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International audience; Zr-C thin films are grown on single-crystalline MgO(001) substrates via ultra-high vacuum dc magnetron sputtering of Zr target in 10 mTorr Ar-C$_2$H$_4$ gas mixtures with ethylene partial pressures ($P_{C2H4}$) between 2 × 10$^{−7}$ Torr and 2 × 10$^{−4}$ Torr at substrate temperature $T_s$ = 923 K and using $P_{C2H4}$ = 2 × 10$^{−6}$ Torr at 723 K ≤ $T_s$ ≤ 1123 K. The as-deposited layer microstructure and composition are determined using X-ray diffraction, transmission electron microscopy, and X-ray photoelectron spectroscopy. We find that the layers sputter-deposited at $T_s$ = 923 K using the lowest $P_{C2H4}$ = 2 × 10$^{−7}$ Torr are polycrystalline, close-packed hexagonal structured Zr:C solid solutions. At higher $P_{C2H4}$ = 2 × 10$^{−6}$ Torr and 2 × 10$^{−5}$ Torr, we obtain films composed of free‑carbon (C) and NaCl-structured ZrC$_x$, $x$ ≤ 1. The amount of C increases 104% with ten-fold increase in $P_{C2H4}$ from 2 × 10$^{−6}$ Torr to 2 × 10$^{−5}$ Torr. At the highest $P_{C2H4}$ = 2 × 10$^{−4}$ Torr, the layers are X-ray amorphous with $\sim$49 at.% C. Films grown at 723 K ≤ $T_s$ ≤ 1123 K using constant $P_{C2H4}$ = 2 × 10$^{−6}$ Torr exhibit qualitatively similar microstructures, irrespective of $T_s$, composed of dense columnar ZrC$_x$ grains surrounded by C and corrugated surfaces. Our results suggest that the compositional and microstructural evolution of Zr-C films during reactive sputter-deposition of Zr is highly sensitive to ethylene partial pressure, with as little as 0.02% of the total pressure sufficient at $T_s$ ≥ 723 K to obtain ZrC$_x$ films.

We report on the effects of substrate temperature (1073 K ≤ Ts ≤ 1373 K) and deposition time t (= 3 ~ 30 min.) on the crystallinity of Ta2C/Al2O3(0001) thin films grown via ultra-high vacuum direct current magnetron sputtering of TaC target in 20 mTorr (2.7 Pa) pure Ar atmospheres. Using X-ray diffraction and transmission electron microscopy, we determine that the layers are 0001-oriented, trigonal-structured α-Ta2C at all Ts. With increasing Ts, we obtain smoother and thinner layers with enhanced out-of-plane coherency and decreasing unit cell volume. Interestingly, the Ta2C 0001 texture improves with increasing Ts up to 1273 K above which the layers are relatively more polycrystalline. At Ts = 1373 K, during early stages of deposition, the Ta2C layers grow heteroepitaxially on Al2O3(0001) with ( 0001 ) T a 2 C ∥ ( 0001 ) A l 2 O 3 and [ 10 1 ¯ 0 ] T a 2 C ∥ [ 11 2 ¯ 0 ] A l 2 O 3 . With increasing t, we observe the formation of anti-phase domains and misoriented grains resulting in polycrystalline layers. We attribute the observed enhancement in 0001 texture to increased surface adatom mobilities and the development of polycrystallinity to reduced incorporation of C in the lattice with increasing Ts. We expect that our results help develop methods for the synthesis of high-quality Ta2C thin films.

We determined the mechanical properties, microstructure, and composition of a VNbTaMoW alloy enriched with carbon, oxygen, and nitrogen using a combination of nano- and micro-indentation, X-ray diffraction, transmission electron microscopy, X-ray photoelectron spectroscopy, scanning electron microscopy, and energy dispersive X-ray spectroscopy. We show that the alloy is nearly equiatomic, V0.20Nb0.20Ta0.20Mo0.22W0.18, body-centered cubic polycrystal, with depth-dependent C, N, and O concentrations, whose elastic moduli and hardnesses decrease with increasing indentation depth due primarily to depth-dependent changes in the bulk impurity concentration.

