Full-vector analysis of a realistic photonic crystal fiber

We analyze the guiding problem in a realistic photonic crystal fiber using a novel full-vector modal technique, a biorthogonal modal method based on the nonselfadjoint character of the electromagnetic propagation in a fiber. Dispersion curves of guided modes for different fiber structural parameters are calculated along with the 2D transverse intensity distribution of the fundamental mode. Our results match those achieved in recent experiments, where the feasibility of this type of fiber was shown.Comment: 3 figures, submitted to Optics Letter

Physiological Ecology of Four Endemic Alabama Species and the Exotic Asiatic Weatherfish, \u3ci\u3eMisgurnus anguillicaudatus\u3c/i\u3e (Cantor, 1842)

The occurrence of Asiatic Weatherfish, Misgurnus anguillicaudatus, in Alabama, a state known for its rich biodiversity, has generated concern among conservation managers. The current study used respirometry techniques to investigate the effects of increasing temperature on four native southeastern fishes (one cyprinid, two percids, and one elassomid) and the non-native M. anguillicaudatus. A minimum of five individuals of each species were used, and three experimental temperatures were chosen to represent spring and summer averages of northeast Alabama streams (15, 20, and 25°C). Overall, mean standard metabolic rates (SMRs) for M. anguillicaudatus were low (97.01, 127.75, and 158.50 mg O2 kg-1h-1 at 15, 20, and 25°C, respectively); M. anguillicaudatus was the only species for which SMR did not significantly increase with temperature (p = 0.467). In contrast, mean SMRs for all native species examined were higher than M. anguillicaudatus rates at a given temperature, and mean SMRs for Cyprinella caerulea, Etheostoma brevirostrum, and Etheostoma ditrema exhibited significant increases in SMR when temperatures were increased (e.g. 403.46, 704.42, and 1150.03 mg O2 kg-1h-1 at 25°C, respectively) (p \u3c 0.01). Elassoma zonatum displayed highly significant increases in SMR when temperature increased from 15-20°C (p \u3c 0.001). Overall, the abiotic tolerances of M. anguillicaudatus may facilitate further establishment that could lead to negative impacts on native species

Surface energy and stability of stress-driven discommensurate surface structures

A method is presented to obtain {\it ab initio} upper and lower bounds to surface energies of stress-driven discommensurate surface structures, possibly non-periodic or exhibiting very large unit cells. The instability of the stressed, commensurate parent of the discommensurate structure sets an upper bound to its surface energy; a lower bound is defined by the surface energy of an ideally commensurate but laterally strained hypothetical surface system. The surface energies of the phases of the Si(111):Ga and Ge(111):Ga systems and the energies of the discommensurations are determined within $\pm 0.2$ eV.Comment: 4 pages RevTeX. 2 Figures not included. Ask for a hard copy (through regular mail) to [email protected]

IR Dust Bubbles: Probing the Detailed Structure and Young Massive Stellar Populations of Galactic HII Regions

We present an analysis of wind-blown, parsec-sized, mid-infrared bubbles and associated star-formation using GLIMPSE/IRAC, MIPSGAL/MIPS and MAGPIS/VLA surveys. Three bubbles from the Churchwell et al. (2006) catalog were selected. The relative distribution of the ionized gas (based on 20 cm emission), PAH emission (based on 8 um, 5.8 um and lack of 4.5 um emission) and hot dust (24 um emission) are compared. At the center of each bubble there is a region containing ionized gas and hot dust, surrounded by PAHs. We identify the likely source(s) of the stellar wind and ionizing flux producing each bubble based upon SED fitting to numerical hot stellar photosphere models. Candidate YSOs are also identified using SED fitting, including several sites of possible triggered star formation.Comment: 37 pages, 17 figure

Embedded Star Formation in the Eagle Nebula with Spitzer/GLIMPSE

We present new Spitzer photometry of the Eagle Nebula (M16, containing the optical cluster NGC 6611) combined with near-infrared photometry from 2MASS. We use dust radiative transfer models, mid-infrared and near-infrared color-color analysis, and mid-infrared spectral indices to analyze point source spectral energy distributions, select candidate young stellar objects (YSOs), and constrain their mass and evolutionary state. Comparison of the different protostellar selection methods shows that mid-infrared methods are consistent, but as has been known for some time, near-infrared-only analysis misses some young objects. We reveal more than 400 protostellar candidates, including one massive young stellar object (YSO) that has not been previously highlighted. The YSO distribution supports a picture of distributed low-level star formation, with no strong evidence of triggered star formation in the ``pillars''. We confirm the youth of NGC 6611 by a large fraction of infrared-excess sources, and reveal a younger cluster of YSOs in the nearby molecular cloud. Analysis of the YSO clustering properties shows a possible imprint of the molecular cloud's Jeans length. Multiwavelength mid-IR imaging thus allows us to analyze the protostellar population, to measure the dust temperature and column density, and to relate these in a consistent picture of star formation in M16.Comment: 16p preprint - ApJ accepte

