FILOU oscillation code

The present paper provides a description of the oscillation code FILOU, its main features, type of applications it can be used for, and some representative solutions. The code is actively involved in CoRoT/ESTA exercises (this volume) for the preparation for the proper interpretation of space data from the CoRoT mission. Although CoRoT/ESTA exercises have been limited to the oscillations computations for non-rotating models, the main characteristic of FILOU is, however, the computation of radial and non-radial oscillation frequencies in presence of rotation. In particular, FILOU calculates (in a perturbative approach) adiabatic oscillation frequencies corrected for the effects of rotation (up to the second order in the rotation rate) including near degeneracy effects. Furthermore, FILOU works with either a uniform rotation or a radial differential rotation profile (shellular rotation), feature which makes the code singular in the field.Comment: 6 pages, 5 figures. Astrophysics and Space Science (in press

Reduced mutation rate and increased transformability of transposon-free Acinetobacter baylyi ADP1-ISx

ABSTRACT The genomes of most bacteria contain mobile DNA elements that can contribute to undesirable genetic instability in engineered cells. In particular, transposable insertion sequence (IS) elements can rapidly inactivate genes that are important for a designed function. We deleted all six copies of IS 1236 from the genome of the naturally transformable bacterium Acinetobacter baylyi ADP1. The natural competence of ADP1 made it possible to rapidly repair deleterious point mutations that arose during strain construction. In the resulting ADP1-ISx strain, the rates of mutations inactivating a reporter gene were reduced by 7- to 21-fold. This reduction was higher than expected from the incidence of new IS 1236 insertions found during a 300-day mutation accumulation experiment with wild-type ADP1 that was used to estimate spontaneous mutation rates in the strain. The extra improvement appears to be due in part to eliminating large deletions caused by IS 1236 activity, as the point mutation rate was unchanged in ADP1-ISx. Deletion of an error-prone polymerase ( dinP ) and a DNA damage response regulator ( umuD Ab [the umuD gene of A. baylyi ]) from the ADP1-ISx genome did not further reduce mutation rates. Surprisingly, ADP1-ISx exhibited increased transformability. This improvement may be due to less autolysis and aggregation of the engineered cells than of the wild type. Thus, deleting IS elements from the ADP1 genome led to a greater than expected increase in evolutionary reliability and unexpectedly enhanced other key strain properties, as has been observed for other clean-genome bacterial strains. ADP1-ISx is an improved chassis for metabolic engineering and other applications. IMPORTANCE Acinetobacter baylyi ADP1 has been proposed as a next-generation bacterial host for synthetic biology and genome engineering due to its ability to efficiently take up DNA from its environment during normal growth. We deleted transposable elements that are capable of copying themselves, inserting into other genes, and thereby inactivating them from the ADP1 genome. The resulting “clean-genome” ADP1-ISx strain exhibited larger reductions in the rates of inactivating mutations than expected from spontaneous mutation rates measured via whole-genome sequencing of lineages evolved under relaxed selection. Surprisingly, we also found that IS element activity reduces transformability and is a major cause of cell aggregation and death in wild-type ADP1 grown under normal laboratory conditions. More generally, our results demonstrate that domesticating a bacterial genome by removing mobile DNA elements that have accumulated during evolution in the wild can have unanticipated benefits. </jats:p

Critical Steps of Plasmodium falciparum Ookinete Maturation

The egress and fertilization of Plasmodium gametes and development of a motile ookinete are the first crucial steps that mediate the successful transmission of the malaria parasites from humans to the Anopheles vector. However, limited information exists about the cell biology and regulation of this process. Technical impediments in the establishment of in vitro conditions for ookinete maturation in Plasmodium falciparum and other human malaria parasites further constrain a detailed characterization of ookinete maturation. Here, using fluorescence microscopy and immunolabeling, we compared P. falciparum ookinete maturation in Anopheles coluzzii mosquitoes in vivo and in cell culture in vitro. Our results identified two critical steps in ookinete maturation that are regulated by distinct mosquito factors, thereby highlighting the role of the mosquito environment in the transmission efficiency of malaria parasites

Benign Bilateral Adenomyoepithelioma of the Mammary Gland in a Ring-tailed Lemur (Lemur catta)