Residue-specific cleavages resulting in the formation of [a]+ ions of peptides have been examined using 20 keV high-energy (high-E) collision-induced dissociation (CID) with a tandem time-of-flight (TOF/TOF) instrument. High-E CID resulted in relatively sensitive cleavage at the Cα-C bond of β-substituted aliphatic Val/Ile-Xxx and aromatic Phe/Tyr/His-Xxx residues when an Arg residue was located on the N-terminal side. The sensitive aromatic Phe/Tyr/His residues and insensitive Gly residue in high-E CID are similar to other methods, such as ultraviolet photodissociation (UVPD) of [M+H]+, low-E CID of [M].+ and MALDI-ISD with a hydrogen-abstracting matrix. The properties of the Val/Ile residues are not necessarily common to the same methods. The high-sensitivity of Val/Ile and Phe/Tyr/His residues to high-E CID may be due to high-energy single collision between target gas and the bulky sidechains of these residues. It is suggested that from high-E CID and MALDI-ISD experiments the formation of [a]+ ions is essentially connected with the loss of atomic hydrogen from protonated peptides [M+H]+, and that high-E CID results in the loss of hydrogen from the backbone amide nitrogen rather than the site of the β-carbon of sidechains.

Lattice-matched $$\hbox {In}_{0.53}\hbox {Ga}_{0.47}\hbox {As}$$ / $$\hbox {In}_{0.52}\hbox {Al}_{0.48}\hbox {As}$$ multi-quantum wells structures were studied at room temperatures by photocurrent spectroscopy. Step-like structures accentuated by the exciton peaks of interband transitions were observed on the photocurrent spectra. As the step-like structures reflected two-dimensional state density of the multi-quantum wells structures, the interband transitions between electron and heavy hole eigen-states could be identified. Eigen-energies agreed theoretically and experimentally, but the exciton peaks clearly appeared at smaller quantum numbers and did not appear at larger quantum number. If it is based on our calculation result, both side hems of the wave function appear in the barrier layers and are connected to ones of the neighbors, which are affected against larger quantum number. Then the degeneracy melts and the higher eigen-states split to form a miniband having a width, and it might be that the exciton peak becomes inconspicuous.

We report on the effects of low ethylene (C2H4) partial pressures (6.7 × 10−5 ≤ Pc ≤ 6.7 × 10−2 Pa) on the composition and microstructure of Ta–C thin films grown on MgO(001) substrates via ultra-high vacuum dc magnetron sputtering of a TaC compound target using 2.7 Pa argon/ethylene gas discharges at 1123 K. The as-deposited layer crystallinity and composition are determined using a combination of X-ray diffraction, transmission electron microscopy coupled with X-ray energy dispersive spectroscopy, and X-ray photoelectron spectroscopy. We find that the layers sputter-deposited in pure Ar (i.e., Pc = 0) and Ar/C2H4 gas mixtures with Pc = 6.7 × 10−5 Pa are polycrystalline trigonal-structured Ta2C (a = 0.310 nm and c = 0.492 nm). At Pc = 6.7 × 10−4 Pa, we obtain cubic, 002-textured TaC0.76 (a = 0.442 nm) porous thin film with facetted surface. Interestingly, we also observe 111-oriented twins due to four crystals rotated with respect to each other. Film grown at higher Pc = 6.7 × 10−2 Pa is relatively dense with smoother surface and composed of a two-phase mixture of nanocrystalline TaC and amorphous carbon. Our results demonstrate compositional and microstructural tunability during sputter-deposition of transition-metal carbide thin films using small amounts of the reactive gas.

Gas-phase hydrogen radicals were introduced into a quadrupole ion trap containing singly charged phospholipids to obtain structural fragmentation patterns in tandem mass spectrometry (MS/MS). Saturated and unsaturated phosphatidylcholines were used as a model phospholipid, whose chain-length ranges between 16 and 24. The MS/MS spectrum yielded a continuous series of fragment ions with a mass difference of 14 Da, representing the saturated fatty acyl chains. The fragment ions corresponding to the double-bond position within a single fatty acyl chain showed a characteristic mass difference of 12 Da. The detection of these diagnostic product ions enabled the structural analysis of double-bond isomers of phospholipids. To further investigate the potential of radical-induced dissociation for the isomeric analysis of phospholipids, gas-phase hydroxyl radicals, and triplet oxygen atoms were employed in tandem mass spectrometry. The methylene bridges adjacent to the double-bond positions were selectively dissociated, accompanied by oxidation of the double bonds. Tandem mass spectrometry incorporating multiple radical species facilitates the structural analysis of isomeric phospholipids.

