigated in plants of cucumber ( Cucumis sativus L. var. Cila) which had been cultivated for 12, 19, 32, or 53 days in complete nutrient solution with 1.0 m M Ca²⁺, 2.0 m M Mg²⁺ and 2.0 m M K⁺. The ⁺ concentration was about the same in roots and shoots, while the Ca²⁺ and Mg²⁺ concentrations were low in roots compared to shoots. The K⁺ concentration decreased with increasing leaf age, while the Ca²⁺ and Mg²⁺ concentrations increased, except in older plants with flowers and fruits, where an increased concentration was found in the youngest leaves. This is discussed in connection with increased indoleacetic acid (IAA) synthesis in the shoot. Excision of leaves at different levels from 21-day-old plants, followed by uptake for 24 h from the nutrient solution on days 22 and 23, resulted in no immediate reduction in Ca²⁺ (⁴⁵Ca) uptake. Transport of Ca²⁺ increased to leaves above and below the excision point and total Ca²⁺ uptake remained at the same level as for the intact plant. It is suggested that regulation of Ca²⁺ uptake is primarily achieved in the root while the distribution in the shoot is regulated by the accessability of negative binding sites.     

The use of breeding sites of Tilapia congica (Thys & van Audenaerde 1960) to delineate conservation sites in the Lake Tumba,Democratic Republic of Congo: toward the conservation of the lake ecosystem

To guide the zoning process in Lake Tumba, Democratic Republic of Congo, breeding sites of Tilapia congica were studied. Physical metrics measured were: nest depths, exposure to sun rays, distance from the edges, site spreads, and habitat types. Mean nest depth = 0.23 m ± 0.08 (SD), range = 0.04–2.2 m (n = 553 nests); 100% (n = 70 sites) sites were exposed to the sun and the polynomial regression analysis showed 90% sites were within the range 51–250 m from the lake shores (y = ?1.7143x² + 10.371x? 1.8; R² = 0.597, n = 70 sites), with 60% clumped within the range of 51–150 m, indicating a relationship between nesting sites and the distance from edges. The largest group spread group was 300 m, and among the four breeding sites identified, one was ～10 km long, meaning a zonal spatial spread ∏ = 300 ha and a core reproduction zone ∏′ = 100 ha. T. congica built 87.30% of their nest in habitats where Hippo grass Vossia cuspidata (48.20%) and Water lily Nympheae stellata (39.10%) dominated. T. congica shared 41.81% of its nesting sites with other fish species, leading to the conclusion that protecting the species habitats would provide the umbrella for the conservation of other species.     

Spatial relations and population structure of a dominant tree along a treeline ecotone in the Tropical Andes: interactions at gradient and plant-neighbourhood scales

Background: Studies in temperate mountains suggest that plant–plant interactions modulate tree establishment above the forest line. In tropical mountains worldwide this issue remains largely unexplored.

Aims: To analyse the population structure and local spatial relationships of a dominant tree at a species-rich tropical Andean forest line.

Methods: We determined changes in the population structure of Diplostephium venezuelense along an elevation gradient between continuous forest and open páramo and analysed plant community structure and superficial rock cover in the neighbourhood of saplings and adults at the upper forest line.

Results: Sapling and adult densities were highest in low-altitude páramos adjacent to the forest line and at the borders of small forest islands. Saplings showed local spatial aggregation, were positively associated with small boulders and low shrubs, and negatively associated with mosses and lichens. However, no spatial association was found between scattered adults in the páramo and saplings of other forest trees.

Conclusions: Complex species-specific local spatial interactions, suggesting both facilitative and antagonistic effects, seem to modulate the establishment of the dominant tree D. venezuelense at and above the upper forest line. Nevertheless, the establishment of other tree species above continuous forests does not appear to be facilitated by the canopy cover offered by the isolated D. venezuelense individuals established in open páramo environments.     

Determination of free amino acids in burley tobacco by high performance liquid chromatography

A reversed-phase high performance liquid chromatographic method was developed for determining free amino acids in burley tobacco. The test was done by OPA/3-mercaptopropionic acid as the pre-column derivatizing reagent. Chromatographic column was Elitte C¹⁸ column (4.6 mm × 250 mm i.d., 5 μm). Mobile phase A was 18 mol/l NaAc (pH7.2) including 0.002%(v/v) triethylamine and 0.3%(v/v) furanidine. Mobile phase B was 100 mol/l NaAc (pH7.2)–acetonitrile–methanol (v/v = 1:2:2). The column temperature was 40 °C and the flow rate was 1.0 ml/min. The fluorescence detector was used with 350 nm excitation wave length and 450 nm emission wave length. The average recoveries of the method ranged from 95.3–100.7% with the relative standard deviation of 2.32–9.24%. The method is simple, accurate and has good repeatability. The results of the determination of seventeen kinds of free amino acids in burley leaves were produced by the way of different ratios of cake fertilizer and inorganic fertilizer. The results show that Aspartic acid has the highest content however ratio of cake fertilizer and inorganic fertilizer. The contents of most of the free amino acids are increased and then gradually decreased with the increase in organic manure. The contents of most of the free amino acids are very close at 15:85% ratio and 30:70% ratio of cake fertilizer and inorganic fertilizer. The total amount of free amino acids is the highest at 30:70% ratio of cake fertilizer and inorganic fertilizer. Considering comprehensively, the quality of burley leaves is the best at 30:70% ratio of cake fertilizer and inorganic fertilizer.     

A protein in rat prostatic interacting with androgen regulated gene

2M NaCl-insoluble fraction of rat ventral prostatechromatin(residual proteins)contain proteins able tointeract specifically with androgen-receptor complex andis,therefore,a part of the acceptor complex.Amongresidual proteins,a 97 KDa protein has been found whichbinds signifieantly to a genomic fragment containingan androgen-regulated gene coding for a 22 KDa protein.The biological significance of this binding in androgenaction need to be further studied. A mini-plasmid clone containing 22 KDa proteincoding sequence was cloned into Charon 4A genomiclibrary from which a 5.7 Kb genomic fragment wasisolated,identified by hybridization with a 5' and a 3'cDNA probes,and shown to contain the 5' flankingsequence.Restriction enzyme treatment of this fragmentyielded a 4.7 Kb restriction fragment representingthe 5' upstream region and a 1.0 Kb containing part ofthe coding sequence.Deletion studies indicated that the97 KDa protein bound only to a subclone of about 300 bpsegment.Furthermore,gel shifting experiment supportedits DNA-prptein binding.