Naturally occurring mammary tumours are uncommon in prosimians. A 20-year-old female ring-tailed lemur (Lemur catta) developed bilateral enlargement of the mammary glands. Surgical removal revealed that both masses were comprised of multiple nodules and cystic areas that entirely replaced the normal glands. Histologically, a benign neoplastic biphasic cellular proliferation, composed of luminal–epithelial and basal–myoepithelial components, was identified. Immunohistochemical analysis for expression of cytokeratin (CK) AE1/AE3, CK7, CK5 + 8, CK14, vimentin, p63 and 14-3-3σ highlighted the biphasic nature of the neoplasm. A low mitotic count, low Ki67 labelling index, expression of oestrogen receptor-α, lack of expression of human epidermal growth factor receptor and a 3-year disease-free period without recurrence supported the benign nature of the tumour. Macroscopically, histologically and immunohistochemically this neoplasm resembled benign adenomyoepithelioma of the breast in women. This is the first complete report of a naturally occurring mammary tumour in a ring-tailed lemur

Detailed study of SNR G306.3-0.9 using XMM-Newton and Chandra observations

We used combined data from XMM-Newton and Chandra observatories to study the X-ray morphology of SNR G306.3-0.9. A spatially-resolved spectral analysis was used to obtain physical and geometrical parameters of different regions of the remnant. Spitzer infrared observations were also used to constrain the progenitor supernova and study the environment in which the SNR evolved. The X-ray morphology of the remnant displays a non-uniform structure of semi-circular appearance, with a bright southwest region and very weak or almost negligible X-ray emission in its northern part. These results indicate that the remnant is propagating in a non-uniform environment as the shock fronts are encountering a high-density medium, where enhanced infrared emission is detected. The X-ray spectral analysis of the selected regions shows distinct emission-line features of several metal elements, confirming the thermal origin of the emission. The X-ray spectra are well represented by a combination of two absorbed thermal plasma models: one in equilibrium ionization with a mean temperature of ~0.19 keV, and another out of equilibrium ionization at a higher temperature of ~1.1 or 1.6-1.9 keV. For regions located in the northeast, central, and southwest part of the SNR, we found elevated abundances of Si, S, Ar, Ca, and Fe, typical of ejecta material. The outer regions located northwest and south show values of the abundances above solar but lower than to those found in the central regions. This suggests that the composition of the emitting outer parts of the SNR is a combination of ejecta and shocked material of the interstellar medium. The comparison between the S/Si, Ar/Si, and Ca/Si abundances ratios (1.75, 1.27, and 2.72 in the central region, respectively), favor a Type Ia progenitor for this SNR, a result that is also supported by an independent morphological analysis using X-ray and IR data.Comment: 8 pages, 7 figures. Accepted by Astronomy and Astrophysic

Comparative analysis of different methods of modeling the thermal effect of circulating blood flow during RF cardiac ablation

Our aim was to compare the different methods of modeling the effect of circulating blood flow on the thermal lesion dimensions created by radio frequency (RF) cardiac ablation and on the maximum blood temperature. Computational models were built to study the temperature distributions and lesion dimensions created by a nonirrigated electrode by two RF energy delivery protocols (constant voltage and constant temperature) under high and low blood flow conditions. Four methods of modeling the effect of circulating blood flowon lesion dimensions and temperature distribution were compared. Three of them considered convective coefficients at the electrode-blood and tissue-blood interfaces to model blood flow: 1) without including blood as a part of the domain; 2) constant electrical conductivity of blood; and 3) temperaturedependent electrical conductivity of blood (+2%/°C). Method 4) included blood motion andwas considered to be a reference method for comparison purposes. Only Method 4 provided a realistic blood temperature distribution.The other three methods predicted lesion depth values similar to those of the reference method (differences smaller than 1 mm), regardless of ablation mode and blood flow conditions. Considering the aspects of lesion size and maximum temperature reached in blood and tissue, Method 2 seems to be the most suitable alternative to Method 4 in order to reduce the computational complexity. Our findings could have an important implication in future studies of RF cardiac ablation, in particular, in choosing the most suitable method to model the thermal effect of circulating blood

Concepción heroica Homérica en The Lord of the rings

Fil: Pepe de Suárez, Luz E. A.