Mass-velocity and size-velocity distributions of ejecta cloud from shock-loaded tin surface using large scale molecular dynamics simulations

NASA Astrophysics Data System (ADS)

Durand, Olivier; Soulard, Laurent

2015-06-01

The mass (volume and areal densities) versus velocity as well as the size versus velocity distributions of a shock-induced cloud of particles are investigated using large scale molecular dynamics (MD) simulations. A generic 3D tin crystal with a sinusoidal free surface roughness is set in contact with vacuum and shock-loaded so that it melts directly on shock. At the reflection of the shock wave onto the perturbations of the free surface, 2D sheets/jets of liquid metal are ejected. The simulations show that the distributions may be described by an analytical model based on the propagation of a fragmentation zone, from the tip of the sheets to the free surface, within which the kinetic energy of the atoms decreases as this zone comes closer to the free surface on late times. As this kinetic energy drives (i) the (self-similar) expansion of the zone once it has broken away from the sheet and (ii) the average size of the particles which result from fragmentation in the zone, the ejected mass and the average size of the particles progressively increase in the cloud as fragmentation occurs closer to the free surface. Though relative to nanometric scales, our model reproduces quantitatively experimental profiles and may help in their analysis.

The velocity characteristics of dusty filaments in the JCMT GBS clouds

NASA Astrophysics Data System (ADS)

Buckle, J. V.; Salji, C.; Richer, J. S.

2013-07-01

Large scale, high resolution spectral and continuum imaging maps have revealed, to an unprecedented extent, the characteristics of filamentary structure in star-forming molecular clouds, and their close association with star-forming cores. The filaments are associated with the formation of dense molecular cores where star formation occurs, and recent models highlight the important relationship between filaments and star-forming clusters. Velocity-coherent filaments have been proposed as the parent structures of star forming cores in Taurus. In Serpens, accretion flows along filaments have been proposed as the continuous source of mass for the star forming cluster. An evolutionary scenario for filaments based on velocity dispersion and column density measurements has recently been proposed, which we test with large scale molecular line and dust continuum maps. The JCMT Gould Belt Survey with SCUBA-2 and HARP provides dust continuum observations at 850 and 450 micron, and 12CO/13CO/C18O J=3-2 spectral line mapping of several nearby molecular clouds, covering large angular scales at high resolution. Velocities and linewidths of optically thin species, such as C18O which traces the warm, dense gas associated with star formation, are critical for an estimate of the virial stability of filamentary structures. The data and analyses that we present provide robust statistics over a large range of starless and protostellar evolutionary states. We present the velocity characteristics of dusty filaments in Orion, probing the physics at the boundary of filamentary structure and star formation. Using C18O, we investigate the internal structure of filaments, based on fragmentation and velocity coherence in the molecular line data. Through velocity dispersion measurements, we determine whether the filamentary structures are bound, and compare results between clouds of different star formation characteristics.

Fragmentation during primordial star formation

NASA Astrophysics Data System (ADS)

Dutta, Jayanta

Understanding the physics of the very first stars in the universe, the so-called Population III (or Pop III) stars, is crucial in determining how the universe evolved into what we observe today. In the standard model of Pop III star formation, the baryonic matter, mainly atomic hydrogen, collapses gravitationally into small Dark Matter (DM) minihalos. However, so far there is little understanding on how the thermal, dynamical and chemical evolution of the primordial gas depend on the initial configuration of the minihalos (for example, rotation of the unstable clumps inside minihalos, turbulence, formation of molecular hydrogen and cosmic variance of the minihalos). We use the modified version of the Gadget-2 code, a three-dimensional smoothed particle hydrodynamics (SPH) simulations, to follow the evolution of the collapsing gas in both idealized as well as more realistic minihalos. Unlike some earlier cosmological calculations, the implementation of sink particles allows us to follow the evolution of the accretion disk that builds up in the centre of each minihalo and fragments. We find that the fragmentation behavior depends on the adopted choice of three-body H2 formation rate coefficient. The increasing cooling rate during rapid conversion of the atomic to molecular hydrogen is offset by the heating due to gas contraction. We propose that the H2 cooling, the heating due to H2 formation and compressional heating together set a density and temperature structure in the disk that favors fragmentation. We also find that the cloud's initial degree of rotation has a significant effect on the thermal and dynamical evolution of the collapsing gas. Clouds with higher rotation exhibit spiral-arm-like structures that become gravitationally unstable to fragmentation on several scales. These type of clouds tend to fragment more and have lower accretion rates compared to their slowly rotating counterparts. In addition, we find that the distribution of specific angular momentum (L) of the gas follows a power-law relation with the enclosed gas mass (M), L ∝ M1.125, which is controlled by the gravitational and pressure torque, and does not depend on the cloud's initial degree of rotation and turbulence.

Compression and ablation of the photo-irradiated molecular cloud the Orion Bar.

PubMed

Goicoechea, Javier R; Pety, Jérôme; Cuadrado, Sara; Cernicharo, José; Chapillon, Edwige; Fuente, Asunción; Gerin, Maryvonne; Joblin, Christine; Marcelino, Nuria; Pilleri, Paolo

2016-09-08

The Orion Bar is the archetypal edge-on molecular cloud surface illuminated by strong ultraviolet radiation from nearby massive stars. Our relative closeness to the Orion nebula (about 1,350 light years away from Earth) means that we can study the effects of stellar feedback on the parental cloud in detail. Visible-light observations of the Orion Bar show that the transition between the hot ionized gas and the warm neutral atomic gas (the ionization front) is spatially well separated from the transition between atomic and molecular gas (the dissociation front), by about 15 arcseconds or 6,200 astronomical units (one astronomical unit is the Earth-Sun distance). Static equilibrium models used to interpret previous far-infrared and radio observations of the neutral gas in the Orion Bar (typically at 10-20 arcsecond resolution) predict an inhomogeneous cloud structure comprised of dense clumps embedded in a lower-density extended gas component. Here we report one-arcsecond-resolution millimetre-wave images that allow us to resolve the molecular cloud surface. In contrast to stationary model predictions, there is no appreciable offset between the peak of the H 2 vibrational emission (delineating the H/H 2 transition) and the edge of the observed CO and HCO + emission. This implies that the H/H 2 and C + /C/CO transition zones are very close. We find a fragmented ridge of high-density substructures, photoablative gas flows and instabilities at the molecular cloud surface. The results suggest that the cloud edge has been compressed by a high-pressure wave that is moving into the molecular cloud, demonstrating that dynamical and non-equilibrium effects are important for the cloud evolution.

Compression and ablation of the photo-irradiated molecular cloud the Orion Bar

NASA Astrophysics Data System (ADS)

Goicoechea, Javier R.; Pety, Jérôme; Cuadrado, Sara; Cernicharo, José; Chapillon, Edwige; Fuente, Asunción; Gerin, Maryvonne; Joblin, Christine; Marcelino, Nuria; Pilleri, Paolo

2016-09-01

The Orion Bar is the archetypal edge-on molecular cloud surface illuminated by strong ultraviolet radiation from nearby massive stars. Our relative closeness to the Orion nebula (about 1,350 light years away from Earth) means that we can study the effects of stellar feedback on the parental cloud in detail. Visible-light observations of the Orion Bar show that the transition between the hot ionized gas and the warm neutral atomic gas (the ionization front) is spatially well separated from the transition between atomic and molecular gas (the dissociation front), by about 15 arcseconds or 6,200 astronomical units (one astronomical unit is the Earth-Sun distance). Static equilibrium models used to interpret previous far-infrared and radio observations of the neutral gas in the Orion Bar (typically at 10-20 arcsecond resolution) predict an inhomogeneous cloud structure comprised of dense clumps embedded in a lower-density extended gas component. Here we report one-arcsecond-resolution millimetre-wave images that allow us to resolve the molecular cloud surface. In contrast to stationary model predictions, there is no appreciable offset between the peak of the H2 vibrational emission (delineating the H/H2 transition) and the edge of the observed CO and HCO+ emission. This implies that the H/H2 and C+/C/CO transition zones are very close. We find a fragmented ridge of high-density substructures, photoablative gas flows and instabilities at the molecular cloud surface. The results suggest that the cloud edge has been compressed by a high-pressure wave that is moving into the molecular cloud, demonstrating that dynamical and non-equilibrium effects are important for the cloud evolution.

Supernova Driving. IV. The Star-formation Rate of Molecular Clouds

NASA Astrophysics Data System (ADS)

Padoan, Paolo; Haugbølle, Troels; Nordlund, Åke; Frimann, Søren

2017-05-01

We compute the star-formation rate (SFR) in molecular clouds (MCs) that originate ab initio in a new, higher-resolution simulation of supernova-driven turbulence. Because of the large number of well-resolved clouds with self-consistent boundary and initial conditions, we obtain a large range of cloud physical parameters with realistic statistical distributions, which is an unprecedented sample of star-forming regions to test SFR models and to interpret observational surveys. We confirm the dependence of the SFR per free-fall time, SFRff, on the virial parameter, α vir, found in previous simulations, and compare a revised version of our turbulent fragmentation model with the numerical results. The dependences on Mach number, { M }, gas to magnetic pressure ratio, β, and compressive to solenoidal power ratio, χ at fixed α vir are not well constrained, because of random scatter due to time and cloud-to-cloud variations in SFRff. We find that SFRff in MCs can take any value in the range of 0 ≤ SFRff ≲ 0.2, and its probability distribution peaks at a value of SFRff ≈ 0.025, consistent with observations. The values of SFRff and the scatter in the SFRff-α vir relation are consistent with recent measurements in nearby MCs and in clouds near the Galactic center. Although not explicitly modeled by the theory, the scatter is consistent with the physical assumptions of our revised model and may also result in part from a lack of statistical equilibrium of the turbulence, due to the transient nature of MCs.

Non-ideal magnetohydrodynamic simulations of the two-stage fragmentation model for cluster formation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bailey, Nicole D.; Basu, Shantanu, E-mail: N.Bailey@leeds.ac.uk, E-mail: basu@uwo.ca

2014-01-01

We model molecular cloud fragmentation with thin-disk, non-ideal magnetohydrodynamic simulations that include ambipolar diffusion and partial ionization that transitions from primarily ultraviolet-dominated to cosmic-ray-dominated regimes. These simulations are used to determine the conditions required for star clusters to form through a two-stage fragmentation scenario. Recent linear analyses have shown that the fragmentation length scales and timescales can undergo a dramatic drop across the column density boundary that separates the ultraviolet- and cosmic-ray-dominated ionization regimes. As found in earlier studies, the absence of an ionization drop and regular perturbations leads to a single-stage fragmentation on pc scales in transcritical clouds, somore » that the nonlinear evolution yields the same fragment sizes as predicted by linear theory. However, we find that a combination of initial transcritical mass-to-flux ratio, evolution through a column density regime in which the ionization drop takes place, and regular small perturbations to the mass-to-flux ratio is sufficient to cause a second stage of fragmentation during the nonlinear evolution. Cores of size ∼0.1 pc are formed within an initial fragment of ∼pc size. Regular perturbations to the mass-to-flux ratio also accelerate the onset of runaway collapse.« less

An origin of arc structures deeply embedded in dense molecular cloud cores

NASA Astrophysics Data System (ADS)

Matsumoto, Tomoaki; Onishi, Toshikazu; Tokuda, Kazuki; Inutsuka, Shu-ichiro

2015-04-01

We investigated the formation of arc-like structures in the infalling envelope around protostars, motivated by the recent Atacama Large Millimeter/Submillimeter Array (ALMA) observations of the high-density molecular cloud core, MC27/L1521F. We performed self-gravitational hydrodynamical numerical simulations with an adaptive mesh refinement code. A filamentary cloud with a 0.1 pc width fragments into cloud cores because of perturbations due to weak turbulence. The cloud core undergoes gravitational collapse to form multiple protostars, and gravitational torque from the orbiting protostars produces arc structures extending up to a 1000 au scale. As well as on a spatial extent, the velocity ranges of the arc structures, ˜0.5 km s-1, are in agreement with the ALMA observations. We also found that circumstellar discs are often misaligned in triple system. The misalignment is caused by the tidal interaction between the protostars when they undergo close encounters because of a highly eccentric orbit of the tight binary pair.

The effect of catastrophic collisional fragmentation and diffuse medium accretion on a computational interstellar dust system

NASA Technical Reports Server (NTRS)

Liffman, Kurt

1990-01-01

The effects of catastrophic collisional fragmentation and diffuse medium accretion on a the interstellar dust system are computed using a Monte Carlo computer model. The Monte Carlo code has as its basis an analytic solution of the bulk chemical evolution of a two-phase interstellar medium, described by Liffman and Clayton (1989). The model is subjected to numerous different interstellar processes as it transfers from one interstellar phase to another. Collisional fragmentation was found to be the dominant physical process that shapes the size spectrum of interstellar dust. It was found that, in the diffuse cloud phase, 90 percent of the refractory material is locked up in the dust grains, primarily due to accretion in the molecular medium. This result is consistent with the observed depletions of silicon. Depletions were found to be affected only slightly by diffuse cloud accretion.

High resolution far-infrared observations of the evolved H II region M16

DOE Office of Scientific and Technical Information (OSTI.GOV)

McBreen, B.; Fazio, G.G.; Jaffe, D.T.

1982-03-01

M16 is an evolved, extremely density bounded H II region, which now consists only of a series of ionization fronts at molecular cloud boundaries. The source of ionization is the OB star cluster (NGC 6611) which is about 5 x 10/sup 6/ years old. We used the CFA/UA 102 cm balloon-borne telescope to map this region and detected three far-infrared (far-IR) sources embedded in an extended ridge of emission. Source I is an unresolved far-IR source embedded in a molecular cloud near a sharp ionization front. An H/sub 2/O maser is associated with this source, but no radio continuum emissionmore » has been observed. The other two far-IR sources (II and III) are associated with ionized gas-molecular cloud interfaces, with the far-IR radiation arising from dust at the boundary heated by the OB cluster. Source II is located at the southern prominent neutral intrusion with its associated bright rims and dark ''elephant trunk'' globules that delineate the current progress of the ionization front into the neutral material, and Source III arises at the interface of the northern molecular cloud fragment.« less

The wavelet transform as an analysis tool for structure identification in molecular clouds

NASA Astrophysics Data System (ADS)

Gill, Arnold Gerald

1993-01-01

Of the many methods used to attempt to understand the complex structure of giant molecular clouds, perhaps the most commonly used are the autocorrelation functions (ACF), the structure function, and the power spectrum. However, these do not give unique interpretations of structure, as is shown by explicit examples compared to the Taurus Molecular Complex. Thus, another, independent method of analysis is indicated. Here, the wavelet transform is presented, a relatively new technique less than 10 years old. It can be thought of as a band-pass filter that identifies structures of specific sizes. In addition, its mathematical properties allow it to be used to identify fractal structures and accurately identify the scaling exponent. This is shown by the wavelet transform identifying the fractal dimension of a hierarchical rain cloud model first proposed by Frisch et al. (1978). A wavelet analysis is then carried out for a range of astronomical CO data, including the clouds Orion A and B and NGC 7538 (in (12)CO) and Orion A and B, Mon R2, and L1551 (in (13)CO). The data analyzed consists of the velocities of the fitted Gaussians to the individual spectra, the halfwidths and amplitude of these Gaussians, and the total area of the spectral line. For most of the clouds investigated, each of these data types showed a very high degree of scaling coherence over a wide range of scales, from down at the beam spacing up to the full size of the cloud. The analysis carried out uses both the scaling and structure identification strengths of the wavelet transform The fragmentation parameters used by Scalo (1985) and the parameters of the geometric molecular cloud description introduced by Henriksen (1986) are calculated for each cloud. These results are all consistent with previous observations of these and other molecular clouds, though they are obtained individually for each cloud investigated. It is found that the uncertainties are of a magnitude that the differentiation of various theories of molecular cloud structure is not possible. It is noted that the effects of projection and superposition strongly affect the values of some of these parameters, thus hampering a thorough understanding of the underlying physics. The strengths and weaknesses of the wavelet transform in the analysis of molecular cloud data are presented, as well as directions for future work.

Significance of brown dwarfs

NASA Technical Reports Server (NTRS)

Black, D. C.

1986-01-01

The significance of brown dwarfs for resolving some major problems in astronomy is discussed. The importance of brown dwarfs for models of star formation by fragmentation of molecular clouds and for obtaining independent measurements of the ages of stars in binary systems is addressed. The relationship of brown dwarfs to planets is considered.

A role for self-gravity at multiple length scales in the process of star formation.

PubMed

Goodman, Alyssa A; Rosolowsky, Erik W; Borkin, Michelle A; Foster, Jonathan B; Halle, Michael; Kauffmann, Jens; Pineda, Jaime E

2009-01-01

Self-gravity plays a decisive role in the final stages of star formation, where dense cores (size approximately 0.1 parsecs) inside molecular clouds collapse to form star-plus-disk systems. But self-gravity's role at earlier times (and on larger length scales, such as approximately 1 parsec) is unclear; some molecular cloud simulations that do not include self-gravity suggest that 'turbulent fragmentation' alone is sufficient to create a mass distribution of dense cores that resembles, and sets, the stellar initial mass function. Here we report a 'dendrogram' (hierarchical tree-diagram) analysis that reveals that self-gravity plays a significant role over the full range of possible scales traced by (13)CO observations in the L1448 molecular cloud, but not everywhere in the observed region. In particular, more than 90 per cent of the compact 'pre-stellar cores' traced by peaks of dust emission are projected on the sky within one of the dendrogram's self-gravitating 'leaves'. As these peaks mark the locations of already-forming stars, or of those probably about to form, a self-gravitating cocoon seems a critical condition for their existence. Turbulent fragmentation simulations without self-gravity-even of unmagnetized isothermal material-can yield mass and velocity power spectra very similar to what is observed in clouds like L1448. But a dendrogram of such a simulation shows that nearly all the gas in it (much more than in the observations) appears to be self-gravitating. A potentially significant role for gravity in 'non-self-gravitating' simulations suggests inconsistency in simulation assumptions and output, and that it is necessary to include self-gravity in any realistic simulation of the star-formation process on subparsec scales.

Isomerization and fragmentation of acetonitrile upon interaction with N(4S) atoms: the chemistry of nitrogen in dense molecular clouds

NASA Astrophysics Data System (ADS)

Mencos, Alejandro; Krim, Lahouari

2016-08-01

We experimentally show that the reaction between ground state nitrogen atoms N(4S) and acetonitrile CH3CN can lead to two distinct chemical pathways that are both thermally activated at very low temperatures. First is CH3CN isomerization which produces CH3NC and H2CCNH. Second is CH3CN decomposition which produces HNC and CH3CNH+CN- fragments, with the possible release of H2. Our results reveal that the mobility of N(4S)-atoms is stimulated in the 3-11 K temperature range, and that its subsequent encounter with one acetonitrile molecule is sufficient for the aforementioned reactions to occur without the need for additional energy to be supplied to the CH3CN + N(4S) system. These findings shed more light on the nitrogen chemistry that can possibly take place in dense molecular clouds, which until now was thought to only involve high-energy processes and therefore be unlikely to occur in such cold and dark interstellar regions. The reaction pathways we propose in this study have very important astrochemical implications, as it was shown recently that the atomic nitrogen might be more abundant, in many interstellar icy grain mantles, than previously thought. Also, these reaction pathways can now be considered within dense molecular clouds, and possibly affect the branching ratios for N-bearing molecules computed in astrochemical modelling.

Ortho- and para-hydrogen in dense clouds, protoplanets, and planetary atmospheres

NASA Technical Reports Server (NTRS)

Decampli, W. M.; Cameron, A. G. W.; Bodenheimer, P.; Black, D. C.

1978-01-01

If ortho- and para-hydrogen achieve a thermal ratio on dynamical time scales in a molecular hydrogen cloud, then the specific heat is high enough in the temperature range 35-70 K to possibly induce hydrodynamic collapse. The ortho-para ratio in many interstellar cloud fragments is expected to meet this condition. The same may have been true for the primitive solar nebula. Detailed hydrodynamic and hydrostatic calculations are presented that show the effects of the assumed ortho-para ratio on the evolution of Jupiter during its protoplanetary phase. Some possible consequences of a thermalized ortho-para ratio in the atmospheres of the giant planets are also discussed.

Theoretical Models of Protostellar Binary and Multiple Systems with AMR Simulations

NASA Astrophysics Data System (ADS)

Matsumoto, Tomoaki; Tokuda, Kazuki; Onishi, Toshikazu; Inutsuka, Shu-ichiro; Saigo, Kazuya; Takakuwa, Shigehisa

2017-05-01

We present theoretical models for protostellar binary and multiple systems based on the high-resolution numerical simulation with an adaptive mesh refinement (AMR) code, SFUMATO. The recent ALMA observations have revealed early phases of the binary and multiple star formation with high spatial resolutions. These observations should be compared with theoretical models with high spatial resolutions. We present two theoretical models for (1) a high density molecular cloud core, MC27/L1521F, and (2) a protobinary system, L1551 NE. For the model for MC27, we performed numerical simulations for gravitational collapse of a turbulent cloud core. The cloud core exhibits fragmentation during the collapse, and dynamical interaction between the fragments produces an arc-like structure, which is one of the prominent structures observed by ALMA. For the model for L1551 NE, we performed numerical simulations of gas accretion onto protobinary. The simulations exhibit asymmetry of a circumbinary disk. Such asymmetry has been also observed by ALMA in the circumbinary disk of L1551 NE.

Recognition and characterization of hierarchical interstellar structure. II - Structure tree statistics

NASA Technical Reports Server (NTRS)

Houlahan, Padraig; Scalo, John

1992-01-01

A new method of image analysis is described, in which images partitioned into 'clouds' are represented by simplified skeleton images, called structure trees, that preserve the spatial relations of the component clouds while disregarding information concerning their sizes and shapes. The method can be used to discriminate between images of projected hierarchical (multiply nested) and random three-dimensional simulated collections of clouds constructed on the basis of observed interstellar properties, and even intermediate systems formed by combining random and hierarchical simulations. For a given structure type, the method can distinguish between different subclasses of models with different parameters and reliably estimate their hierarchical parameters: average number of children per parent, scale reduction factor per level of hierarchy, density contrast, and number of resolved levels. An application to a column density image of the Taurus complex constructed from IRAS data is given. Moderately strong evidence for a hierarchical structural component is found, and parameters of the hierarchy, as well as the average volume filling factor and mass efficiency of fragmentation per level of hierarchy, are estimated. The existence of nested structure contradicts models in which large molecular clouds are supposed to fragment, in a single stage, into roughly stellar-mass cores.

Optical polarimetry and molecular line studies of L1157 dark molecular cloud

NASA Astrophysics Data System (ADS)

Sharma, Ekta; Soam, Archana; Gopinathan, Maheswar

2018-04-01

Filaments are omnipresent in molecular clouds which are believed to fragment into cores. The detailed process of the evolution from filaments to cores depends critically on the physical conditions in the star forming region. This study aims at characterising gas motions using velocity structure and finding the dynamical importance of magnetic fields in the filament morphology. The plane-of-the-sky component of the magnetic field has been measured using optical polarization of the background stars. The orientation is found to be almost perpendicular to the filament implying its dynamical importance in the evolution of the cloud. Optical polarimetric results match very well with the sub millimetre polarization angles obtained in the inner core regions. The magnetic fields are found to have an orientation of 130° east with respect to north. The angular offset between the outflow axis and the magnetic field direction is found to be 25°. Values for parameters like the excitation temperature, optical depth and column densities have been derived using molecular lines. Optically thick lines show non-gaussian features. The non-thermal widths tell about the presence of turbulent motions whereas the C180 lines follow Gaussian features almost at all the locations observed in the filament.

Formation of the First Star Clusters and Massive Star Binaries by Fragmentation of Filamentary Primordial Gas Clouds

NASA Astrophysics Data System (ADS)

Hirano, Shingo; Yoshida, Naoki; Sakurai, Yuya; Fujii, Michiko S.

2018-03-01

We perform a set of cosmological simulations of early structure formation incorporating baryonic streaming motions. We present a case where a significantly elongated gas cloud with ∼104 solar mass (M ⊙) is formed in a pre-galactic (∼107 M ⊙) dark halo. The gas streaming into the halo compresses and heats the massive filamentary cloud to a temperature of ∼10,000 Kelvin. The gas cloud cools rapidly by atomic hydrogen cooling, and then by molecular hydrogen cooling down to ∼400 Kelvin. The rapid decrease of the temperature and hence of the Jeans mass triggers fragmentation of the filament to yield multiple gas clumps with a few hundred solar masses. We estimate the mass of the primordial star formed in each fragment by adopting an analytic model based on a large set of radiation hydrodynamics simulations of protostellar evolution. The resulting stellar masses are in the range of ∼50–120 M ⊙. The massive stars gravitationally attract each other and form a compact star cluster. We follow the dynamics of the star cluster using a hybrid N-body simulation. We show that massive star binaries are formed in a few million years through multi-body interactions at the cluster center. The eventual formation of the remnant black holes will leave a massive black hole binary, which can be a progenitor of strong gravitational wave sources similar to those recently detected by the Advanced Laser Interferometer Gravitational-Wave Observatory (LIGO).

Magnetic Fields and Multiple Protostar Formation

NASA Astrophysics Data System (ADS)

Boss, A. P.

2001-12-01

Recent observations of star-forming regions suggest that binary and multiple young stars are the rule rather than the exception, and implicate fragmentation as the likely mechanism for their formation. Most numerical hydrodynamical calculations of fragmentation have neglected the possibly deleterious effects of magnetic fields, in spite of ample evidence for the importance of magnetic support of pre-collapse clouds. We present here the first numerical hydrodynamical survey of the full effects of magnetic fields on the collapse and fragmentation of dense cloud cores. The models are calculated with a three dimensional, finite differences code which solves the equations of hydrodynamics, gravitation, and radiative transfer in the Eddington and diffusion approximations. Magnetic field effects are included through two simple approximations: magnetic pressure is added to the gas pressure, and magnetic tension is approximated by gravity dilution once collapse is well underway. Ambipolar diffusion of the magnetic field leading to cloud collapse is treated approximately as well. Models are calculated for a variety of initial cloud density profiles, shapes, and rotation rates. We find that in spite of the inclusion of magnetic field effects, dense cloud cores are capable of fragmenting into binary and multiple protostar systems. Initially prolate clouds tend to fragment into binary protostars, while initially oblate clouds tend to fragment into multiple protostar systems containing a small number (of order four) of fragments. The latter are likely to be subject to rapid orbital evolution, with close encounters possibly leading to the ejection of fragments. Contrary to expectation, magnetic tension effects appear to enhance fragmentation, allowing lower mass fragments to form than would otherwise be possible, because magnetic tension helps to prevent a central density singularity from forming and producing a dominant single object. Magnetically-supported dense cloud cores thus seem to be capable of collapsing and fragmenting into sufficient numbers of binary and multiple protostar systems to be compatible with observations of the relative rarity of single protostars. This work was partially supported by NSF grants AST-9983530 and MRI-9976645.

The dependence of stellar properties on initial cloud density

NASA Astrophysics Data System (ADS)

Jones, Michael O.; Bate, Matthew R.

2018-05-01

We investigate the dependence of stellar properties on the initial mean density of the molecular cloud in which stellar clusters form using radiation hydrodynamical simulations that resolve the opacity limit for fragmentation. We have simulated the formation of three star clusters from the gravitational collapse of molecular clouds whose densities vary by a factor of a hundred. As with previous calculations including radiative feedback, we find that the dependence of the characteristic stellar mass, Mc, on the initial mean density of the cloud, ρ, is weaker than the dependence of the thermal Jeans mass. However, unlike previous calculations, which found no statistically significant variation in the median mass with density, we find a weak dependence approximately of the form Mc∝ρ-1/5. The distributions of properties of multiple systems do not vary significantly between the calculations. We compare our results to the result of observational surveys of star-forming regions, and suggest that the similarities between the properties of our lowest density calculation and the nearby Taurus-Auriga region indicate that the apparent excess of solar-type stars observed may be due to the region's low density.

On the effective turbulence driving mode of molecular clouds formed in disc galaxies

NASA Astrophysics Data System (ADS)

Jin, Keitaro; Salim, Diane M.; Federrath, Christoph; Tasker, Elizabeth J.; Habe, Asao; Kainulainen, Jouni T.

2017-07-01

We determine the physical properties and turbulence driving mode of molecular clouds formed in numerical simulations of a Milky Way-type disc galaxy with parsec-scale resolution. The clouds form through gravitational fragmentation of the gas, leading to average values for mass, radii and velocity dispersion in good agreement with observations of Milky Way clouds. The driving parameter (b) for the turbulence within each cloud is characterized by the ratio of the density contrast (σ _{ρ /ρ _0}) to the average Mach number (M) within the cloud, b=σ _{ρ /ρ _0}/M. As shown in previous works, b ˜ 1/3 indicates solenoidal (divergence-free) driving and b ˜ 1 indicates compressive (curl-free) driving. We find that the average b value of all the clouds formed in the simulations has a lower limit of b > 0.2. Importantly, we find that b has a broad distribution, covering values from purely solenoidal to purely compressive driving. Tracking the evolution of individual clouds reveals that the b value for each cloud does not vary significantly over their lifetime. Finally, we perform a resolution study with minimum cell sizes of 8, 4, 2 and 1 pc and find that the average b value increases with increasing resolution. Therefore, we conclude that our measured b values are strictly lower limits and that a resolution better than 1 pc is required for convergence. However, regardless of the resolution, we find that b varies by factors of a few in all cases, which means that the effective driving mode alters significantly from cloud to cloud.

