Detection of phloem restricted bacteria responsible for strawberry marginal chlorosis (SMC) by real-time PCR in a single assay

Two uncultured phloem restricted plant pathogens, the γ3 proteobacterium «Candidatus Phlomobacter fragariae » and the stolbur phytoplasma (group 16SrXII-A) are associated with strawberry marginal chlorosis (SMC) in France. As “Ca. P. fragariae” and stolbur phytoplasma induce identical symptoms, the only way to identify the pathogen infecting a given diseased plant is to perform conventional PCR assays. Because using two PCR techniques for detecting separately each of the two bacteria is time consuming and because specificity and sensitivity of the detection test needed to be improved, a new approach using triplex real time PCR was developed for the routine detection of “Ca. P. fragariae “ and stolbur phytoplasma. The real time PCR has the advantage of being faster reduces the risks of producing false positives. Furthermore, real-time PCR techniques provide the possibility of multiplexing by using probes with different compatible fluorescent dyes. Here, we present a new sensitive Taqman® method which permits the simultaneous amplification of three DNA targets in one test: the map gene of stolbur phytoplasma, the spoT gene of “Ca. P. fragariae” and the cox gene of strawberry chloroplast taken as an internal control. The specificity and the efficiency of this method were determined.Keywords: Strawberry Marginal Chlorosis, Triplex taqman® PCR ,Candidatus Phlomobacter fragariae, stolbur phytoplasma

Flying phase mask for the printing of long submicron-period stitchingless gratings

International audienceLong and stitchingless gratings are printed by means of a read/write head comprising a phase mask illuminated by an intensity modulated laser beam and a reference grating displacement sensor which dictates the modulation period real time. A nearly perfect grating copying is achieved by fixing the sensor grating scale and the written grating substrate on a long platform sliding under the read/write hea

Low-frequency radio emission in the massive galaxy cluster MACS J0717.5 + 3745

International audienceTo investigate the nonthermal emission mechanism and their interaction during cluster mergers, we analyze multiple low-frequency radio data for the X-ray luminous massive galaxy cluster MACS J0717.5 + 3745, located at z = 0.5548. Large-scale structure-formation models in the Universe suggest that galaxy clusters grow via constant accretion of gas and the merger of galaxy groups and smaller clusters. Low-frequency radio observations trace these mergers in the form of relics and halos. The dual frequency observations were performed on MACS J0717.5 + 3745 to investigate the spectral index pattern of the nonthermal emission and its interaction within the intracluster medium (ICM), during merger process. Methods: Continuum observations were carried out using GMRT at 0.235 and 0.61 GHz on MACS J0717.5 + 3745 and archival data from the VLA (0.074 and 1.42 GHz) and WSRT (0.325 GHz) was used to complement the results. Furthermore, to explore the thermal and nonthermal interactions within the ICM and the morphological distribution, Chandra X-ray and HST data were used. Results: A highly complex nonthermal radio emission distribution is seen in the cluster at very low frequencies, with a global spectral index α0.2350.61˜-1.17±0.37. We have detected a giant radio halo within the cluster system with a linear size of 1.58 Mpc and a "Chair-shaped" filament structure between the merging subclusters of linear size 853 kpc at 0.235 GHz. This is the most powerful halo ever observed with P1.4 = 9.88 × 1025 WHz-1 and an equipartition magnetic field estimate of ~6.49 μG. The bright filament structure is well located in the central merging region of subclusters with enhanced temperature, as shown by Chandra and HST data analysis, further indicating the formation of this structure due to shock waves encountered within the ICM during the merger events

Multi-scale approach for the analysis of the stress fields at a contact edge in fretting fatigue conditions with a crack analogue approach

This paper describes a novel method to model the stress gradient effect in fretting-fatigue. The analysis of the mechanical fields in the proximity of the contact edges allows to extract nonlocal intensity factors that take into account the stress gradient evolution. For this purpose, the kinetic field around the contact ends is partitioned into a summation of multiple terms, each one expressed as the product between nonlocal intensity factors, Is, Ia, Ic, depending on the macroscopic loads applied to the mechanical assembly, and spatial reference fields, ds, da, dc, depending on the local geometry of the part. This description is obtained through nonintrusive post-processing of FE computation and is conceived in order to be easily implementable in the industrial context.By using as input the macroscopic load, the procedure consists in computing a set of nonlocal stress intensityfactors, which are an index of the severity of the stress field in the proximity of the contact edges.This description has two main advantages. First, the nonlocal stress intensity factors are independent from thegeometry used. Secondly, the procedure is easily applicable to industrial scale FE model.&nbsp

