N40, a novel nonacidic matrix protein from pearl oyster nacre, facilitates nucleation of aragonite in vitro

A novel nonacidic matrix protein from pearl oyster nacre has been purified by cation-exchange chromatography. It was designated N40 for the nacreous protein of approximately 40 kDa. On the basis of the extraction method (with Tris-buffered Milli-Q water) and amino acid compositions (Gly- and Ala-rich), N40 was inferred to be a conventional "insoluble matrix protein". Crystallization experiments showed that N40 could facilitate the nucleation of aragonite drastically. So far, among the macromolecules that have been purified from the shell, N40 is an exclusive protein that can nucleate aragonite by itself, without the need for adsorption to a substrate. Thus, the present study has proposed the possibility that the nonacidic shell protein (maybe a conventional "insoluble framework protein") can also directly participate in aragonite nucleation and even act as a nucleation site. It is a valuable supplement to the classic biomineralization theory, in which the soluble acidic proteins of the shell are generally believed to function as a nucleation site.     

Core-shell Au nanoparticle formation with DNA-polymer hybrid coatings using aqueous ATRP

We report here a direct surface-grafting approach to forming DNA-containing polymer shells outside of Au nanoparticles using aqueous atom transfer radical polymerization (ATRP). In this approach, DNA molecules were immobilized on Au particles to introduce ATRP initiators on the surface. The same DNA molecules also acted as particle stabilizers through electrostatic repulsion and allowed particles to stay suspended in water. The immobilized ATRP initiators prompted polymer chain growth under certain conditions to form thick polymer shells outside of the particles. The formation of DNA-polymer hybrids outside of Au nanoparticles was characterized using absorption spectroscopy, dynamic light scattering (DLS), transmission electron microscopy (TEM), and gel electrophoresis. The presence of thick polymer shells improved particle stability in high ionic strength media, whereas particles with the DNA coating only aggregated. A visible color difference between these two particle solutions was clearly observed, providing the basis for DNA sensing in homogeneous solutions.     

Finding new structural and sequence attributes to predict possible disease association of single amino acid polymorphism (SAP)

MOTIVATION: The rapid accumulation of single amino acid polymorphisms (SAPs), also known as non-synonymous single nucleotide polymorphisms (nsSNPs), brings the opportunities and needs to understand and predict their disease association. Currently published attributes are limited, the detailed mechanisms governing the disease association of a SAP remain unclear and thus, further investigation of new attributes and improvement of the prediction are desired. RESULTS: A SAP dataset was compiled from the Swiss-Prot variant pages. We extracted and demonstrated the effectiveness of several new biologically informative attributes including the structural neighbor profiles that describe the SAP's microenvironment, nearby functional sites that measure the structure-based and sequence-based distances between the SAP site and its nearby functional sites, aggregation properties that measure the likelihood of protein aggregation and disordered regions that consider whether the SAP is located in structurally disordered regions. The new attributes provided insights into the mechanisms of the disease association of SAPs. We built a support vector machines (SVMs) classifier employing a carefully selected set of new and previously published attributes. Through a strict protein-level 5-fold cross-validation, we attained an overall accuracy of 82.61%, and an MCC of 0.60. Moreover, a web server was developed to provide a user-friendly interface for biologists. AVAILABILITY: The web server is available at http://sapred.cbi.pku.edu.cn/     

Functional analysis of rice NPR1-like genes reveals that OsNPR1/NH1 is the rice orthologue conferring disease resistance with enhanced herbivore susceptibility

The key regulator of salicylic acid (SA)-mediated resistance, NPR1, is functionally conserved in diverse plant species, including rice (Oryza sativa L.). Investigation in depth is needed to provide an understanding of NPR1-mediated resistance and a practical strategy for the improvement of disease resistance in the model crop rice. The rice genome contains five NPR1-like genes. In our study, three rice homologous genes, OsNPR1/NH1, OsNPR2/NH2 and OsNPR3, were found to be induced by rice bacterial blight Xanthomonas oryzae pv. oryzae and rice blast Magnaporthe grisea, and the defence molecules benzothiadiazole, methyl jasmonate and ethylene. We confirmed that OsNPR1 is the rice orthologue by complementing the Arabidopsis npr1 mutant. Over-expression of OsNPR1 conferred disease resistance to bacterial blight, but also enhanced herbivore susceptibility in transgenic plants. The OsNPR1-green fluorescent protein (GFP) fusion protein was localized in the cytoplasm and moved into the nucleus after redox change. Mutations in its conserved cysteine residues led to the constitutive localization of OsNPR1(2CA)-GFP in the nucleus and also abolished herbivore hypersensitivity in transgenic rice. Different subcellular localizations of OsNPR1 antagonistically regulated SA- and jasmonic acid (JA)-responsive genes, but not SA and JA levels, indicating that OsNPR1 might mediate antagonistic cross-talk between the SA- and JA-dependent pathways in rice. This study demonstrates that rice has evolved an SA-mediated systemic acquired resistance similar to that in Arabidopsis, and also provides a practical approach for the improvement of disease resistance without the penalty of decreased herbivore resistance in rice.     