Mass spectrometry with hydrogen-radical-mediated fragmentation techniques has been used for the sequencing of proteins/peptides. The two methods, matrix-assisted laser desorption/ionization in-source decay (MALDI-ISD) and hydrogen attachment/abstraction dissociation (HAD) are known as hydrogen-radical-mediated fragmentation techniques. MALDI-ISD occurs during laser induced desorption processes, whereas HAD utilizes the association of hydrogen with peptide ions in the gas phase. In this study, the general mechanisms of MALDI-ISD and HAD of peptides were investigated. We demonstrated the fragmentation of four model peptides and investigated the fragment formation pathways using density functional theory (DFT) calculations. The current experimental and computational joint study indicated that MALDI-ISD and HAD produce aminoketyl radical intermediates, which immediately undergo radical-induced cleavage at the N-Cα bond located on the C-terminal side of the radical site, leading to the c'/z˙ fragment pair. In the case of MALDI-ISD, the z˙ fragments undergo a subsequent reaction with the matrix to give z' and matrix adducts of the z fragments. In contrast, the c' and z˙ fragments react with hydrogen atoms during the HAD processes, and various fragment species, such as c˙, c', z˙ and z', were observed in the HAD-MS/MS mass spectra.

In order to reduce the burden of agricultural work, rice cultivation management systems using sensor nodes, aka field servers, that monitor the environment are studied. It is difficult to install large power generation devices, such as solar panels, in rice fields as they obstruct farm work. In addition, it is also difficult to install the wiring for power supplies. For these reasons, each sensor node must operate on independent power with batteries or other power sources. Furthermore, given that they continue to operate during the farming season, low power consumption is required. It is difficult to use a communication network that requires a line use fee such as a 3G line from the viewpoint of cost. Therefore, in this paper, we report on a transmission method using LoRa, which is a communication standard for IoT, which does not require a line usage fee. In particular, we propose a data collection method that makes it possible to collect the data of all sensor nodes in a short amount of time. This method is effective for low power consumption. The comparison results with a conventional method using a simulation demonstrate that the proposed method can collect all of the data in the shortest amount of time. Moreover, it was confirmed that the power consumption is also lower than the conventional method. Furthermore, it was confirmed that the rate of increase in time necessary for the parent node to collect data, due to the increase in the number of sensor nodes, is lower than that of the other methods. We believe that the proposed method is useful and can efficiently transmit the situation of a rice field at a low cost.

The early diagnosis of inherited thrombophilia in children is challenging because of the rarity and hemostatic maturation. We explored protein C (PC), protein S (PS), and antithrombin (AT) deficiencies in 306 thromboembolic patients aged ≤20 y using the screening of plasma activity and genetic analysis. Reduced activities were determined in 122 patients (40%). Low PC patients were most frequently found in the lowest age group (0–2 y, 45%), while low PS or low AT patients were found in the highest age group (16–20 y; PS: 30% and AT: 20%). Genetic study was completed in 62 patients having no other causes of thromboembolism. Mutations were determined in 18 patients (8 PC, 8 PS, and 2 AT genes). Six of eight patients with PC gene mutation were found in age 0–2 y (75%), while six of eight patients with PS gene mutation were in 7–20 y. Two AT gene–mutated patients were older than 4 y. Four PC-deficient and two PS-deficient patients carried compound heterozygous mutations. All but one PC gene–mutated patient suffered from intracranial thromboembolism, while PS/AT gene–mutated patients mostly developed extracranial venous thromboembolism. Stroke in low PC infants and deep vein thrombosis in low PS/AT school age children could be targeted for genetic screening of pediatric thrombophilias.

Human basic fetoprotein (BFP), found in fetal serum and tissue extracts as well as in extracts of various cancer tissues, has long been known as a marker protein for cancers; however, the primary sequence has not yet been reported. This paper describes the identification of BFP using the N- and C-terminal amino acid sequence tags (Ac-AALTRDPQFQ and QQREARVQ, respectively) clarified by mass spectrometry-based methods, and a terminal tag database (ProteinCarta). In this study, BFP was identified as glucose-6-phosphate isomerase (G6PI_HUMAN).

Trehalose confers protection against various environmental stresses on yeast cells. In this study, trehalase gene deletion mutants that accumulate trehalose at high levels showed significant stress tolerance to acetic acid. The enhancement of trehalose accumulation can thus be considered a target in the breeding of acetic acid-tolerant yeast strains.

Flooded rice fields can provide habitats for wetland species and ecosystem services similar to those of natural wetlands. During the last three decades, however, farming practices and management systems have been intensified in many rice-producing countries. In addition, more recent socioeconomic changes have caused agricultural abandonment in some parts of East and Southeast Asian countries such as Japan. This study reviewed long-term statistics on rice farming, as well as the impact of agricultural intensification and abandonment on farmland biodiversity at multiple spatial scales in Japan. The impact of pesticide use was greatest in the 1950s–1970s, when the use of highly toxic agents had not yet been prohibited. More recently, different components of agricultural intensification have been the largest threat for various taxa, for example, chemical pesticides for aquatic plants and invertebrates and modern efficient irrigation/drainage systems for amphibians, fishes, and waterbirds. The negative impacts of agricultural abandonment on farmland species have been rapidly increasing with the expansion of abandoned fields and the subsequent vegetation succession and loss of habitat heterogeneity. We also discuss the effectiveness of environmentally friendly farming practices, including the reduced use of pesticides, winter paddy flooding, and installation of fishways, to reduce the negative impacts of agricultural intensification on farmland species in rice-paddy landscapes.