The magnetic field of molecular clouds

NASA Astrophysics Data System (ADS)

Padoan, P.

2018-01-01

The magnetic field of molecular clouds (MCs) plays an important role in the process of star formation: it determines the statistical properties of supersonic turbulence that controls the fragmentation of MCs, controls the angular momentum transport during the protostellar collapse, and affects the stability of circumstellar disks. In this work, we focus on the problem of the determination of the magnetic field strength. We review the idea that the MC turbulence is super-Alfvénic, and we argue that MCs are bound to be born super-Alfvénic. We show that this scenario is supported by results from a recent simulation of supernova-driven turbulence on a scale of 250 pc, where the turbulent cascade is resolved on a wide range of scales, including the interior of MCs.

NuSTAR Detection of a Hard X-Ray Source in the Supernova Remnant-molecular Cloud Interaction Site of IC 443

NASA Astrophysics Data System (ADS)

Zhang, Shuo; Tang, Xiaping; Zhang, Xiao; Sun, Lei; Gotthelf, Eric V.; Zhang, Zhi-Yu; Li, Hui; Cheng, Allen; Pasham, Dheeraj; Baganoff, Frederick K.; Perez, Kerstin; Hailey, Charles J.; Mori, Kaya

2018-06-01

We report on a broadband study of a complex X-ray source (1SAX J0618.0+2227) associated with the interaction site of the supernova remnant (SNR) IC 443 and ambient molecular cloud (MC) using NuSTAR, XMM-Newton, and Chandra observations. Its X-ray spectrum is composed of both thermal and nonthermal components. The thermal component can be equally well represented by either a thin plasma model with kT = 0.19 keV or a blackbody model with kT = 0.11 keV. The nonthermal component can be fit with either a power law with Γ ∼ 1.7 or a cutoff power law with Γ ∼ 1.5 and a cutoff energy at E cut ∼ 18 keV. Using the newly obtained NuSTAR data set, we test three possible scenarios for isolated X-ray sources in the SNR–MC interaction site: (1) a pulsar wind nebula (PWN); (2) an SNR ejecta fragment; and (3) a shocked molecular clump. We conclude that this source is most likely composed of an SNR ejecta (or a PWN) and surrounding shocked molecular clumps. The nature of this hard X-ray source in the SNR–MC interaction site of IC 443 may shed light on unidentified X-ray sources with hard X-ray spectra in rich environments for star-forming regions, such as the Galactic center.

Physical conditions in molecular clouds

NASA Technical Reports Server (NTRS)

Evans, Neal J., II

1989-01-01

Recent developments have complicated the picture of the physical conditions in molecular clouds. The discoveries of widespread emission from high-J lines of CD and 12-micron IRAS emission have revealed the presence of considerably hotter gas and dust near the surfaces of molecular clouds. These components can complicate interpretation of the bulk of the cloud gas. Commonly assumed relations between column density or mean density and cloud size are called into question by conflicting results and by consideration of selection effects. Analysis of density and density structure through molecular excitation has shown that very high densities exist in star formation regions, but unresolved structure and possible chemical effects complicate the interpretation. High resolution far-IR and submillimeter observations offer a complementary approach and are beginning to test theoretical predictions of density gradients in clouds.

Gas Flow and Star Formation in the Centre of the Milky Way : Investigations with Smoothed Particle Hydrodynamics

NASA Astrophysics Data System (ADS)

Lucas, William Evan

2015-06-01

The centre of the Milky Way, commonly referred to as the Galactic Centre, is roughly that region within 500 pc of the central black hole, Sagittarius A*. Within the innermost parsec around the supermassive black hole Sagittarius A* are more than a hundred massive young stars whose orbits align to form one or possibly two discs. At about 100 pc is a ring containing more than ten million solar masses of molecular gas which could be the origin of some of the most massive star clusters in the Galaxy. I have performed a number of numerical simulations to help us understand how it is that these structures may have been formed. I firstly describe and test an improvement to the smoothed particle hydrodynamics code I used. This improves conservation of energy and momentum in certain situations such as in strong shocks from supernovae, which were to be included in a later chapter. The discs of massive stars around Sagittarius A* are believed to have been born there within fragmenting gaseous discs. This is problematic, as the formation of two stellar discs would require two gaseous counterparts. A method is described of forming multiple discs around a black hole from a single cloud's infall and subsequent tidal destruction. This is due to its prolate shape providing a naturally large distribution in the direction of the angular momentum vectors within the cloud. The resulting discs may then go on to form stars. Energetically, it would appear that a sequence of supernovae could potentially cause a giant molecular cloud to fall inwards towards the central black hole from an originally large orbit around the Galactic Centre. I simulate the impact on a giant molecular cloud of supernovae originating from a massive stellar cluster located a parsec away. Ultimately, the supernovae are found to have little effect. Finally, I simulate the formation of the dense ring of clouds observed in the Central Molecular Zone at a distance of about 100 pc from Sgr A*. Infalling gas is shown to be subject to such extreme tidal forces that a single cloud of gas is extended to form a long stream. The ribbon grows to the point that it self-intersects and forms a ring-like structure. Its complexity depends on the orbit of the original cloud. The position-velocity data is compared with observations, and similarities are noted.

Imaging Systems for Size Measurements of Debrisat Fragments

NASA Technical Reports Server (NTRS)

Shiotani, B.; Scruggs, T.; Toledo, R.; Fitz-Coy, N.; Liou, J. C.; Sorge, M.; Huynh, T.; Opiela, J.; Krisko, P.; Cowardin, H.

2017-01-01

The overall objective of the DebriSat project is to provide data to update existing standard spacecraft breakup models. One of the key sets of parameters used in these models is the physical dimensions of the fragments (i.e., length, average-cross sectional area, and volume). For the DebriSat project, only fragments with at least one dimension greater than 2 mm are collected and processed. Additionally, a significant portion of the fragments recovered from the impact test are needle-like and/or flat plate-like fragments where their heights are almost negligible in comparison to their other dimensions. As a result, two fragment size categories were defined: 2D objects and 3D objects. While measurement systems are commercially available, factors such as measurement rates, system adaptability, size characterization limitations and equipment costs presented significant challenges to the project and a decision was made to develop our own size characterization systems. The size characterization systems consist of two automated image systems, one referred to as the 3D imaging system and the other as the 2D imaging system. Which imaging system to use depends on the classification of the fragment being measured. Both imaging systems utilize point-and-shoot cameras for object image acquisition and create representative point clouds of the fragments. The 3D imaging system utilizes a space-carving algorithm to generate a 3D point cloud, while the 2D imaging system utilizes an edge detection algorithm to generate a 2D point cloud. From the point clouds, the three largest orthogonal dimensions are determined using a convex hull algorithm. For 3D objects, in addition to the three largest orthogonal dimensions, the volume is computed via an alpha-shape algorithm applied to the point clouds. The average cross-sectional area is also computed for 3D objects. Both imaging systems have automated size measurements (image acquisition and image processing) driven by the need to quickly and accurately measure tens of thousands of debris fragments. Moreover, the automated size measurement reduces potential fragment damage/mishandling and ability for accuracy and repeatability. As the fragment characterization progressed, it became evident that the imaging systems had to be revised. For example, an additional view was added to the 2D imaging system to capture the height of the 2D object. This paper presents the DebriSat project's imaging systems and calculation techniques in detail; from design and development to maturation. The experiences and challenges are also shared.

Slow Cooling in Low Metallicity Clouds: An Origin of Globular Cluster Bimodality?

NASA Astrophysics Data System (ADS)

Fernandez, Ricardo; Bryan, Greg L.

2018-05-01

We explore the relative role of small-scale fragmentation and global collapse in low-metallicity clouds, pointing out that in such clouds the cooling time may be longer than the dynamical time, allowing the cloud to collapse globally before it can fragment. This, we suggest, may help to explain the formation of the low-metallicity globular cluster population, since such dense stellar systems need a large amount of gas to be collected in a small region (without significant feedback during the collapse). To explore this further, we carry out numerical simulations of low-metallicity Bonner-Ebert stable gas clouds, demonstrating that there exists a critical metallicity (between 0.001 and 0.01 Z⊙) below which the cloud collapses globally without fragmentation. We also run simulations including a background radiative heating source, showing that this can also produce clouds that do not fragment, and that the critical metallicity - which can exceed the no-radiation case - increases with the heating rate.

Testing the Two-Layer Model for Correcting Clear Sky Reflectance near Clouds

NASA Technical Reports Server (NTRS)

Wen, Guoyong; Marshak, Alexander; Evans, Frank; Varnai, Tamas; Levy, Rob

2015-01-01

A two-layer model (2LM) was developed in our earlier studies to estimate the clear sky reflectance enhancement due to cloud-molecular radiative interaction at MODIS at 0.47 micrometers. Recently, we extended the model to include cloud-surface and cloud-aerosol radiative interactions. We use the LES/SHDOM simulated 3D true radiation fields to test the 2LM for reflectance enhancement at 0.47 micrometers. We find: The simple model captures the viewing angle dependence of the reflectance enhancement near cloud, suggesting the physics of this model is correct; the cloud-molecular interaction alone accounts for 70 percent of the enhancement; the cloud-surface interaction accounts for 16 percent of the enhancement; the cloud-aerosol interaction accounts for an additional 13 percent of the enhancement. We conclude that the 2LM is simple to apply and unbiased.

Cloud4Psi: cloud computing for 3D protein structure similarity searching.

PubMed

Mrozek, Dariusz; Małysiak-Mrozek, Bożena; Kłapciński, Artur

2014-10-01

Popular methods for 3D protein structure similarity searching, especially those that generate high-quality alignments such as Combinatorial Extension (CE) and Flexible structure Alignment by Chaining Aligned fragment pairs allowing Twists (FATCAT) are still time consuming. As a consequence, performing similarity searching against large repositories of structural data requires increased computational resources that are not always available. Cloud computing provides huge amounts of computational power that can be provisioned on a pay-as-you-go basis. We have developed the cloud-based system that allows scaling of the similarity searching process vertically and horizontally. Cloud4Psi (Cloud for Protein Similarity) was tested in the Microsoft Azure cloud environment and provided good, almost linearly proportional acceleration when scaled out onto many computational units. Cloud4Psi is available as Software as a Service for testing purposes at: http://cloud4psi.cloudapp.net/. For source code and software availability, please visit the Cloud4Psi project home page at http://zti.polsl.pl/dmrozek/science/cloud4psi.htm. © The Author 2014. Published by Oxford University Press.

Cloud4Psi: cloud computing for 3D protein structure similarity searching

PubMed Central

Mrozek, Dariusz; Małysiak-Mrozek, Bożena; Kłapciński, Artur

2014-01-01

Summary: Popular methods for 3D protein structure similarity searching, especially those that generate high-quality alignments such as Combinatorial Extension (CE) and Flexible structure Alignment by Chaining Aligned fragment pairs allowing Twists (FATCAT) are still time consuming. As a consequence, performing similarity searching against large repositories of structural data requires increased computational resources that are not always available. Cloud computing provides huge amounts of computational power that can be provisioned on a pay-as-you-go basis. We have developed the cloud-based system that allows scaling of the similarity searching process vertically and horizontally. Cloud4Psi (Cloud for Protein Similarity) was tested in the Microsoft Azure cloud environment and provided good, almost linearly proportional acceleration when scaled out onto many computational units. Availability and implementation: Cloud4Psi is available as Software as a Service for testing purposes at: http://cloud4psi.cloudapp.net/. For source code and software availability, please visit the Cloud4Psi project home page at http://zti.polsl.pl/dmrozek/science/cloud4psi.htm. Contact: dariusz.mrozek@polsl.pl PMID:24930141

The size-line width relation and the mass of molecular hydrogen

DOE Office of Scientific and Technical Information (OSTI.GOV)

Issa, M.; Maclaren, I.; Wolfendale, A. W.

Some difficulties associated with the problem of cloud definition are considered, with particular regard to the crowded distribution of clouds and the difficulty of choosing an appropriate boundary in such circumstances. A number of tests carried out on the original data suggest that the delta(v) - S relation found by Solomon et al. (1987) is not a genuine reflection of the dynamical state of Giant Molecular Clouds. The Solomon et al. parameters, are insensitive to the actual cloud properties and are unable to distinguish true clouds from the consequences of sampling any crowded region of emission down to a lowmore » threshold temperature. The overall effect of such problems is to overestimate both the masses of Giant Molecular Clouds and the number of very large clouds. 24 refs.« less

Evolution of the Debris Cloud Generated by the Fengyun-1C Fragmentation Event

NASA Technical Reports Server (NTRS)

Pardini, Carmen; Anselmo, Luciano

2007-01-01

The cloud of cataloged debris produced in low earth orbit by the fragmentation of the Fengyun-1C spacecraft was propagated for 15 years, taking into account all relevant perturbations. Unfortunately, the cloud resulted to be very stable, not suffering substantial debris decay during the time span considered. The only significant short term evolution was the differential spreading of the orbital planes of the fragments, leading to the formation of a debris shell around the earth approximately 7-8 months after the breakup, and the perigee precession of the elliptical orbits. Both effects will render the shell more "isotropic" in the coming years. The immediate consequence of the Chinese anti-satellite test, carried out in an orbital regime populated by many important operational satellites, was to increase significantly the probability of collision with man-made debris. For the two Italian spacecraft launched in the first half of 2007, the collision probability with cataloged objects increased by 12% for AGILE, in equatorial orbit, and by 38% for COSMO-SkyMed 1, in sun-synchronous orbit.

A population of isolated hard X-ray sources near the supernova remnant Kes 69

NASA Astrophysics Data System (ADS)

Bocchino, F.; Bykov, A. M.; Chen, Y.; Krassilchtchikov, A. M.; Levenfish, K. P.; Miceli, M.; Pavlov, G. G.; Uvarov, Yu. A.; Zhou, X.

2012-05-01

Recent X-ray observations of the supernova remnant (SNR) IC 443 interacting with molecular clouds detected a new population of hard X-ray sources related to the remnant itself, which has been proposed to be fast ejecta fragments propagating within the dense environment. Encouraged by these studies, we obtained a deep XMM-Newton observation of the SNR Kes 69, which also shows signs of a shock-cloud interaction. We report on the detection of 18 hard X-ray sources in the field of Kes 69, which is a number sognificantly higher than expected for the Galactic source population in the field. The sources are spatially correlated with CO emission from the cloud in the remnant environment. The spectra of 3 of the 18 sources can be described as hard power-laws with photon indices smaller than two plus line emission associated with K-shell transitions. We discuss the two most promising scenarios for the interpretation of the sources, namely fast ejecta fragments (as in IC 443) and cataclysmic variables. While most of the observational evidence is consistent with the former interpretation, we cannot rule out the latter.

DEEPLY EMBEDDED PROTOSTELLAR POPULATION IN THE 20 km s{sup −1} CLOUD OF THE CENTRAL MOLECULAR ZONE

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lu, Xing; Gu, Qiusheng; Zhang, Qizhou

2015-12-01

We report the discovery of a population of deeply embedded protostellar candidates in the 20 km s{sup −1} cloud, one of the massive molecular clouds in the Central Molecular Zone (CMZ) of the Milky Way, using interferometric submillimeter continuum and H{sub 2}O maser observations. The submillimeter continuum emission shows five 1 pc scale clumps, each of which further fragments into several 0.1 pc scale cores. We identify 17 dense cores, among which 12 are gravitationally bound. Among the 18 H{sub 2}O masers detected, 13 coincide with the cores and probably trace outflows emanating from the protostars. There are also 5more » gravitationally bound dense cores without H{sub 2}O maser detection. In total, the 13 masers and 5 cores may represent 18 protostars with spectral types later than B1 or potentially growing more massive stars at earlier evolutionary stages, given the non-detection in the centimeter radio continuum. In combination with previous studies of CH{sub 3}OH masers, we conclude that the star formation in this cloud is at an early evolutionary phase, before the presence of any significant ionizing or heating sources. Our findings indicate that star formation in this cloud may be triggered by a tidal compression as it approaches pericenter, similar to the case of G0.253+0.016 but with a higher star formation rate, and demonstrate that high angular resolution, high-sensitivity maser, and submillimeter observations are promising techniques to unveil deeply embedded star formation in the CMZ.« less

An Imaging System for Automated Characteristic Length Measurement of Debrisat Fragments

NASA Technical Reports Server (NTRS)

Moraguez, Mathew; Patankar, Kunal; Fitz-Coy, Norman; Liou, J.-C.; Sorge, Marlon; Cowardin, Heather; Opiela, John; Krisko, Paula H.

2015-01-01

The debris fragments generated by DebriSat's hypervelocity impact test are currently being processed and characterized through an effort of NASA and USAF. The debris characteristics will be used to update satellite breakup models. In particular, the physical dimensions of the debris fragments must be measured to provide characteristic lengths for use in these models. Calipers and commercial 3D scanners were considered as measurement options, but an automated imaging system was ultimately developed to measure debris fragments. By automating the entire process, the measurement results are made repeatable and the human factor associated with calipers and 3D scanning is eliminated. Unlike using calipers to measure, the imaging system obtains non-contact measurements to avoid damaging delicate fragments. Furthermore, this fully automated measurement system minimizes fragment handling, which reduces the potential for fragment damage during the characterization process. In addition, the imaging system reduces the time required to determine the characteristic length of the debris fragment. In this way, the imaging system can measure the tens of thousands of DebriSat fragments at a rate of about six minutes per fragment, compared to hours per fragment in NASA's current 3D scanning measurement approach. The imaging system utilizes a space carving algorithm to generate a 3D point cloud of the article being measured and a custom developed algorithm then extracts the characteristic length from the point cloud. This paper describes the measurement process, results, challenges, and future work of the imaging system used for automated characteristic length measurement of DebriSat fragments.

The VLA Nascent Disk and Multiplicity Survey of Perseus Protostars (VANDAM). II. Multiplicity of Protostars in the Perseus Molecular Cloud

NASA Astrophysics Data System (ADS)

Tobin, John J.; Looney, Leslie W.; Li, Zhi-Yun; Chandler, Claire J.; Dunham, Michael M.; Segura-Cox, Dominique; Sadavoy, Sarah I.; Melis, Carl; Harris, Robert J.; Kratter, Kaitlin; Perez, Laura

2016-02-01

We present a multiplicity study of all known protostars (94) in the Perseus molecular cloud from a Karl G. Jansky Very Large Array survey at Ka-band (8 mm and 1 cm) and C-band (4 and 6.6 cm). The observed sample has a bolometric luminosity range between 0.1 L⊙ and ˜33 L⊙, with a median of 0.7 L⊙. This multiplicity study is based on the Ka-band data, having a best resolution of ˜0.″065 (15 au) and separations out to ˜43″ (10,000 au) can be probed. The overall multiplicity fraction (MF) is found to be 0.40 ± 0.06 and the companion star fraction (CSF) is 0.71 ± 0.06. The MF and CSF of the Class 0 protostars are 0.57 ± 0.09 and 1.2 ± 0.2, and the MF and CSF of Class I protostars are both 0.23 ± 0.08. The distribution of companion separations appears bi-modal, with a peak at ˜75 au and another peak at ˜3000 au. Turbulent fragmentation is likely the dominant mechanism on >1000 au scales and disk fragmentation is likely to be the dominant mechanism on <200 au scales. Toward three Class 0 sources we find companions separated by <30 au. These systems have the smallest separations of currently known Class 0 protostellar binary systems. Moreover, these close systems are embedded within larger (50-400 au) structures and may be candidates for ongoing disk fragmentation.

Hierarchical fragmentation and differential star formation in the Galactic `Snake': infrared dark cloud G11.11-0.12

NASA Astrophysics Data System (ADS)

Wang, Ke; Zhang, Qizhou; Testi, Leonardo; van der Tak, Floris; Wu, Yuefang; Zhang, Huawei; Pillai, Thushara; Wyrowski, Friedrich; Carey, Sean; Ragan, Sarah E.; Henning, Thomas

2014-04-01

We present Submillimeter Array (SMA) λ = 0.88 and 1.3 mm broad-band observations, and Very Large Array (VLA) observations in NH3 (J, K) = (1,1) up to (5,5), H2O and CH3OH maser lines towards the two most massive molecular clumps in infrared dark cloud (IRDC) G11.11-0.12. Sensitive high-resolution images reveal hierarchical fragmentation in dense molecular gas from the ˜1 pc clump scale down to ˜0.01 pc condensation scale. At each scale, the mass of the fragments is orders of magnitude larger than the Jeans mass. This is common to all four IRDC clumps we studied, suggesting that turbulence plays an important role in the early stages of clustered star formation. Masers, shock heated NH3 gas, and outflows indicate intense ongoing star formation in some cores while no such signatures are found in others. Furthermore, chemical differentiation may reflect the difference in evolutionary stages among these star formation seeds. We find NH3 ortho/para ratios of 1.1 ± 0.4, 2.0 ± 0.4, and 3.0 ± 0.7 associated with three outflows, and the ratio tends to increase along the outflows downstream. Our combined SMA and VLA observations of several IRDC clumps present the most in-depth view so far of the early stages prior to the hot core phase, revealing snapshots of physical and chemical properties at various stages along an apparent evolutionary sequence.

A characteristic scale for cold gas

NASA Astrophysics Data System (ADS)

McCourt, Michael; Oh, S. Peng; O'Leary, Ryan; Madigan, Ann-Marie

2018-02-01

We find that clouds of optically thin, pressure-confined gas are prone to fragmentation as they cool below ∼106 K. This fragmentation follows the lengthscale ∼cstcool, ultimately reaching very small scales (∼0.1 pc/n), as they reach the temperature ∼104 K at which hydrogen recombines. While this lengthscale depends on the ambient pressure confining the clouds, we find that the column density through an individual fragment Ncloudlet ∼ 1017 cm-2 is essentially independent of environment; this column density represents a characteristic scale for atomic gas at 104 K. We therefore suggest that 'clouds' of cold, atomic gas may, in fact, have the structure of a mist or a fog, composed of tiny fragments dispersed throughout the ambient medium. We show that this scale emerges in hydrodynamic simulations, and that the corresponding increase in the surface area may imply rapid entrainment of cold gas. We also apply it to a number of observational puzzles, including the large covering fraction of diffuse gas in galaxy haloes, the broad-line widths seen in quasar and AGN spectra and the entrainment of cold gas in galactic winds. While our simulations make a number of assumptions and thus have associated uncertainties, we show that this characteristic scale is consistent with a number of observations, across a wide range of astrophysical environments. We discuss future steps for testing, improving and extending our model.

The Stellar IMF from Isothermal MHD Turbulence

NASA Astrophysics Data System (ADS)

Haugbølle, Troels; Padoan, Paolo; Nordlund, Åke

2018-02-01

We address the turbulent fragmentation scenario for the origin of the stellar initial mass function (IMF), using a large set of numerical simulations of randomly driven supersonic MHD turbulence. The turbulent fragmentation model successfully predicts the main features of the observed stellar IMF assuming an isothermal equation of state without any stellar feedback. As a test of the model, we focus on the case of a magnetized isothermal gas, neglecting stellar feedback, while pursuing a large dynamic range in both space and timescales covering the full spectrum of stellar masses from brown dwarfs to massive stars. Our simulations represent a generic 4 pc region within a typical Galactic molecular cloud, with a mass of 3000 M ⊙ and an rms velocity 10 times the isothermal sound speed and 5 times the average Alfvén velocity, in agreement with observations. We achieve a maximum resolution of 50 au and a maximum duration of star formation of 4.0 Myr, forming up to a thousand sink particles whose mass distribution closely matches the observed stellar IMF. A large set of medium-size simulations is used to test the sink particle algorithm, while larger simulations are used to test the numerical convergence of the IMF and the dependence of the IMF turnover on physical parameters predicted by the turbulent fragmentation model. We find a clear trend toward numerical convergence and strong support for the model predictions, including the initial time evolution of the IMF. We conclude that the physics of isothermal MHD turbulence is sufficient to explain the origin of the IMF.

Insights into Aqueous-phase processing through Comparison of the Organic Chemical Composition of Atmospheric Particles and Cloud Water in the Southeast United States

NASA Astrophysics Data System (ADS)

Boone, E.; Laskin, J.; Laskin, A.; Wirth, C.; Shepson, P. B.; Stirm, B. H.; Pratt, K.

2014-12-01

Organic compounds comprise a significant mass fraction of submicron atmospheric particles with considerable contribution from secondary organic aerosol (SOA), a large fraction of which is formed from the oxidation of biogenic volatile organic compounds. Aqueous-phase reactions in particles and cloud droplets are suggested to increase SOA mass and change the chemical composition the particles following cloud evaporation. Aqueous-phase processing may also explain discrepancies between measurements and models. To gain a better understanding of these processes, cloud water and below-cloud atmospheric particles were collected onboard a research aircraft during the Southeast Oxidants and Aerosol Study (SOAS) over Alabama in June 2013. Nanospray desorption electrospray ionization (nano-DESI) and direct electrospray ionization (ESI) coupled with high resolution mass spectrometry were utilized to compare the organic molecular composition of the particle and cloud water samples, respectively. Several hundred unique compounds have been identified in the particle and cloud water samples, allowing possible aqueous-phase reactions to be examined. Hydrolysis of organosulfate compounds, aqueous-phase formation of nitrogen-containing compounds, and possible fragmentation of oligomeric compounds will be discussed, with comparisons to previous laboratory studies. This study provides insights into aqueous-phase reactions in ambient cloud droplets.

The SOLA Team: A Star Formation Project To Study the Soul of Lupus with ALMA

NASA Astrophysics Data System (ADS)

De Gregorio-Monsalvo, Itziar; Saito, M.; Rodon, J.; Takahashi, S.

2017-06-01

The SOLA team is a multi-national and multi-wavelength collaboration composed by scientists with technical expertise in ALMA and in infrared and optical techniques. The aim of the team is to establish a low-mass star formation scenario based on the Lupus molecular clouds. In this talk I will present our unique catalog of pre-stellar and proto-stellar cores toward Lupus molecular clouds, the results on our latest studies in protoplanetary disks, as well as our ALMA Cycle 3 data aiming at testing the formation mechanism of sub-stellar objects in Lupus molecular clouds.

ALMA Observations of Starless Core Substructure in Ophiuchus

NASA Astrophysics Data System (ADS)

Kirk, H.; Dunham, M. M.; Di Francesco, J.; Johnstone, D.; Offner, S. S. R.; Sadavoy, S. I.; Tobin, J. J.; Arce, H. G.; Bourke, T. L.; Mairs, S.; Myers, P. C.; Pineda, J. E.; Schnee, S.; Shirley, Y. L.

2017-04-01

Compact substructure is expected to arise in a starless core as mass becomes concentrated in the central region likely to form a protostar. Additionally, multiple peaks may form if fragmentation occurs. We present Atacama Large Millimeter/submillimeter Array (ALMA) Cycle 2 observations of 60 starless and protostellar cores in the Ophiuchus molecular cloud. We detect eight compact substructures which are > 15\\prime\\prime from the nearest Spitzer young stellar object. Only one of these has strong evidence for being truly starless after considering ancillary data, e.g., from Herschel and X-ray telescopes. An additional extended emission structure has tentative evidence for starlessness. The number of our detections is consistent with estimates from a combination of synthetic observations of numerical simulations and analytical arguments. This result suggests that a similar ALMA study in the Chamaeleon I cloud, which detected no compact substructure in starless cores, may be due to the peculiar evolutionary state of cores in that cloud.

Optical observations related to the molecular chemistry in diffuse interstellar clouds

NASA Technical Reports Server (NTRS)

Federman, S. R.

1987-01-01

Observations, which have been published since 1979, of molecular species in diffuse clouds are discussed. Particular attention is given to the ultraviolet measurements of CO with the Copernicus and IUE satellites and to ground-based optical measurements of CH, CH(+), CN, and 02. These data encompass large enough samples to test the chemical schemes expected to occur in diffuse clouds. Upper limits for other species (e.g., H2O, H2O(+), and C3) place restrictions on the pathways for molecular production. Moreover, analysis of the rotational distribution of the C2 molecule results in the determination of the physical conditions of the cloud. These parameters, including density, temperature, and the intensity of the radiation field, are necessary for modeling the chemistry.

The dependence of stellar age distributions on giant molecular cloud environment

NASA Astrophysics Data System (ADS)

Dobbs, C. L.; Pringle, J. E.; Naylor, T.

