MPICH-G2: A Grid-Enabled Implementation of the Message Passing Interface

Application development for distributed computing "Grids" can benefit from tools that variously hide or enable application-level management of critical aspects of the heterogeneous environment. As part of an investigation of these issues, we have developed MPICH-G2, a Grid-enabled implementation of the Message Passing Interface (MPI) that allows a user to run MPI programs across multiple computers, at the same or different sites, using the same commands that would be used on a parallel computer. This library extends the Argonne MPICH implementation of MPI to use services provided by the Globus Toolkit for authentication, authorization, resource allocation, executable staging, and I/O, as well as for process creation, monitoring, and control. Various performance-critical operations, including startup and collective operations, are configured to exploit network topology information. The library also exploits MPI constructs for performance management; for example, the MPI communicator construct is used for application-level discovery of, and adaptation to, both network topology and network quality-of-service mechanisms. We describe the MPICH-G2 design and implementation, present performance results, and review application experiences, including record-setting distributed simulations.Comment: 20 pages, 8 figure

Munc18-1 promotes larger dense-core vesicle docking.

AbstractSecretory vesicles dock at the plasma membrane before Ca2+ triggers their exocytosis. Exocytosis requires the assembly of SNARE complexes formed by the vesicle protein Synaptobrevin and the membrane proteins Syntaxin-1 and SNAP-25. We analyzed the role of Munc18-1, a cytosolic binding partner of Syntaxin-1, in large dense-core vesicle (LDCV) secretion. Calcium-dependent LDCV exocytosis was reduced 10-fold in mouse chromaffin cells lacking Munc18-1, but the kinetic properties of the remaining release, including single fusion events, were not different from controls. Concomitantly, mutant cells displayed a 10-fold reduction in morphologically docked LDCVs. Moreover, acute overexpression of Munc18-1 in bovine chromaffin cells increased the amount of releasable vesicles and accelerated vesicle supply. We conclude that Munc18-1 functions upstream of SNARE complex formation and promotes LDCV docking

Near-Chandrasekhar-mass type Ia supernovae from the double-degenerate channel

Recent observational evidence has demonstrated that white dwarf (WD) mergers are a highly efficient mechanism for mass accretion onto WDs in the galaxy. In this paper, we show that WD mergers naturally produce highly magnetized, uniformly rotating WDs, including a substantial population within a narrow mass range close to the Chandrasekhar mass (MCh). These near-MCh WD mergers subsequently undergo rapid spin up and compression on a ~ 102 yr timescale, either leading to central ignition and a normal SN Ia via the DDT mechanism, or alternatively to a failed detonation and SN Iax through pure deflagration. The resulting SNe Ia and SNe Iax will have spectra, light curves, polarimetry, and nucleosynthetic yields similar to those predicted to arise through the canonical near-MCh single degenerate (SD) channel, but with a t-1 delay time distribution characteristic of the double-degenerate channel. Furthermore, in contrast to the SD channel, WD merger near-MCh SNe Ia and SNe Iax will not produce observable companion signatures. We discuss a range of implications of these findings, from SNe Ia explosion mechanisms, to galactic nucleosynthesis of iron peak elements including manganesePeer ReviewedPostprint (published version

Generalist dinoflagellate endosymbionts and host genotype diversity detected from mesophotic (67-100 m depths) coral Leptoseris

<p>Abstract</p> <p>Background</p> <p>Mesophotic corals (light-dependent corals in the deepest half of the photic zone at depths of 30 - 150 m) provide a unique opportunity to study the limits of the interactions between corals and endosymbiotic dinoflagellates in the genus <it>Symbiodinium</it>. We sampled <it>Leptoseris </it>spp. in Hawaii via manned submersibles across a depth range of 67 - 100 m. Both the host and <it>Symbiodinium </it>communities were genotyped, using a non-coding region of the mitochondrial ND5 intron (NAD5) and the nuclear ribosomal internal transcribed spacer region 2 (ITS2), respectively.</p> <p>Results</p> <p>Coral colonies harbored endosymbiotic communities dominated by previously identified shallow water <it>Symbiodinium </it>ITS2 types (C1_ AF333515, C1c_ AY239364, C27_ AY239379, and C1b_ AY239363) and exhibited genetic variability at mitochondrial NAD5.</p> <p>Conclusion</p> <p>This is one of the first studies to examine genetic diversity in corals and their endosymbiotic dinoflagellates sampled at the limits of the depth and light gradients for hermatypic corals. The results reveal that these corals associate with generalist endosymbiont types commonly found in shallow water corals and implies that the composition of the <it>Symbiodinium </it>community (based on ITS2) alone is not responsible for the dominance and broad depth distribution of <it>Leptoseris </it>spp. The level of genetic diversity detected in the coral NAD5 suggests that there is undescribed taxonomic diversity in the genus <it>Leptoseris </it>from Hawaii.</p

