Low-Temperature X-ray Crystal Structure Analysis of the Cage-Structured Compounds MBe13 (M = La, Sm, and U)

The beryllides MBe13 (M = rare earths and actinides) crystallize in a NaZn13-type cubic structure, which can be categorized as a cage-structured compound. In this study, powder X-ray diffraction measurements have been performed on LaBe13, SmBe13, and UBe13 in the temperature range between 7 and 300 K in order to investigate their crystallographic characteristics systematically. They keep the NaZn13-type cubic structure down to the lowest temperature. We estimated their Debye temperature to be 600 - 750 K from analyses of the temperature dependence of a lattice parameter, being in good agreement with the values reported previously. Rietveld refinements on the obtained powder patterns revealed that the M atom in the 8a site is located in an almost ideal snub cube formed by 24 Be atoms in the 96i site, whose caged structure is unchanged even at the low temperatures. In addition, it is argued from the temperature variation of an isotropic mean-square displacement parameter that the MBe13 compounds commonly have a low-energy phonon mode, which can be described by a model assuming an Einstein oscillation of the M atom with a characteristic temperature of ~ 160 K.Comment: 8 pages with 6 figures and 2 table

Características distintas de isolados de Pepper yellow mosaic virus de tomate e pimentão

ABSTRACT: Determination of virus diversity in the field is vital to support a sustainable breeding program for virus resistance of horticultural crops. The present study aimed to characterize four field potyvirus isolates found naturally infecting sweet pepper (Capsicum annuum) (Sa66 and Sa115) and tomato (Lycopersicon esculentum) (IAC3 and Sa21) plants. Their biological characteristics revealed differences among the isolates in their ability to infect distinct Capsicum spp. and tomato genotypes, and in the severity of symptoms caused by these isolates compared to the infection caused by an isolate of Pepper yellow mosaic virus (PepYMV). Absence of cross-reaction was found among the studied isolates with antiserum against Potato virus Y (PVY). However, all isolates reacted, at different intensities, with antiserum against PepYMV. All isolates showed high identity percentage (97 to 99%) of the amino acid sequence of the coat protein with PepYMV (accession AF348610) and low (69 to 80%) with other potyvirus species. The comparison of the 3' untranslated region also confirmed this finding with 97 to 98% identity with PepYMV, and of 47 to 71% with other potyviruses. The results showed that PepYMV isolates were easily differentiated from PVY by serology and that the host response of each isolate could be variable. In addition, the nucleotide sequence of the coat protein and 3' untranslated region was highly conserved among the isolates. __________________________________________________________________________________ RESUMOA determinação da diversidade de vírus no campo é vital para dar suporte a programas sustentáveis de melhoramento de hortaliças visando a obtenção de resistência genética a esses patógenos. Este estudo objetivou caracterizar quatro isolados de potyvírus encontrados infetando naturalmente plantas de pimentão (Capsicum annuum) Sa66 e Sa115, e tomateiro (Lycopersicon esculentum) IAC3 e Sa21. As características biológicas revelaram diferenças entre os isolados na abilidade de infetar diferentes genótipos de pimentão e tomateiro e na severidade de sintomas causados por estes isolados em comparação com a infecção resultante de um isolado de Pepper yellow mosaic virus (PepYMV). Estudos sorológicos mostraram ausência de reação cruzada dos isolados estudados com anti-soro para Potato virus Y (PVY). Entretanto, todos os isolados reagiram, em intensidades diferentes, com anti-soro para PepYMV. Todos os isolados mostraram alta percentagem de identidade (97 a 99%) de sequência de amino ácidos da capa proteica com PepYMV (accesso AF348610) e baixa (69 a 80%) com outras espécies de potyvírus. A comparação da região 3' não traduzida também confirmou esta similaridade, com identidade de 97 a 98% com PepYMV e de 47 a 71% com outros potyvírus. Os resultados mostraram que os isolados de PepYMV foram facilmente diferenciados de PVY por sorologia, a resposta de hospedeiros a cada isolado pode ser variável e a sequência de nucletídeos da região terminal 3' foi altamente conservada entre os isolados

Seqüência nucleotídica completa do genoma de Pepper mild mottle virus isolado no Distrito Federal, Brasil