2014-01-01

In this Letter, we analyse the distributions of stellar ages in giant molecular clouds (GMCs) in spiral arms, interarm spurs and at large galactic radii, where the spiral arms are relatively weak. We use the results of numerical simulations of galaxies, which follow the evolution of GMCs and include star particles where star formation events occur. We find that GMCs in spiral arms tend to have predominantly young (<10 Myr) stars. By contrast, clouds which are the remainders of spiral arm giant molecular asssociations that have been sheared into interarm GMCs contain fewer young (<10 Myr) stars and more ˜20 Myr stars. We also show that clouds which form in the absence of spiral arms, due to local gravitational and thermal instabilities, contain preferentially young stars. We propose that the age distributions of stars in GMCs will be a useful diagnostic to test different cloud evolution scenarios, the origin of spiral arms and the success of numerical models of galactic star formation. We discuss the implications of our results in the context of Galactic and extragalactic molecular clouds.

Sub-structure formation in starless cores

NASA Astrophysics Data System (ADS)

Toci, C.; Galli, D.; Verdini, A.; Del Zanna, L.; Landi, S.

2018-02-01

Motivated by recent observational searches of sub-structure in starless molecular cloud cores, we investigate the evolution of density perturbations on scales smaller than the Jeans length embedded in contracting isothermal clouds, adopting the same formalism developed for the expanding Universe and the solar wind. We find that initially small amplitude, Jeans-stable perturbations (propagating as sound waves in the absence of a magnetic field) are amplified adiabatically during the contraction, approximately conserving the wave action density, until they either become non-linear and steepen into shocks at a time tnl, or become gravitationally unstable when the Jeans length decreases below the scale of the perturbations at a time tgr. We evaluate analytically the time tnl at which the perturbations enter the non-linear stage using a Burgers' equation approach, and we verify numerically that this time marks the beginning of the phase of rapid dissipation of the kinetic energy of the perturbations. We then show that for typical values of the rms Mach number in molecular cloud cores, tnl is smaller than tgr, and therefore density perturbations likely dissipate before becoming gravitational unstable. Solenoidal modes grow at a faster rate than compressible modes, and may eventually promote fragmentation through the formation of vortical structures.

Astrochemistry in TSR and CSR Ion Storage Rings

NASA Astrophysics Data System (ADS)

Novotny, Oldrich

2017-04-01

Dissociative recombination (DR) of molecular ions plays a key role in controlling the charge density and composition of the cold interstellar medium (ISM). Experimental data on DR are required in order to understand the chemical network in the ISM and related processes such as star formation from molecular clouds. Needed data include not only total reaction cross sections, but also the chemical composition and excitation states of the neutral products. Utilizing the TSR storage ring in Heidelberg, Germany, we have carried out DR measurements for astrophysically important molecular ions. We use a merged electron-ion beams technique combined with event-by-event fragment counting and fragment imaging. The count rate of detected neutral DR products yields the absolute DR rate coefficient. Imaging the distribution of fragment distances provides information on the kinetic energy released including the states of both the initial molecule and the final products. Additional kinetic energy sensitivity of the employed detector allows for identification of fragmentation channels by fragment-mass combination within each dissociation event. Such combined information is essential for studies on DR of polyatomic ions with multi-channel breakup. The recently commissioned Cryogenic Storage Ring (CSR) in Heidelberg, Germany, extends the experimental capabilities of TSR by operation at cryogenic temperatures down to 6 K. At these conditions residual gas densities down to 100 cm-3 can be reached resulting in beam storage times of several hours. Long storage in the cold environment allows the ions to relax down to their rotational ground state, thus mimicking well the conditions in the cold ISM. A variety of astrophysically relevant reactions will be investigated at these conditions, such as DR, electron impact excitation, ion-neutral collisions, etc. We report our TSR results on DR of HCl+ and D2Cl+. We also present first results from the CSR commissioning experiments.

From Large-scale to Protostellar Disk Fragmentation into Close Binary Stars

NASA Astrophysics Data System (ADS)

Sigalotti, Leonardo Di G.; Cruz, Fidel; Gabbasov, Ruslan; Klapp, Jaime; Ramírez-Velasquez, José

2018-04-01

Recent observations of young stellar systems with the Atacama Large Millimeter/submillimeter Array (ALMA) and the Karl G. Jansky Very Large Array are helping to cement the idea that close companion stars form via fragmentation of a gravitationally unstable disk around a protostar early in the star formation process. As the disk grows in mass, it eventually becomes gravitationally unstable and fragments, forming one or more new protostars in orbit with the first at mean separations of 100 au or even less. Here, we report direct numerical calculations down to scales as small as ∼0.1 au, using a consistent Smoothed Particle Hydrodynamics code, that show the large-scale fragmentation of a cloud core into two protostars accompanied by small-scale fragmentation of their circumstellar disks. Our results demonstrate the two dominant mechanisms of star formation, where the disk forming around a protostar (which in turn results from the large-scale fragmentation of the cloud core) undergoes eccentric (m = 1) fragmentation to produce a close binary. We generate two-dimensional emission maps and simulated ALMA 1.3 mm continuum images of the structure and fragmentation of the disks that can help explain the dynamical processes occurring within collapsing cloud cores.

Fragments of the past activity of Sgr A* inferred from X-ray echoes in Sgr C

NASA Astrophysics Data System (ADS)

Chuard, D.; Terrier, R.; Goldwurm, A.; Soldi, S.; Clavel, M.; Morris, M.; Ponti, G.; Walls, M.; Chernyakova, M.

2017-10-01

Giant molecular clouds populating the central molecular zone have a high enough column density to reflect X-rays coming from strong compact sources in their neighbourhood, including possible powerful outbursts from the Galactic supermassive black hole Sgr A*. We study this reflected emission in observations of the molecular complex Sgr C made with the X-ray observatories XMM-Newton and Chandra between 2000 and 2014. We show that this complex exhibits clear variability in both space and time, which strongly favours the reflection scenario, the most likely illuminating source being Sgr A*. By comparing data to Monte-Carlo simulated reflection spectra, we are able to put the best constraints to date on the line-of-sight positions of the main bright clumps of the molecular complex. Ultimately, extending this approach by the inclusion of other molecular complexes allows us to partially reconstruct the past lightcurve of the Galactic supermassive black hole.

Molecular clouds in Orion and Monoceros. Ph.D. Thesis

NASA Technical Reports Server (NTRS)

Maddalena, R. J.

1986-01-01

About one-eighth of a well-sampled 850 deg. sq. region of Orion and Monoceros shows CO emission coming from either local clouds (d < 1 kpc) lying as much as 25 deg. from the galactic plane or from more distant objects located within a few degrees of the plane. Local giant clouds associated with Orion A and B have enhanced temperatures and densities near their western edges possibly due to compression by a high pressure region created by approx.10 supernovae that occurred in the Orion OB association. Another giant cloud associated with Mon R2 may be related to the Orion clouds. Two filamentary clouds (one possibly 300 pc long but 10 pc wide) may represent a new class of object. An expanding ring of clouds concentric with the H II region ionized by lambda Ori probably constitute fragments of the original cloud from which lambda Ori formed; the gas pressure of the H II region and the rocket effect probably disrupted the original cloud. At a distance of 3 kpc, a large (250 x 100 pc) and massive (7-11x10 to the 5th power solar mass) cloud was found with the unusual combination of low temperatures (T sub R < 2.7 K) and wide spectral lines (approx. 7 km /sec). Most of the signs of star formation expected for such a massive cloud being absent, this may be a young cloud that has not yet started to form stars. The approx. 15 large clouds found in the outer galaxy (1 approx. 206 deg. - 220 deg.) probably lie in two spiral arms. The distribution of outer galaxy clouds and a comparison of the properties of these clouds and those of local clouds are given.

Diffuse cloud chemistry. [in interstellar matter

NASA Technical Reports Server (NTRS)

Van Dishoeck, Ewine F.; Black, John H.

1988-01-01

The current status of models of diffuse interstellar clouds is reviewed. A detailed comparison of recent gas-phase steady-state models shows that both the physical conditions and the molecular abundances in diffuse clouds are still not fully understood. Alternative mechanisms are discussed and observational tests which may discriminate between the various models are suggested. Recent developments regarding the velocity structure of diffuse clouds are mentioned. Similarities and differences between the chemistries in diffuse clouds and those in translucent and high latitude clouds are pointed out.

Thermal Jeans Fragmentation within ∼1000 au in OMC-1S

NASA Astrophysics Data System (ADS)

Palau, Aina; Zapata, Luis A.; Román-Zúñiga, Carlos G.; Sánchez-Monge, Álvaro; Estalella, Robert; Busquet, Gemma; Girart, Josep M.; Fuente, Asunción; Commerçon, Benoit

2018-03-01

We present subarcsecond 1.3 mm continuum ALMA observations toward the Orion Molecular Cloud 1 South (OMC-1S) region, down to a spatial resolution of 74 au, which reveal a total of 31 continuum sources. We also present subarcsecond 7 mm continuum VLA observations of the same region, which allow further study of fragmentation down to a spatial resolution of 40 au. By applying a method of “mean surface density of companions” we find a characteristic spatial scale at ∼560 au, and we use this spatial scale to define the boundary of 19 “cores” in OMC-1S as groupings of millimeter sources. We find an additional characteristic spatial scale at ∼2800 au, which is the typical scale of the filaments in OMC-1S, suggesting a two-level fragmentation process. We measured the fragmentation level within each core and find a higher fragmentation toward the southern filament. In addition, the cores of the southern filament are also the densest cores (within 1100 au) in OMC-1S. This is fully consistent with previous studies of fragmentation at spatial scales one order of magnitude larger, and suggests that fragmentation down to 40 au seems to be governed by thermal Jeans processes in OMC-1S.

Density functional theory fragment descriptors to quantify the reactivity of a molecular family: application to amino acids.

PubMed

Senet, P; Aparicio, F

2007-04-14

By using the exact density functional theory, one demonstrates that the value of the local electronic softness of a molecular fragment is directly related to the polarization charge (Coulomb hole) induced by a test electron removed (or added) from (at) the fragment. Our finding generalizes to a chemical group a formal relation between these molecular descriptors recently obtained for an atom in a molecule using an approximate atomistic model [P. Senet and M. Yang, J. Chem. Sci. 117, 411 (2005)]. In addition, a practical ab initio computational scheme of the Coulomb hole and related local descriptors of reactivity of a molecular family having in common a similar fragment is presented. As a blind test, the method is applied to the lateral chains of the 20 isolated amino acids. One demonstrates that the local softness of the lateral chain is a quantitative measure of the similarity of the amino acids. It predicts the separation of amino acids in different biochemical groups (aliphatic, basic, acidic, sulfur contained, and aromatic). The present approach may find applications in quantitative structure activity relationship methodology.

Peering into the heart of galactic star formation: A detailed characterization of infrared-dark clouds

NASA Astrophysics Data System (ADS)

Ragan, Sarah E.

2009-09-01

Everything we know about other galaxies is based on light from massive stars, yet, in our own Galaxy, it's the formation of massive stars that is the least understood. Star formation studies to date have focused on nearby, low-mass regions, but the bulk of star formation takes place in massive clusters, which takes place primarily in the inner-Galaxy, where the bulk of the molecular gas resides. To learn about the conditions under which massive clusters form, we seek out their precursors, called infrared-dark clouds (IRDCs). We present the results of a high-resolution multi-wavelength observational study of IRDCs, which vastly improves our knowledge of the initial conditions of cluster formation. Beginning with IRDC candidates identified with Midcourse Science Experiment (MSX) survey data, we map 41 IRDCs in the N 2 H + 1 [arrow right] 0, CS 2 [arrow right] 1 and C 18 O 1 [arrow right] 0 molecular transitions using the Five College Radio Astronomy Observatory. We examine the stellar content and absorption structure with Spitzer Space Telescope observations of eleven IRDCs, and we use Very Large Array NH 3 observations to probe the kinematics and chemistry of six IRDCs. Our comprehensive high-resolution study of IRDCs confirms that these objects are cold and dense precursors to massive stars and clusters. For the first time. we quantify IRDC sub-structure on sub-parsec scales and show the kinematic structure of IRDCs is diverse and depends on associated local star- formation activity. Overall, IRDCs exhibit non-thermal dynamics, suggesting that turbulence and systematic motions dominate. IRDC temperatures are between 8 and 16 K and are mostly flat with hints of a rise near the edges due to external heating. This study shows that IRDCs are a unique star-forming environment, one that dominates the star formation in the Milky Way. Using high-resolution observations, we have quantified the structure, star formation, kinematics, and chemistry of infrared-dark clouds. Our study of sub- structure in particular shows that IRDCs are undergoing fragmentation and are the precursors to star clusters, and thus we have placed IRDCs in context with Galactic star formation. The characterization presented here offers new constraints on theories of molecular cloud fragmentation and clustered star formation.

The chemistry in circumstellar envelopes of evolved stars: following the origin of the elements to the origin of life.

PubMed

Ziurys, Lucy M

2006-08-15

Mass loss from evolved stars results in the formation of unusual chemical laboratories: circumstellar envelopes. Such envelopes are found around carbon- and oxygen-rich asymptotic giant branch stars and red supergiants. As the gaseous material of the envelope flows from the star, the resulting temperature and density gradients create a complex chemical environment involving hot, thermodynamically controlled synthesis, molecule "freeze-out," shock-initiated reactions, and photochemistry governed by radical mechanisms. In the circumstellar envelope of the carbon-rich star IRC+10216, >50 different chemical compounds have been identified, including such exotic species as C(8)H, C(3)S, SiC(3), and AlNC. The chemistry here is dominated by molecules containing long carbon chains, silicon, and metals such as magnesium, sodium, and aluminum, which makes it quite distinct from that found in molecular clouds. The molecular composition of the oxygen-rich counterparts is not nearly as well explored, although recent studies of VY Canis Majoris have resulted in the identification of HCO(+), SO(2), and even NaCl in this object, suggesting chemical complexity here as well. As these envelopes evolve into planetary nebulae with a hot, exposed central star, synthesis of molecular ions becomes important, as indicated by studies of NGC 7027. Numerous species such as HCO(+), HCN, and CCH are found in old planetary nebulae such as the Helix. This "survivor" molecular material may be linked to the variety of compounds found recently in diffuse clouds. Organic molecules in dense interstellar clouds may ultimately be traced back to carbon-rich fragments originally formed in circumstellar shells.

Comparative Phylogeographic Analyses Illustrate the Complex Evolutionary History of Threatened Cloud Forests of Northern Mesoamerica

PubMed Central

Ornelas, Juan Francisco; Sosa, Victoria; Soltis, Douglas E.; Daza, Juan M.; González, Clementina; Soltis, Pamela S.; Gutiérrez-Rodríguez, Carla; de los Monteros, Alejandro Espinosa; Castoe, Todd A.; Bell, Charles; Ruiz-Sanchez, Eduardo

2013-01-01

Comparative phylogeography can elucidate the influence of historical events on current patterns of biodiversity and can identify patterns of co-vicariance among unrelated taxa that span the same geographic areas. Here we analyze temporal and spatial divergence patterns of cloud forest plant and animal species and relate them to the evolutionary history of naturally fragmented cloud forests–among the most threatened vegetation types in northern Mesoamerica. We used comparative phylogeographic analyses to identify patterns of co-vicariance in taxa that share geographic ranges across cloud forest habitats and to elucidate the influence of historical events on current patterns of biodiversity. We document temporal and spatial genetic divergence of 15 species (including seed plants, birds and rodents), and relate them to the evolutionary history of the naturally fragmented cloud forests. We used fossil-calibrated genealogies, coalescent-based divergence time inference, and estimates of gene flow to assess the permeability of putative barriers to gene flow. We also used the hierarchical Approximate Bayesian Computation (HABC) method implemented in the program msBayes to test simultaneous versus non-simultaneous divergence of the cloud forest lineages. Our results show shared phylogeographic breaks that correspond to the Isthmus of Tehuantepec, Los Tuxtlas, and the Chiapas Central Depression, with the Isthmus representing the most frequently shared break among taxa. However, dating analyses suggest that the phylogeographic breaks corresponding to the Isthmus occurred at different times in different taxa. Current divergence patterns are therefore consistent with the hypothesis of broad vicariance across the Isthmus of Tehuantepec derived from different mechanisms operating at different times. This study, coupled with existing data on divergence cloud forest species, indicates that the evolutionary history of contemporary cloud forest lineages is complex and often lineage-specific, and thus difficult to capture in a simple conservation strategy. PMID:23409165

Pillars and globules at the edges of H ii regions. Confronting Herschel observations and numerical simulations

NASA Astrophysics Data System (ADS)

Tremblin, P.; Minier, V.; Schneider, N.; Audit, E.; Hill, T.; Didelon, P.; Peretto, N.; Arzoumanian, D.; Motte, F.; Zavagno, A.; Bontemps, S.; Anderson, L. D.; André, Ph.; Bernard, J. P.; Csengeri, T.; Di Francesco, J.; Elia, D.; Hennemann, M.; Könyves, V.; Marston, A. P.; Nguyen Luong, Q.; Rivera-Ingraham, A.; Roussel, H.; Sousbie, T.; Spinoglio, L.; White, G. J.; Williams, J.

2013-12-01

Context. Herschel far-infrared imaging observations have revealed the density structure of the interface between H ii regions and molecular clouds in great detail. In particular, pillars and globules are present in many high-mass star-forming regions, such as the Eagle nebula (M 16) and the Rosette molecular cloud, and understanding their origin will help characterize triggered star formation. Aims: The formation mechanisms of these structures are still being debated. The initial morphology of the molecular cloud and its turbulent state are key parameters since they generate deformations and curvatures of the shell during the expansion of the H ii region. Recent numerical simulations have shown how pillars can arise from the collapse of the shell in on itself and how globules can be formed from the interplay of the turbulent molecular cloud and the ionization from massive stars. The goal here is to test this scenario through recent observations of two massive star-forming regions, M 16 and the Rosette molecular cloud. Methods: First, the column density structure of the interface between molecular clouds and associated H ii regions was characterized using column density maps obtained from far-infrared imaging of the Herschel HOBYS key programme. Then, the DisPerSe algorithm was used on these maps to detect the compressed layers around the ionized gas and pillars in different evolutionary states. Column density profiles were constructed. Finally, their velocity structure was investigated using CO data, and all observational signatures were tested against some distinct diagnostics established from simulations. Results: The column density profiles have revealed the importance of compression at the edge of the ionized gas. The velocity properties of the structures, i.e. pillars and globules, are very close to what we predict from the numerical simulations. We have identified a good candidate of a nascent pillar in the Rosette molecular cloud that presents the velocity pattern of the shell collapsing on itself, induced by a high local curvature. Globules have a bulk velocity dispersion that indicates the importance of the initial turbulence in their formation, as proposed from numerical simulations. Altogether, this study re-enforces the picture of pillar formation by shell collapse and globule formation by the ionization of highly turbulent clouds. Herschel is an ESA space observatory with science instruments provided by European-led Principal Investigator consortia and with important participation from NASA.

NGVLA Observations of Dense Gas Filaments in Star-Forming Regions

NASA Astrophysics Data System (ADS)

Di Francesco, James; Chen, Mike; Keown, Jared; GAS Team, KEYSTONE Team

2018-01-01

Recent observations of continuum emission from nearby star-forming regions with Herschel and JCMT have revealed that filaments are ubiquitous structures within molecular clouds. Such filaments appear to be intimately connected to star formation, with those having column densities of AV > 8 hosting the majority of prestellar cores and young protostars in clouds. Indeed, this “threshold” can be explained simply as the result of supercritical cylinder fragmentation. How specifically star-forming filaments form in molecular clouds, however, remains unclear, though gravity and turbulence are likely involved. Observations of their kinematics are needed to understand how mass flows both onto and through these filaments. We show here results from two recent surveys, the Green Bank Ammonia Survey (GAS) and the K-band Examinations of Young Stellar Object Natal Environments (KEYSTONE) that have used the Green Bank Telescope’s K-band Focal Plane Array instrument to map NH3 (1,1) emission from dense gas in nearby star-forming regions. Data from both surveys show that NH3 emission traces extremely well the high column density gas across these star-forming regions. In particular, the GAS results for NGC 1333 show NH3-based velocity gradients either predominantly parallel or perpendicular to the filament spines. Though the GAS and KEYSTONE data are vital for probing filaments, higher resolutions than possible with the GBT alone are needed to examine the kinematic patterns on the 0.1-pc scales of star-forming cores within filaments. We describe how the Next Generation Very Large Array (NGVLA) will uniquely provide the key wide-field data of high sensitivity needed to explore how ambient gas in molecular clouds forms filaments that evolve toward star formation.

Investigating the structure and fragmentation of a highly filamentary IRDC

NASA Astrophysics Data System (ADS)

Henshaw, J. D.; Caselli, P.; Fontani, F.; Jiménez-Serra, I.; Tan, J. C.; Longmore, S. N.; Pineda, J. E.; Parker, R. J.; Barnes, A. T.

2016-11-01

We present 3.7 arcsec (˜0.05 pc) resolution 3.2 mm dust continuum observations from the Institut de Radioastronomie Millimétrique Plateau de Bure Interferometer, with the aim of studying the structure and fragmentation of the filamentary infrared dark cloud (IRDC) G035.39-00.33. The continuum emission is segmented into a series of 13 quasi-regularly spaced (λobs ˜ 0.18 pc) cores, following the major axis of the IRDC. We compare the spatial distribution of the cores with that predicted by theoretical work describing the fragmentation of hydrodynamic fluid cylinders, finding a significant (a factor of ≳ 8) discrepancy between the two. Our observations are consistent with the picture emerging from kinematic studies of molecular clouds suggesting that the cores are harboured within a complex network of independent sub-filaments. This result emphasizes the importance of considering the underlying physical structure, and potentially, dynamically important magnetic fields, in any fragmentation analysis. The identified cores exhibit a range in (peak) beam-averaged column density (3.6 × 1023 cm-2 < NH, c < 8.0 × 1023 cm-2), mass (8.1 M⊙ < Mc < 26.1 M⊙), and number density (6.1 × 105 cm-3 < nH, c, eq < 14.7 × 105 cm-3). Two of these cores, dark in the mid-infrared, centrally concentrated, monolithic (with no traceable substructure at our PdBI resolution), and with estimated masses of the order ˜20-25 M⊙, are good candidates for the progenitors of intermediate-to-high-mass stars. Virial parameters span a range 0.2 < αvir < 1.3. Without additional support, possibly from dynamically important magnetic fields with strengths of the order of 230 μG < B < 670 μG, the cores are susceptible to gravitational collapse. These results may imply a multilayered fragmentation process, which incorporates the formation of sub-filaments, embedded cores, and the possibility of further fragmentation.

Fragmentation of a Filamentary Cloud Permeated by a Perpendicular Magnetic Field

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hanawa, Tomoyuki; Kudoh, Takahiro; Tomisaka, Kohji

We examine the linear stability of an isothermal filamentary cloud permeated by a perpendicular magnetic field. Our model cloud is assumed to be supported by gas pressure against self-gravity in the unperturbed state. For simplicity, the density distribution is assumed to be symmetric around the axis. Also for simplicity, the initial magnetic field is assumed to be uniform, and turbulence is not taken into account. The perturbation equation is formulated to be an eigenvalue problem. The growth rate is obtained as a function of the wavenumber for fragmentation along the axis and the magnetic field strength. The growth rate dependsmore » critically on the outer boundary. If the displacement vanishes in regions very far from the cloud axis (fixed boundary), cloud fragmentation is suppressed by a moderate magnetic field, which means the plasma beta is below 1.67 on the cloud axis. If the displacement is constant along the magnetic field in regions very far from the cloud, the cloud is unstable even when the magnetic field is infinitely strong. The cloud is deformed by circulation in the plane perpendicular to the magnetic field. The unstable mode is not likely to induce dynamical collapse, since it is excited even when the whole cloud is magnetically subcritical. For both boundary conditions, the magnetic field increases the wavelength of the most unstable mode. We find that the magnetic force suppresses compression perpendicular to the magnetic field especially in regions of low density.« less

The Relationship Between Infrared Dark Cloud and Stellar Properties

NASA Astrophysics Data System (ADS)

Calahan, Jenny; Hora, Joseph L.

2018-01-01

Massive stars are known to form within infrared dark clouds (IRDCs), but many details about how molecular clouds collapse and form stars remain poorly understood.We determine the relationship between the dark cloud mass and the population of young stellar objects (YSOs) associated with the cloud to shed light on the physical processes occurring within these star forming regions. We chose to use a sample of IRDCs and YSOs within the Cygnus-X region, a close-by giant star formation complex that has every stage of star formation represented. Using observations from IRAC, MIPS, PACS, and SPIRE on Spitzer and Herschel we identified a sample of 30,903 YSOs and 167 IRDCs. We derived the class of each YSO as well as the mass of YSO and IRDCs from the flux information. Using these parameters, as well as their locations in the cloud, we were sorted IRDC fragments into larger filaments and associate a set of YSOs with each IRDC. By measuring and comparing parameters such as YSO total mass, number of YSOs, Class 0, Class I, and Class II populations, distance from host filament, and filament mass we tested for correlations between the YSO and IRDC parameters. Using this treasure trove of information, we find that Class 0 and I objects are located more closely to their host IRDC than their Class II counterparts. We also find that high-density IRDCs are better environments for star formation than low-density IRDCs. However, we find no correlation between the total mass of the IRDC and the largest YSO mass in the IRDC, suggesting that IRDCs of any mass can have massive YSOs associated with them.The SAO REU program is funded by the National Science Foundation REU and Department of Defense ASSURE programs under NSF Grant AST-1659473, and by the Smithsonian Institution.

The TOP-SCOPE Survey of Planck Galactic Cold Clumps: Survey Overview and Results of an Exemplar Source, PGCC G26.53+0.17

NASA Astrophysics Data System (ADS)

Liu, Tie; Kim, Kee-Tae; Juvela, Mika; Wang, Ke; Tatematsu, Ken’ichi; Di Francesco, James; Liu, Sheng-Yuan; Wu, Yuefang; Thompson, Mark; Fuller, Gary; Eden, David; Li, Di; Ristorcelli, I.; Kang, Sung-ju; Lin, Yuxin; Johnstone, D.; He, J. H.; Koch, P. M.; Sanhueza, Patricio; Qin, Sheng-Li; Zhang, Q.; Hirano, N.; Goldsmith, Paul F.; Evans, Neal J., II; White, Glenn J.; Choi, Minho; Lee, Chang Won; Toth, L. V.; Mairs, Steve; Yi, H.-W.; Tang, Mengyao; Soam, Archana; Peretto, N.; Samal, Manash R.; Fich, Michel; Parsons, Harriet; Yuan, Jinghua; Zhang, Chuan-Peng; Malinen, Johanna; Bendo, George J.; Rivera-Ingraham, A.; Liu, Hong-Li; Wouterloot, Jan; Li, Pak Shing; Qian, Lei; Rawlings, Jonathan; Rawlings, Mark G.; Feng, Siyi; Aikawa, Yuri; Akhter, S.; Alina, Dana; Bell, Graham; Bernard, J.-P.; Blain, Andrew; Bőgner, Rebeka; Bronfman, L.; Byun, D.-Y.; Chapman, Scott; Chen, Huei-Ru; Chen, M.; Chen, Wen-Ping; Chen, X.; Chen, Xuepeng; Chrysostomou, A.; Cosentino, Giuliana; Cunningham, M. R.; Demyk, K.; Drabek-Maunder, Emily; Doi, Yasuo; Eswaraiah, C.; Falgarone, Edith; Fehér, O.; Fraser, Helen; Friberg, Per; Garay, G.; Ge, J. X.; Gear, W. K.; Greaves, Jane; Guan, X.; Harvey-Smith, Lisa; HASEGAWA, Tetsuo; Hatchell, J.; He, Yuxin; Henkel, C.; Hirota, T.; Holland, W.; Hughes, A.; Jarken, E.; Ji, Tae-Geun; Jimenez-Serra, Izaskun; Kang, Miju; Kawabata, Koji S.; Kim, Gwanjeong; Kim, Jungha; Kim, Jongsoo; Kim, Shinyoung; Koo, B.-C.; Kwon, Woojin; Kuan, Yi-Jehng; Lacaille, K. M.; Lai, Shih-Ping; Lee, C. F.; Lee, J.-E.; Lee, Y.-U.; Li, Dalei; Li, Hua-bai; Lo, N.; Lopez, John A. P.; Lu, Xing; Lyo, A.-Ran; Mardones, D.; Marston, A.; McGehee, P.; Meng, F.; Montier, L.; Montillaud, Julien; Moore, T.; Morata, O.; Moriarty-Schieven, Gerald H.; Ohashi, S.; Pak, Soojong; Park, Geumsook; Paladini, R.; Pattle, Kate M.; Pech, Gerardo; Pelkonen, V.-M.; Qiu, K.; Ren, Zhi-Yuan; Richer, John; Saito, M.; Sakai, Takeshi; Shang, H.; Shinnaga, Hiroko; Stamatellos, Dimitris; Tang, Y.-W.; Traficante, Alessio; Vastel, Charlotte; Viti, S.; Walsh, Andrew; Wang, Bingru; Wang, Hongchi; Wang, Junzhi; Ward-Thompson, D.; Whitworth, Anthony; Xu, Ye; Yang, J.; Yang, Yao-Lun; Yuan, Lixia; Zavagno, A.; Zhang, Guoyin; Zhang, H.-W.; Zhou, Chenlin; Zhou, Jianjun; Zhu, Lei; Zuo, Pei; Zhang, Chao

2018-02-01

The low dust temperatures (<14 K) of Planck Galactic cold clumps (PGCCs) make them ideal targets to probe the initial conditions and very early phase of star formation. “TOP-SCOPE” is a joint survey program targeting ∼2000 PGCCs in J = 1–0 transitions of CO isotopologues and ∼1000 PGCCs in 850 μm continuum emission. The objective of the “TOP-SCOPE” survey and the joint surveys (SMT 10 m, KVN 21 m, and NRO 45 m) is to statistically study the initial conditions occurring during star formation and the evolution of molecular clouds, across a wide range of environments. The observations, data analysis, and example science cases for these surveys are introduced with an exemplar source, PGCC G26.53+0.17 (G26), which is a filamentary infrared dark cloud (IRDC). The total mass, length, and mean line mass (M/L) of the G26 filament are ∼6200 M ⊙, ∼12 pc, and ∼500 M ⊙ pc‑1, respectively. Ten massive clumps, including eight starless ones, are found along the filament. The most massive clump as a whole may still be in global collapse, while its denser part seems to be undergoing expansion owing to outflow feedback. The fragmentation in the G26 filament from cloud scale to clump scale is in agreement with gravitational fragmentation of an isothermal, nonmagnetized, and turbulent supported cylinder. A bimodal behavior in dust emissivity spectral index (β) distribution is found in G26, suggesting grain growth along the filament. The G26 filament may be formed owing to large-scale compression flows evidenced by the temperature and velocity gradients across its natal cloud.