Preparation and optical properties of alloyed ZnxCd1‐xS/alginate core/shell nanoparticles

Zn_xCd_1‐xS/alginate core/shell nanoparticles were synthesized via a colloidal route by reacting zinc and cadmium ions with sulfide ions, followed by coating with alginate. The crystal structure, morphology, size and optical properties of the core/shell nanoparticles were characterized by X‐ray diffraction, transmission electron microscopy, UV/vis and photoluminescent spectra, respectively. The Zn_xCd_1‐xS nanoparticles are spherical and have a cubic structure with a mean crystalline size of 2–4 nm. The band gap of Zn_xCd_1‐xS/alginate core/shell nanoparticles increases with increasing Zn/Cd molar ratio, and the UV/vis absorption blue‐shifts correspondingly. Two emissions related to zinc and sulfide ion vacancies were observed for the Zn_xCd_1‐xS/alginate core/shell nanoparticles due to the surface changes from the alginate coating. A cadmium‐related emission was observed for both the uncovered Zn_xCd_1‐xS and Zn_xCd_1‐xS/alginate core/shell nanoparticles, which has a significant blue‐shift with increasing Zn/Cd molar ratio. Copyright © 2014 John Wiley & Sons, Ltd.     

Mutations in RECQL Gene Are Associated with Predisposition to Breast Cancer

The genetic cause for approximately 80% of familial breast cancer patients is unknown. Here, by sequencing the entire exomes of nine early-onset familial breast cancer patients without BRCA1/2 mutations (diagnosed with breast cancer at or before the age of 35) we found that two index cases carried a potentially deleterious mutation in the RECQL gene (RecQ helicase-like; chr12p12). Recent studies suggested that RECQL is involved in DNA double-strand break repair and it plays an important role in the maintenance of genomic stability. Therefore, we further screened the RECQL gene in an additional 439 unrelated familial breast cancer patients. In total, we found three nonsense mutations leading to a truncated protein of RECQL (p.L128X, p.W172X, and p.Q266X), one mutation affecting mRNA splicing (c.395-2A>G), and five missense mutations disrupting the helicase activity of RECQL (p.A195S, p.R215Q, p.R455C, p.M458K, and p.T562I), as evaluated through an in vitro helicase assay. Taken together, 9 out of 448 BRCA-negative familial breast cancer patients carried a pathogenic mutation of the RECQL gene compared with one of the 1,588 controls (P = 9.14×10^-6). Our findings suggest that RECQL is a potential breast cancer susceptibility gene and that mutations in this gene contribute to familial breast cancer development.     

TOPSIS-Based Screening Method of Soil Remediation Technology for Contaminated Sites and its Application

A soil remediation technology screening system has not yet been established in China, and the existing supporting conditions for soil remediation technology cannot meet the supervision needs of contaminated sites’ remediation. Considering the soil remediation technology screening methods for contaminated sites in developed countries and the supervision requirements of contaminated sites in China, this article briefly introduces the main characteristics of decision-making methods, and the screening indices, including technical, economic, social, and environmental factors, are suggested. The technique for order performance by similarity to ideal solution (TOPSIS) was used to establish a screening process for soil remediation technology, and the analytic hierarchy process (AHP) method was utilized to obtain the weights of the screening indices. Tthe suggested screening method was then applied in a chromite ore-processing residue site in China, and suitable remediation technology (in-situ chemical reduction-oxidation) was proposed. The research results could provide scientific and technological support for the supervision of contaminated sites in China.     

Formation of Yolk‐Shelled Ni–Co Mixed Oxide Nanoprisms with Enhanced Electrochemical Performance for Hybrid Supercapacitors and Lithium Ion Batteries

Yolk‐shelled particles with tailored physical and chemical properties are attractive for electrochemical energy storage. Starting with metal acetate hydroxide with tetragonal prism‐like shapes, yolk‐shelled Ni–Co mixed oxide nanoprisms with tunable composition have been prepared by simple thermal annealing in air. It is found that the yolk‐shelled structure is formed due to the fast thermally driven contraction process. With the favorable porous structure and composition, these yolk‐shelled Ni–Co oxide particles manifest greatly enhanced electrochemical properties when evaluated as electrodes for both hybrid supercapacitors and lithium ion batteries. In particular, the resultant Ni_0.37Co oxide sample delivers very high specific capacitance of over 1000 F g^?1 at a current density of 10 A g^?1 with remarkably high capacitance retention of 98% after 15 000 cycles.     

New Metabolites from Endolichenic Fungus Pleosporales sp.

Eight new metabolites were obtained from the culture of an endolichenic fungus, Pleosporales sp. Their structures were determined as three terphenyl derivatives, cucurbitarins A–C ( 1 – 3 , resp.), two structurally related compounds, cucurbitarins D and E ( 4 and 5 , resp.), two benzocoumarins, 3,10‐dihydroxy‐4,8‐dimethoxy‐6‐methylbenzocoumarin ( 6 ) and 3,8,10‐trihydroxy‐4‐methoxy‐6‐methylbenzocoumarin ( 7 ), as well as one cyclohexenone, (5R)‐5‐hydroxy‐2,3‐dimethylcyclohex‐2‐en‐1‐one ( 8 ), based on the spectroscopic data.