Occurrence of Pepper mild mottle virus (PMMoV) on Capsicum plants has become common in Brazil. Despite the importance of this virus, genome information is still lacking for South American isolates. In this report, the first complete genome sequence of a Brazilian isolate of PMMoV (BR-DF01) was elucidated and compared with other PMMoV sequences. The nucleotide sequence of the complete genome of BR-DF01 isolate shared the highest nucleotide identity (99.54%) with the Japanese isolate JP-J, which does not overcome L3 resistance gene of Capsicum plants, as also observed for BR-DF01. The coat protein (CP) amino acid sequence of these two isolates was identical, which suggested that CP is the key factor for L-based resistance breaking. Phylogenetic analysis implied that BR-DF01 and PMMoV isolates belonging to Cluster I, including JP-J isolate, may share a common ancestral origin.A ocorrência do Pepper mild mottle virus (PMMoV) em plantas de Capsicum tornou-se frequente no Brasil. Apesar da importância desse vírus, informações genômicas de isolados sul-americanos são ainda escassos. Neste trabalho, foi elucidada a sequência do genoma completo de um isolado brasileiro de PMMoV (BR-DF01) e esta foi comparada a outras sequências de PMMoV. A sequência de nucleotídeos do genoma completo do isolado BR-DF01 apresentou a maior identidade (99,54%) com o isolado japonês JP-J, que é capaz de contornar a resistência do gene L3 de plantas de Capsicum, como foi também observado para BR-DF01. A sequência de amino ácidos da capa protéica (CP) desses dois isolados foi idêntica, sugerindo que a CP é o fator-chave para a quebra de resistência baseada no gene L. Análises filogenéticas indicaram que BR-DF01 e isolados de PMMoV pertencentes ao agrupamento I, incluindo o isolado JP-J, podem compartilhar de um ancestral em comum

Human virome in nasopharynx and tracheal secretion samples

BACKGROUND In Brazil the implementation of the Sentinel Surveillance System of Influenza began in 2000. Central public health laboratories use reverse transcription-quantitative polymerase chain reaction (RT-qPCR) for diagnosis of respiratory viruses, but this protocol identifies only specific targets, resulted in inconclusive diagnosis for many samples. Thus, high-throughput sequencing (HTS) would be complementary method in the identification of pathogens in inconclusive samples for RT-qPCR or other specific detection protocols. OBJECTIVES This study aimed to detect unidentified viruses using HTS approach in negative samples of nasopharynx/tracheal secretions by the standard RT-qPCR collected in the Federal District, Brazil. METHODS Nucleic acids were extracted from samples collected in winter period of 2016 and subjected to HTS. The results were confirmed by the multiplex PR21 RT-qPCR, which identifies 21 respiratory pathogens. FINDINGS The main viruses identified by HTS were of families Herpesviridae, Coronaviridae, Parvoviridae and Picornaviridae, with the emphasis on rhinoviruses. The presence of respiratory viruses in the samples was confirmed by the PR21 multiplex RT-qPCR. Coronavirus, enterovirus, bocavirus and rhinovirus were found by multiplex RT-qPCR as well as by HTS analyses. MAIN CONCLUSIONS Wide virus diversity was found by different methodologies and high frequency of rhinovirus occurrence was confirmed in population in winter, showing its relevance for public health

Yellow fever virus envelope protein expressed in insect cells is capable of syncytium formation in lepidopteran cells and could be used for immunodetection of YFV in human sera

<p>Abstract</p> <p>Background</p> <p>Yellow fever is an haemorrhagic disease caused by a virus that belongs to the genus Flavivirus (Flaviviridae family) and is transmitted by mosquitoes. Among the viral proteins, the envelope protein (E) is the most studied one, due to its high antigenic potencial. Baculovirus are one of the most popular and efficient eukaryotic expression system. In this study a recombinant baculovirus (vSynYFE) containing the envelope gene (<it>env</it>) of the 17D vaccine strain of yellow fever virus was constructed and the recombinant protein antigenicity was tested.</p> <p>Results</p> <p>Insect cells infected with vSynYFE showed syncytium formation, which is a cytopathic effect characteristic of flavivirus infection and expressed a polypeptide of around 54 kDa, which corresponds to the expected size of the recombinant E protein. Furthermore, the recombinant E protein expression was also confirmed by fluorescence microscopy of vSynYFE-infected insect cells. Total vSynYFE-infected insect extracts used as antigens detected the presence of antibodies for yellow fever virus in human sera derived from yellow fever-infected patients in an immunoassay and did not cross react with sera from dengue virus-infected patients.</p> <p>Conclusions</p> <p>The E protein expressed by the recombinant baculovirus in insect cells is antigenically similar to the wild protein and it may be useful for different medical applications, from improved diagnosis of the disease to source of antigens for the development of a subunit vaccine.</p

Print-capture PCR for detection of tomato begomoviruses from plants and whiteflies

Print-capture (PC) Polymerase chain reaction (PCR) was evaluated as a novel detection method of plant viruses. Tomato (Lycopersicon esculentum) plants infected with begomovirus (fam. Geminiviridae, gen. Begomovirus) and viruliferous whiteflies were used to study the efficiency of the method. Print-capturing steps were carried out using non-charged nylon membrane or filter paper as the solid support for DNA printings. Amplified DNA fragments of expected size were consistently obtained by PCR from infected plants grown in a greenhouse, after direct application of printed materials to the PCR mix. However, virus detection from a single whitefly and from field-grown tomato samples required a high temperature treatment of printed material prior to PCR amplification. Comparison of nylon membrane and filter paper as the solid support revealed the higher efficiency of the nylon membrane. The application of print-capture PCR reduces the chances of false-positive amplification by reducing manipulation steps during preparation of the target DNA. This method maintains all the advantages of PCR diagnosis, such as the high sensitivity and no requirement of radioactive reagents