The chemistry in circumstellar envelopes of evolved stars: Following the origin of the elements to the origin of life

PubMed Central

Ziurys, Lucy M.

2006-01-01

Mass loss from evolved stars results in the formation of unusual chemical laboratories: circumstellar envelopes. Such envelopes are found around carbon- and oxygen-rich asymptotic giant branch stars and red supergiants. As the gaseous material of the envelope flows from the star, the resulting temperature and density gradients create a complex chemical environment involving hot, thermodynamically controlled synthesis, molecule “freeze-out,” shock-initiated reactions, and photochemistry governed by radical mechanisms. In the circumstellar envelope of the carbon-rich star IRC+10216, >50 different chemical compounds have been identified, including such exotic species as C8H, C3S, SiC3, and AlNC. The chemistry here is dominated by molecules containing long carbon chains, silicon, and metals such as magnesium, sodium, and aluminum, which makes it quite distinct from that found in molecular clouds. The molecular composition of the oxygen-rich counterparts is not nearly as well explored, although recent studies of VY Canis Majoris have resulted in the identification of HCO+, SO2, and even NaCl in this object, suggesting chemical complexity here as well. As these envelopes evolve into planetary nebulae with a hot, exposed central star, synthesis of molecular ions becomes important, as indicated by studies of NGC 7027. Numerous species such as HCO+, HCN, and CCH are found in old planetary nebulae such as the Helix. This “survivor” molecular material may be linked to the variety of compounds found recently in diffuse clouds. Organic molecules in dense interstellar clouds may ultimately be traced back to carbon-rich fragments originally formed in circumstellar shells. PMID:16894164

Interstellar Chemistry Special Feature: The chemistry in circumstellar envelopes of evolved stars: Following the origin of the elements to the origin of life

NASA Astrophysics Data System (ADS)

Ziurys, Lucy M.

2006-08-01

Mass loss from evolved stars results in the formation of unusual chemical laboratories: circumstellar envelopes. Such envelopes are found around carbon- and oxygen-rich asymptotic giant branch stars and red supergiants. As the gaseous material of the envelope flows from the star, the resulting temperature and density gradients create a complex chemical environment involving hot, thermodynamically controlled synthesis, molecule "freeze-out," shock-initiated reactions, and photochemistry governed by radical mechanisms. In the circumstellar envelope of the carbon-rich star IRC+10216, >50 different chemical compounds have been identified, including such exotic species as C8H, C3S, SiC3, and AlNC. The chemistry here is dominated by molecules containing long carbon chains, silicon, and metals such as magnesium, sodium, and aluminum, which makes it quite distinct from that found in molecular clouds. The molecular composition of the oxygen-rich counterparts is not nearly as well explored, although recent studies of VY Canis Majoris have resulted in the identification of HCO+, SO2, and even NaCl in this object, suggesting chemical complexity here as well. As these envelopes evolve into planetary nebulae with a hot, exposed central star, synthesis of molecular ions becomes important, as indicated by studies of NGC 7027. Numerous species such as HCO+, HCN, and CCH are found in old planetary nebulae such as the Helix. This "survivor" molecular material may be linked to the variety of compounds found recently in diffuse clouds. Organic molecules in dense interstellar clouds may ultimately be traced back to carbon-rich fragments originally formed in circumstellar shells.

Scales of Star Formation: Does Local Environment Matter?

NASA Astrophysics Data System (ADS)

Bittle, Lauren

2018-01-01

I will present my work on measuring molecular gas properties in local universe galaxies to assess the impact of local environment on the gas and thus star formation. I will also discuss the gas properties on spatial scales that span an order of magnitude to best understand the layers of star formation processes. Local environments within these galaxies include external mechanisms from starburst supernova shells, spiral arm structure, and superstar cluster radiation. Observations of CO giant molecular clouds (GMC) of ~150pc resolution in IC 10, the Local Group dwarf starburst, probe the large-scale diffuse gas, some of which are near supernova bubble ridges. We mapped CO clouds across the spiral NGC 7793 at intermediate scales of ~20pc resolution with ALMA. With the clouds, we can test theories of cloud formation and destruction in relation to the spiral arm pattern and cluster population from the HST LEGUS analysis. Addressing the smallest scales, I will show results of 30 Doradus ALMA observations of sub-parsec dense molecular gas clumps only 15pc away from a superstar cluster R136. Though star formation occurs directly from the collapse of densest molecular gas, we test theories of scale-free star formation, which suggests a constant slope of the mass function from ~150pc GMCs to sub-parsec clumps. Probing environments including starburst supernova shells, spiral arm structure, and superstar cluster radiation shed light on how these local external mechanisms affect the molecular gas at various scales of star formation.

Morphological diagnostics of star formation in molecular clouds

NASA Astrophysics Data System (ADS)

Beaumont, Christopher Norris

Molecular clouds are the birth sites of all star formation in the present-day universe. They represent the initial conditions of star formation, and are the primary medium by which stars transfer energy and momentum back to parsec scales. Yet, the physical evolution of molecular clouds remains poorly understood. This is not due to a lack of observational data, nor is it due to an inability to simulate the conditions inside molecular clouds. Instead, the physics and structure of the interstellar medium are sufficiently complex that interpreting molecular cloud data is very difficult. This dissertation mitigates this problem, by developing more sophisticated ways to interpret morphological information in molecular cloud observations and simulations. In particular, I have focused on leveraging machine learning techniques to identify physically meaningful substructures in the interstellar medium, as well as techniques to inter-compare molecular cloud simulations to observations. These contributions make it easier to understand the interplay between molecular clouds and star formation. Specific contributions include: new insight about the sheet-like geometry of molecular clouds based on observations of stellar bubbles; a new algorithm to disambiguate overlapping yet morphologically distinct cloud structures; a new perspective on the relationship between molecular cloud column density distributions and the sizes of cloud substructures; a quantitative analysis of how projection effects affect measurements of cloud properties; and an automatically generated, statistically-calibrated catalog of bubbles identified from their infrared morphologies.

XUV-induced reactions in benzene on sub-10 fs timescale: nonadiabatic relaxation and proton migration.

PubMed

Galbraith, M C E; Smeenk, C T L; Reitsma, G; Marciniak, A; Despré, V; Mikosch, J; Zhavoronkov, N; Vrakking, M J J; Kornilov, O; Lépine, F

2017-08-02

Unraveling ultrafast dynamical processes in highly excited molecular species has an impact on our understanding of chemical processes such as combustion or the chemical composition of molecular clouds in the universe. In this article we use short (<7 fs) XUV pulses to produce excited cationic states of benzene molecules and probe their dynamics using few-cycle VIS/NIR laser pulses. The excited states produced by the XUV pulses lie in an especially complex spectral region where multi-electronic effects play a dominant role. We show that very fast τ ≈ 20 fs nonadiabatic processes dominate the relaxation of these states, in agreement with the timescale expected for most excited cationic states in benzene. In the CH 3 + fragmentation channel of the doubly ionized benzene cation we identify pathways that involve structural rearrangement and proton migration to a specific carbon atom. Further, we observe non-trivial transient behavior in this fragment channel, which can be interpreted either in terms of propagation of the nuclear wavepacket in the initially excited electronic state of the cation or as a two-step electronic relaxation via an intermediate state.

GEOMETRY-INDEPENDENT DETERMINATION OF RADIAL DENSITY DISTRIBUTIONS IN MOLECULAR CLOUD CORES AND OTHER ASTRONOMICAL OBJECTS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Krčo, Marko; Goldsmith, Paul F., E-mail: marko@astro.cornell.edu

2016-05-01

We present a geometry-independent method for determining the shapes of radial volume density profiles of astronomical objects whose geometries are unknown, based on a single column density map. Such profiles are often critical to understand the physics and chemistry of molecular cloud cores, in which star formation takes place. The method presented here does not assume any geometry for the object being studied, thus removing a significant source of bias. Instead, it exploits contour self-similarity in column density maps, which appears to be common in data for astronomical objects. Our method may be applied to many types of astronomical objectsmore » and observable quantities so long as they satisfy a limited set of conditions, which we describe in detail. We derive the method analytically, test it numerically, and illustrate its utility using 2MASS-derived dust extinction in molecular cloud cores. While not having made an extensive comparison of different density profiles, we find that the overall radial density distribution within molecular cloud cores is adequately described by an attenuated power law.« less

Interstellar C2, CH, and CN in translucent molecular clouds

NASA Technical Reports Server (NTRS)

Black, John H.; Van Dishoeck, Ewine F.

1989-01-01

Optical absorption-line techniques have been applied to the study of a number of translucent molecular clouds in which the total column densities are large enough that substantial molecular abundances can be maintained. Results are presented for a survey of absorption lines of interstellar C2, CH, and CN. Detections of CN through the A 2Pi-X 2Sigma(+) (1,O) and (2,O) bands of the red system are reported and compared with observations of the violet system for one line of sight. The population distributions in C2 provide diagnostic information on temperature and density. The measured column densities of the three species can be used to test details of the theory of molecule formation in clouds where photoprocesses still play a significant role. The C2 and CH column densities are strongly correlated with each other and probably also with the H2 column density. In contrast, the CN column densities are found to vary greatly from cloud to cloud. The observations are discussed with reference to detailed theoretical models.

Simulations of star-forming molecular clouds: observational predictions

NASA Astrophysics Data System (ADS)

Zhang, Shangjia; Hartmann, Lee; Kuznetsova, Aleksandra; Abelardo Zamora, Manuel

2018-01-01

Observations of protostellar molecular cloud cores can be used to test theories of star formation. However, observational results can be biased because of limited information: (a) only two spatial dimensions and one velocity dimension can be measured, (b) and cores generally are not spherically symmetric. We use numerical simulations of the formation and collapse of molecular gas with sink particles to make observational predictions. We use the radiative transfer code LIME to predict CO and NH3 channel maps. We find reasonable agreement with observed velocity structures and gradients but occasional large differences depending on viewing angle.

On projectile fragmentation at high-velocity perforation of a thin bumper

NASA Astrophysics Data System (ADS)

Myagkov, N. N.; Stepanov, V. V.

2014-09-01

By means of 3D numerical simulations, we study the statistical properties of the fragments cloud formed during high-velocity impact of a spherical projectile on a mesh bumper. We present a quantitative description of the projectile fragmentation, and study the nature of the transition from the damage to the fragmentation of the projectile when the impact velocity varies. A distinctive feature of the present work is that the calculations are carried out by smoothed particle hydrodynamics (SPH) method applied to the equations of mechanics of deformable solids (MDS). We describe the materials behavior by the Mie-Grüneisen equation of state and the Johnson-Cook model for the yield strength. The maximum principal stress spall model is used as the fracture model. It is shown that the simulation results of fragmentation based on the MDS equations by the SPH method are qualitatively consistent with the results obtained earlier on the basis of the molecular dynamics and discrete element models. It is found that the power-law distribution exponent does not depend on energy imparted to the projectile during the high-velocity impact. At the same time, our calculations show that the critical impact velocity, the power-law exponent and other critical exponents depend on the fracture criterion.

Fragmentation inside atomic cooling haloes exposed to Lyman-Werner radiation

NASA Astrophysics Data System (ADS)

Regan, John A.; Downes, Turlough P.

2018-04-01

Supermassive stars born in pristine environments in the early Universe hold the promise of being the seeds for the supermassive black holes observed as high redshift quasars shortly after the epoch of reionisation. H2 suppression is thought to be crucial in order to negate normal Population III star formation and allow high accretion rates to drive the formation of supermassive stars. Only in the cases where vigorous fragmentation is avoided will a monolithic collapse be successful, giving rise to a single massive central object. We investigate the number of fragmentation sites formed in collapsing atomic cooling haloes subject to various levels of background Lyman-Werner flux. The background Lyman-Werner flux manipulates the chemical properties of the gas in the collapsing halo by destroying H2. We find that only when the collapsing gas cloud shifts from the molecular to the atomic cooling regime is the degree of fragmentation suppressed. In our particular case, we find that this occurs above a critical Lyman-Werner background of J ˜ 10 J21. The important criterion being the transition to the atomic cooling regime rather than the actual value of J, which will vary locally. Once the temperature of the gas exceeds T ≳ 104 K and the gas transitions to atomic line cooling, then vigorous fragmentation is strongly suppressed.

AMR Studies of Star Formation: Simulations and Simulated Observations

NASA Astrophysics Data System (ADS)

Offner, Stella; McKee, C. F.; Klein, R. I.

2009-01-01

Molecular clouds are typically observed to be approximately virialized with gravitational and turbulent energy in balance, yielding a star formation rate of a few percent. The origin and characteristics of the observed supersonic turbulence are poorly understood, and without continued energy injection the turbulence is predicted to decay within a cloud dynamical time. Recent observations and analytic work have suggested a strong connection between the initial stellar mass function, the core mass function, and turbulence characteristics. The role of magnetic fields in determining core lifetimes, shapes, and kinematic properties remains hotly debated. Simulations are a formidable tool for studying the complex process of star formation and addressing these puzzles. I present my results modeling low-mass star formation using the ORION adaptive mesh refinement (AMR) code. I investigate the properties of forming cores and protostars in simulations in which the turbulence is driven to maintain virial balance and where it is allowed to decay. I will discuss simulated observations of cores in dust emission and in molecular tracers and compare to observations of local star-forming clouds. I will also present results from ORION cluster simulations including flux-limited diffusion radiative transfer and show that radiative feedback, even from low-mass stars, has a significant effect on core fragmentation, disk properties, and the IMF. Finally, I will discuss the new simulation frontier of AMR multigroup radiative transfer.

A general theory for the lifetimes of giant molecular clouds under the influence of galactic dynamics

NASA Astrophysics Data System (ADS)

Jeffreson, Sarah M. R.; Kruijssen, J. M. Diederik

2018-05-01

We propose a simple analytic theory for environmentally dependent molecular cloud lifetimes, based on the large-scale (galactic) dynamics of the interstellar medium. Within this theory, the cloud lifetime is set by the time-scales for gravitational collapse, galactic shear, spiral arm interactions, epicyclic perturbations, and cloud-cloud collisions. It is dependent on five observable quantities, accessible through measurements of the galactic rotation curve, the gas and stellar surface densities, and the gas and stellar velocity dispersions of the host galaxy. We determine how the relative importance of each dynamical mechanism varies throughout the space of observable galactic properties, and conclude that gravitational collapse and galactic shear play the greatest role in setting the cloud lifetime for the considered range of galaxy properties, while cloud-cloud collisions exert a much lesser influence. All five environmental mechanisms are nevertheless required to obtain a complete picture of cloud evolution. We apply our theory to the galaxies M31, M51, M83, and the Milky Way, and find a strong dependence of the cloud lifetime upon galactocentric radius in each case, with a typical cloud lifetime between 10 and 50 Myr. Our theory is ideally suited for systematic observational tests with the Atacama Large Millimetre/submillimetre array.

SHAPING THE BROWN DWARF DESERT: PREDICTING THE PRIMORDIAL BROWN DWARF BINARY DISTRIBUTIONS FROM TURBULENT FRAGMENTATION

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jumper, Peter H.; Fisher, Robert T., E-mail: robert.fisher@umassd.edu

2013-05-20

The formation of brown dwarfs (BDs) poses a key challenge to star formation theory. The observed dearth of nearby ({<=}5 AU) BD companions to solar mass stars, known as the BD desert, as well as the tendency for low-mass binary systems to be more tightly bound than stellar binaries, has been cited as evidence for distinct formation mechanisms for BDs and stars. In this paper, we explore the implications of the minimal hypothesis that BDs in binary systems originate via the same fundamental fragmentation mechanism as stars, within isolated, turbulent giant molecular cloud cores. We demonstrate analytically that the scalingmore » of specific angular momentum with turbulent core mass naturally gives rise to the BD desert, as well as wide BD binary systems. Further, we show that the turbulent core fragmentation model also naturally predicts that very low mass binary and BD/BD systems are more tightly bound than stellar systems. In addition, in order to capture the stochastic variation intrinsic to turbulence, we generate 10{sup 4} model turbulent cores with synthetic turbulent velocity fields to show that the turbulent fragmentation model accommodates a small fraction of binary BDs with wide separations, similar to observations. Indeed, the picture which emerges from the turbulent fragmentation model is that a single fragmentation mechanism may largely shape both stellar and BD binary distributions during formation.« less

Masses, luminosities and dynamics of galactic molecular clouds

NASA Technical Reports Server (NTRS)

Solomon, P. M.; Rivolo, A. R.; Mooney, T. J.; Barrett, J. W.; Sage, L. J.

1987-01-01

Star formation in galaxies takes place in molecular clouds and the Milky Way is the only galaxy in which it is possible to resolve and study the physical properties and star formation activity of individual clouds. The masses, luminosities, dynamics, and distribution of molecular clouds, primarily giant molecular clouds in the Milky Way are described and analyzed. The observational data sets are the Massachusetts-Stony Brook CO Galactic Plane Survey and the IRAS far IR images. The molecular mass and infrared luminosities of glactic clouds are then compared with the molecular mass and infrared luminosities of external galaxies.

Interstellar Isotopes: Prospects with ALMA

NASA Technical Reports Server (NTRS)

Charnley Steven B.

2010-01-01

Cold molecular clouds are natural environments for the enrichment of interstellar molecules in the heavy isotopes of H, C, N and O. Anomalously fractionated isotopic material is found in many primitive Solar System objects, such as meteorites and comets, that may trace interstellar matter that was incorporated into the Solar Nebula without undergoing significant processing. Models of the fractionation chemistry of H, C, N and O in dense molecular clouds, particularly in cores where substantial freeze-out of molecules on to dust has occurred, make several predictions that can be tested in the near future by molecular line observations. The range of fractionation ratios expected in different interstellar molecules will be discussed and the capabilities of ALMA for testing these models (e.g. in observing doubly-substituted isotopologues) will be outlined.

The Central Molecular Zone of the Milky Way: Lessons about Star Formation from an extreme Environment

NASA Astrophysics Data System (ADS)

Kauffmann, Jens; Thushara Pillai, G. S.; Zhang, Qizhou; Lu, Xing; Immer, Katharina

2015-08-01

The Central Molecular Zone of the Milky Way (CMZ; innermost ~100pc) hosts a number of remarkably dense and massive clouds. These are subject to extreme environmental conditions, including very high cosmic ray fluxes and strong magnetic fields. Exploring star formation under such exceptional circumstances is essential for several of reasons. First, the CMZ permits to probe an extreme point in the star formation parameter space, which helps to test theoretical models. Second, CMZ clouds might help to understand the star formation under extreme conditions in more distant environments, such as in starbursts and the early universe.One particularly striking aspect is that — compared to the solar neighborhood — CMZ star formation in dense gas is suppressed by more than an order of magnitude (Longmore et al. 2012, Kauffmann et al. 2013). This questions current explanations for relations between the dense gas and the star formation rate (e.g., Gao & Solomon 2004, Lada et al. 2012). In other words, the unusually dense and massive CMZ molecular clouds form only very few stars, if any at all. Why is this so?Based on data from ALMA, CARMA, and SMA interferometers, we present results from the Galactic Center Molecular Cloud Survey (GCMS), the first study of a comprehensive sample of molecular clouds in the CMZ. This research yields a curious result: most of the major CMZ clouds are essentially devoid of significant substructure of the sort usually found in regions of high-mass star formation (Kauffmann et al. 2013). Preliminary analysis indicates that some clouds rather resemble homogeneous balls of gas. This suggests a highly dynamic picture of cloud evolution in the CMZ where clouds form, disperse, and re-assemble constantly. This concept is benchmarked against a new ALMA survey and first results from a legacy survey on the SMA.It is plausible that dense clouds in other galaxies have a similar internal structure. Instruments like ALMA and the JWST will soon permit to resolve such regions in nearby galaxies.

HOW GALACTIC ENVIRONMENT REGULATES STAR FORMATION

DOE Office of Scientific and Technical Information (OSTI.GOV)

Meidt, Sharon E.

2016-02-10

In a new simple model I reconcile two contradictory views on the factors that determine the rate at which molecular clouds form stars—internal structure versus external, environmental influences—providing a unified picture for the regulation of star formation in galaxies. In the presence of external pressure, the pressure gradient set up within a self-gravitating turbulent (isothermal) cloud leads to a non-uniform density distribution. Thus the local environment of a cloud influences its internal structure. In the simple equilibrium model, the fraction of gas at high density in the cloud interior is determined simply by the cloud surface density, which is itselfmore » inherited from the pressure in the immediate surroundings. This idea is tested using measurements of the properties of local clouds, which are found to show remarkable agreement with the simple equilibrium model. The model also naturally predicts the star formation relation observed on cloud scales and at the same time provides a mapping between this relation and the closer-to-linear molecular star formation relation measured on larger scales in galaxies. The key is that pressure regulates not only the molecular content of the ISM but also the cloud surface density. I provide a straightforward prescription for the pressure regulation of star formation that can be directly implemented in numerical models. Predictions for the dense gas fraction and star formation efficiency measured on large-scales within galaxies are also presented, establishing the basis for a new picture of star formation regulated by galactic environment.« less

Star formation in globular clusters and dwarf galaxies and implications for the early evolution of galaxies

NASA Technical Reports Server (NTRS)

Lin, Douglas N. C.; Murray, Stephen D.

1991-01-01

Based upon the observed properties of globular clusters and dwarf galaxies in the Local Group, we present important theoretical constraints on star formation in these systems. These constraints indicate that protoglobular cluster clouds had long dormant periods and a brief epoch of violent star formation. Collisions between protocluster clouds triggered fragmentation into individual stars. Most protocluster clouds dispersed into the Galactic halo during the star formation epoch. In contrast, the large spread in stellar metallicity in dwarf galaxies suggests that star formation in their pregenitors was self-regulated: we propose the protocluster clouds formed from thermal instability in the protogalactic clouds and show that a population of massive stars is needed to provide sufficient UV flux to prevent the collapsing protogalactic clouds from fragmenting into individual stars. Based upon these constraints, we propose a unified scenario to describe the early epochs of star formation in the Galactic halo as well as the thick and thin components of the Galactic disk.

A comparison of shock-cloud and wind-cloud interactions: effect of increased cloud density contrast on cloud evolution

NASA Astrophysics Data System (ADS)

Goldsmith, K. J. A.; Pittard, J. M.

2018-05-01

The similarities, or otherwise, of a shock or wind interacting with a cloud of density contrast χ = 10 were explored in a previous paper. Here, we investigate such interactions with clouds of higher density contrast. We compare the adiabatic hydrodynamic interaction of a Mach 10 shock with a spherical cloud of χ = 103 with that of a cloud embedded in a wind with identical parameters to the post-shock flow. We find that initially there are only minor morphological differences between the shock-cloud and wind-cloud interactions, compared to when χ = 10. However, once the transmitted shock exits the cloud, the development of a turbulent wake and fragmentation of the cloud differs between the two simulations. On increasing the wind Mach number, we note the development of a thin, smooth tail of cloud material, which is then disrupted by the fragmentation of the cloud core and subsequent `mass-loading' of the flow. We find that the normalized cloud mixing time (tmix) is shorter at higher χ. However, a strong Mach number dependence on tmix and the normalized cloud drag time, t_{drag}^' }, is not observed. Mach-number-dependent values of tmix and t_{drag}^' } from comparable shock-cloud interactions converge towards the Mach-number-independent time-scales of the wind-cloud simulations. We find that high χ clouds can be accelerated up to 80-90 per cent of the wind velocity and travel large distances before being significantly mixed. However, complete mixing is not achieved in our simulations and at late times the flow remains perturbed.

Towards Reconstructing a Doric Column in a Virtual Construction Site

NASA Astrophysics Data System (ADS)

Bartzis, D.

2017-02-01

This paper deals with the 3D reconstruction of ancient Greek architectural members, especially with the element of the Doric column. The case study for this project is the Choragic monument of Nicias on the South Slope of the Athenian Acropolis, from which a column drum, two capitals and smaller fragments are preserved. The first goal of this paper is to present some benefits of using 3D reconstruction methods not only in documentation but also in understanding of ancient Greek architectural members. The second goal is to take advantage of the produced point clouds. By using the Cloud Compare software, comparisons are made between the actual architectural members and an "ideal" point cloud of the whole column in its original form. Seeking for probable overlaps between the two point clouds could assist in estimating the original position of each member/fragment on the column. This method is expanded with more comparisons between the reference column model and other members/fragments around the Acropolis, which may have not yet been ascribed to the monument of Nicias.

A Fragment-Cloud Model for Breakup of Asteroids with Varied Internal Structures

NASA Technical Reports Server (NTRS)

Wheeler, Lorien; Mathias, Donovan; Stokan, Ed; Brown, Peter

2016-01-01

As an asteroid descends toward Earth, it deposits energy in the atmosphere through aerodynamic drag and ablation. Asteroid impact risk assessments rely on energy deposition estimates to predict blast overpressures and ground damage that may result from an airburst, such as the one that occurred over Chelyabinsk, Russia in 2013. The rates and altitudes at which energy is deposited along the entry trajectory depend upon how the bolide fragments, which in turn depends upon its internal structure and composition. In this work, we have developed an analytic asteroid fragmentation model to assess the atmospheric energy deposition of asteroids with a range of structures and compositions. The modeling approach combines successive fragmentation of larger independent pieces with aggregate debris clouds released with each fragmentation event. The model can vary the number and masses of fragments produced, the amount of mass released as debris clouds, the size-strength scaling used to increase the robustness of smaller fragments, and other parameters. The initial asteroid body can be seeded with a distribution of independent fragment sizes amid a remaining debris mass to represent loose rubble pile conglomerations, can be given an outer regolith later, or can be defined as a coherent or fractured monolith. This approach enables the model to represent a range of breakup behaviors and reproduce detailed energy deposition features such as multiple flares due to successive burst events, high-altitude regolith blow-off, or initial disruption of rubble piles followed by more energetic breakup of the constituent boulders. These capabilities provide a means to investigate sensitivities of ground damage to potential variations in asteroid structure.

A Fragment-Cloud Approach for Modeling Atmospheric Breakup of Asteroids with Varied Internal Structures

NASA Astrophysics Data System (ADS)

Wheeler, Lorien; Mathias, Donovan; NASA Engineering Risk Assessment Team, NASA Asteroid Threat Assessment Project

2016-10-01

As an asteroid descends toward Earth, it deposits energy in the atmosphere through aerodynamic drag and ablation. Asteroid impact risk assessments rely on energy deposition estimates to predict blast overpressures and ground damage that may result from an airburst, such as the one that occurred over Chelyabinsk, Russia in 2013. The rates and altitudes at which energy is deposited along the entry trajectory depend upon how the bolide fragments, which in turn depends upon its internal structure and composition. In this work, an analytic asteroid fragmentation model has been developed to model the atmospheric breakup and resulting energy deposition of asteroids with a range of internal structures. The modeling approach combines successive fragmentation of larger independent pieces with aggregate debris clouds released with each fragmentation event. The model can vary the number and masses of fragments produced, the amount of mass released as debris clouds, and the size-strength scaling used to increase the robustness of smaller fragments. The initial asteroid body can be seeded with a distribution of independent fragment sizes amid a remaining debris mass to represent loose rubble pile conglomerations, or can be defined as a monolith with an outer regolith layer. This approach enables the model to represent a range of breakup behaviors and reproduce detailed energy deposition features such as multiple flares due to successive burst events, high-altitude regolith blow-off, or initial disruption of rubble piles followed by more energetic breakup of the constituent boulders. These capabilities provide a means to investigate sensitivities of ground damage to potential variations in asteroid structure.

Episodic accretion in binary protostars emerging from self-gravitating solar mass cores

NASA Astrophysics Data System (ADS)

Riaz, R.; Vanaverbeke, S.; Schleicher, D. R. G.