Reusing the NCBO BioPortal technology for agronomy to build AgroPortal

Many vocabularies and ontologies are produced to represent and annotate agronomic data. By reusing the NCBO BioPortal technology, we have already designed and implemented an advanced prototype ontology repository for the agronomy domain. We plan to turn that prototype into a real service to the community. The AgroPortal project aims at reusing the scientific outcomes and experience of the biomedical domain in the context of plant, agronomic, food, environment (perhaps animal) sciences. We offer an ontology portal which features ontology hosting, search, versioning, visualization, comment, recommendation, enables semantic annotation, as well as storing and exploiting ontology alignments. All of these within a fully semantic web compliant infrastructure. The AgroPortal specifically pays attention to respect the requirements of the agronomic community in terms of ontology formats (e.g., SKOS, trait dictionaries) or supported features. In this paper, we present our prototype as well as preliminary outputs of four driving agronomic use cases. With the experience acquired in the biomedical domain and building atop of an already existing technology, we think that AgroPortal offers a robust and stable reference repository that will become highly valuable for the agronomic domain

Equivalent configurations for notch and fretting fatigue

Under the typical partial slip conditions under which fretting fatigue takes place, the amount of superficial damage is small. Therefore, the substantial reduction in fatigue life caused by fretting, when compared to plain fatigue, may well be more associated with the stress concentration and the stress gradient phenomena generated by the contact problem than to the superficial loss of material. In this setting, notch stress-based methodologies could, in principle, be applied to fretting in the medium/high cycle fatigue regime. The aim of this work was to investigate whether it is possible to design fretting and notch fatigue configurations, which are nominally identical in terms of damage measured by a multiaxial fatigue model. The methodology adopted to carry out this search considered a cylindrical on flat contact and a V-notch. Load and geometry dimensions of both configurations were adjusted in order to try to obtain the “same” decay of the Multiaxial Fatigue Index from the hot spot up to a critical distance. Positive results of such simulations can lead us to design an experimental program that can bring more firm conclusions on the use of pure stress-based approaches, which do not include the wear damage, in the modeling of fretting fatigue

LOFAR MSSS: The Scaling Relation between AGN Cavity Power and Radio Luminosity at Low Radio Frequencies

This article has been accepted for publication in a forthcoming issue of Astronomy & Astrophysics. Reproduced with permission from Astronomy & Astrophysics. © 2018 ESO.We present a new analysis of the widely used relation between cavity power and radio luminosity in clusters of galaxies with evidence for strong AGN feedback. We study the correlation at low radio frequencies using two new surveys - the First Alternative Data Release of the TIFR GMRT Sky Survey (TGSS ADR1) at 148 MHz and LOFAR's first all-sky survey, the Multifrequency Snapshot Sky Survey (MSSS) at 140 MHz. We find a scaling relation $P_{\rm cav} \propto L_{148}^{\beta}$, with a logarithmic slope of $\beta = 0.51 \pm 0.14$, which is in good agreement with previous results based on data at 327 MHz. The large scatter present in this correlation confirms the conclusion reached at higher frequencies that the total radio luminosity at a single frequency is a poor predictor of the total jet power. We show that including measurements at 148 MHz alone is insufficient to reliably compute the bolometric radio luminosity and reduce the scatter in the correlation. For a subset of four well-resolved sources, we examine the detected extended structures at low frequencies and compare with the morphology known from higher frequency images and Chandra X-ray maps. In Perseus we discuss details in the structures of the radio mini-halo, while in the 2A 0335+096 cluster we observe new diffuse emission associated with multiple X-ray cavities and likely originating from past activity. For A2199 and MS 0735.6+7421, we confirm that the observed low-frequency radio lobes are confined to the extents known from higher frequencies. This new low-frequency analysis highlights the fact that existing cavity power to radio luminosity relations are based on a relatively narrow range of AGN outburst ages. We discuss how the correlation could be extended using low frequency data from the LOFAR Two-metre Sky Survey (LoTSS) in combination with future, complementary deeper X-ray observations.Peer reviewe