BACKGROUND Adaptive servo-ventilation (ASV) therapy is expected to be novel nonpharmacotherapy with hemodynamic effects on patients with chronic heart failure (CHF), but sufficient evidence has not been obtained. METHODS AND RESULTS A 24-week, open-label, randomized, controlled study was performed to confirm the cardiac function-improving effect of ASV therapy on CHF patients. At 39 institutions, 213 outpatients with CHF, whose left ventricular ejection fraction (LVEF) was

A new example of interpenetration that is simply controlled by modifying hydroxyl function in homochiral MOFs is reported. Interpenetrated and non-interpenetrated chiral metal–organic frameworks (MOF-1 and MOF-2) were prepared by solvothermal reactions of [Cu(NO3)2]·3H2O in N,N-dimethylformamide (DMF)–H2O solution with (R)-2,2′-dihydroxy-1,1′-binaphthyl-5,5′-dibenzoic acid (H2L1) and (R)-2,2′-dimethoxy-1,1′-binaphthyl-5,5′-dibenzoic acid (H2L2), respectively. Interpenetrated chiral MOF-1 exhibited much higher catalytic performance in the Diels–Alder reaction of acrolein and 1,3-cyclohexadiene than non-interpenetrated chiral MOF-2.

A strong asymmetric amplification was observed in the enantioselective Henry reaction catalyzed by the (R,R)-trans-N,N'-bis-biphenyl-4-ylmethyl-cyclohexane-1,2-diamine·CuCl2 complex in AcOEt, while no amplification occurred in MeOH.

N- and C-terminal amino acid sequences of human epidermal growth factor receptor-2 (HER2), purified from breast cancer cell lines (SK-BR-3 and BT-474), were analyzed at the protein level using mass spectrometry. Two N-terminal peptides and one C-terminal peptide were obtained. Their MALDI-PSD analyses indicated that one of the N-terminal sequences and the C-terminal sequence were identical to those found in UniProtKB/Swiss-Prot. However, the other N-terminal sequence was not in the database and was considered as a novel variant. This variant may result from the cleavage at a potential alternative site for cleavage of the signal peptide.

In fission yeast, meiotic mono-orientation of sister kinetochores is established by cohesion at the core centromere, which is established by a meiotic cohesin complex and the kinetochore protein Moa1. The cohesin subunit Psm3 is acetylated by Eso1 and deacetylated by Clr6. We show that in meiosis, Eso1 is required for establishing core centromere cohesion during S phase, whereas Moa1 is required for maintaining this cohesion after S phase. The clr6-1 mutation suppresses the mono-orientation defect of moa1Δ cells, although the Clr6 target for this suppression is not Psm3. Thus, several acetylations are crucial for establishing and maintaining core centromere cohesion.

Aim Seizure threshold (ST) in electroconvulsive therapy (ECT) has not been reported previously in Japanese patients. We investigated ST in bilateral ECT in Japanese patients using the dose–titration method. The associations between demographic and clinical characteristics and ST were analyzed to identify the predictors of ST. Finally, the validity of the half-age method for the stimulus dose was evaluated. Methods Fifty-four Japanese patients with mood disorder, schizophrenia, and other psychotic disorders received an acute course of bilateral ECT using a brief-pulse device. ST was determined at the first session using a fixed titration schedule. ST was correlated with age, sex, body mass index, history of previous ECT, and psychotropic drugs on multiple regression analysis. Furthermore, the rate of accomplished seizures was calculated using the half-age method. Results Mean ST was 136 mC. ST was influenced by age, sex, history of previous ECT, and medication with benzodiazepines. The accomplished seizure rate using the half-age method was 72%, which was significantly lower in men and subjects on benzodiazepines. Conclusion ST in Japanese patients was equal to or slightly higher than that previously reported in other ethnic groups, which might be attributable, at least in part, to high prevalence of and large-dose benzodiazepine prescription. Higher age, male gender, no history of ECT, and benzodiazepines were related to higher ST. The half-age method was especially useful in female patients and subjects without benzodiazepine medication.