2018-06-01

Observations show a large spread in the luminosities of young protostars, which are frequently explained in the context of episodic accretion. We tested this scenario with numerical simulations that follow the collapse of a solar mass molecular cloud using the GRADSPH code, thereby varying the strength of the initial perturbations and temperature of the cores. A specific emphasis of this paper is to investigate the role of binaries and multiple systems in the context of episodic accretion and to compare their evolution to the evolution in isolated fragments. Our models form a variety of low-mass protostellar objects including single, binary, and triple systems in which binaries are more active in exhibiting episodic accretion than isolated protostars. We also find a general decreasing trend in the average mass accretion rate over time, suggesting that the majority of the protostellar mass is accreted within the first 105 years. This result can potentially help to explain the surprisingly low average luminosities in the majority of the protostellar population.

[CII] observations of H2 molecular layers in transition clouds

NASA Astrophysics Data System (ADS)

Velusamy, T.; Langer, W. D.; Pineda, J. L.; Goldsmith, P. F.; Li, D.; Yorke, H. W.

2010-10-01

We present the first results on the diffuse transition clouds observed in [CII] line emission at 158 μm (1.9 THz) towards Galactic longitudes near 340° (5 LOSs) & 20° (11 LOSs) as part of the HIFI tests and GOT C+ survey. Out of the total 146 [CII] velocity components detected by profile fitting we identify 53 as diffuse molecular clouds with associated 12CO emission but without 13CO emission and characterized by AV < 5 mag. We estimate the fraction of the [CII] emission in the diffuse HI layer in each cloud and then determine the [CII] emitted from the molecular layers in the cloud. We show that the excess [CII] intensities detected in a few clouds is indicative of a thick H2 layer around the CO core. The wide range of clouds in our sample with thin to thick H2 layers suggests that these are at various evolutionary states characterized by the formation of H2 and CO layers from HI and C+, respectively. In about 30% of the clouds the H2 column densities (“dark gas”) traced by the [CII] is 50% or more than that traced by 12CO emission. On the average ~25% of the total H2 in these clouds is in an H2 layer which is not traced by CO. We use the HI, [CII], and 12CO intensities in each cloud along with simple chemical models to obtain constraints on the FUV fields and cosmic ray ionization rates. Herschel is an ESA space observatory with science instruments provided by European-led Principal Investigator consortia and with important participation from NASA.

Repetitive Elements May Comprise Over Two-Thirds of the Human Genome

PubMed Central

de Koning, A. P. Jason; Gu, Wanjun; Castoe, Todd A.; Batzer, Mark A.; Pollock, David D.

2011-01-01

Transposable elements (TEs) are conventionally identified in eukaryotic genomes by alignment to consensus element sequences. Using this approach, about half of the human genome has been previously identified as TEs and low-complexity repeats. We recently developed a highly sensitive alternative de novo strategy, P-clouds, that instead searches for clusters of high-abundance oligonucleotides that are related in sequence space (oligo “clouds”). We show here that P-clouds predicts >840 Mbp of additional repetitive sequences in the human genome, thus suggesting that 66%–69% of the human genome is repetitive or repeat-derived. To investigate this remarkable difference, we conducted detailed analyses of the ability of both P-clouds and a commonly used conventional approach, RepeatMasker (RM), to detect different sized fragments of the highly abundant human Alu and MIR SINEs. RM can have surprisingly low sensitivity for even moderately long fragments, in contrast to P-clouds, which has good sensitivity down to small fragment sizes (∼25 bp). Although short fragments have a high intrinsic probability of being false positives, we performed a probabilistic annotation that reflects this fact. We further developed “element-specific” P-clouds (ESPs) to identify novel Alu and MIR SINE elements, and using it we identified ∼100 Mb of previously unannotated human elements. ESP estimates of new MIR sequences are in good agreement with RM-based predictions of the amount that RM missed. These results highlight the need for combined, probabilistic genome annotation approaches and suggest that the human genome consists of substantially more repetitive sequence than previously believed. PMID:22144907

Identification of fracture zones and its application in automatic bone fracture reduction.

PubMed

Paulano-Godino, Félix; Jiménez-Delgado, Juan J

2017-04-01

The preoperative planning of bone fractures using information from CT scans increases the probability of obtaining satisfactory results, since specialists are provided with additional information before surgery. The reduction of complex bone fractures requires solving a 3D puzzle in order to place each fragment into its correct position. Computer-assisted solutions may aid in this process by identifying the number of fragments and their location, by calculating the fracture zones or even by computing the correct position of each fragment. The main goal of this paper is the development of an automatic method to calculate contact zones between fragments and thus to ease the computation of bone fracture reduction. In this paper, an automatic method to calculate the contact zone between two bone fragments is presented. In a previous step, bone fragments are segmented and labelled from CT images and a point cloud is generated for each bone fragment. The calculated contact zones enable the automatic reduction of complex fractures. To that end, an automatic method to match bone fragments in complex fractures is also presented. The proposed method has been successfully applied in the calculation of the contact zone of 4 different bones from the ankle area. The calculated fracture zones enabled the reduction of all the tested cases using the presented matching algorithm. The performed tests show that the reduction of these fractures using the proposed methods leaded to a small overlapping between fragments. The presented method makes the application of puzzle-solving strategies easier, since it does not obtain the entire fracture zone but the contact area between each pair of fragments. Therefore, it is not necessary to find correspondences between fracture zones and fragments may be aligned two by two. The developed algorithms have been successfully applied in different fracture cases in the ankle area. The small overlapping error obtained in the performed tests demonstrates the absence of visual overlapping in the figures. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lee, Yueh-Ning; Hennebelle, Patrick; Chabrier, Gilles, E-mail: yueh-ning.lee@cea.fr

Observations suggest that star formation in filamentary molecular clouds occurs in a two-step process, with the formation of filaments preceding that of prestellar cores and stars. Here, we apply the gravoturbulent fragmentation theory of Hennebelle and Chabrier to a filamentary environment, taking into account magnetic support. We discuss the induced geometrical effect on the cores, with a transition from 3D geometry at small scales to 1D at large ones. The model predicts the fragmentation behavior of a filament for a given mass per unit length (MpL) and level of magnetization. This core mass function (CMF) for individual filaments is thenmore » convolved with the distribution of filaments to obtain the final system CMF. The model yields two major results. (i) The filamentary geometry naturally induces a hierarchical fragmentation process, first into groups of cores, separated by a length equal to a few filament Jeans lengths, i.e., a few times the filament width. These groups then fragment into individual cores. (ii) Non-magnetized filaments with high MpL are found to fragment excessively, at odds with observations. This is resolved by taking into account the magnetic field (treated simply as additional pressure support). The present theory suggests two complementary modes of star formation: although small (spherical or filamentary) structures will collapse directly into prestellar cores, according to the standard Hennebelle–Chabrier theory, the large (filamentary) ones, the dominant population according to observations, will follow the aforedescribed two-step process.« less

Photoionization-regulated star formation and the structure of molecular clouds

NASA Technical Reports Server (NTRS)

Mckee, Christopher F.

1989-01-01

A model for the rate of low-mass star formation in Galactic molecular clouds and for the influence of this star formation on the structure and evolution of the clouds is presented. The rate of energy injection by newly formed stars is estimated, and the effect of this energy injection on the size of the cloud is determined. It is shown that the observed rate of star formation appears adequate to support the observed clouds against gravitational collapse. The rate of photoionization-regulated star formation is estimated and it is shown to be in agreement with estimates of the observed rate of star formation if the observed molecular cloud parameters are used. The mean cloud extinction and the Galactic star formation rate per unit mass of molecular gas are predicted theoretically from the condition that photionization-regulated star formation be in equilibrium. A simple model for the evolution of isolated molecular clouds is developed.

Isotope Fractionation in the Interstellar Medium

NASA Technical Reports Server (NTRS)

Charnley, Steven

2011-01-01

Anomalously fractionated isotopic material is found in many primitive Solar System objects, such as meteorites and comets. It is thought, in some cases, to trace interstellar matter that was incorporated into the Solar Nebula without undergoing significant processing. We will present the results of models of the nitrogen, oxygen, and carbon fractionation chemistry in dense molecular clouds, particularly in cores where substantial freeze-out of molecules on to dust has occurred. The range of fractionation ratios expected in different interstellar molecules will be discussed and compared to the ratios measured in molecular clouds, comets and meteoritic material. These models make several predictions that can be tested in the near future by molecular line observations, particularly with ALMA.

Fragon: rapid high-resolution structure determination from ideal protein fragments.

PubMed

Jenkins, Huw T

2018-03-01

Correctly positioning ideal protein fragments by molecular replacement presents an attractive method for obtaining preliminary phases when no template structure for molecular replacement is available. This has been exploited in several existing pipelines. This paper presents a new pipeline, named Fragon, in which fragments (ideal α-helices or β-strands) are placed using Phaser and the phases calculated from these coordinates are then improved by the density-modification methods provided by ACORN. The reliable scoring algorithm provided by ACORN identifies success. In these cases, the resulting phases are usually of sufficient quality to enable automated model building of the entire structure. Fragon was evaluated against two test sets comprising mixed α/β folds and all-β folds at resolutions between 1.0 and 1.7 Å. Success rates of 61% for the mixed α/β test set and 30% for the all-β test set were achieved. In almost 70% of successful runs, fragment placement and density modification took less than 30 min on relatively modest four-core desktop computers. In all successful runs the best set of phases enabled automated model building with ARP/wARP to complete the structure.

Stellar mass spectrum within massive collapsing clumps. I. Influence of the initial conditions

NASA Astrophysics Data System (ADS)

Lee, Yueh-Ning; Hennebelle, Patrick

2018-04-01

Context. Stars constitute the building blocks of our Universe, and their formation is an astrophysical problem of great importance. Aim. We aim to understand the fragmentation of massive molecular star-forming clumps and the effect of initial conditions, namely the density and the level of turbulence, on the resulting distribution of stars. For this purpose, we conduct numerical experiments in which we systematically vary the initial density over four orders of magnitude and the turbulent velocity over a factor ten. In a companion paper, we investigate the dependence of this distribution on the gas thermodynamics. Methods: We performed a series of hydrodynamical numerical simulations using adaptive mesh refinement, with special attention to numerical convergence. We also adapted an existing analytical model to the case of collapsing clouds by employing a density probability distribution function (PDF) ∝ρ-1.5 instead of a lognormal distribution. Results: Simulations and analytical model both show two support regimes, a thermally dominated regime and a turbulence-dominated regime. For the first regime, we infer that dN/d logM ∝ M0, while for the second regime, we obtain dN/d logM ∝ M-3/4. This is valid up to about ten times the mass of the first Larson core, as explained in the companion paper, leading to a peak of the mass spectrum at 0.2 M⊙. From this point, the mass spectrum decreases with decreasing mass except for the most diffuse clouds, where disk fragmentation leads to the formation of objects down to the mass of the first Larson core, that is, to a few 10-2 M⊙. Conclusions: Although the mass spectra we obtain for the most compact clouds qualitatively resemble the observed initial mass function, the distribution exponent is shallower than the expected Salpeter exponent of - 1.35. Nonetheless, we observe a possible transition toward a slightly steeper value that is broadly compatible with the Salpeter exponent for masses above a few solar masses. This change in behavior is associated with the change in density PDF, which switches from a power-law to a lognormal distribution. Our results suggest that while gravitationally induced fragmentation could play an important role for low masses, it is likely the turbulently induced fragmentation that leads to the Salpeter exponent.

A new instrument of VUV laser desorption/ionization mass spectrometry imaging with micrometer spatial resolution and low level of molecular fragmentation.

PubMed

Wang, Jia; Liu, Feng; Mo, Yuxiang; Wang, Zhaoying; Zhang, Sichun; Zhang, Xinrong

2017-11-01

Mass spectrometry imaging (MSI) has important applications in material research, biology, and medicine. The MSI method based on UV laser desorption/ionization (UVLDI) can obtain images of intact samples, but has a high level of molecular fragmentation. In this work, we report a new MSI instrument that uses a VUV laser (125.3 nm) as a desorption/ionization source to exploit its advantages of high single photon energy and small focus size. The new instrument was tested by the mass spectra of Nile red and FGB (Fibrinogen beta chain) samples and mass spectrometric images of a fly brain section. For the tested samples, the VUVDI method offers lower levels of molecular fragmentations and higher sensitivities than those of the UVLDI method and second ion mass spectrometry imaging method using a Bi 3 + beam. The ablation crater produced by the focused VUV laser on a quartz plate has an area of 10 μm 2 . The VUV laser is prepared based on the four-wave mixing method using three collimated laser beams and a heated Hg cell.

A new instrument of VUV laser desorption/ionization mass spectrometry imaging with micrometer spatial resolution and low level of molecular fragmentation

NASA Astrophysics Data System (ADS)

Wang, Jia; Liu, Feng; Mo, Yuxiang; Wang, Zhaoying; Zhang, Sichun; Zhang, Xinrong

2017-11-01

Mass spectrometry imaging (MSI) has important applications in material research, biology, and medicine. The MSI method based on UV laser desorption/ionization (UVLDI) can obtain images of intact samples, but has a high level of molecular fragmentation. In this work, we report a new MSI instrument that uses a VUV laser (125.3 nm) as a desorption/ionization source to exploit its advantages of high single photon energy and small focus size. The new instrument was tested by the mass spectra of Nile red and FGB (Fibrinogen beta chain) samples and mass spectrometric images of a fly brain section. For the tested samples, the VUVDI method offers lower levels of molecular fragmentations and higher sensitivities than those of the UVLDI method and second ion mass spectrometry imaging method using a Bi3+ beam. The ablation crater produced by the focused VUV laser on a quartz plate has an area of 10 μm2. The VUV laser is prepared based on the four-wave mixing method using three collimated laser beams and a heated Hg cell.

The mechanisms of fine particle generation and electrification during Mount St. Helens volcanic eruption

NASA Technical Reports Server (NTRS)

Cheng, R. J.

1982-01-01

Microscopical investigation of volcanic ash collected from ground stations during Mount St. Helens eruptions reveal a distinctive bimodel size distribution with high concentrations of particle ranges at (1) 200-100 microns and (2) 20-0.1 microns. Close examination of individual particles shows that most larger ones are solidified magma particles of porous pumice with numerous gas bubbles in the interior and the smaller ones are all glassy fragments without any detectable gas bubbles. Elemental analysis demonstrates that the fine fragments all have a composition similar to that of the larger pumice particles. Laboratory experiments suggest that the formation of the fine fragments is by bursting of glassy bubbles from a partially solidified surface of a crystallizing molten magma particle. The production of gas bubbles is due to the release of absorbed gases in molten magma particles when solubility decreases during phase transition. Diffusion cloud chamber experiments strongly indicate that sub-micron volcanic fragments are highly hygroscopic and extremely active as cloud condensation nuclei. Ice crystals also are evidently formed on those fragments in a supercooled (-20 C) cloud chamber. It has been reported that charge generation from ocean volcanic eruptions is due to contact of molten lava with sea water. This seems to be insufficient to explain the observed rapid and intense lightning activities over Mount St. Helens eruptions. Therefore, a hypothesis is presented here that highly electrically charged fine solid fragments are ejected by bursting of gas bubbles from the surface of a crystallizing molten magma particles.

AceCloud: Molecular Dynamics Simulations in the Cloud.

PubMed

Harvey, M J; De Fabritiis, G

2015-05-26

We present AceCloud, an on-demand service for molecular dynamics simulations. AceCloud is designed to facilitate the secure execution of large ensembles of simulations on an external cloud computing service (currently Amazon Web Services). The AceCloud client, integrated into the ACEMD molecular dynamics package, provides an easy-to-use interface that abstracts all aspects of interaction with the cloud services. This gives the user the experience that all simulations are running on their local machine, minimizing the learning curve typically associated with the transition to using high performance computing services.

Cosmic-rays, gas, and dust in nearby anticentre clouds. II. Interstellar phase transitions and the dark neutral medium

NASA Astrophysics Data System (ADS)

Remy, Q.; Grenier, I. A.; Marshall, D. J.; Casandjian, J. M.

2018-03-01

Aim. H I 21-cm and 12CO 2.6-mm line emissions trace the atomic and molecular gas phases, respectively, but they miss most of the opaque H I and diffuse H2 present in the dark neutral medium (DNM) at the transition between the H I-bright and CO-bright regions. Jointly probing H I, CO, and DNM gas, we aim to constrain the threshold of the H I-H2 transition in visual extinction, AV, and in total hydrogen column densities, NHtot. We also aim to measure gas mass fractions in the different phases and to test their relation to cloud properties. Methods: We have used dust optical depth measurements at 353 GHz, γ-ray maps at GeV energies, and H I and CO line data to trace the gas column densities and map the DNM in nearby clouds toward the Galactic anticentre and Chamaeleon regions. We have selected a subset of 15 individual clouds, from diffuse to star-forming structures, in order to study the different phases across each cloud and to probe changes from cloud to cloud. Results: The atomic fraction of the total hydrogen column density is observed to decrease in the (0.6-1) × 1021 cm-2 range in NHtot (AV ≈ 0.4 mag) because of the formation of H2 molecules. The onset of detectable CO intensities varies by only a factor of 4 from cloud to cloud, between 0.6 × 1021 cm-2 and 2.5 × 1021 cm-2 in total gas column density. We observe larger H2 column densities than linearly inferred from the CO intensities at AV > 3 mag because of the large CO optical thickness; the additional H2 mass in this regime represents on average 20% of the CO-inferred molecular mass. In the DNM envelopes, we find that the fraction of diffuse CO-dark H2 in the molecular column densities decreases with increasing AV in a cloud. For a half molecular DNM, the fraction decreases from more than 80% at 0.4 mag to less than 20% beyond 2 mag. In mass, the DNM fraction varies with the cloud properties. Clouds with low peak CO intensities exhibit large CO-dark H2 fractions in molecular mass, in particular the diffuse clouds lying at high altitude above the Galactic plane. The mass present in the DNM envelopes appears to scale with the molecular mass seen in CO as MHDNM = 62 ± 7 MH2CO0.51 ± 0.02 across two decades in mass. Conclusions: The phase transitions in these clouds show both common trends and environmental differences. These findings will help support the theoretical modelling of H2 formation and the precise tracing of H2 in the interstellar medium.

Packet Fragmentation and Reassembly in Molecular Communication.

PubMed

Furubayashi, Taro; Nakano, Tadashi; Eckford, Andrew; Okaie, Yutaka; Yomo, Tetsuya

2016-04-01

This paper describes packet fragmentation and reassembly to achieve reliable molecular communication among bionanomachines. In the molecular communication described in this paper, a sender bionanomachine performs packet fragmentation, dividing a large molecular message into smaller pieces and embedding into smaller molecular packets, so that molecular packets have higher diffusivity to reach the receiver bionanomachine. The receiver bionanomachine then performs packet reassembly to retrieve the original molecular message from a set of molecular packets that it receives. To examine the effect of packet fragmentation and reassembly, we develop analytical models and conduct numerical experiments. Numerical results show that packet fragmentation and reassembly can improve the message delivery performance. Numerical results also indicate that packet fragmentation and reassembly may degrade the performance in the presence of drift in the environment.

Gas-grain chemical models of star-forming molecular clouds as constrained by ISO and SWAS observations

NASA Astrophysics Data System (ADS)

Charnley, S. B.; Rodgers, S. D.; Ehrenfreund, P.

2001-11-01

We have investigated the gaseous and solid state molecular composition of dense interstellar material that periodically experiences processing in the shock waves associated with ongoing star formation. Our motivation is to confront these models with the stringent abundance constraints on CO2, H2O and O2, in both gas and solid phases, that have been set by ISO and SWAS. We also compare our results with the chemical composition of dark molecular clouds as determined by ground-based telescopes. Beginning with the simplest possible model needed to study molecular cloud gas-grain chemistry, we only include additional processes where they are clearly required to satisfy one or more of the ISO-SWAS constraints. When CO, N2 and atoms of N, C and S are efficiently desorbed from grains, a chemical quasi-steady-state develops after about one million years. We find that accretion of CO2 and H2O cannot explain the [CO2/H2O]ice ISO observations; as with previous models, accretion and reaction of oxygen atoms are necessary although a high O atom abundance can still be derived from the CO that remains in the gas. The observational constraints on solid and gaseous molecular oxygen are both met in this model. However, we find that we cannot explain the lowest H2O abundances seen by SWAS or the highest atomic carbon abundances found in molecular clouds; additional chemical processes are required and possible candidates are given. One prediction of models of this type is that there should be some regions of molecular clouds which contain high gas phase abundances of H2O, O2 and NO. A further consequence, we find, is that interstellar grain mantles could be rich in NH2OH and NO2. The search for these regions, as well as NH2OH and NO2 in ices and in hot cores, is an important further test of this scenario. The model can give good agreement with observations of simple molecules in dark molecular clouds such as TMC-1 and L134N. Despite the fact that S atoms are assumed to be continously desorbed from grain surfaces, we find that the sulphur chemistry independently experiences an ``accretion catastrophe''. The S-bearing molecular abundances cease to lie within the observed range after about 3 x 106 years and this indicates that there may be at least two efficient surface desorption mechanisms operating in dark clouds - one quasi-continous and the other operating more sporadically on this time-scale. We suggest that mantle removal on short time-scales is mediated by clump dynamics, and by the effects of star formation on longer time-scales. The applicability of this type of dynamical-chemical model for molecular cloud evolution is discussed and comparison is made with other models of dark cloud chemistry.

STABILITY OF GAS CLOUDS IN GALACTIC NUCLEI: AN EXTENDED VIRIAL THEOREM

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chen, Xian; Cuadra, Jorge; Amaro-Seoane, Pau, E-mail: xchen@astro.puc.cl, E-mail: jcuadra@astro.puc.cl, E-mail: Pau.Amaro-Seoane@aei.mpg.de

2016-03-10

Cold gas entering the central 1–10{sup 2} pc of a galaxy fragments and condenses into clouds. The stability of the clouds determines whether they will be turned into stars or can be delivered to the central supermassive black hole (SMBH) to turn on an active galactic nucleus (AGN). The conventional criteria to assess the stability of these clouds, such as the Jeans criterion and Roche (or tidal) limit, are insufficient here, because they assume the dominance of self-gravity in binding a cloud, and neglect external agents, such as pressure and tidal forces, which are common in galactic nuclei. We formulatemore » a new scheme for judging this stability. We first revisit the conventional Virial theorem, taking into account an external pressure, to identify the correct range of masses that lead to stable clouds. We then extend the theorem to further include an external tidal field, which is equally crucial for the stability in the region of our interest—in dense star clusters, around SMBHs. We apply our extended Virial theorem to find new solutions to controversial problems, namely, the stability of the gas clumps in AGN tori, the circum-nuclear disk in the Galactic Center, and the central molecular zone of the Milky Way. The masses we derive for these structures are orders of magnitude smaller than the commonly used Virial masses (equivalent to the Jeans mass). Moreover, we prove that these clumps are stable, contrary to what one would naively deduce from the Roche (tidal) limit.« less

NUMERICAL SIMULATIONS OF THE POSSIBLE ORIGIN OF THE TWO SUB-PARSEC SCALE AND COUNTERROTATING STELLAR DISKS AROUND SgrA*

DOE Office of Scientific and Technical Information (OSTI.GOV)

Alig, C.; Schartmann, M.; Burkert, A.

2013-07-10

We present a high-resolution simulation of an idealized model to explain the origin of the two young, counterrotating, sub-parsec scale stellar disks around the supermassive black hole SgrA* at the center of the Milky Way. In our model, the collision of a single molecular cloud with a circumnuclear gas disk (similar to the one observed presently) leads to multiple streams of gas flowing toward the black hole and creating accretion disks with angular momentum depending on the ratio of cloud and circumnuclear disk material. The infalling gas creates two inclined, counterrotating sub-parsec scale accretion disks around the supermassive black holemore » with the first disk forming roughly 1 Myr earlier, allowing it to fragment into stars and get dispersed before the second counterrotating disk forms. Fragmentation of the second disk would lead to the two inclined, counterrotating stellar disks which are observed at the Galactic center. A similar event might be happening again right now at the Milky Way Galactic center. Our model predicts that the collision event generates spiral-like filaments of gas, feeding the Galactic center prior to disk formation with a geometry and inflow pattern that is in agreement with the structure of the so-called mini spiral that has been detected in the Galactic center.« less

Dynamics of the interstellar matter in galaxies : isolated barred spiral galaxies : cloud formation processes

NASA Astrophysics Data System (ADS)

Helmuth, Kristen

1998-12-01

The dynamical components of six isolated barred spiral (SB) galaxies are investigated. No evidence is found supporting the hypothesis of a low amount of dark matter being characteristic of SB galaxies. The presence of companion galaxies is found to correlate with an increased statistical spread in the neutral hydrogen (HI) extent. It is concluded that the selection of galaxies with large HI extent may introduce a bias towards tidally interacting systems. The circumnuclear region of the SB galaxy NGC 1365 is studied with the Hubble Space Telescope (HST). Numerous bright "super star clusters" (SSCs) are detected, surrounding the active nucleus. The bright compact radio source NGC 1365:A is found to coincide spatially with one of the SSCs. We conclude that the source is a "radio supernova". In the [OIII] l 5007 line, the HST resolves individual clouds within the conical outflow from the nucleus, some of which gather in larger agglomerations. An in-depth study of the dynamics of the SB galaxy NGC 1300 is presented. Multi-wavelength data yield an estimate of the velocity field and gravitational potential. Subsequent hydrodynamical simulations are able to reproduce the morphology and kinematics in the bar region using a pure bar perturbing potential. To reproduce the spiral structure a weak spiral component has to be added, indicative of stellar spiral response to the bar and/or self-gravitating gas in the arms. Two separate models, differing mainly with respect to pattern speed and associated resonance structure, are found to reproduce the observations. We study numerically the linear polarization and extinction of light from background stars passing through molecular clouds, illuminating the intricacies of the derivation of the magnetic-field-line pattern in a cloud from the observed polarization pattern: Due to a higher gas-grain collision frequency within the cloud, the polarization caused by the cloud may well be dominated by background/foreground polarization. Furthermore, variations in field-orientation along the line-of-sight may cause notable differences between the observed polarization vectors and the true magnetic-field-line pattern. Small-scale, helical, interstellar filaments are discussed on the basis of optical observations of an "elephant trunk" structure in the Rosette nebula. The observed sinusoidal filaments are suggested to be helices lined up by magnetic fields. We propose that the Rosette elephant trunks form an interconnected system of rope-like structures which are relics from filamentary skeletons of magnetic fields in the primordial cloud. Stochastic mass fractionation of a molecular cloud is simulated numerically. It is found that geometry alone may constrain the resulting mass spectrum of molecular cloud clumps. We demonstrate that further fragmentation of the cloud clumps, under the assumption of a lower limit of the self-similar regime, produces a mass spectrum that has qualitative and quantitative similarities with the empirically determined stellar initial mass function.

THE INFLUENCE OF NONUNIFORM CLOUD COVER ON TRANSIT TRANSMISSION SPECTRA

DOE Office of Scientific and Technical Information (OSTI.GOV)

Line, Michael R.; Parmentier, Vivien, E-mail: mrline@ucsc.edu

2016-03-20

We model the impact of nonuniform cloud cover on transit transmission spectra. Patchy clouds exist in nearly every solar system atmosphere, brown dwarfs, and transiting exoplanets. Our major findings suggest that fractional cloud coverage can exactly mimic high mean molecular weight atmospheres and vice versa over certain wavelength regions, in particular, over the Hubble Space Telescope (HST) Wide Field Camera 3 (WFC3) bandpass (1.1–1.7 μm). We also find that patchy cloud coverage exhibits a signature that is different from uniform global clouds. Furthermore, we explain analytically why the “patchy cloud-high mean molecular weight” degeneracy exists. We also explore the degeneracy ofmore » nonuniform cloud coverage in atmospheric retrievals on both synthetic and real planets. We find from retrievals on a synthetic solar composition hot Jupiter with patchy clouds and a cloud-free high mean molecular weight warm Neptune that both cloud-free high mean molecular weight atmospheres and partially cloudy atmospheres can explain the data equally well. Another key finding is that the HST WFC3 transit transmission spectra of two well-observed objects, the hot Jupiter HD 189733b and the warm Neptune HAT-P-11b, can be explained well by solar composition atmospheres with patchy clouds without the need to invoke high mean molecular weight or global clouds. The degeneracy between high molecular weight and solar composition partially cloudy atmospheres can be broken by observing the molecular Rayleigh scattering differences between the two. Furthermore, the signature of partially cloudy limbs also appears as a ∼100 ppm residual in the ingress and egress of the transit light curves, provided that the transit timing is known to seconds.« less

Dust as the cause of spots on Jupiter

NASA Technical Reports Server (NTRS)

Field, G. B.; Tozzi, G. P.; Stanga, R. M.