AJK2011-21015 CHARACTERISTICS OF THE SCALAR FIELD IN A TURBULENT LIQUID JET AND A FUNDAMENTAL STUDY ON THE MICRO SCALE CONCENTRATION MEASUREMENTS BY THE OPTICAL FIBER LIF METHOD

ABSTRACT In this study, the characteristics of the scalar field in an axisymmetric turbulent water jet are investigated experimentally. In the experiments, the axial velocity, the concentration of the dye solution and the temperature of the fluid are measured by the hot-film probe, the fiber sensor and the cold-firm probe, respectively. In particular, the difference of statistics between scalars (concentration and temperature) with the different molecular diffusion coefficients is discussed. The Schmidt number of the diffusing matter is 3,800, and the Prandtl number of temperature is 7. As regarding the mean values, the r.m.s values and distribution of PDF, we cannot find any difference between the concentration field and temperature field. However, in the spectrum, it is found that the temperature spectrum shows the -5/3 law almost in the same range as the velocity spectrum, on the other hand, the concentration spectrum shows the -5/3 law in the wider range than the velocity spectrum. This means that the shape of spectrum depends on the diffusion coefficient. In order to make the higher resolution measurement of concentration, a new optical probe based on the LIF method is designed. This probe consists of the two optical fibers, the tip of which is processed like the shape of a lens. By the effect of lens, the laser beam can be focused on the narrower area in comparison with the past LIF measurements. In the present design, the width of focus of laser beam is set to 0.6 micrometers, and the focal length is set to 7.3mm. It is shown that this probe has the resolution less than the Batchelor scale at in the condition of present jet diffusion field (d=4mm, Re=20,000). Further, a new system to adjust the position of the optic fiber probe exquisitely is developed. INTRODUCTION There are many practical problems in the industrial and natural flow fields that the diffusing matter are mixed. In this study, we pay a special attention to the diffusion fields of scalars (concentration and temperature) in the turbulent liquid jet. In the liquid phase, it is usually known that the Schmidt number of the diffusing matter (or the Prandtl number in case of temperature) is larger than 1, so that the scalar fields have been crucially influenced by the velocity field. In this case, it is useful to investigate the relations between the velocity and scalar statistics to understand the mixing process of the scalar in the turbulent liquid flows. With regard to the measurements of high Schmidt number matter, the concentrations of the fluorescent dye or the kalium chloride have been often measured by Laser-Induced Fluorescence (LIF) method or the electrode method. However seeing the past reports, in case of the flows with the mean shear, there are still large scattering of the data for the scalar statistics, and so the reliable turbulent statistics are keenly required. On the other hand, the similarity theory of turbulent scalar field shows that for the scalar field of high Schmidt number and high Reynolds number, there exist the statistical universal ranges called the &quot;viscous convective subrange&quot; and the &quot;viscous diffusive subrange&quot; in the space smaller than the Kolmogorov scale (which is the smallest velocity fluctuatio

A ruptured anterior communicating artery aneurysm associated with internal carotid artery agenesis and a middle cerebral artery anomaly.

Agenesis of the internal carotid artery associated with an anomalous middle cerebral artery originating from the contralateral internal carotid artery is rare. We report a patient with agenesis of the internal carotid artery presented with a subarachnoid hemorrhage due to a rupture of an aneurysm in the anterior communicating artery

Sampling, identification and sensory evaluation of odors of a newborn baby’s head and amniotic fluid

For baby odor analyses, noninvasive, stress-free sample collection is important. Using a simple method, we succeeded in obtaining fresh odors from the head of five newborn babies. These odors were chemically analyzed by two-dimensional gas chromatography coupled with mass spectrometry (GC x GC-MS), and compared with each other or with the odor of amniotic fluid from the baby\u27s mother. We identified 31 chemical components of the volatile odors from neonate heads and 21 from amniotic fluid. Although 15 of these components were common to both sources, there was an apparent difference in the GC x GC patterns between the head and amniotic fluid odors, so the neonate head odor might be individually distinct immediately after birth. Therefore, we made artificial mixtures of the major odor components of the neonate head and maternal amniotic fluid, and used psychological tests to examine whether or not these odors could be distinguished from each other. Our data show that the artificial odor of a neonate head could be distinguished from that of amniotic fluid, and that the odors of artificial head odor mixtures could be correctly discriminated for neonates within an hour after birth and at 2 or 3 days of age