Neurons influence renal function and help to regulate fluid homeostasis, blood pressure and ion excretion. Intercalated cells (ICCs) are distributed throughout the renal collecting ducts and help regulate acid/base equilibration. Because ICCs are located among principal cells, it has been difficult to determine the effects that efferent nerve fibers have on this cell population. In this study, we examined the expression of neurotransmitter receptors on the murine renal epithelial M-1 cell line. We found that M-1 cells express a2 and b2 adrenergic receptor mRNA and the b2 receptor protein. Further, b2 receptor-positive cells in the murine cortical collecting ducts also express AQP6, indicating that these cells are ICCs. M-1 cells were found to express m1, m4 and m5 muscarinic receptor mRNAs and the m1 receptor protein. Cells in the collecting ducts also express the m1 receptor protein, and some m1-positive cells express AQP6. Acetylcholinesterase was detected in cortical collecting duct cells. Interestingly, acetylcholinesterase-positive cells neighbored AQP6-positive cells, suggesting that principal cells may regulate the availability of acetylcholine. In conclusion, our data suggest that ICCs in murine renal collecting ducts may be regulated by the adrenergic and cholinergic systems.

Tandem mass spectrometry (MS/MS or MS(n)) is a powerful tool for characterizing N-linked glycopeptide structures. However, it is still difficult to obtain detailed structural information on the glycan moiety directly from glycopeptide ions. Here, we propose a new method for in-depth analysis of the glycopeptide structure using MS/MS. This method involves complete derivatization of carboxyl groups in glycopeptides. Methylamidation using PyAOP as a condensing reagent has been optimized for derivatizing all carboxyl groups in glycopeptides. By derivatizing carboxyl groups on the peptide moiety (i.e., Asp, Glu, and C-terminus), the glycopeptides efficiently produce informative glycan fragment ions, including the nonreducing end of the glycan moiety under negative-ion collision-induced dissociation (CID) conditions. These glycan fragment ions can define detailed structural features on the glycan moiety (e.g., the specific composition of the two antennae, the location of fucose residues, and the presence/absence of bisecting GlcNAc residues). For sialylated glycopeptides, carboxyl groups on sialic acid residues are simultaneously derivatized using methylamidation, suppressing preferential loss of residues during MS analysis. As a result, both sialylated and nonsialylated glycopeptides can be analyzed in the same manner. Positive-ion CID of methylamine-derivatized glycopeptides mainly provides information on peptide sequence and glycan composition, whereas negative-ion CID provides in-depth structural information on the glycan moiety. The derivatization step can be readily incorporated into conventional pretreatment for glycopeptide MS analysis without loss of sensitivity, making derivatization suitable for practical use.

Novel 46-membered chiral rhombamine macrocycles (R,R,R,R)-8a and 8b were synthesized by [2+2] cyclocondensation reactions of (R,R)-1,2-diaminocyclohexane with the corresponding dialdehydes and subsequent reduction with NaBH4. The X-ray crystal structure of 1:4 dioxane complex with (R,R,R,R)-8a indicated a rhombus conformation of the chiral macrocycle. Compounds (R,R,R,R)-8a and 8b were tested as chiral shift reagents for a wide range of α-substituted carboxylic acids and amino acid derivatives. Enantiodiscrimination of 1H NMR signals was observed with ΔΔδ values of up to 0.214 ppm.

The accidentally introduced beetle Ophraella communa was first found in 1996 in Japan and has rapidly expanded its distribution range to include regions with substantially different climates. During this range expansion and subsequent establishment in new habitats, the life history traits of O. communa have changed depending on new habitat environmental conditions. In this study, we investigated the photoperiodic response of O. communa controlling its reproductive diapause, an important trait that adjusts the life cycle to local climate and phenology of host-plants. We examined temporal changes and geographical differences in this trait. In the Tsukuba population of O. communa, the diapause incidence under conditions of 12 h light : 12 h dark (LD 12:12), 13:11 and 14:10 did not consistently increase or decrease during 2005–2012, although it fluctuated yearly. The diapause incidence in this period, however, was lower than that in 1999 reported previously and the critical day-length inducing diapause was shortened by >1 h from 1999 to 2005. These results suggest that the photoperiodic response of O. communa shifted during this period. To examine geographical differences in this trait, we compared the Hirosaki, Morioka, Tsukuba and Koshi lines. The diapause incidence at LD 13:11 was significantly different between the O. communa lines: 86.5% in the Hirosaki line (collected in 2010) , 81.4% in Morioka (collected in 2010), 45.0% in Tsukuba (collected in 2011) and 7.1% in Koshi (collected in 2009), and was positively correlated with the latitude of the origin. These results suggest that this trait shifted, responding to the environmental conditions in the colonized regions.

