Fabrication of large-area ordered and reproducible nanostructures for SERS biosensor application

We propose a large-area SERS device with efficient fluorescence quenching capability. The substrate is based on anodic porous alumina templates with various pore size and wall thickness as small as 15 and 36 nm, respectively. The nano-patterned SERS substrate, with excellent control and reproducibility of plasmon-polaritons generation, shows very efficient enhanced Raman signal in the presence of intrinsically fluorescent molecules such as cresyl violet, rhodamine, and green fluorescent protein. This work demonstrates that, when the nanostructures are properly designed and fabricated, Raman and fluorescence spectroscopy can be used in combination in order to obtain complementary molecular informations. Theoretical simulation shows excellent agreement with the experimental findings. The enhancement factor is found to be 10(3)-10(4), with respect to flat gold surface when the molecules are supposed to be closely packed, with considerable fluorescence suppression, showing a promising disposable biosensor.     

Additive hazards models for gap time data with multiple causes

Recurrent event data with multiple causes are often observed in biomedical studies. The additive hazards model describes a different aspect of the association between covariates and the failure time than does the proportional hazards model. In this paper, we introduce additive hazards models for the analysis of gap time data of recurrent events with multiple causes. We estimate the regression parameter vector and cumulative baseline cause specific hazard rate function using counting process approach. Asymptotic properties of the estimators are studied. The proposed model is applied to the kidney dialysis data given in Lawless (2003). A simulation study is carried out to assess the performance of the estimates.     

Visualization reagent for the identification of phthalates

JPC – Journal of Planar Chromatography – Modern TLC -     

Mechanical-Bending-Induced Fluorescence Enhancement in Plastically Flexible Crystals of a GFP Chromophore Analogue

Single crystals of optoelectronic materials that respond to external stimuli, such as mechanical, light, or heat, are immensely attractive for next generation smart materials. Here we report single crystals of a green fluorescent protein (GFP) chromophore analogue with irreversible mechanical bending and associated unusual enhancement of the fluorescence, which is attributed to the strained molecular packing in the perturbed region. Soft crystalline materials with such fluorescence intensity modulations occurring in response to mechanical stimuli under ambient pressure conditions will have potential implications for the design of technologically relevant tunable fluorescent materials.     

LC-MS/MS Based Identification of Piperine Production by Endophytic Mycosphaerella sp. PF13 from Piper nigrum

Piper nigrum is very remarkable for its medicinal properties due to the presence of metabolites like piperine. Emerging understanding on the biosynthetic potential of endophytic fungi suggests the possibility to have piperine producing fungi in P. nigrum. In the current study, endophytic fungi isolated from P. nigrum were screened for the presence of piperine by liquid chromatography-tandem mass spectrometry (LC-MS/MS). This resulted in the identification of a Mycosphaerella sp. with the ability to produce piperine extracellularly. The biosynthesis of piperine (C₁₇H₁₉NO₃) by the endophytic fungal isolate was confirmed by the presence of m/z 286.1 (M + H⁺) in the LC-MS/MS analysis using positive mode ionization. This was further supported by the presence of specific fragment ions with masses 135, 143, 171 and 201 formed due to the fragmentation of piperine present in the fungal extract.     

Integrating Lys-N proteolysis and N-terminal guanidination for improved fragmentation and relative quantification of singly-charged ions

Department of Molecular Biology, Princeton University, Princeton, New Jersey, USA The study of isolated protein complexes has greatly benefited from recent advances in mass spectrometry instrumentation and quantitative, isotope labeling techniques. The comprehensive characterization of protein complex components and quantification of their relative abundance relies heavily upon maximizing protein and peptide sequence information obtained from MS and tandem MS studies. Recent work has shown that using a metalloendopeptidase, Lys-N, for proteomic analysis of biological protein mixtures produces complementary protein sequence information compared with trypsin digestion alone. Here, we have investigated the suitability of Lys-N proteolysis for use with MALDI mass spectrometry to characterize the yeast Arp2 complex and E. coli PAP I protein interactions. Although Lys-N digestion resulted in an average decrease in protein sequence coverage of ∼30% compared with trypsin digestion, CID analysis of singly-charged Lys-N peptides yielded a more extensive b-ions series compared with complementary tryptic peptides. Taking advantage of this improved fragmentation pattern, we utilized differential ¹⁵N/¹⁴N guanidination of Lys-N peptides and MALDI-MS/MS analysis to relatively quantify the changes in PAP I associations due to deletion of sprE, previously shown to regulate PAP I-dependent polyadenylation. Overall, this Lys-N/guanidination integrative approach is applicable for functional proteomic studies utilizing MALDI mass spectrometry analysis, as it provides an effective and economical mean for relative quantification of proteins in conjunction with increased sensitivity of detection and fragmentation efficiency.