1995-01-01

The long-lived spots caused by the impact of fragments of Comet S-L 9 on Jupiter can be understood if clouds of dust are produced by the impact. These clouds reside in the stratosphere, where they absorb visible light that would ordinarily reflect from the cloud deck below, and reflect radiation at infrared wavelengths that would ordinarily be absorbed by atmospheric methane. Here we show that, provided that the nucleus of a fragment is composed substantially of silicates and has a diameter greater than about 0.4 km, dust in the required amounts will condense from the hot gas composed of cometary and Jovian material ejected from the site where the fragment entered, and the dust will be suspended in the stratosphere for long periods. Particles about 1 micron in radius can explain both the optical properties and longevities of the spots. According to our model, a silicate band should be present in the 10 - micron spectra of the spots.

Clouded leopard phylogeny revisited: support for species recognition and population division between Borneo and Sumatra

PubMed Central

Wilting, Andreas; Buckley-Beason, Valerie A; Feldhaar, Heike; Gadau, Jürgen; O'Brien, Stephen J; Linsenmair, K Eduard

2007-01-01

Background The clouded leopard (Neofelis nebulosa) is one of the least known cat species and depletion of their forested habitats puts it under heavy pressure. Recently reclassification of Bornean clouded leopards (N. nebulosa diardi) to species level (N.diardi) was suggested based on molecular and morphological evidence. Since the genetic results were based solely on three Bornean samples we re-evaluated this partition using additional samples of Bornean clouded leopards (N = 7) and we were also able to include specimens from Sumatra (N = 3), which were lacking in previous analysis. Results We found strong support for the distinction between N. nebulosa and N. diardi based on three fragments of mtDNA (900 bp) and 18 microsatellites. Forty-one fixed mitochondrial nucleotide differences and non-overlapping allele sizes in 8 of 18 microsatellite loci distinguished N. nebulosa and N. diardi. This is equivalent to the genetic divergence among recognized species in the genus Panthera. Sumatran clouded leopards clustered with specimens from Borneo, suggesting that Sumatran individuals also belong to N. diardi. Additionally, a significant population subdivision was apparent among N. diardi from Sumatra and Borneo based on mtDNA and microsatellite data. Conclusion Referring to their origin on two Sunda Islands we propose to give N. diardi the common name "Sundaland clouded leopard". The reduced gene flow between Borneo and Sumatra might suggest the recognition of two subspecies of N. diardi. Based on this reclassification of clouded leopards not only species, but also the populations on Borneo and Sumatra should be managed separately and a higher priority should be placed to protect the different populations from extinction. PMID:17535420

Molecular clouds without detectable CO

NASA Technical Reports Server (NTRS)

Blitz, Leo; Bazell, David; Desert, F. Xavier

1990-01-01

The clouds identified by Desert, Bazell, and Boulanger (DBB clouds) in their search for high-latitude molecular clouds were observed in the CO (J = 1-0) line, but only 13 percent of the sample was detected. The remaining 87 percent are diffuse molecular clouds with CO abundances of about 10 to the -6th, a typical value for diffuse clouds. This hypothesis is shown to be consistent with Copernicus data. The DBB clouds are shown to ben an essentially complete catalog of diffuse molecular clouds in the solar vicinity. The total molecular surface density in the vicinity of the sun is then only about 20 percent greater than the 1.3 solar masses/sq pc determined by Dame et al. (1987). Analysis of the CO detections indicates that there is a sharp threshold in extinction of 0.25 mag before CO is detectable and is derived from the IRAS I(100) micron threshold of 4 MJy/sr. This threshold is presumably where the CO abundance exhibits a sharp increase

Molecular clouds without detectable CO

DOE Office of Scientific and Technical Information (OSTI.GOV)

Blitz, L.; Bazell, D.; Desert, F.X.

1990-03-01

The clouds identified by Desert, Bazell, and Boulanger (DBB clouds) in their search for high-latitude molecular clouds were observed in the CO (J = 1-0) line, but only 13 percent of the sample was detected. The remaining 87 percent are diffuse molecular clouds with CO abundances of about 10 to the -6th, a typical value for diffuse clouds. This hypothesis is shown to be consistent with Copernicus data. The DBB clouds are shown to be an essentially complete catalog of diffuse molecular clouds in the solar vicinity. The total molecular surface density in the vicinity of the sun is thenmore » only about 20 percent greater than the 1.3 solar masses/sq pc determined by Dame et al. (1987). Analysis of the CO detections indicates that there is a sharp threshold in extinction of 0.25 mag before CO is detectable and is derived from the IRAS I(100) micron threshold of 4 MJy/sr. This threshold is presumably where the CO abundance exhibits a sharp increase 18 refs.« less

Time Evolution of the Giant Molecular Cloud Mass Functions across Galactic Disks

NASA Astrophysics Data System (ADS)

Kobayashi, Masato I. N.; Inutsuka, Shu-Ichiro; Kobayashi, Hiroshi; Hasegawa, Kenji

2017-01-01

We formulate and conduct the time-integration of time evolution equation for the giant molecular cloud mass function (GMCMF) including the cloud-cloud collision (CCC) effect. Our results show that the CCC effect is only limited in the massive-end of the GMCMF and indicate that future high resolution and sensitivity radio observations may constrain giant molecular cloud (GMC) timescales by observing the GMCMF slope in the lower mass regime.

The Galactic Distribution of OB Associations in Molecular Clouds

NASA Astrophysics Data System (ADS)

Williams, Jonathan P.; McKee, Christopher F.

1997-02-01

Molecular clouds account for half of the mass of the interstellar medium interior to the solar circle and for all current star formation. Using cloud catalogs of two CO surveys of the first quadrant, we have fitted the mass distribution of molecular clouds to a truncated power law in a similar manner as the luminosity function of OB associations in the companion paper to this work. After extrapolating from the first quadrant to the entire inner Galaxy, we find that the mass of cataloged clouds amounts to only 40% of current estimates of the total Galactic molecular mass. Following Solomon & Rivolo, we have assumed that the remaining molecular gas is in cold clouds, and we normalize the distribution accordingly. The predicted total number of clouds is then shown to be consistent with that observed in the solar neighborhood where cloud catalogs should be more complete. Within the solar circle, the cumulative form of the distribution is \\Nscrc(>M)=105[(Mu/M)0.6-1], where \\Nscrc is the number of clouds, and Mu = 6 × 106 M⊙ is the upper mass limit. The large number of clouds near the upper cutoff to the distribution indicates an underlying physical limit to cloud formation or destruction processes. The slope of the distribution corresponds to d\\Nscrc/dM~M-1.6, implying that although numerically most clouds are of low mass, most of the molecular gas is contained within the most massive clouds. The distribution of cloud masses is then compared to the Galactic distribution of OB association luminosities to obtain statistical estimates of the number of massive stars expected in any given cloud. The likelihood of massive star formation in a cloud is determined, and it is found that the median cloud mass that contains at least one O star is ~105 M⊙. The average star formation efficiency over the lifetime of an association is about 5% but varies by more than 2 orders of magnitude from cloud to cloud and is predicted to increase with cloud mass. O stars photoevaporate their surrounding molecular gas, and even with low rates of formation, they are the principal agents of cloud destruction. Using an improved estimate of the timescale for photoevaporation and our statistics on the expected numbers of stars per cloud, we find that 106 M⊙ giant molecular clouds (GMCs) are expected to survive for about 3 × 107 yr. Smaller clouds are disrupted, rather than photoionized, by photoevaporation. The porosity of H II regions in large GMCs is shown to be of order unity, which is consistent with self-regulation of massive star formation in GMCs. On average, 10% of the mass of a GMC is converted to stars by the time it is destroyed by photoevaporation.

A perfect starburst cluster made in one go: The NGC 3603 young cluster

DOE Office of Scientific and Technical Information (OSTI.GOV)

Banerjee, Sambaran; Kroupa, Pavel

2014-06-01

Understanding how distinct, near-spherical gas-free clusters of very young, massive stars shape out of vast, complex clouds of molecular hydrogen is one of the biggest challenges in astrophysics. A popular thought dictates that a single gas cloud fragments into many newborn stars which, in turn, energize and rapidly expel the residual gas to form a gas-free cluster. This study demonstrates that the above classical paradigm remarkably reproduces the well-observed central, young cluster (HD 97950) of the Galactic NGC 3603 star-forming region, in particular, its shape, internal motion, and mass distribution of stars naturally and consistently follow from a single modelmore » calculation. Remarkably, the same parameters (star formation efficiency, gas expulsion timescale, and delay) reproduce HD 97950, as were found to reproduce the Orion Nebula Cluster, Pleiades, and R136. The present results therefore provide intriguing evidence of formation of star clusters through single-starburst events followed by significant residual gas expulsion.« less

In situ observation of ultrasonic cavitation-induced fragmentation of the primary crystals formed in Al alloys.

PubMed

Wang, Feng; Tzanakis, Iakovos; Eskin, Dmitry; Mi, Jiawei; Connolley, Thomas

2017-11-01

The cavitation-induced fragmentation of primary crystals formed in Al alloys were investigated for the first time by high-speed imaging using a novel experimental approach. Three representative primary crystal types, Al 3 Ti, Si and Al 3 V with different morphologies and mechanical properties were first extracted by deep etching of the corresponding Al alloys and then subjected to ultrasonic cavitation processing in distilled water. The dynamic interaction between the cavitation bubbles and primary crystals was imaged in situ and in real time. Based on the recorded image sequences, the fragmentation mechanisms of primary crystals were studied. It was found that there are three major mechanisms by which the primary crystals were fragmented by cavitation bubbles. The first one was a slow process via fatigue-type failure. A cyclic pressure exerted by stationary pulsating bubbles caused the propagation of a crack pre-existing in the primary crystal to a critical length which led to fragmentation. The second mechanism was a sudden process due to the collapse of bubbles in a passing cavitation cloud. The pressure produced upon the collapse of the cloud promoted rapid monotonic crack growth and fast fracture in the primary crystals. The third observed mechanism was normal bending fracture as a result of the high pressure arising from the collapse of a bubble cloud and the crack formation at the branch connection points of dendritic primary crystals. The fragmentation of dendrite branches due to the interaction between two freely moving dendritic primary crystals was also observed. A simplified fracture analysis of the observed phenomena was performed. The specific fragmentation mechanism for the primary crystals depended on their morphology and mechanical properties. Copyright © 2017 The Author(s). Published by Elsevier B.V. All rights reserved.

Amphibian diversity and threatened species in a severely transformed neotropical region in Mexico.

PubMed

Meza-Parral, Yocoyani; Pineda, Eduardo

2015-01-01

Many regions around the world concentrate a large number of highly endangered species that have very restricted distributions. The mountainous region of central Veracruz, Mexico, is considered a priority area for amphibian conservation because of its high level of endemism and the number of threatened species. The original tropical montane cloud forest in the region has been dramatically reduced and fragmented and is now mainly confined to ravines and hillsides. We evaluated the current situation of amphibian diversity in the cloud forest fragments of this region by analyzing species richness and abundance, comparing assemblage structure and species composition, examining the distribution and abundance of threatened species, and identifying the local and landscape variables associated with the observed amphibian diversity. From June to October 2012 we sampled ten forest fragments, investing 944 person-hours of sampling effort. A total of 895 amphibians belonging to 16 species were recorded. Notable differences in species richness, abundance, and assemblage structure between forest fragments were observed. Species composition between pairs of fragments differed by an average of 53%, with the majority (58%) resulting from species replacement and the rest (42%) explained by differences in species richness. Half of the species detected are under threat of extinction according to the International Union for Conservation of Nature, and although their distribution and abundance varied markedly, there were also ubiquitous and abundant species, along with rare species of restricted distribution. The evident heterogeneity of the ten study sites indicates that to conserve amphibians in a mountainous region such as this one it is necessary to protect groups of fragments which represent the variability of the system. Both individually and together cloud forest fragments are very important to conservation because each remnant is inhabited by several threatened species, some of them at imminent risk of extinction.

SHOCKFIND - an algorithm to identify magnetohydrodynamic shock waves in turbulent clouds

NASA Astrophysics Data System (ADS)

Lehmann, Andrew; Federrath, Christoph; Wardle, Mark

2016-11-01

The formation of stars occurs in the dense molecular cloud phase of the interstellar medium. Observations and numerical simulations of molecular clouds have shown that supersonic magnetized turbulence plays a key role for the formation of stars. Simulations have also shown that a large fraction of the turbulent energy dissipates in shock waves. The three families of MHD shocks - fast, intermediate and slow - distinctly compress and heat up the molecular gas, and so provide an important probe of the physical conditions within a turbulent cloud. Here, we introduce the publicly available algorithm, SHOCKFIND, to extract and characterize the mixture of shock families in MHD turbulence. The algorithm is applied to a three-dimensional simulation of a magnetized turbulent molecular cloud, and we find that both fast and slow MHD shocks are present in the simulation. We give the first prediction of the mixture of turbulence-driven MHD shock families in this molecular cloud, and present their distinct distributions of sonic and Alfvénic Mach numbers. Using subgrid one-dimensional models of MHD shocks we estimate that ˜0.03 per cent of the volume of a typical molecular cloud in the Milky Way will be shock heated above 50 K, at any time during the lifetime of the cloud. We discuss the impact of this shock heating on the dynamical evolution of molecular clouds.

Isotopic Fractionation in Primitive Material: Quantifying the Contribution of Interstellar Chemistry

NASA Technical Reports Server (NTRS)

Charnley, Steven

2010-01-01

Anomalously fractionated isotopic material is found in many primitive Solar System objects, such as meteorites and comets. It is thought, in some cases, to trace interstellar matter that was incorporated into the Solar Nebula without undergoing significant processing. We will present the results of models of the nitrogen, oxygen, and carbon fractionation chemistry in dense molecular clouds, particularly in cores where substantial freeze-out of molecules on to dust has occurred. The range of fractionation ratios expected in different interstellar molecules will be discussed and compared to the ratios measured in molecular clouds, comets and meteoritic material. These models make several predictions that can be tested in the near future by molecular line observations, particularly with ALMA.

Use of an auxiliary basis set to describe the polarization in the fragment molecular orbital method

NASA Astrophysics Data System (ADS)

Fedorov, Dmitri G.; Kitaura, Kazuo

2014-03-01

We developed a dual basis approach within the fragment molecular orbital formalism enabling efficient and accurate use of large basis sets. The method was tested on water clusters and polypeptides and applied to perform geometry optimization of chignolin (PDB: 1UAO) in solution at the level of DFT/6-31++G∗∗, obtaining a structure in agreement with experiment (RMSD of 0.4526 Å). The polarization in polypeptides is discussed with a comparison of the α-helix and β-strand.

Radio Observations of Sgr B2

NASA Astrophysics Data System (ADS)

Mao, Xin-Jie; Su, Jiang-Tao

2001-10-01

The 13CO (J=1-0) map of the molecular cloud Sgr B2 reveals that the mass center of the molecular cloud nucleus does not coincide with that of compact HII regions which are likely to be the outcome of a shock on the cloud. We find evidence of cloud contraction probably resulting from cloud-cloud collision at subsonic speed.

Spitzer Telescope Sends Rose for Valentine Day

NASA Image and Video Library

2004-02-12

A cluster of newborn stars herald their birth in this interstellar Valentine Day commemorative picture obtained with NASA Spitzer Space Telescope. These bright young stars are found in a rosebud-shaped and rose-colored nebulosity known as NGC 7129. The star cluster and its associated nebula are located at a distance of 3300 light-years in the constellation Cepheus. A recent census of the cluster reveals the presence of 130 young stars. The stars formed from a massive cloud of gas and dust that contains enough raw materials to create a thousand Sun-like stars. In a process that astronomers still poorly understand, fragments of this molecular cloud became so cold and dense that they collapsed into stars. Most stars in our Milky Way galaxy are thought to form in such clusters. The Spitzer Space Telescope image was obtained with an infrared array camera that is sensitive to invisible infrared light at wavelengths that are about ten times longer than visible light. In this four-color composite, emission at 3.6 microns is depicted in blue, 4.5 microns in green, 5.8 microns in orange, and 8.0 microns in red. The image covers a region that is about one quarter the size of the full moon. As in any nursery, mayhem reigns. Within the astronomically brief period of a million years, the stars have managed to blow a large, irregular bubble in the molecular cloud that once enveloped them like a cocoon. The rosy pink hue is produced by glowing dust grains on the surface of the bubble being heated by the intense light from the embedded young stars. Upon absorbing ultraviolet and visible-light photons produced by the stars, the surrounding dust grains are heated and re-emit the energy at the longer infrared wavelengths observed by Spitzer. The reddish colors trace the distribution of molecular material thought to be rich in hydrocarbons. The cold molecular cloud outside the bubble is mostly invisible in these images. However, three very young stars near the center of the image are sending jets of supersonic gas into the cloud. The impact of these jets heats molecules of carbon monoxide in the cloud, producing the intricate green nebulosity that forms the stem of the rosebud. Not all stars are formed in clusters. Away from the main nebula and its young cluster are two smaller nebulae, to the left and bottom of the central 'rosebud,'each containing a stellar nursery with only a few young stars. Astronomers believe that our own Sun may have formed billions of years ago in a cluster similar to NGC 7129. Once the radiation from new cluster stars destroys the surrounding placental material, the stars begin to slowly drift apart. http://photojournal.jpl.nasa.gov/catalog/PIA05266

Fragment assignment in the cloud with eXpress-D

PubMed Central

2013-01-01

Background Probabilistic assignment of ambiguously mapped fragments produced by high-throughput sequencing experiments has been demonstrated to greatly improve accuracy in the analysis of RNA-Seq and ChIP-Seq, and is an essential step in many other sequence census experiments. A maximum likelihood method using the expectation-maximization (EM) algorithm for optimization is commonly used to solve this problem. However, batch EM-based approaches do not scale well with the size of sequencing datasets, which have been increasing dramatically over the past few years. Thus, current approaches to fragment assignment rely on heuristics or approximations for tractability. Results We present an implementation of a distributed EM solution to the fragment assignment problem using Spark, a data analytics framework that can scale by leveraging compute clusters within datacenters–“the cloud”. We demonstrate that our implementation easily scales to billions of sequenced fragments, while providing the exact maximum likelihood assignment of ambiguous fragments. The accuracy of the method is shown to be an improvement over the most widely used tools available and can be run in a constant amount of time when cluster resources are scaled linearly with the amount of input data. Conclusions The cloud offers one solution for the difficulties faced in the analysis of massive high-thoughput sequencing data, which continue to grow rapidly. Researchers in bioinformatics must follow developments in distributed systems–such as new frameworks like Spark–for ways to port existing methods to the cloud and help them scale to the datasets of the future. Our software, eXpress-D, is freely available at: http://github.com/adarob/express-d. PMID:24314033

The Study of Spherical Cores with a Toroidal Magnetic Field Configuration

DOE Office of Scientific and Technical Information (OSTI.GOV)

Gholipour, Mahmoud

Observational studies of the magnetic fields in molecular clouds have significantly improved the theoretical models developed for the structure and evolution of dense clouds and for the star formation process as well. The recent observational analyses on some cores indicate that there is a power-law relationship between magnetic field and density in the molecular clouds. In this study, we consider the stability of spherical cores with a toroidal magnetic field configuration in the molecular clouds. For this purpose, we model a spherical core that is in magnetostatic equilibrium. Herein, we propose an equation of density structure, which is a modifiedmore » form of the isothermal Lane–Emden equation in the presence of the toroidal magnetic field. The proposed equation describes the effect of the toroidal magnetic field on the cloud structure and the mass cloud. Furthermore, we found an upper limit for this configuration of magnetic field in the molecular clouds. Then, the virial theorem is used to consider the cloud evolution leading to an equation in order to obtain the lower limit of the field strength in the molecular cloud. However, the results show that the field strength of the toroidal configuration has an important effect on the cloud structure, whose upper limit is related to the central density and field gradient. The obtained results address some regions of clouds where the cloud decomposition or star formation can be seen.« less

Determination of the presence of hyaluronic acid in preparations containing amino acids: the molecular weight characterization.

PubMed

Bellomaria, A; Nepravishta, R; Mazzanti, U; Marchetti, M; Piccioli, P; Paci, M

2014-10-15

Several pharmaceutical preparations contain hyaluronic acid in the presence of a large variety of low molecular weight charged molecules like amino acids. In these mixtures, it is particularly difficult to determine the concentration and the molecular weight of the hyaluronic acid fragments. In fact zwitterionic compounds in high concentration behave by masking the hyaluronic acid due to the electrostatic interactions between amino acids and hyaluronic acid. In such conditions the common colorimetric test of the hyaluronic acid determination appears ineffective and in the (1)H NMR spectra the peaks of the polymer disappear completely. By a simple separation procedure the presence of hyaluronic acid was revealed by the DMAB test and (1)H NMR while its average molecular weight in the final product was determined by DOSY NMR spectroscopy alone. The latter determination is very important due to the healthy effects of some sizes of this polymer's fragments. Copyright © 2014 Elsevier B.V. All rights reserved.

Mapping the core mass function to the initial mass function

NASA Astrophysics Data System (ADS)

Guszejnov, Dávid; Hopkins, Philip F.

2015-07-01

It has been shown that fragmentation within self-gravitating, turbulent molecular clouds (`turbulent fragmentation') can naturally explain the observed properties of protostellar cores, including the core mass function (CMF). Here, we extend recently developed analytic models for turbulent fragmentation to follow the time-dependent hierarchical fragmentation of self-gravitating cores, until they reach effectively infinite density (and form stars). We show that turbulent fragmentation robustly predicts two key features of the initial mass function (IMF). First, a high-mass power-law scaling very close to the Salpeter slope, which is a generic consequence of the scale-free nature of turbulence and self-gravity. We predict the IMF slope (-2.3) is slightly steeper than the CMF slope (-2.1), owing to the slower collapse and easier fragmentation of large cores. Secondly, a turnover mass, which is set by a combination of the CMF turnover mass (a couple solar masses, determined by the `sonic scale' of galactic turbulence, and so weakly dependent on galaxy properties), and the equation of state (EOS). A `soft' EOS with polytropic index γ < 1.0 predicts that the IMF slope becomes `shallow' below the sonic scale, but fails to produce the full turnover observed. An EOS, which becomes `stiff' at sufficiently low surface densities Σgas ˜ 5000 M⊙ pc-2, and/or models, where each collapsing core is able to heat and effectively stiffen the EOS of a modest mass (˜0.02 M⊙) of surrounding gas, are able to reproduce the observed turnover. Such features are likely a consequence of more detailed chemistry and radiative feedback.

Molecular Gas toward the Gemini OB1 Molecular Cloud Complex. II. CO Outflow Candidates with Possible WISE Associations

NASA Astrophysics Data System (ADS)

Li, Yingjie; Li, Fa-Cheng; Xu, Ye; Wang, Chen; Du, Xin-Yu; Yang, Wenjin; Yang, Ji

2018-03-01

We present a large-scale survey of CO outflows in the Gem OB1 molecular cloud complex and its surroundings, using the Purple Mountain Observatory Delingha 13.7 m telescope. A total of 198 outflow candidates were identified over a large area (∼58.5 square degrees), of which 193 are newly detected. Approximately 68% (134/198) are associated with the Gem OB1 molecular cloud complex, including clouds GGMC 1, GGMC 2, BFS 52, GGMC 3, and GGMC 4. Other regions studied are: the Local arm (Local Lynds, West Front), Swallow, Horn, and Remote cloud. Outflow candidates in GGMC 1, BFS 52, and Swallow are mainly located at ring-like or filamentary structures. To avoid excessive uncertainty in distant regions (≳3.8 kpc), we only estimated the physical parameters for clouds in the Gem OB1 molecular cloud complex and in the Local arm. In those clouds, the total kinetic energy and the energy injection rate of the identified outflow candidates are ≲1% and ≲3% of the turbulent energy and the turbulent dissipation rate of each cloud, indicating that the identified outflow candidates cannot provide enough energy to balance turbulence of their host cloud at the scale of the entire cloud (several to dozens of parsecs). The gravitational binding energy of each cloud is ≳135 times the total kinetic energy of the identified outflow candidates within the corresponding cloud, indicating that the identified outflow candidates cannot cause major disruptions to the integrity of their host cloud at the scale of the entire cloud.

X-ray and IR Surveys of the Orion Molecular Clouds and the Cepheus OB3b Cluster

NASA Astrophysics Data System (ADS)

Megeath, S. Thomas; Wolk, Scott J.; Pillitteri, Ignazio; Allen, Tom

2014-08-01

X-ray and IR surveys of molecular clouds between 400 and 700 pc provide complementary means to map the spatial distribution of young low mass stars associated with the clouds. We overview an XMM survey of the Orion Molecular Clouds, at a distance of 400 pc. By using the fraction of X-ray sources with disks as a proxy for age, this survey has revealed three older clusters rich in diskless X-ray sources. Two are smaller clusters found at the northern and southern edges of the Orion A molecular cloud. The third cluster surrounds the O-star Iota Ori (the point of Orion's sword) and is in the foreground to the Orion molecular cloud. In addition, we present a Chandra and Spitzer survey of the Cep OB3b cluster at 700 pc. These data show a spatially variable disk fraction indicative of age variations within the cluster. We discuss the implication of these results for understanding the spread of ages in young clusters and the star formation histories of molecular clouds.

Diagnostic characters within ITS2 DNA support molecular identification of Anastrepha suspensa

USDA-ARS?s Scientific Manuscript database

An approximately 220 bp fragment of the internal transcribed spacer 2 (ITS2) is screened as a diagnostic of Anastrepha suspensa and other pest fruit flies in the genus Anastrepha. The majority (96%) of the sites in this fragment are invariant among the test species but A. suspensa can be separated f...

Two Regimes of Turbulent Fragmentation and the Stellar Initial Mass Function from Primordial to Present-Day Star Formation

NASA Astrophysics Data System (ADS)

Padoan, Paolo; Nordlund, Åke; Kritsuk, Alexei G.; Norman, Michael L.; Li, Pak Shing

2007-06-01

The Padoan and Nordlund model of the stellar initial mass function (IMF) is derived from low-order statistics of supersonic turbulence, neglecting gravity (e.g., gravitational fragmentation, accretion, and merging). In this work, the predictions of that model are tested using the largest numerical experiments of supersonic hydrodynamic (HD) and magnetohydrodynamic (MHD) turbulence to date (~10003 computational zones) and three different codes (Enzo, Zeus, and the Stagger code). The model predicts a power-law distribution for large masses, related to the turbulence-energy power-spectrum slope and the shock-jump conditions. This power-law mass distribution is confirmed by the numerical experiments. The model also predicts a sharp difference between the HD and MHD regimes, which is recovered in the experiments as well, implying that the magnetic field, even below energy equipartition on the large scale, is a crucial component of the process of turbulent fragmentation. These results suggest that the stellar IMF of primordial stars may differ from that in later epochs of star formation, due to differences in both gas temperature and magnetic field strength. In particular, we find that the IMF of primordial stars born in turbulent clouds may be narrowly peaked around a mass of order 10 Msolar, as long as the column density of such clouds is not much in excess of 1022 cm-2.

Dynamics of the Interstellar Matter in Galaxies

NASA Astrophysics Data System (ADS)

Kristen, H.

The dynamical components of six isolated barred spiral (SB) galaxies are investigated. No evidence is found supporting the hypothesis of a low amount of dark matter being characteristic of SB galaxies. The presence of companion galaxies is found to correlate with an increased statistical spread in the neutral hydrogen (HI) extent. It is concluded that the selection of galaxies with large HI~extent may introduce a bias towards tidally interacting systems. The circumnuclear region of the SB galaxy NGC 1365 is studied with the Hubble Space Telescope (HST). Numerous bright ``super star clusters'' (SSCs) are detected, surrounding the active nucleus. The bright compact radio source NGC 1365:A is found to coincide spatially with one of the SSCs. We conclude that the source is a ``radio supernova''. In the [OIII] 5007 line, the HST resolves individual clouds within the conical outflow from the nucleus, some of which gather in larger agglomerations. An in-depth study of the dynamics of the SB galaxy NGC 1300 is presented. Multi-wavelength data yield an estimate of the velocity field and gravitational potential. Subsequent hydrodynamical simulations are able to reproduce the morphology and kinematics in the bar region using a pure bar perturbing potential. To reproduce the spiral structure a weak spiral component has to be added, indicative of stellar spiral response to the bar and/or self-gravitating gas in the arms. Two separate models, differing mainly with respect to pattern speed and associated resonance structure, are found to reproduce the observations. We study numerically the linear polarization and extinction of light from background stars passing through molecular clouds, illuminating the intricacies of the derivation of the magnetic-field-line pattern in a cloud from the observed polarization pattern: Due to a higher gas-grain collision frequency within the cloud, the polarization caused by the cloud may well be dominated by background/foreground polarization. Furthermore, variations in field-orientation along the line-of-sight may cause notable differences between the observed polarization vectors and the true magnetic-field-line pattern. Small-scale, helical, interstellar filaments are discussed on the basis of optical observations of an ``elephant trunk'' structure in the Rosette nebula. The observed sinusoidal filaments are suggested to be helices lined up by magnetic fields. We propose that the Rosette elephant trunks form an interconnected system of rope-like structures which are relics from filamentary skeletons of magnetic fields in the primordial cloud. Stochastic mass fractionation of a molecular cloud is simulated numerically. It is found that geometry alone may constrain the resulting mass spectrum of molecular cloud clumps. We demonstrate that further fragmentation of the cloud clumps, under the assumption of a lower limit of the self-similar regime, produces a mass spectrum that has qualitative and quantitative similarities with the empirically determined stellar initial mass function.