We have examined whether calcitonin gene-related peptide-immunoreactive (CGRP-ir) neurons in the vagal and glossopharyngeal ganglia innervate the larynx. Many CGRP-ir neurons were located mostly in the superior glossopharyngeal–jugular ganglion complex that was fused the superior glossopharyngeal ganglion and the jugular ganglion in the cranial cavity. When Fluorogold was applied to the cut end of the superior laryngeal nerve (SLN) or the recurrent laryngeal nerve (RLN), many Fluorogold-labeled neurons were found in the superior glossopharyngeal–jugular ganglion complex and the nodose ganglion. Double-labeling for CGRP and Fluorogold showed that about 80% of Fluorogold-labeled neurons in the superior glossopharyngeal–jugular ganglion complex expressed CGRP-like immunoreactivity in the case of application to the SLN, and about 50% of Fluorogold-labeled neurons expressed CGRP-like immunoreactivity in the case of the RLN. Only a few double-labeled neurons were found in the nodose ganglion. The number of the Fluorogold-labeled neurons and double-labeled neurons in the superior glossopharyngeal–jugular ganglion complex in the case of the SLN was larger than that in the case of the RLN. These results indicate that sensory information from the larynx might be conveyed by many CGRP-ir neurons located in the superior glossopharyngeal–jugular ganglion complex by way of the SLN and the RLN.

Proteolytic processing of the amyloid precursor protein (APP) by β-secretase and γ-secretase leads to the generation and deposition of amyloid β (Aβ) in Alzheimer's disease (AD). N-terminally or C-terminally truncated Aβ variants have been found in human cerebrospinal fluid and cultured cell media using immunoprecipitation and mass spectrometry. Unfortunately, the profile of plasma Aβ variants has not been revealed due to the difficulty of isolating Aβ from plasma. We present here for the first time studies of Aβ and related peptides in human plasma. Twenty-two Aβ-related peptides including novel peptides truncated before the β-secretase site were detected in human plasma and 20 of the peptides were identified by tandem mass spectrometry. Using an internal standard, we developed a quantitative assay for the Aβ-related peptides and demonstrated plasma dilution linearity and the precision required for their quantitation. The present method should enhance the understanding of APP processing and clearance in AD progression.

Alzheimer's disease (AD) is the most common and devastating dementia. Simple and practical biomarkers for AD are urgently required for accurate diagnosis and to facilitate the development of disease-modifying interventions. The subjects for the study were selected on the basis of PiB amyloid imaging by PET. Forty PiB-positive (PiB+) individuals, including cognitively healthy controls (HC), and mild cognitive impairment and AD individuals, and 22 PiB-negative (PiB-) HC participated. Employing our novel highly sensitive immunoprecipitation-mass spectrometry, we measured plasma amyloid β-proteins (Aβs; Aβ1-40 and Aβ1-42) and Aβ-approximate peptides (AβAPs), which were cleaved from amyloid precursor protein (APP). Among the AβAPs, APP669-711 appeared to be a good reference for deciphering pathological change of Aβ1-42. We evaluated the performance of the ratio of APP669-711 to Aβ1-42 (APP669-711/Aβ1-42) as a biomarker. APP669-711/Aβ1-42 significantly increased in the PiB+ groups. The sensitivity and specificity to discriminate PiB+ individuals from PiB- individuals were 0.925 and 0.955, respectively. Our plasma biomarker precisely surrogates cerebral amyloid deposition.

To investigate whether the development of postnatal, late-onset refractory hypotension, referred to as late-onset circulatory collapse, was associated with an increased risk of developing cerebral palsy (CP) at 3 years of age in extremely preterm infants.In this historical cohort study, infants who were born at 22-27 weeks of gestation from 2008 to 2012 in the Neonatal Research Network of Japan were eligible. The study sample consisted of 3474 infants (45.6% of 7613 potentially eligible infants) who were evaluated at 36-42 months of age. Late-onset circulatory collapse was defined as a clinical diagnosis of late-onset circulatory collapse requiring treatment with corticosteroids. We compared the neurodevelopmental outcomes between infants with and without late-onset circulatory collapse.Late-onset circulatory collapse was diagnosed in 666 of the infants studied. Infants with late-onset circulatory collapse had a higher incidence of CP than those without late-onset circulatory collapse (18.0% vs 9.8%; P .01). In multivariable logistic analysis, late-onset circulatory collapse was independently associated with CP (aOR, 1.52; 95% CI, 1.13-2.04) and developmental quotient score of50 (OR, 1.83; 95% CI, 1.23-2.72).Late-onset circulatory collapse may be a relatively common event occurring in extremely preterm infants and an independent risk factor for CP at 3 years of age.