Sinorhizobium meliloti requires a cobalamin-dependent ribonucleotide reductase for symbiosis with its plant host

Vitamin B[subscript 12] (cobalamin) is a critical cofactor for animals and protists, yet its biosynthesis is limited to prokaryotes. We previously showed that the symbiotic nitrogen-fixing alphaproteobacterium Sinorhizobium meliloti requires cobalamin to establish a symbiotic relationship with its plant host, Medicago sativa (alfalfa). Here, the specific requirement for cobalamin in the S. meliloti–alfalfa symbiosis was investigated. Of the three known cobalamin-dependent enzymes in S. meliloti, the methylmalonyl CoA mutase (BhbA) does not affect symbiosis, whereas disruption of the metH gene encoding the cobalamin-dependent methionine synthase causes a significant defect in symbiosis. Expression of the cobalamin-independent methionine synthase MetE alleviates this symbiotic defect, indicating that the requirement for methionine synthesis does not reflect a need for the cobalamin-dependent enzyme. To investigate the function of the cobalamin-dependent ribonucleotide reductase (RNR) encoded by nrdJ, S. meliloti was engineered to express an Escherichia coli cobalamin-independent (class Ia) RNR instead of nrdJ. This strain is severely defective in symbiosis. Electron micrographs show that these cells can penetrate alfalfa nodules but are unable to differentiate into nitrogen-fixing bacteroids and, instead, are lysed in the plant cytoplasm. Flow cytometry analysis indicates that these bacteria are largely unable to undergo endoreduplication. These phenotypes may be due either to the inactivation of the class Ia RNR by reactive oxygen species, inadequate oxygen availability in the nodule, or both. These results show that the critical role of the cobalamin-dependent RNR for survival of S. meliloti in its plant host can account for the considerable resources that S. meliloti dedicates to cobalamin biosynthesis.National Institutes of Health (U.S.) (Grant GM31010)National Institutes of Health (U.S.) (Grant K99 GM083343)Jane Coffin Childs Memorial Fund for Medical Research (Postdoctoral Fellowship

A toolbox for the retrodeformation and muscle reconstruction of fossil specimens in Blender

Accurate muscle reconstructions can offer new information on the anatomy of fossil organisms and are also important for biomechanical analysis (multibody dynamics and finite-element analysis (FEA)). For the sake of simplicity, muscles are often modelled as point-to-point strands or frustra (cut-off cones) in biomechanical models. However, there are cases in which it is useful to model the muscle morphology in three dimensions, to better examine the effects of muscle shape and size. This is especially important for fossil analyses, where muscle force is estimated from the reconstructed muscle morphology (rather than based on data collected in vivo). The two main aims of this paper are as follows. First, we created a new interactive tool in the free open access software Blender to enable interactive three-dimensional modelling of muscles. This approach can be applied to both palaeontological and human biomechanics research to generate muscle force magnitudes and lines of action for FEA. Second, we provide a guide on how to use existing Blender tools to reconstruct distorted or incomplete specimens. This guide is aimed at palaeontologists but can also be used by anatomists working with damaged specimens or to test functional implication of hypothetical morphologies

A toolbox for the retrodeformation and muscle reconstruction of fossil specimens in Blender

Accurate muscle reconstructions can offer new information on the anatomy of fossil organisms and are also important for biomechanical analysis (multibody dynamics and finite-element analysis (FEA)). For the sake of simplicity, muscles are often modelled as point-to-point strands or frustra (cut-off cones) in biomechanical models. However, there are cases in which it is useful to model the muscle morphology in three dimensions, to better examine the effects of muscle shape and size. This is especially important for fossil analyses, where muscle force is estimated from the reconstructed muscle morphology (rather than based on data collected in vivo). The two main aims of this paper are as follows. First, we created a new interactive tool in the free open access software Blender to enable interactive three-dimensional modelling of muscles. This approach can be applied to both palaeontological and human biomechanics research to generate muscle force magnitudes and lines of action for FEA. Second, we provide a guide on how to use existing Blender tools to reconstruct distorted or incomplete specimens. This guide is aimed at palaeontologists but can also be used by anatomists working with damaged specimens or to test functional implication of hypothetical morphologies