Biogenic, urban, and wildfire influences on the molecular composition of dissolved organic compounds in cloud water

NASA Astrophysics Data System (ADS)

Cook, Ryan D.; Lin, Ying-Hsuan; Peng, Zhuoyu; Boone, Eric; Chu, Rosalie K.; Dukett, James E.; Gunsch, Matthew J.; Zhang, Wuliang; Tolic, Nikola; Laskin, Alexander; Pratt, Kerri A.

2017-12-01

Organic aerosol formation and transformation occurs within aqueous aerosol and cloud droplets, yet little is known about the composition of high molecular weight organic compounds in cloud water. Cloud water samples collected at Whiteface Mountain, New York, during August-September 2014 were analyzed by ultra-high-resolution mass spectrometry to investigate the molecular composition of dissolved organic carbon, with a focus on sulfur- and nitrogen-containing compounds. Organic molecular composition was evaluated in the context of cloud water inorganic ion concentrations, pH, and total organic carbon concentrations to gain insights into the sources and aqueous-phase processes of the observed high molecular weight organic compounds. Cloud water acidity was positively correlated with the average oxygen : carbon ratio of the organic constituents, suggesting the possibility for aqueous acid-catalyzed (prior to cloud droplet activation or during/after cloud droplet evaporation) and/or radical (within cloud droplets) oxidation processes. Many tracer compounds recently identified in laboratory studies of bulk aqueous-phase reactions were identified in the cloud water. Organosulfate compounds, with both biogenic and anthropogenic volatile organic compound precursors, were detected for cloud water samples influenced by air masses that had traveled over forested and populated areas. Oxidation products of long-chain (C10-12) alkane precursors were detected during urban influence. Influence of Canadian wildfires resulted in increased numbers of identified sulfur-containing compounds and oligomeric species, including those formed through aqueous-phase reactions involving methylglyoxal. Light-absorbing aqueous-phase products of syringol and guaiacol oxidation were observed in the wildfire-influenced samples, and dinitroaromatic compounds were observed in all cloud water samples (wildfire, biogenic, and urban-influenced). Overall, the cloud water molecular composition depended on air mass source influence and reflected aqueous-phase reactions involving biogenic, urban, and biomass burning precursors.

Fragment-based drug discovery using rational design.

PubMed

Jhoti, H

2007-01-01

Fragment-based drug discovery (FBDD) is established as an alternative approach to high-throughput screening for generating novel small molecule drug candidates. In FBDD, relatively small libraries of low molecular weight compounds (or fragments) are screened using sensitive biophysical techniques to detect their binding to the target protein. A lower absolute affinity of binding is expected from fragments, compared to much higher molecular weight hits detected by high-throughput screening, due to their reduced size and complexity. Through the use of iterative cycles of medicinal chemistry, ideally guided by three-dimensional structural data, it is often then relatively straightforward to optimize these weak binding fragment hits into potent and selective lead compounds. As with most other lead discovery methods there are two key components of FBDD; the detection technology and the compound library. In this review I outline the two main approaches used for detecting the binding of low affinity fragments and also some of the key principles that are used to generate a fragment library. In addition, I describe an example of how FBDD has led to the generation of a drug candidate that is now being tested in clinical trials for the treatment of cancer.

Gas Cloud Accretion onto the SMBH SgrA* and Formation of Jet 4

NASA Astrophysics Data System (ADS)

Nishiyama, Shogo

2015-06-01

A dense gas cloud was detected to be rapidly approaching the Galactic supermassive black hole (SMBH) Sgr A*, and was 1,600 Schwarzschild radii from the SMBH at the pericenter of its eccentric orbit in Mar 2014. Ongoing tidal disruption has been observed, and cloud fragments are expected to accrete onto the SMBH on dynamical timescales, suggesting a jet formation in the following years. So we are carrying out daily monitoring observations of Sgr A* in near-infrared and radio wavelengths, and we propose quick follow-up observations with Subaru/Gemini. Br-gamma line emission maps obtained with Gemini/NIFS will be used to fine tune our 3D simulation to estimate how much mass accretes, and when the fragments accrete onto the SMBH. Polarimetric and astrometric signals from a jet taken with Subaru/HiCIAO and KaVA will be compared with the finely tuned simulation to understand the timescale of jet formation, and to investigate the correlation between the accreted mass of the cloud fragments and a luminosity of the newly-formed jet. Spectroscopic and imaging observations from 1.6 - 11 mum (Subaru/IRCS, COMICS) will also be conducted to understand processes responsible for near to mid-infrared emission during the accretion event.

High Performance Molecular Visualization: In-Situ and Parallel Rendering with EGL.

PubMed

Stone, John E; Messmer, Peter; Sisneros, Robert; Schulten, Klaus

2016-05-01

Large scale molecular dynamics simulations produce terabytes of data that is impractical to transfer to remote facilities. It is therefore necessary to perform visualization tasks in-situ as the data are generated, or by running interactive remote visualization sessions and batch analyses co-located with direct access to high performance storage systems. A significant challenge for deploying visualization software within clouds, clusters, and supercomputers involves the operating system software required to initialize and manage graphics acceleration hardware. Recently, it has become possible for applications to use the Embedded-system Graphics Library (EGL) to eliminate the requirement for windowing system software on compute nodes, thereby eliminating a significant obstacle to broader use of high performance visualization applications. We outline the potential benefits of this approach in the context of visualization applications used in the cloud, on commodity clusters, and supercomputers. We discuss the implementation of EGL support in VMD, a widely used molecular visualization application, and we outline benefits of the approach for molecular visualization tasks on petascale computers, clouds, and remote visualization servers. We then provide a brief evaluation of the use of EGL in VMD, with tests using developmental graphics drivers on conventional workstations and on Amazon EC2 G2 GPU-accelerated cloud instance types. We expect that the techniques described here will be of broad benefit to many other visualization applications.

High Performance Molecular Visualization: In-Situ and Parallel Rendering with EGL

PubMed Central

Stone, John E.; Messmer, Peter; Sisneros, Robert; Schulten, Klaus

2016-01-01

Large scale molecular dynamics simulations produce terabytes of data that is impractical to transfer to remote facilities. It is therefore necessary to perform visualization tasks in-situ as the data are generated, or by running interactive remote visualization sessions and batch analyses co-located with direct access to high performance storage systems. A significant challenge for deploying visualization software within clouds, clusters, and supercomputers involves the operating system software required to initialize and manage graphics acceleration hardware. Recently, it has become possible for applications to use the Embedded-system Graphics Library (EGL) to eliminate the requirement for windowing system software on compute nodes, thereby eliminating a significant obstacle to broader use of high performance visualization applications. We outline the potential benefits of this approach in the context of visualization applications used in the cloud, on commodity clusters, and supercomputers. We discuss the implementation of EGL support in VMD, a widely used molecular visualization application, and we outline benefits of the approach for molecular visualization tasks on petascale computers, clouds, and remote visualization servers. We then provide a brief evaluation of the use of EGL in VMD, with tests using developmental graphics drivers on conventional workstations and on Amazon EC2 G2 GPU-accelerated cloud instance types. We expect that the techniques described here will be of broad benefit to many other visualization applications. PMID:27747137

Excitation and Disruption of a Giant Molecular Cloud by the Sepurnova Remnant 3C 391

NASA Technical Reports Server (NTRS)

Reach, W. T.; Rho, J.

1998-01-01

The ambient molecular gas at the distance of the remnant comprises a giant molecular cloud whose edge is closely parallel to a ridge of bright non-thermal radio continuum, which evidently delineates the blast-wave into the cloud.

Helical magnetic fields in molecular clouds?. A new method to determine the line-of-sight magnetic field structure in molecular clouds

NASA Astrophysics Data System (ADS)

Tahani, M.; Plume, R.; Brown, J. C.; Kainulainen, J.

2018-06-01

Context. Magnetic fields pervade in the interstellar medium (ISM) and are believed to be important in the process of star formation, yet probing magnetic fields in star formation regions is challenging. Aims: We propose a new method to use Faraday rotation measurements in small-scale star forming regions to find the direction and magnitude of the component of magnetic field along the line of sight. We test the proposed method in four relatively nearby regions of Orion A, Orion B, Perseus, and California. Methods: We use rotation measure data from the literature. We adopt a simple approach based on relative measurements to estimate the rotation measure due to the molecular clouds over the Galactic contribution. We then use a chemical evolution code along with extinction maps of each cloud to find the electron column density of the molecular cloud at the position of each rotation measure data point. Combining the rotation measures produced by the molecular clouds and the electron column density, we calculate the line-of-sight magnetic field strength and direction. Results: In California and Orion A, we find clear evidence that the magnetic fields at one side of these filamentary structures are pointing towards us and are pointing away from us at the other side. Even though the magnetic fields in Perseus might seem to suggest the same behavior, not enough data points are available to draw such conclusions. In Orion B, as well, there are not enough data points available to detect such behavior. This magnetic field reversal is consistent with a helical magnetic field morphology. In the vicinity of available Zeeman measurements in OMC-1, OMC-B, and the dark cloud Barnard 1, we find magnetic field values of - 23 ± 38 μG, - 129 ± 28 μG, and 32 ± 101 μG, respectively, which are in agreement with the Zeeman measurements. Tables 1 to 7 are only available at the CDS via anonymous ftp to http://cdsarc.u-strasbg.fr (ftp://130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/614/A100

Relationship between molecular connectivity and carcinogenic activity: a confirmation with a new software program based on graph theory.

PubMed Central

Malacarne, D; Pesenti, R; Paolucci, M; Parodi, S

1993-01-01

For a database of 826 chemicals tested for carcinogenicity, we fragmented the structural formula of the chemicals into all possible contiguous-atom fragments with size between two and eight (nonhydrogen) atoms. The fragmentation was obtained using a new software program based on graph theory. We used 80% of the chemicals as a training set and 20% as a test set. The two sets were obtained by random sorting. From the training sets, an average (8 computer runs with independently sorted chemicals) of 315 different fragments were significantly (p < 0.125) associated with carcinogenicity or lack thereof. Even using this relatively low level of statistical significance, 23% of the molecules of the test sets lacked significant fragments. For 77% of the molecules of the test sets, we used the presence of significant fragments to predict carcinogenicity. The average level of accuracy of the predictions in the test sets was 67.5%. Chemicals containing only positive fragments were predicted with an accuracy of 78.7%. The level of accuracy was around 60% for chemicals characterized by contradictory fragments or only negative fragments. In a parallel manner, we performed eight paired runs in which carcinogenicity was attributed randomly to the molecules of the training sets. The fragments generated by these pseudo-training sets were devoid of any predictivity in the corresponding test sets. Using an independent software program, we confirmed (for the complex biological endpoint of carcinogenicity) the validity of a structure-activity relationship approach of the type proposed by Klopman and Rosenkranz with their CASE program. Images Figure 1. Figure 2. Figure 3. Figure 4. Figure 5. Figure 6. PMID:8275991

Spectral shifting strongly constrains molecular cloud disruption by radiation pressure on dust

NASA Astrophysics Data System (ADS)

Reissl, Stefan; Klessen, Ralf S.; Mac Low, Mordecai-Mark; Pellegrini, Eric W.

2018-03-01

Aim. We aim to test the hypothesis that radiation pressure from young star clusters acting on dust is the dominant feedback agent disrupting the largest star-forming molecular clouds and thus regulating the star-formation process. Methods: We performed multi-frequency, 3D, radiative transfer calculations including both scattering and absorption and re-emission to longer wavelengths for model clouds with masses of 104-107 M⊙, containing embedded clusters with star formation efficiencies of 0.009-91%, and varying maximum grain sizes up to 200 μm. We calculated the ratio between radiative and gravitational forces to determine whether radiation pressure can disrupt clouds. Results: We find that radiation pressure acting on dust almost never disrupts star-forming clouds. Ultraviolet and optical photons from young stars to which the cloud is optically thick do not scatter much. Instead, they quickly get absorbed and re-emitted by the dust at thermal wavelengths. As the cloud is typically optically thin to far-infrared radiation, it promptly escapes, depositing little momentum in the cloud. The resulting spectrum is more narrowly peaked than the corresponding Planck function, and exhibits an extended tail at longer wavelengths. As the opacity drops significantly across the sub-mm and mm wavelength regime, the resulting radiative force is even smaller than for the corresponding single-temperature blackbody. We find that the force from radiation pressure falls below the strength of gravitational attraction by an order of magnitude or more for either Milky Way or moderate starbust conditions. Only for unrealistically large maximum grain sizes, and star formation efficiencies far exceeding 50% do we find that the strength of radiation pressure can exceed gravity. Conclusions: We conclude that radiation pressure acting on dust does not disrupt star-forming molecular clouds in any Local Group galaxies. Radiation pressure thus appears unlikely to regulate the star-formation process on either local or global scales.

RE-EXAMINING LARSON'S SCALING RELATIONSHIPS IN GALACTIC MOLECULAR CLOUDS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Heyer, Mark; Krawczyk, Coleman; Duval, Julia

The properties of Galactic molecular clouds tabulated by Solomon et al. (SRBY) are re-examined using the Boston University-FCRAO Galactic Ring Survey of {sup 13}CO J = 1-0 emission. These new data provide a lower opacity tracer of molecular clouds and improved angular and spectral resolution compared with previous surveys of molecular line emission along the Galactic Plane. We calculate giant molecular cloud (GMC) masses within the SRBY cloud boundaries assuming local thermodynamic equilibrium (LTE) conditions throughout the cloud and a constant H{sub 2} to {sup 13}CO abundance, while accounting for the variation of the {sup 12}C/{sup 13}C with galactocentric radius.more » The LTE-derived masses are typically five times smaller than the SRBY virial masses. The corresponding median mass surface density of molecular hydrogen for this sample is 42 M{sub sun} pc{sup -2}, which is significantly lower than the value derived by SRBY (median 206 M{sub sun} pc{sup -2}) that has been widely adopted by most models of cloud evolution and star formation. This discrepancy arises from both the extrapolation by SRBY of velocity dispersion, size, and CO luminosity to the 1 K antenna temperature isophote that likely overestimates the GMC masses and our assumption of constant {sup 13}CO abundance over the projected area of each cloud. Owing to the uncertainty of molecular abundances in the envelopes of clouds, the mass surface density of GMCs could be larger than the values derived from our {sup 13}CO measurements. From velocity dispersions derived from the {sup 13}CO data, we find that the coefficient of the cloud structure functions, v{sup 0} = {sigma}{sub v}/R {sup 1/2}, is not constant, as required to satisfy Larson's scaling relationships, but rather systematically varies with the surface density of the cloud as {approx}{sigma}{sup 0.5} as expected for clouds in self-gravitational equilibrium.« less

Star formation in evolving molecular clouds

NASA Astrophysics Data System (ADS)

Völschow, M.; Banerjee, R.; Körtgen, B.

2017-09-01

Molecular clouds are the principle stellar nurseries of our universe; they thus remain a focus of both observational and theoretical studies. From observations, some of the key properties of molecular clouds are well known but many questions regarding their evolution and star formation activity remain open. While numerical simulations feature a large number and complexity of involved physical processes, this plethora of effects may hide the fundamentals that determine the evolution of molecular clouds and enable the formation of stars. Purely analytical models, on the other hand, tend to suffer from rough approximations or a lack of completeness, limiting their predictive power. In this paper, we present a model that incorporates central concepts of astrophysics as well as reliable results from recent simulations of molecular clouds and their evolutionary paths. Based on that, we construct a self-consistent semi-analytical framework that describes the formation, evolution, and star formation activity of molecular clouds, including a number of feedback effects to account for the complex processes inside those objects. The final equation system is solved numerically but at much lower computational expense than, for example, hydrodynamical descriptions of comparable systems. The model presented in this paper agrees well with a broad range of observational results, showing that molecular cloud evolution can be understood as an interplay between accretion, global collapse, star formation, and stellar feedback.

DNA Extraction from Museum Specimens of Parasitic Hymenoptera

PubMed Central

Andersen, Jeremy C.; Mills, Nicholas J.

2012-01-01

At the same time that molecular researchers are improving techniques to extract DNA from museum specimens, this increased demand for access to museum specimens has created tension between the need to preserve specimens for maintaining collections and morphological research and the desire to conduct molecular analyses. To address these concerns, we examined the suitability of non-invasive DNA extraction techniques on three species of parasitic Hymenoptera (Braconidae), and test the effects of body size (parasitoid species), age (time since collection), and DNA concentration from each extract on the probability of amplifying meaningful fragments of two commonly used genetic loci. We found that age was a significant factor for determining the probability of success for sequencing both 28S and COI fragments. While the size of the braconid parasitoids significantly affected the total amount of extracted DNA, neither size nor DNA concentration were significant factors for the amplification of either gene region. We also tested several primer combinations of various lengths, but were unable to amplify fragments longer than ∼150 base pairs. These short fragments of 28S and COI were however sufficient for species identification, and for the discovery of within species genetic variation. PMID:23077493

Variations between Dust and Gas in the Diffuse Interstellar Medium. III. Changes in Dust Properties

NASA Astrophysics Data System (ADS)

Reach, William T.; Bernard, Jean-Philippe; Jarrett, Thomas H.; Heiles, Carl

2017-12-01

We study infrared emission of 17 isolated, diffuse clouds with masses of order {10}2 {M}ȯ to test the hypothesis that grain property variations cause the apparently low gas-to-dust ratios that have been measured in those clouds. Maps of the clouds were constructed from Wide-field Infrared Survey Explorer (WISE) data and directly compared with the maps of dust optical depth from Planck. The mid-infrared emission per unit dust optical depth has a significant trend toward lower values at higher optical depths. The trend can be quantitatively explained by the extinction of starlight within the clouds. The relative amounts of polycyclic aromatic hydrocarbon and very small grains traced by WISE, compared with large grains tracked by Planck, are consistent with being constant. The temperature of the large grains significantly decreases for clouds with larger dust optical depth; this trend is partially due to dust property variations, but is primarily due to extinction of starlight. We updated the prediction for molecular hydrogen column density, taking into account variations in dust properties, and find it can explain the observed dust optical depth per unit gas column density. Thus, the low gas-to-dust ratios in the clouds are most likely due to “dark gas” that is molecular hydrogen.

A Herschel [C ii] Galactic plane survey. II. CO-dark H2 in clouds

NASA Astrophysics Data System (ADS)

Langer, W. D.; Velusamy, T.; Pineda, J. L.; Willacy, K.; Goldsmith, P. F.

2014-01-01

Context. H i and CO large scale surveys of the Milky Way trace the diffuse atomic clouds and the dense shielded regions of molecular hydrogen clouds, respectively. However, until recently, we have not had spectrally resolved C+ surveys in sufficient lines of sight to characterize the ionized and photon dominated components of the interstellar medium, in particular, the H2 gas without CO, referred to as CO-dark H2, in a large sample of interstellar clouds. Aims: We use a sparse Galactic plane survey of the 1.9 THz (158 μm) [C ii] spectral line from the Herschel open time key programme, Galactic Observations of Terahertz C+ (GOT C+), to characterize the H2 gas without CO in a statistically significant sample of interstellar clouds. Methods: We identify individual clouds in the inner Galaxy by fitting the [C ii] and CO isotopologue spectra along each line of sight. We then combine these spectra with those of H i and use them along with excitation models and cloud models of C+ to determine the column densities and fractional mass of CO-dark H2 clouds. Results: We identify1804 narrow velocity [C ii] components corresponding to interstellar clouds in different categories and evolutionary states. About 840 are diffuse molecular clouds with no CO, ~510 are transition clouds containing [C ii] and 12CO, but no 13CO, and the remainder are dense molecular clouds containing 13CO emission. The CO-dark H2 clouds are concentrated between Galactic radii of ~3.5 to 7.5 kpc and the column density of the CO-dark H2 layer varies significantly from cloud to cloud with a global average of 9 × 1020 cm-2. These clouds contain a significant fraction by mass of CO-dark H2, that varies from ~75% for diffuse molecular clouds to ~20% for dense molecular clouds. Conclusions: We find a significant fraction of the warm molecular ISM gas is invisible in H i and CO, but is detected in [C ii]. The fraction of CO-dark H2 is greatest in the diffuse clouds and decreases with increasing total column density, and is lowest in the massive clouds. The column densities and mass fraction of CO-dark H2 are less than predicted by models of diffuse molecular clouds using solar metallicity, which is not surprising as most of our detections are in Galactic regions where the metallicity is larger and shielding more effective. There is an overall trend towards a higher fraction of CO-dark H2 in clouds with increasing Galactic radius, consistent with lower metallicity there. Herschel is an ESA space observatory with science instruments provided by European-led Principal Investigator consortia and with important participation from NASA.

Featured Image: A Molecular Cloud Outside Our Galaxy

NASA Astrophysics Data System (ADS)

Kohler, Susanna

2018-06-01

What do molecular clouds look like outside of our own galaxy? See for yourself in the images above and below of N55, a molecular cloud located in the Large Magellanic Cloud (LMC). In a recent study led by Naslim Neelamkodan (Academia Sinica Institute of Astronomy and Astrophysics, Taiwan), a team of scientists explore N55 to determine how its cloud properties differ from clouds within the Milky Way. The image above reveals the distribution of infrared-emitting gas and dust observed in three bands by the Spitzer Space Telescope. Overplotted in cyan are observations from the Atacama Submillimeter Telescope Experiment tracing the clumpy, warm molecular gas. Below, new observations from the Atacama Large Millimeter/submillimeter Array (ALMA) reveal the sub-parsec-scale molecular clumps in greater detail, showing the correlation of massive clumps with Spitzer-identified young stellar objects (crosses). The study presented here indicates that this cloud in the LMC is the site of massive star formation, with properties similar to equivalent clouds in the Milky Way. To learn more about the authors findings, check out the article linked below.CitationNaslim N. et al 2018 ApJ 853 175. doi:10.3847/1538-4357/aaa5b0

A search for pre-main sequence stars in the high-latitude molecular clouds. II - A survey of the Einstein database

NASA Technical Reports Server (NTRS)

Caillault, Jean-Pierre; Magnani, Loris

1990-01-01

The preliminary results are reported of a survey of every EINSTEIN image which overlaps any high-latitude molecular cloud in a search for X-ray emitting pre-main sequence stars. This survey, together with complementary KPNO and IRAS data, will allow the determination of how prevalent low mass star formation is in these clouds in general and, particularly, in the translucent molecular clouds.

The necessity of feedback physics in setting the peak of the initial mass function

NASA Astrophysics Data System (ADS)

Guszejnov, Dávid; Krumholz, Mark R.; Hopkins, Philip F.

2016-05-01

A popular theory of star formation is gravito-turbulent fragmentation, in which self-gravitating structures are created by turbulence-driven density fluctuations. Simple theories of isothermal fragmentation successfully reproduce the core mass function (CMF) which has a very similar shape to the initial mass function (IMF) of stars. However, numerical simulations of isothermal turbulent fragmentation thus far have not succeeded in identifying a fragment mass scale that is independent of the simulation resolution. Moreover, the fluid equations for magnetized, self-gravitating, isothermal turbulence are scale-free, and do not predict any characteristic mass. In this paper we show that, although an isothermal self-gravitating flow does produce a CMF with a mass scale imposed by the initial conditions, this scale changes as the parent cloud evolves. In addition, the cores that form undergo further fragmentation and after sufficient time forget about their initial conditions, yielding a scale-free pure power-law distribution dN/dM ∝ M-2 for the stellar IMF. We show that this problem can be alleviated by introducing additional physics that provides a termination scale for the cascade. Our candidate for such physics is a simple model for stellar radiation feedback. Radiative heating, powered by accretion on to forming stars, arrests the fragmentation cascade and imposes a characteristic mass scale that is nearly independent of the time-evolution or initial conditions in the star-forming cloud, and that agrees well with the peak of the observed IMF. In contrast, models that introduce a stiff equation of state for denser clouds but that do not explicitly include the effects of feedback do not yield an invariant IMF.

Surveys of Puerto Rican screech-owl populations in large-tract and fragmented forest habitats

USGS Publications Warehouse

Pardieck, K.L.; Meyers, J.M.; Pagan, M.

1996-01-01

We conducted road surveys of Puerto Rican Screech-Owls (Otus nudipes) by playing conspecific vocalizations in secondary wet forest and fragmented secondary moist forest in rural areas of eastern Puerto Rico. Six paired surveys were conducted bi-weekly beginning in April. We recorded number of owl responses, cloud cover, wind speed, moon phase, and number of passing cars during 5-min stops at 60 locations. Owls responded in similar numbers (P > 0.05) in both habitat types. Also, we detected no association with cloud cover, wind speed, moon phase, or passing cars.

Radiation Hydrodynamics with GIZMO: The Disruption of Giant Molecular Clouds by Stellar Radiation Pressure

NASA Astrophysics Data System (ADS)

Khatami, David; Hopkins, Philip F.

2016-01-01

We present a numerical implementation of radiation hydrodynamics for the meshless code GIZMO. The radiation transport is treated as an anisotropic diffusion process combined with radiation pressure effects, photoionization with heating and cooling routines, and a multifrequency treatment of an arbitrary number of sources. As a first application of the method, we investigate the disruption of giant molecular clouds by stellar radiative feedback. Specifically, what fraction of the gas must a GMC convert into stars to cause self-disruption? We test a range of cloud masses and sizes with several source luminosities to probe the effects of photoheating and radiation pressure on timescales shorter than the onset of the first supernovae. Observationally, only ~1-10% of gas is converted into stars, an inefficiency that is likely the result of feedback from newly formed stars. Whether photoheating or radiation pressure dominates is dependent on the given cloud properties. For denser clouds, we expect photoheating to play a negligible role with most of the feedback driven by radiation pressure. This work explores the necessary parameters a GMC must have in order for radiation pressure to be the main disruption process.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Asahina, Yuta; Kawashima, Tomohisa; Furukawa, Naoko

The formation mechanism of CO clouds observed with the NANTEN2 and Mopra telescopes toward the stellar cluster Westerlund 2 is studied by 3D magnetohydrodynamic simulations, taking into account the interstellar cooling. These molecular clouds show a peculiar shape composed of an arc-shaped cloud on one side of the TeV γ -ray source HESS J1023-575 and a linear distribution of clouds (jet clouds) on the other side. We propose that these clouds are formed by the interaction of a jet with clumps of interstellar neutral hydrogen (H i). By studying the dependence of the shape of dense cold clouds formed bymore » shock compression and cooling on the filling factor of H i clumps, we found that the density distribution of H i clumps determines the shape of molecular clouds formed by the jet–cloud interaction: arc clouds are formed when the filling factor is large. On the other hand, when the filling factor is small, molecular clouds align with the jet. The jet propagates faster in models with small filling factors.« less

Cool Star Beginnings: YSOs in the Perseus Molecular Cloud

NASA Astrophysics Data System (ADS)

Young, Kaisa E.; Young, Chadwick H.

2015-01-01

Nearby molecular clouds, where there is considerable evidence of ongoing star formation, provide the best opportunity to observe stars in the earliest stages of their formation. The Perseus molecular cloud contains two young clusters, IC 348 and NGC 1333 and several small dense cores of the type that produce only a few stars. Perseus is often cited as an intermediate case between quiescent low-mass and turbulent high-mass clouds, making it perhaps an ideal environment for studying ``typical low-mass star formation. We present an infrared study of the Perseus molecular cloud with data from the Spitzer Space Telescope as part of the ``From Molecular Cores to Planet Forming Disks (c2d) Legacy project tep{eva03}. By comparing Spitzer's near- and mid-infrared maps, we identify and classify the young stellar objects (YSOs) in the cloud using updated extinction corrected photometry. Virtually all of the YSOs in Perseus are forming in the clusters and other smaller associations at the east and west ends of the cloud with very little evidence of star formation in the midsection even in areas of high extinction.