We describe here an optimization study of the sample preparation conditions for sensitive detection of peptides by matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS). Among many factors in the conditions, we varied the percent acetonitrile in the peptide solution, the percent acetonitrile in the matrix solution and the α-cyano-4-hydroxycinnamic acid (CHCA) concentration in the matrix solution. CHCA was chosen because it is the most frequently used matrix for analyzing peptides. The well-established dried-droplet method was employed for sample deposition. The examined range of the concentration of CHCA was from 0.01 to 10 mg/ml, and the MeCN content of the solvent for matrix/analyte was 10% to 50%. The indicator for the detection sensitivity was the S/N ratio of the peaks of peptides used. Highly increased sensitivity (100- to 1000-fold) was observed for the optimal CHCA concentration of 0.1 mg/ml in 20% MeCN/0.1% aq. trifluoroacetic acid (TFA), as compared with the conventional concentration (10 mg/ml) in 50% MeCN/0.1% aq. TFA. For example, the limit of detection of human ACTH 18–39 was 10 amol/well for the optimal condition but 10 fmol/well for the conventional condition. The optimal condition (0.1 mg/ml CHCA in 20% MeCN/0.1% aq. TFA) was verified with five model peptides and provided significant improvement in sensitivity (by two to three orders of magnitude) compared with the conventional conditions. Optimizing the CHCA concentration and solvent composition significantly improved the detection sensitivity in the analysis of peptides by MALDI-MS. Copyright © 2013 John Wiley & Sons, Ltd.

The asymmetric oxidation of sulfides to sulfoxides with hydrogen peroxide as the oxidant that uses chiral copper metal–organic framework crystals as a heterogeneous catalyst has been investigated. Optically active sulfoxides have been obtained with moderate to good enantioselectivities up to 82 % ee without the formation of sulfones. The catalyst can be recovered by simple filtration and reused.

Summary: Tandem mass spectrometry (MS/MS or MSn) is a potent technique for characterizing N-glycan structures. GlycanAnalysis searches a glycan database to support the identification of glycan structures from MS/MS spectra. It also calculates diagnostic ions of glycan structures registered in a glycan database (GlycomeDB or KEGG GLYCAN) and searches for MS/MS spectra of N-glycans that match diagnostic ions to determine the structures. This program functions as a plug-in for Mass++, a freeware mass spectrum visualization and analysis program. Availability and implementation: The executable files of Mass++ are available for free at http://www.first-ms3d.jp/english/. The GlycanAnalysis plug-in is included in the standard package of Mass++ for Windows. Contact: k-morimt@shimadzu.co.jp or nishikaz@shimadzu.co.jp or acyshzw@shimadzu.co.jp Supplementary information: Supplementary material are available at Bioinformatics online.

Hydrophobic peptides are difficult to detect in matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS), because of the hydrophilic properties of conventional matrices and the low affinity for hydrophobic peptides. Recently, we reported on alkylated dihydroxybenzoic acid (ADHB) as a matrix additive for hydrophobic peptides; however, the peptides were detected in the rim of the matrix-analyte dried spot. Here, we report on a novel matrix, alkylated trihydroxyacetophenone (ATHAP), which is a 2,4,6-trihydroxyacetophenone derivative incorporating a hydrophobic alkyl chain on the acetyl group and thus is expected to have an affinity for hydrophobic peptides. ATHAP increased the sensitivity of hydrophobic peptides 10-fold compared with α-cyano-4-hydroxycinnamic acid (CHCA), in which the detection of hydrophilic peptides was suppressed. The peptides were detected throughout the entire matrix-analyte dried spot using ATHAP, overcoming the difficulty of finding a "sweet spot" when using ADHB. In addition, ATHAP functioned alone as a matrix, unlike ADHB as an additive. In phosphorylase b digests analysis, hydrophobic peptides, which were not detected with CHCA for 1 pmol, were detected with this matrix, confirming that ATHAP led to increased sequence coverage and may extend the range of target analytes in MALDI-MS.

