Development of a denaturation/renaturation-based production process for ferritin nanoparticles

Recently, we presented a simple method for generating biological functional protein-based nanoparticles that are ready for use as label agents in bioaffinity assays (J??skel?inen et al., 2007 Small 3:1362-1367). In this process, the particle shell (ferritin protein) and binding molecules are conjugated via genetic fusion, and particles with binding capacity are produced in a single bacterial cultivation. Production is combined with simple, non-chromatographic purification during which Europium ions are introduced into particles to serve as marker agents. Denaturation-refolding has previously performed by means of pH changes. Here, we test urea as an alternative agent for denaturation, and examine techniques to improve refolding of the functional particles. Three different types of binding molecules were employed in our experiments: biotin carboxyl carrier protein (a small protein with 87 amino acids), single chain antibody fragment (a complex binding protein) and calmodulin-binding peptide (27 amino acids). Urea was successfully utilized to generate functional particles with inherent binding activity and label function. Additionally, particle yield was effectively optimized by analyzing various refolding and bacterial production conditions. Our results clearly demonstrate that this simple biological method of producing functional ferritin-based particles is flexible, and different types of binding moieties can be applied by adjusting the production conditions.     

Effect of glucose and fructose on food intake via malonyl-CoA signaling in the brain

In the brain malonyl-CoA serves the important function of monitoring and modulating energy balance. Because of its central role in the metabolism of higher animals, glucose acts as the principal indicator of global energy status. Specialized neuronal nuclei within the hypothalamus sense blood glucose and signal higher brain centers to adjust feeding behavior and energy expenditure accordingly. As the level of glucose entering the brain rises, food intake is suppressed. Energy status information triggered by glucose is transmitted via hypothalamic signaling intermediaries, i.e. AMPK and malonyl-CoA, to the orexigenic/anorexigenic neuropeptide system that determines hunger and energy expenditure. The central metabolism of glucose by the glycolytic pathway generates ATP which produces a compensatory decrease in AMP level and AMPK activity. Since acetyl-CoA carboxylase (ACC) is a substrate of AMPK, lowering AMP increases the catalytic activity of ACC and thereby, the level of its reaction product, malonyl-CoA. Malonyl-CoA signals the anorexigenic-orexigenic neuropeptide system to suppress food intake. Unlike glucose, however, centrally metabolized fructose increases food intake. This paradox results because fructose bypasses the rate-limiting step of glycolysis and uses a rapid ATP-requiring reaction that abruptly depletes ATP and provokes a compensatory rise in AMP. Thus, fructose has the opposite effect of glucose on the AMPK/malonyl-CoA signaling system and thereby, feeding behavior. The fact that fructose metabolism by the brain increases food intake and obesity risk raises health concerns in view of the large and increasing per capita consumption of high fructose sweeteners, especially by youth.     

SHAMS: Combining chemical modification of RNA with mass spectrometry to examine polypurine tract-containing RNA/DNA hybrids

Selective 2′-hydroxyl acylation analyzed by primer extension (SHAPE) has gained popularity as a facile method of examining RNA structure both in vitro and in vivo, exploiting accessibility of the ribose 2′-OH to acylation by N-methylisatoic anhydride (NMIA) in unpaired or flexible configurations. Subsequent primer extension terminates at the site of chemical modification, and these products are fractionated by high-resolution gel electrophoresis. When applying SHAPE to investigate structural features associated with the wild-type and analog-substituted polypurine tract (PPT)–containing RNA/DNA hybrids, their size (20–25 base pairs) rendered primer extension impractical. As an alternative method of detection, we reasoned that chemical modification could be combined with tandem mass spectrometry, relying on the mass increment of RNA fragments containing the NMIA adduct (M_r = 133 Da). Using this approach, we demonstrate both specific modification of the HIV-1 PPT RNA primer and variations in its acylation pattern induced by replacing template nucleotides with a non-hydrogen-bonding thymine isostere. Our selective 2′-hydroxyl acylation analyzed by mass spectrometry strategy (SHAMS) should find utility when examining the structure of small RNA fragments or RNA/DNA hybrids where primer extension cannot be performed.     

Temptations of weevil: feeding and ovipositional behaviour of Hylobius warreni Wood on host and nonhost bark in laboratory bioassays

• 1 Warren root collar weevil Hylobius warreni Wood (Coleoptera: Curculionidae) is a long‐lived, flightless insect native to coniferous forests across northern North America. Girdling by larval feeding causes significant mortality on young trees. The insect poses considerable challenges to reforestation.
• 2 Adult weevils feed on all life stages of a variety of coniferous hosts prior to oviposition. Their relative feeding preferences, however, have not been quantified. Moreover, it is not known whether host bark influences oviposition behaviour.
• 3 Feeding preferences of adult weevils were tested in both choice and no‐choice laboratory bioassays using small branches from three conifers (lodgepole pine Pinus contorta var. latifolia, interior hybrid spruce Picea glauca×engelmannii, and Douglas‐fir Pseudotsuga menziesii) and one deciduous tree (trembling aspen Populus tremuloides). Measurements included the surface area of bark consumed, rate of consumption, the number of days of feeding, and, in the no‐choice assay, the number of eggs oviposited.
• 4 Bark consumption was greatest on pine and Douglas‐fir, followed by spruce. Little to no feeding occurred on aspen. Consumption did not vary between male versus female insects for any of the feeding metrics quantified.
• 5 The presence of aspen branches did not inhibit feeding on any of the other species in the choice bioassays.
• 6 The number of eggs laid by female insects did not differ significantly among tree species in the no‐choice assay. Eggs were laid indiscriminately in the presence of all four host types.
• 7 Results and opportunities for future research are discussed in the context of formulating new integrated pest management strategies for this insect, which is increasingly important in the period of reforestation subsequent to the mountain pine beetle epidemic in western Canada.