LOFAR MSSS: Flattening low-frequency radio continuum spectra of nearby galaxies

Accepted for publication in Astronomy and AstrophysicsAims. The shape of low-frequency radio continuum spectra of normal galaxies is not well understood, the key question being the role of physical processes such as thermal absorption in shaping them. In this work we take advantage of the LOFAR Multifrequency Snapshot Sky Survey (MSSS) to investigate such spectra for a large sample of nearby star-forming galaxies. Methods. Using the measured 150 MHz flux densities from the LOFAR MSSS survey and literature flux densities at various frequencies we have obtained integrated radio spectra for 106 galaxies characterised by different morphology and star formation rate. The spectra are explained through the use of a three-dimensional model of galaxy radio emission, and radiation transfer dependent on the galaxy viewing angle and absorption processes. Results. Our galaxies' spectra are generally flatter at lower compared to higher frequencies: the median spectral index α low measured between ≈ 50 MHz and 1.5 GHz is -0.57 ± 0.01 while the high-frequency one α high, calculated between 1.3 GHz and 5 GHz, is -0.77 ± 0.03. As there is no tendency for the highly inclined galaxies to have more flattened low-frequency spectra, we argue that the observed flattening is not due to thermal absorption, contradicting the suggestion of Israel & Mahoney (1990, ApJ, 352, 30). According to our modelled radio maps for M 51-like galaxies, the free-free absorption effects can be seen only below 30 MHz and in the global spectra just below 20 MHz, while in the spectra of starburst galaxies, like M 82, the flattening due to absorption is instead visible up to higher frequencies of about 150 MHz. Starbursts are however scarce in the local Universe, in accordance with the weak spectral curvature seen in the galaxies of our sample. Locally, within galactic disks, the absorption effects are distinctly visible in M 51-like galaxies as spectral flattening around 100-200 MHz in the face-on objects, and as turnovers in the edge-on ones, while in M 82-like galaxies there are strong turnovers at frequencies above 700 MHz, regardless of viewing angle. Conclusions. Our modelling of galaxy spectra suggests that the weak spectral flattening observed in the nearby galaxies studied here results principally from synchrotron spectral curvature due to cosmic ray energy losses and propagation effects. We predict much stronger effects of thermal absorption in more distant galaxies with high star formation rates. Some influence exerted by the Milky Way's foreground on the spectra of all external galaxies is also expected at very low frequencies.Peer reviewedFinal Accepted Versio

GMRT observations of the Ophiuchus galaxy cluster

VLA observations at 1477 MHz revealed the presence of a radio mini-halo surrounding the faint central point-like radio source in the Ophiuchus cluster of galaxies. In this work we present a study of the radio emission from this cluster of galaxies at lower radio frequencies. We observed the Ophiuchus cluster at 153, 240, and 614 MHz with the GMRT. The mini-halo is clearly detected at 153 and 240 MHz while it is not detected at 610 MHz. The most prominent feature at low frequencies is a patch of diffuse steep spectrum emission located at about 5' south-east from the cluster center. By combining these images with that at 1477 MHz, we derived the spectral index of the mini-halo. Globally, the mini-halo has a low-frequency spectral index of alpha_240^153 ~1.4 +/- 0.3 and an high-frequency spectral index of alpha_1477^240 ~ 1.60 +/- 0.05. Moreover, we measure a systematic increase of the high-frequency spectral index with radius: the azimuthal radial average of alpha_1477^240 increases from about 1.3, at the cluster center, up to about 2.0 in the mini-halo outskirts. The observed radio spectral index is in agreement with that obtained by modeling the non-thermal hard X-ray emission in this cluster of galaxies. We assume that the X-ray component arises from inverse Compton scattering between the photons of the cosmic microwave background and a population of non-thermal electrons which are isotropically distributed and whose energy spectrum is a power law with index p. We derive that the electrons energy spectrum should extend from a minimum Lorentz factor of gamma_min < 700 up to a maximum Lorentz factor of gamma_max =3.8 x 10^4 with an index p=3.8 +/- 0.4. The volume-averaged strength for a completely disordered intra-cluster magnetic field is B_V ~0.3 +/- 0.1 micro-G.Comment: 14 pages, 8 figures, accepted for publication in Astronomy and Astrophysics. For a version with high-quality figures see http://erg.ca.astro.it/preprints/ophi_2010