High-resolution matrix-assisted laser desorption/ionization imaging mass spectrometry (MALDI IMS) is an emerging application for lipid research that provides a comprehensive and detailed spatial distribution of ionized molecules. Recent lipidomic approach has identified several phospholipids and phosphatidylinositols (PIs) are accumulated in breast cancer tissues and are therefore novel biomarker candidates. Because their distribution and significance remain unclear, we investigated the precise spatial distribution of PIs in human breast cancer tissues using high-resolution MALDI IMS. We evaluated tissues from nine human breast cancers and one normal mammary gland by negative ion MALDI IMS at a resolution of 10 μm. We detected 10 PIs with different fatty acid compositions, and their proportions were remarkably variable in the malignant epithelial regions. High-resolution imaging enabled us to discriminate cancer cell clusters from the adjacent stromal tissue within epithelial regions; moreover, this technique revealed that several PIs were specifically localized to cancer cell clusters. These PIs were heterogeneously distributed within cancer cell clusters, allowing us to identify two different populations of cancer cells that predominantly expressed either PI(18:0/18:1) or PI(18:0/20:3). Tracing the expression level of PIs during cancer cell progression suggested that the latter population is associated with the invasion. Our study documents a novel model for phospholipid analysis of breast cancer tissues by using high-resolution MALDI IMS and identifies candidate PIs that can describe a specific phenotype of cancer cells.

Alien plant species and the re-associated introduced herbivore are well-suited for gaining insights into ecological interactions between species and their evolutionary consequences. Ambrosia artemisiifolia was introduced to Japan in the 1880s, and its specialist insect herbivore Ophraella communa was introduced in 1996. Here, we experimentally tested the hypothesis that O. communa mediates selection on flowering phenology of A. artemisiifolia. We grew plants from stored seeds collected in 1998, 2000, 2002, 2006 and 2009 and measured phenotypic selection on the first flowering date in a common garden where half of the plants were protected from herbivore damage. We observed stabilizing selection for flowering day in the absence of herbivores but directional selection toward earlier flowering when herbivores were present. Flowering time differed between seeds collected in different years, but these differences showed no clear trend and the flowering time fluctuated from year to year. We conclude that the introduced specialist herbivore mediates directional selection for earlier flowering, but that its introduction has not been associated with a change in flowering time. The lack of evolutionary change may be due to limited genetic variation or that selection by the herbivore is counteracted by selection through other selective agents in some years.

This paper describes an improved method for the sequence analysis of Arg-containing glycopeptide by MALDI mass spectrometry (MS). The method uses amino group derivatization (4-aza-6-(2,6-dimethyl-1-piperidinyl)-5-oxohexanoic acid N-succinimidyl ester) and removal (carboxypeptidase B) or modification (peptidylarginine deiminase 4) of the arginine residue of the peptide. The derivatization attaches a basic tertiary amine moiety onto the peptides, and the enzymatic treatment removes or modifies the arginine residue. Fragmentation of the resulting glycopeptide under low-energy collision-induced dissociation yielded a simplified ion series of both the glycan and the peptide that can facilitate their sequencing. The feasibility of the method was studied using α1-acid glycoprotein-derived N-linked glycopeptides, and glycan and peptide in each glycopeptide were successfully sequenced by MALDI tandem MS (MS/MS). Copyright © 2013 John Wiley & Sons, Ltd.

Nitric oxide (NO) exerts a ubiquitous influence on cellular signaling, largely through S-nitrosylation/denitrosylation of cysteines in proteins. The ability to analyze S-nitrosylation directly by mass spectrometry (MS) would be highly useful in understanding the action of NO in various biological processes. However, S-nitrosylation has never been detected by ultraviolet matrix-assisted laser desorption/ionization (UV-MALDI) MS because the NO group completely dissociates during the ionization process. In this study, tetraphenylporphyrin (TPP) was used as matrix additive with 2,5-dihydroxybenzoic acid (DHB) to evaluate its suppressive effect on the NO group dissociation of S-nitrosylated peptides. Samples were subjected to MS and MS/MS analysis by MALDI-TOF MS and MALDI-QIT-TOF MS, respectively. In MS analysis using TPP as a matrix additive, the presumably intact molecular ion [M+H]+ peak was also observed, although the NO-dissociated ions [M−NO+H]+ were mainly detected. In contrast, in the absence of TPP, this [M+H]+ peak was not observed. MS/MS analysis of this ion indicated that the peptides contained S-nitrosylated cysteines. Furthermore, other reagents with radical scavenging activity (retinoic acid, α-tocopherol, ascorbic acid, naringenin, and 3,5-di-tert-butyl-4-hydroxytoluene) were tested to examine the possibility of their use as matrix additives for S-nitrosylation detection. As with TPP, these additives showed a suppressive effect on NO group dissociation. In conclusion, radical scavenging reagents are effective additive candidates for detecting S-nitrosylation directly with UV-MALDI MS.