     

Functional interaction between the ubiquitin-specific protease 25 and the SYK tyrosine kinase

The SYK non-receptor tyrosine kinase is a key effector of immune receptors signaling in hematopoietic cells. Here, we identified and characterized a novel interaction between SYK and the ubiquitin-specific protease 25 (USP25). We report that the second SH2 domain of SYK physically interacts with a tyrosine-rich, C-terminal region of USP25 independently of tyrosine phosphorylation. Moreover, we showed that SYK specifically phosphorylates USP25 and alters its cellular levels. This study thus uncovers a new SYK substrate and reveals a novel SYK function, namely the regulation of USP25 cellular levels.     

Two sequence alterations,a 136 bp InDel and an A/C polymorphic site,in the S5 locus are associated with spikelet fertility of indica-japonica hybrid in rice

The rice indica/japonica hybrid shows strong heterosis.However,such inter-subspecific hybrid can't be directly used in rice production due to its low spikelet fertility.The S5 locus was proved to be associated with fertility of indica/japonica hybrid and its S5n allele from wide-compatibility variety(WCV)is capable to overcome fertility barrier.In the present study,we reported the causal sites in the S5 locus responsible for compatibility of indica/japonica hybrid.Fine-mapping of the S5 locus using the 11 test-cross families pinpoints a candidate S5 locus encoding aspartic protease(Asp).Intragenic recombination within the Asp gene happened in a number of recombinants,resulting in chimeric S5j-S5n alleles.Just like S5n,the chimeric s5j-S5n allele displayed higher spikelet fertility when combined with the S5i allele.In the complementary test,however,the S5n allele from WCVs failed to enhance fertilities of the indica/japonica hybrids.Compared to both indica and japonica varieties.all nine WCVs from different resources are characterized with a 136 bp deletion in the Asp N-terminus.which probably renders the S5n allele non-functional.Furthermore,an A/C polymorphic site is detected 1,233 bp downstream of the Asp start codon.The heterozygous A/C site of the Asp gene in indica/japonica hybrid is believed to be the casual factorto causc partial sterility.The functional makers based on the two polymorphic sites will be broadly used in developing wide-compatibility rice varieties.     

Plectranthus hilliardiae hybrid的组织培养与快速繁殖(简报)

以Plectranthus hilliardiae hybrid 植株上带顶芽或带节的嫩茎段为外植体,在1／2MS十LH20mg／L＋CAH20mg／L＋YE20mg／L＋4PU0．25mg/L培养基上,芽诱导效果较好,芽增殖倍数为3．2;在MS＋IBA 0.25mg／L生根培养基上,生根率达90％。     

Effects of electric cell fusion treatment among leaf protoplasts of Populus alba and alnus firma on growth, leaf morphology, and rapd pattern of eleven acclimatized plants

Summary This study reports the characterization of 11 plants regenerated from electrically fused protoplasts between Populus alba and Alnus firma. Growth characteristics of five regenerated plants (AP-1-AP-5) in terms of shoot height and leaf color showed small differences compared with those of P. alba grown, in pots, and showed no difference in shoot height and diameter compared with those grown in nursery field. There was also no difference in the RAPD pattern between the plants regenerated from interfamilial protoplast fusion and P. alba. In contrast, the lately regenerated plants (AP-6-AP-11) grown in pots showed a marked difference in leaf morphology and RAPD pattern. There was a variation in the ratio of longitudinal to transverse length of leaves among the 11 plants from interfamilial fusions compared with that of protoclones and intraspecific fused protoplasts of P. alba.     

Exact sample size determination for a single Poisson random sample

Classical power analysis for sample size determination is typically performed in clinical trials. A “hybrid” classical Bayesian or a “fully Bayesian” approach can be alternatively used in order to add flexibility to the design assumptions needed at the planning stage of the study and to explicitly incorporate prior information in the procedure. In this paper, we exploit and compare these approaches to obtain the optimal sample size of a single-arm trial based on Poisson data. We adopt exact methods to establish the rejection of the null hypothesis within a frequentist or a Bayesian perspective and suggest the use of a conservative criterion for sample size determination that accounts for the not strictly monotonic behavior of the power function in the presence of discrete data. A Shiny web app in R has been developed to provide a user-friendly interface to easily compute the optimal sample size according to the proposed criteria and to assure the reproducibility of the results.