Von Zeipel - Lidov - Kozai cycles in action: Kepler triples with eclipse depth variations: KICs 6964043, 5653126, 5731312, and 8023317

We report the results of the photodynamical analyses of four compact, tight triple stellar systems, KICs 6964043, 5653126, 5731312, 8023317, based largely on Kepler and TESS data. All systems display remarkable eclipse timing and eclipse depth variations, the latter implying a non-aligned outer orbit. Moreover, KIC 6964043 is also a triply eclipsing system. We combined photometry, ETV curves, and archival spectral energy distribution data to obtain the astrophysical parameters of the constituent stars and the orbital elements with substantial precision. KICs 6964043 and 5653126 were found to be nearly flat with mutual inclinations imut = 4. ◦1 and 12. ◦3, respectively, while KICs 5731312, 8023317 (imut = 39. ◦4 and 55. ◦7, respectively) are found to lie in the high imut regime of the von Zeipel-KozaiLidov (ZKL) theorem. We show that currently both high inclination triples exhibit observable unusual retrograde apsidal motion. Moreover, the eclipses will disappear in all but one of the four systems within a few decades. Shortterm numerical integrations of the dynamical evolution reveal that both high inclination triples are currently subject to ongoing, large amplitude (∆e ∼ 0.3) inner eccentricity variations on centuries-long timescales, in accord with the ZKL theorem. Longer-term integrations predict that two of the four systems may become dynamically unstable on ∼ Gyr timescales, while in the other two triples common envelope phases and stellar mergers may occur. Finally we investigate the dynamical properties of a sample of 71 KIC/TIC triples statistically, and find that the mutual inclinations and outer mass ratios are anti-correlated at the 4σ level. We discuss the implications for the formation mechanisms of compact triples

Clone wars:asexual reproduction dominates in the invasive range of Tubastraea spp. (Anthozoa: Scleractinia) in the South-Atlantic Ocean

Although the invasive azooxanthellate corals Tubastraea coccinea and T. tagusensis are spreading quickly and outcompeting native species in the Atlantic Ocean, there is little information regarding the genetic structure and path of introduction for these species. Here we present the first data on genetic diversity and clonal structure from these two species using a new set of microsatellite markers. High proportions of clones were observed, indicating that asexual reproduction has a major role in the local population dynamics and, therefore, represents one of the main reasons for the invasion success. Although no significant population structure was found, results suggest the occurrence of multiple invasions for T. coccinea and also that both species are being transported along the coast by vectors such as oil platforms and monobouys, spreading these invasive species. In addition to the description of novel microsatellite markers, this study sheds new light into the invasive process of Tubastraea.Coordenacao de Aperfeicoamento de Pessoal de Nivel SuperiorFundacao Carlos Chagas Filho de Amparo a Pesquisa do Estado do Rio de JaneiroConselho Nacional de Desenvolvimento Cientifico e TecnologicoFundacao de Amparo a Pesquisa do Estado de Sao PauloNSF-OA (National Science Foundation)Univ Fed Rio de Janeiro, Dept Zool, Rio De Janeiro, BrazilUniv Hawaii Manoa, Hawaii Inst Marine Biol, Sch Ocean & Earth Sci & Technol, Kaneohe, HI USACoral Sol Res Technol Dev & Innovat Network, Rio De Janeiro, BrazilUniv Fed Rio de Janeiro, Inst Microbiol Paulo Goes, Rio De Janeiro, BrazilUniv Estado Rio de Janeiro, Dept Ecol, Rio De Janeiro, BrazilUniv Fed Sao Paulo, Dept Ciencias Mar, Santos, BrazilUniv Sao Paulo, Ctr Biol Marinha, Sao Sebastiao, BrazilUniv Fed Sao Paulo, Dept Ciencias Mar, Santos, BrazilCAPES: 1137/2010FAPERJ: E26/010.003031/2014FAPERJ: E26/201.286/2014CNPq: 305330/2010-1FAPESP: 2014/01332-0Web of Scienc