Making and Breaking Clouds

NASA Astrophysics Data System (ADS)

Kohler, Susanna

2017-10-01

Molecular clouds which youre likely familiar with from stunning popular astronomy imagery lead complicated, tumultuous lives. A recent study has now found that these features must be rapidly built and destroyed.Star-Forming CollapseA Hubble view of a molecular cloud, roughly two light-years long, that has broken off of the Carina Nebula. [NASA/ESA, N. Smith (University of California, Berkeley)/The Hubble Heritage Team (STScI/AURA)]Molecular gas can be found throughout our galaxy in the form of eminently photogenic clouds (as featured throughout this post). Dense, cold molecular gas makes up more than 20% of the Milky Ways total gas mass, and gravitational instabilities within these clouds lead them to collapse under their own weight, resulting in the formation of our galaxys stars.How does this collapse occur? The simplest explanation is that the clouds simply collapse in free fall, with no source of support to counter their contraction. But if all the molecular gas we observe collapsed on free-fall timescales, star formation in our galaxy would churn a rate thats at least an order of magnitude higher than the observed 12 solar masses per year in the Milky Way.Destruction by FeedbackAstronomers have theorized that there may be some mechanism that supports these clouds against gravity, slowing their collapse. But both theoretical studies and observations of the clouds have ruled out most of these potential mechanisms, and mounting evidence supports the original interpretation that molecular clouds are simply gravitationally collapsing.A sub-mm image from ESOs APEX telescope of part of the Taurus molecular cloud, roughly ten light-years long, superimposed on a visible-light image of the region. [ESO/APEX (MPIfR/ESO/OSO)/A. Hacar et al./Digitized Sky Survey 2. Acknowledgment: Davide De Martin]If this is indeed the case, then one explanation for our low observed star formation rate could be that molecular clouds are rapidly destroyed by feedback from the very stars they create. But to match with observations, this wouldsuggest that molecular clouds are short-lived objects that are built (and therefore replenished) just as quickly as they are destroyed. Is this possible?Speedy Building?In a recent study, a team of scientists led by Mordecai-Mark Mac Low (American Museum of Natural History and Heidelberg University, Germany) explore whether there is a way to create molecular clouds rapidly enough to match the necessary rate of destruction.Mac Low and collaborators find that some common mechanisms used to explain the formation of molecular clouds like gas being swept up by supernovae cant quite operate quickly enough to combat the rate of cloud destruction. On the other hand, the Toomre gravitational instability,which is a large-scale gravitational instability that occurs in gas disks,can very rapidly assemble gas into clumps dense enough to form molecules.A composite of visible and near-infrared images from the VLT ANTU telescope of the Barnard 68 molecular cloud, roughly half a light-year in diameter. [ESO]A Rapid CycleBased on their findings, the authors argue that dense, star-forming molecular clouds persist only for a short time before collapsing into stars and then being blown apart by stellar feedback but these very clouds are built equally quickly via gravitational instabilities.Conveniently, this model has a very testable prediction: the Toomre instability is expected to become even stronger at higher redshift, which suggests that the fraction of gas in the form of molecules should increase at high redshifts. This appears to agree with observations, supporting the authors picture of a rapid cycle of cloud assembly and destruction.CitationMordecai-Mark Mac Low et al 2017 ApJL 847 L10. doi:10.3847/2041-8213/aa8a61

Chemical evolution of molecular clouds

NASA Technical Reports Server (NTRS)

Prasad, Sheo S.; Tarafdar, Sankar P.; Villere, Karen R.; Huntress, Wesley T., Jr.

1987-01-01

The principles behind the coupled chemical-dynamical evolution of molecular clouds are described. Particular attention is given to current problems involving the simplest species (i.e., C. CO, O2, and H2) in quiescent clouds. The results of a comparison made between the molecular abundances in the Orion ridge and the hot core (Blake, 1986) are presented.

Biogenic, urban, and wildfire influences on the molecular composition of dissolved organic compounds in cloud water

DOE PAGES

Cook, Ryan D.; Lin, Ying-Hsuan; Peng, Zhuoyu; ...

2017-12-21

Organic aerosol formation and transformation occurs within aqueous aerosol and cloud droplets, yet little is known about the composition of high molecular weight organic compounds in cloud water. Cloud water samples collected at Whiteface Mountain, New York, during August-September 2014 were analyzed by ultra-high-resolution mass spectrometry to investigate the molecular composition of dissolved organic carbon, with a focus on sulfur- and nitrogen-containing compounds. Organic molecular composition was evaluated in the context of cloud water inorganic ion concentrations, pH, and total organic carbon concentrations to gain insights into the sources and aqueous-phase processes of the observed high molecular weight organic compounds.more » Cloud water acidity was positively correlated with the average oxygen : carbon ratio of the organic constituents, suggesting the possibility for aqueous acid-catalyzed (prior to cloud droplet activation or during/after cloud droplet evaporation) and/or radical (within cloud droplets) oxidation processes. Many tracer compounds recently identified in laboratory studies of bulk aqueous-phase reactions were identified in the cloud water. Organosulfate compounds, with both biogenic and anthropogenic volatile organic compound precursors, were detected for cloud water samples influenced by air masses that had traveled over forested and populated areas. Oxidation products of long-chain (C 10-12) alkane precursors were detected during urban influence. Influence of Canadian wildfires resulted in increased numbers of identified sulfur-containing compounds and oligomeric species, including those formed through aqueous-phase reactions involving methylglyoxal. Light-absorbing aqueous-phase products of syringol and guaiacol oxidation were observed in the wildfire-influenced samples, and dinitroaromatic compounds were observed in all cloud water samples (wildfire, biogenic, and urban-influenced). Overall, the cloud water molecular composition depended on air mass source influence and reflected aqueous-phase reactions involving biogenic, urban, and biomass burning precursors.« less

Biogenic, urban, and wildfire influences on the molecular composition of dissolved organic compounds in cloud water

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cook, Ryan D.; Lin, Ying-Hsuan; Peng, Zhuoyu

Organic aerosol formation and transformation occurs within aqueous aerosol and cloud droplets, yet little is known about the composition of high molecular weight organic compounds in cloud water. Cloud water samples collected at Whiteface Mountain, New York, during August-September 2014 were analyzed by ultra-high-resolution mass spectrometry to investigate the molecular composition of dissolved organic carbon, with a focus on sulfur- and nitrogen-containing compounds. Organic molecular composition was evaluated in the context of cloud water inorganic ion concentrations, pH, and total organic carbon concentrations to gain insights into the sources and aqueous-phase processes of the observed high molecular weight organic compounds.more » Cloud water acidity was positively correlated with the average oxygen : carbon ratio of the organic constituents, suggesting the possibility for aqueous acid-catalyzed (prior to cloud droplet activation or during/after cloud droplet evaporation) and/or radical (within cloud droplets) oxidation processes. Many tracer compounds recently identified in laboratory studies of bulk aqueous-phase reactions were identified in the cloud water. Organosulfate compounds, with both biogenic and anthropogenic volatile organic compound precursors, were detected for cloud water samples influenced by air masses that had traveled over forested and populated areas. Oxidation products of long-chain (C 10-12) alkane precursors were detected during urban influence. Influence of Canadian wildfires resulted in increased numbers of identified sulfur-containing compounds and oligomeric species, including those formed through aqueous-phase reactions involving methylglyoxal. Light-absorbing aqueous-phase products of syringol and guaiacol oxidation were observed in the wildfire-influenced samples, and dinitroaromatic compounds were observed in all cloud water samples (wildfire, biogenic, and urban-influenced). Overall, the cloud water molecular composition depended on air mass source influence and reflected aqueous-phase reactions involving biogenic, urban, and biomass burning precursors.« less

NARROW Na AND K ABSORPTION LINES TOWARD T TAURI STARS: TRACING THE ATOMIC ENVELOPE OF MOLECULAR CLOUDS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pascucci, I.; Simon, M. N.; Edwards, S.

2015-11-20

We present a detailed analysis of narrow Na i and K i absorption resonance lines toward nearly 40 T Tauri stars in Taurus with the goal of clarifying their origin. The Na i λ5889.95 line is detected toward all but one source, while the weaker K i λ7698.96 line is detected in about two-thirds of the sample. The similarity in their peak centroids and the significant positive correlation between their equivalent widths demonstrate that these transitions trace the same atomic gas. The absorption lines are present toward both disk and diskless young stellar objects, which excludes cold gas within themore » circumstellar disk as the absorbing material. A comparison of Na i and CO detections and peak centroids demonstrates that the atomic gas and molecular gas are not co-located, the atomic gas being more extended than the molecular gas. The width of the atomic lines corroborates this finding and points to atomic gas about an order of magnitude warmer than the molecular gas. The distribution of Na i radial velocities shows a clear spatial gradient along the length of the Taurus molecular cloud filaments. This suggests that absorption is associated with the Taurus molecular cloud. Assuming that the gradient is due to cloud rotation, the rotation of the atomic gas is consistent with differential galactic rotation, whereas the rotation of the molecular gas, although with the same rotation axis, is retrograde. Our analysis shows that narrow Na i and K i absorption resonance lines are useful tracers of the atomic envelope of molecular clouds. In line with recent findings from giant molecular clouds, our results demonstrate that the velocity fields of the atomic and molecular gas are misaligned. The angular momentum of a molecular cloud is not simply inherited from the rotating Galactic disk from which it formed but may be redistributed by cloud–cloud interactions.« less

Cloud-cloud collision in the Galactic center 50 km s-1 molecular cloud

NASA Astrophysics Data System (ADS)

Tsuboi, Masato; Miyazaki, Atsushi; Uehara, Kenta

2015-12-01

We performed a search of star-forming sites influenced by external factors, such as SNRs, H II regions, and cloud-cloud collisions (CCCs), to understand the star-forming activity in the Galactic center region using the NRO Galactic Center Survey in SiO v = 0, J = 2-1, H13CO+J = 1-0, and CS J = 1-0 emission lines obtained with the Nobeyama 45 m telescope. We found a half-shell-like feature (HSF) with a high integrated line intensity ratio of ∫TB(SiO v = 0, J = 2-1)dv/∫TB(H13CO+J = 1-0)dv ˜ 6-8 in the 50 km s-1 molecular cloud; the HSF is a most conspicuous molecular cloud in the region and harbors an active star-forming site where several compact H II regions can be seen. The high ratio in the HSF indicates that the cloud contains huge shocked molecular gas. The HSF can be also seen as a half-shell feature in the position-velocity diagram. A hypothesis explaining the chemical and kinetic properties of the HSF is that the feature originates from a CCC. We analyzed the CS J = 1-0 emission line data obtained with the Nobeyama Millimeter Array to reveal the relation between the HSF and the molecular cloud cores in the cloud. We made a cumulative core mass function (CMF) of the molecular cloud cores within the HSF. The CMF in the CCC region is not truncated at least up to ˜2500 M⊙, although the CMF of the non-CCC region reaches the upper limit of ˜1500 M⊙. Most massive molecular cores with Mgas > 750 M⊙ are located only around the ridge of the HSF and adjoin the compact H II region. These may be a sign of massive star formation induced by CCCs in the Galactic center region.

Studies for the loss of atomic and molecular species from Io

NASA Technical Reports Server (NTRS)

Combi, Michael R.

1994-01-01

The general objective of this project is to advance theoretical understanding of Io's atmosphere and how various atomic and molecular species are lost from this atmosphere and are distributed in the circumplanetary environment of Jupiter. The major task for the University of Michigan portion of this work is the generalization of the Io sodium cloud model to simulate the ion-precursor of sodium that is the apparent source of the fast sodium jet observed by Schneider et al. (1991). The goal is a quantitative test of the molecular ion hypothesis with a model that is comparable to a general sodium cloud model published previously. A detailed comparison of observations with such a model will help to probe the feasibility of such a source and to examine the rates and scale lengths associated with the decay of the ion precursor so as to possibly uncover the identity of the parent ion. Another important task to be performed at Michigan is more support of AER in the general area of modeling the Na and SO2-family clouds.

Fragment-based 13C nuclear magnetic resonance chemical shift predictions in molecular crystals: An alternative to planewave methods

NASA Astrophysics Data System (ADS)

Hartman, Joshua D.; Monaco, Stephen; Schatschneider, Bohdan; Beran, Gregory J. O.

2015-09-01

We assess the quality of fragment-based ab initio isotropic 13C chemical shift predictions for a collection of 25 molecular crystals with eight different density functionals. We explore the relative performance of cluster, two-body fragment, combined cluster/fragment, and the planewave gauge-including projector augmented wave (GIPAW) models relative to experiment. When electrostatic embedding is employed to capture many-body polarization effects, the simple and computationally inexpensive two-body fragment model predicts both isotropic 13C chemical shifts and the chemical shielding tensors as well as both cluster models and the GIPAW approach. Unlike the GIPAW approach, hybrid density functionals can be used readily in a fragment model, and all four hybrid functionals tested here (PBE0, B3LYP, B3PW91, and B97-2) predict chemical shifts in noticeably better agreement with experiment than the four generalized gradient approximation (GGA) functionals considered (PBE, OPBE, BLYP, and BP86). A set of recommended linear regression parameters for mapping between calculated chemical shieldings and observed chemical shifts are provided based on these benchmark calculations. Statistical cross-validation procedures are used to demonstrate the robustness of these fits.

Fragment-based (13)C nuclear magnetic resonance chemical shift predictions in molecular crystals: An alternative to planewave methods.

PubMed

Hartman, Joshua D; Monaco, Stephen; Schatschneider, Bohdan; Beran, Gregory J O

2015-09-14

We assess the quality of fragment-based ab initio isotropic (13)C chemical shift predictions for a collection of 25 molecular crystals with eight different density functionals. We explore the relative performance of cluster, two-body fragment, combined cluster/fragment, and the planewave gauge-including projector augmented wave (GIPAW) models relative to experiment. When electrostatic embedding is employed to capture many-body polarization effects, the simple and computationally inexpensive two-body fragment model predicts both isotropic (13)C chemical shifts and the chemical shielding tensors as well as both cluster models and the GIPAW approach. Unlike the GIPAW approach, hybrid density functionals can be used readily in a fragment model, and all four hybrid functionals tested here (PBE0, B3LYP, B3PW91, and B97-2) predict chemical shifts in noticeably better agreement with experiment than the four generalized gradient approximation (GGA) functionals considered (PBE, OPBE, BLYP, and BP86). A set of recommended linear regression parameters for mapping between calculated chemical shieldings and observed chemical shifts are provided based on these benchmark calculations. Statistical cross-validation procedures are used to demonstrate the robustness of these fits.

Near-infrared Spectroscopy of 2M0441+2301 AabBab: A Quadruple System Spanning the Stellar to Planetary Mass Regimes

NASA Astrophysics Data System (ADS)

Bowler, Brendan P.; Hillenbrand, Lynne A.

2015-10-01

We present Keck/NIRC2 and OSIRIS near-infrared imaging and spectroscopy of 2M0441+2301 AabBab, a young (1-3 Myr) hierarchical quadruple system comprising a low-mass star, two brown dwarfs, and a planetary-mass companion in Taurus. All four components show spectroscopic signs of low surface gravity, and both 2M0441+2301 Aa and Ab possess Paβ emission indicating they each harbor accretion subdisks. Astrometry spanning 2008-2014 reveals orbital motion in both the Aab (0.″23 separation) and Bab (0.″095 separation) pairs, although the implied orbital periods of >300 years mean dynamical masses will not be possible in the near future. The faintest component (2M0441+2301 Bb) has an angular H-band shape, strong molecular absorption (VO, CO, H2O, and FeH), and shallow alkali lines, confirming its young age, late spectral type (L1 ± 1), and low temperature (≈1800 K). With individual masses of {200}-50+100 MJup, 35 ± 5 MJup, 19 ± 3 MJup, and 9.8 ± 1.8 MJup, 2M0441+2301 AabBab is the lowest-mass quadruple system known. Its hierarchical orbital architecture and mass ratios imply that it formed from the collapse and fragmentation of a molecular cloud core, demonstrating that planetary-mass companions can originate from a stellar-like pathway analogous to higher-mass quadruple star systems as first speculated by Todorov et al. More generally, cloud fragmentation may be an important formation pathway for the massive exoplanets that are now regularly being imaged on wide orbits. The data presented herein were obtained at the W. M. Keck Observatory, which is operated as a scientific partnership among the California Institute of Technology, the University of California and the National Aeronautics and Space Administration. The Observatory was made possible by the generous financial support of the W. M. Keck Foundation.

Hot-spot identification on a broad class of proteins and RNA suggest unifying principles of molecular recognition

PubMed Central

Kulp, John L.; Cloudsdale, Ian S.; Kulp, John L.

2017-01-01

Chemically diverse fragments tend to collectively bind at localized sites on proteins, which is a cornerstone of fragment-based techniques. A central question is how general are these strategies for predicting a wide variety of molecular interactions such as small molecule-protein, protein-protein and protein-nucleic acid for both experimental and computational methods. To address this issue, we recently proposed three governing principles, (1) accurate prediction of fragment-macromolecule binding free energy, (2) accurate prediction of water-macromolecule binding free energy, and (3) locating sites on a macromolecule that have high affinity for a diversity of fragments and low affinity for water. To test the generality of these concepts we used the computational technique of Simulated Annealing of Chemical Potential to design one small fragment to break the RecA-RecA protein-protein interaction and three fragments that inhibit peptide-deformylase via water-mediated multi-body interactions. Experiments confirm the predictions that 6-hydroxydopamine potently inhibits RecA and that PDF inhibition quantitatively tracks the water-mediated binding predictions. Additionally, the principles correctly predict the essential bound waters in HIV Protease, the surprisingly extensive binding site of elastase, the pinpoint location of electron transfer in dihydrofolate reductase, the HIV TAT-TAR protein-RNA interactions, and the MDM2-MDM4 differential binding to p53. The experimental confirmations of highly non-obvious predictions combined with the precise characterization of a broad range of known phenomena lend strong support to the generality of fragment-based methods for characterizing molecular recognition. PMID:28837642

Hot-spot identification on a broad class of proteins and RNA suggest unifying principles of molecular recognition.

PubMed

Kulp, John L; Cloudsdale, Ian S; Kulp, John L; Guarnieri, Frank

2017-01-01

Chemically diverse fragments tend to collectively bind at localized sites on proteins, which is a cornerstone of fragment-based techniques. A central question is how general are these strategies for predicting a wide variety of molecular interactions such as small molecule-protein, protein-protein and protein-nucleic acid for both experimental and computational methods. To address this issue, we recently proposed three governing principles, (1) accurate prediction of fragment-macromolecule binding free energy, (2) accurate prediction of water-macromolecule binding free energy, and (3) locating sites on a macromolecule that have high affinity for a diversity of fragments and low affinity for water. To test the generality of these concepts we used the computational technique of Simulated Annealing of Chemical Potential to design one small fragment to break the RecA-RecA protein-protein interaction and three fragments that inhibit peptide-deformylase via water-mediated multi-body interactions. Experiments confirm the predictions that 6-hydroxydopamine potently inhibits RecA and that PDF inhibition quantitatively tracks the water-mediated binding predictions. Additionally, the principles correctly predict the essential bound waters in HIV Protease, the surprisingly extensive binding site of elastase, the pinpoint location of electron transfer in dihydrofolate reductase, the HIV TAT-TAR protein-RNA interactions, and the MDM2-MDM4 differential binding to p53. The experimental confirmations of highly non-obvious predictions combined with the precise characterization of a broad range of known phenomena lend strong support to the generality of fragment-based methods for characterizing molecular recognition.

RACORO Extended-Term Aircraft Observations of Boundary-Layer Clouds

NASA Technical Reports Server (NTRS)

Vogelmann, Andrew M.; McFarquhar, Greg M.; Ogren, John A.; Turner, David D.; Comstock, Jennifer M.; Feingold, Graham; Long, Charles N.; Jonsson, Haflidi H.; Bucholtz, Anthony; Collins, Don R.;

Molecular clouds and galactic spiral structure

NASA Technical Reports Server (NTRS)

Dame, T. M.

1984-01-01

Galactic CO line emission at 115 GHz was surveyed in order to study the distribution of molecular clouds in the inner galaxy. Comparison of this survey with similar H1 data reveals a detailed correlation with the most intense 21 cm features. To each of the classical 21 cm H1 spiral arms of the inner galaxy there corresponds a CO molecular arm which is generally more clearly defined and of higher contrast. A simple model is devised for the galactic distribution of molecular clouds. The modeling results suggest that molecular clouds are essentially transient objects, existing for 15 to 40 million years after their formation in a spiral arm, and are largely confined to spiral features about 300 pc wide.

Substellar fragmentation in self-gravitating fluids with a major phase transition

NASA Astrophysics Data System (ADS)

Füglistaler, A.; Pfenniger, D.

2015-06-01

Context. The observation of various ices in cold molecular clouds, the existence of ubiquitous substellar, cold H2 globules in planetary nebulae and supernova remnants, or the mere existence of comets suggest that the physics of very cold interstellar gas might be much richer than usually envisioned. At the extreme of low temperatures (≲10 K), H2 itself is subject to a phase transition crossing the entire cosmic gas density scale. Aims: This well-known, laboratory-based fact motivates us to study the ideal case of a cold neutral gaseous medium in interstellar conditions for which the bulk of the mass, instead of trace elements, is subject to a gas-liquid or gas-solid phase transition. Methods: On the one hand, the equilibrium of general non-ideal fluids is studied using the virial theorem and linear stability analysis. On the other hand, the non-linear dynamics is studied using computer simulations to characterize the expected formation of solid bodies analogous to comets. The simulations are run with a state-of-the-art molecular dynamics code (LAMMPS) using the Lennard-Jones inter-molecular potential. The long-range gravitational forces can be taken into account together with short-range molecular forces with finite limited computational resources, using super-molecules, provided the right scaling is followed. Results: The concept of super-molecule, where the phase transition conditions are preserved by the proper choice of the particle parameters, is tested with computer simulations, allowing us to correctly satisfy the Jeans instability criterion for one-phase fluids. The simulations show that fluids presenting a phase transition are gravitationally unstable as well, independent of the strength of the gravitational potential, producing two distinct kinds of substellar bodies, those dominated by gravity (planetoids) and those dominated by molecular attractive force (comets). Conclusions: Observations, formal analysis, and computer simulations suggest the possibility of the formation of substellar H2 clumps in cold molecular clouds due to the combination of phase transition and gravity. Fluids presenting a phase transition are gravitationally unstable, independent of the strength of the gravitational potential. Arbitrarily small H2 clumps may form even at relatively high temperatures up to 400-600 K, according to virial analysis. The combination of phase transition and gravity may be relevant for a wider range of astrophysical situations, such as proto-planetary disks. Figures 33-44 are available in electronic form at http://www.aanda.org

Formation of young massive clusters from turbulent molecular clouds

NASA Astrophysics Data System (ADS)

Fujii, Michiko; Portegies Zwart, Simon

2015-08-01

We simulate the formation and evolution of young star clusters using smoothed-particle hydrodynamics (SPH) and direct N-body methods. We start by performing SPH simulations of the giant molecular cloud with a turbulent velocity field, a mass of 10^4 to 10^6 M_sun, and a density between 17 and 1700 cm^-3. We continue the SPH simulations for a free-fall time scale, and analyze the resulting structure of the collapsed cloud. We subsequently replace a density-selected subset of SPH particles with stars. As a consequence, the local star formation efficiency exceeds 30 per cent, whereas globally only a few per cent of the gas is converted to stars. The stellar distribution is very clumpy with typically a dozen bound conglomerates that consist of 100 to 10000 stars. We continue to evolve the stars dynamically using the collisional N-body method, which accurately treats all pairwise interactions, stellar collisions and stellar evolution. We analyze the results of the N-body simulations at 2 Myr and 10 Myr. From dense massive molecular clouds, massive clusters grow via hierarchical merging of smaller clusters. The shape of the cluster mass function that originates from an individual molecular cloud is consistent with a Schechter function with a power-law slope of beta = -1.73 at 2 Myr and beta = -1.67 at 10 Myr, which fits to observed cluster mass function of the Carina region. The superposition of mass functions have a power-law slope of < -2, which fits the observed mass function of star clusters in the Milky Way, M31 and M83. We further find that the mass of the most massive cluster formed in a single molecular cloud with a mass of M_g scales with 6.1 M_g^0.51 which also agrees with recent observation in M51. The molecular clouds which can form massive clusters are much denser than those typical in the Milky Way. The velocity dispersion of such molecular clouds reaches 20 km/s and it is consistent with the relative velocity of the molecular clouds observed near NGC 3603 and Westerlund 2, for which a triggered star formation by cloud-cloud collisions is suggested.

Amphibian Diversity and Threatened Species in a Severely Transformed Neotropical Region in Mexico

PubMed Central

Meza-Parral, Yocoyani; Pineda, Eduardo

2015-01-01

Many regions around the world concentrate a large number of highly endangered species that have very restricted distributions. The mountainous region of central Veracruz, Mexico, is considered a priority area for amphibian conservation because of its high level of endemism and the number of threatened species. The original tropical montane cloud forest in the region has been dramatically reduced and fragmented and is now mainly confined to ravines and hillsides. We evaluated the current situation of amphibian diversity in the cloud forest fragments of this region by analyzing species richness and abundance, comparing assemblage structure and species composition, examining the distribution and abundance of threatened species, and identifying the local and landscape variables associated with the observed amphibian diversity. From June to October 2012 we sampled ten forest fragments, investing 944 person-hours of sampling effort. A total of 895 amphibians belonging to 16 species were recorded. Notable differences in species richness, abundance, and assemblage structure between forest fragments were observed. Species composition between pairs of fragments differed by an average of 53%, with the majority (58%) resulting from species replacement and the rest (42%) explained by differences in species richness. Half of the species detected are under threat of extinction according to the International Union for Conservation of Nature, and although their distribution and abundance varied markedly, there were also ubiquitous and abundant species, along with rare species of restricted distribution. The evident heterogeneity of the ten study sites indicates that to conserve amphibians in a mountainous region such as this one it is necessary to protect groups of fragments which represent the variability of the system. Both individually and together cloud forest fragments are very important to conservation because each remnant is inhabited by several threatened species, some of them at imminent risk of extinction. PMID:25799369

Cosmic-ray ionisation of dense molecular clouds

NASA Astrophysics Data System (ADS)

Vaupre, Solenn

2015-07-01

Cosmic rays (CR) are of tremendous importance in the dynamical and chemical evolution of interstellar molecular clouds, where stars and planets form. CRs are likely accelerated in the shells of supernova remnants (SNR), thus molecular clouds nearby can be irradiated by intense fluxes of CRs. CR protons have two major effects on dense molecular clouds: 1) when they encounter the dense medium, high-energy protons (>280 MeV) create pions that decay into gamma-rays. This process makes SNR-molecular cloud associations intense GeV and/or TeV sources whose spectra mimic the CR spectrum. 2) at lower energies, CRs penetrate the cloud and ionise the gas, leading to the formation of molecular species characteristic of the presence of CRs, called tracers of the ionisation. Studying these tracers gives information on low-energy CRs that are unaccessible to any other observations. I studied the CR ionisation of molecular clouds next to three SNRs: W28, W51C and W44. These SNRs are known to be interacting with the nearby clouds, from the presence of shocked gas, OH masers and pion-decay induced gamma-ray emission. My work includes millimeter observations and chemical modeling of tracers of the ionisation in these dense molecular clouds. In these three regions, we determined an enhanced CR ionisation rate, supporting the hypothesis of an origin of the CRs in the SNR nearby. The evolution of the CR ionisation rate with the distance to the SNR brings valuable constraints on the propagation properties of low-energy CRs. The method used relies on observations of the molecular ions HCO+ and DCO+, which shows crucial limitations at high ionisation. Therefore, I investigated, both through modeling and observations, the chemical abundances of several other species to try and identity alternative tracers of the ionisation. In particular, in the W44 region, observations of N2H+ bring additional constraints on the physical conditions, volatile abundances in the cloud, and the ionisation state. This research brought valuable insight in to the CR induced chemistry in the interstellar medium. It also brought new perspectives of interdisciplinary research towards the understanding of CRs, from millimeter to gamma-ray observations.

Chemistry and structure of giant molecular clouds in energetic environments

NASA Astrophysics Data System (ADS)

Anderson, Crystal Nicole

2016-09-01

Throughout the years many studies on Galactic star formation have been conducted. This resulted in the idea that giant molecular clouds (GMCs) are hierarchical in nature with substructures spanning a large range of sizes. The physical processes that determine how molecular clouds fragment, form clumps/cores and then stars depends strongly on both recent radiative and mechanical feed- back from massive stars and, on longer term, from enhanced cooling due to the buildup of metals. Radiative and mechanical energy input from stellar populations can alter subsequent star formation over a large part of a galaxy and hence is relevant to the evolution of galaxies. Much of our knowledge of star formation on galaxy wide scales is based on scaling laws and other parametric descriptions. But to understand the overall evolution of star formation in galaxies we need to watch the feedback processes at work on giant molecular cloud (GMC) scales. By doing this we can begin to answer how strong feedback environments change the properties of the substructure in GMCs. Tests of Galactic star formation theory to other galaxies has been a challenging process due to the lack of resolution with current instruments. Thus, only the nearest galaxies allow us to resolve GMCs and their substructures. The Large Magellanic Cloud (LMC), is one of the closest low metallicity dwarf galaxies (D˜ 50 kpc) and is close enough that current instruments can resolve the sub- structure of its GMCs to <1pc. The LMC has a star cluster located near the GMC, 30Doradus, producing high levels of far ultra violet (FUV) radiation in the inter- stellar medium (ISM). The dwarf galaxy, NGC 5253, is also a close low metallicity galaxy (3.8 Mpc) with a super star cluster, which appears to be composed of several newborn globular clusters, located within the center of the galaxy. These huge, compact collections of massive stars and their supernovae have the potential to dump large amounts of FUV radiation and momentum into the ISM. Under such hostile conditions, we cannot expect star formation to evolve in the same fashion as it does across much of the Galaxy. With the advancement of radio interferometry instruments like ALMA and the ATCA, we are able to observe nearby dwarf galaxies at 1.5-40 pc scales. Also, with the advancement of the instruments, astrochemistry is becoming an exciting and dominant field in studying star forming regions at varying densities and evolutionary stages outside the Galaxy. In this dissertation, I discuss observations of molecular gas tracers (e.g. HCO+, HCN, HNC, CS, C2H, N2H+) detected in the LMC at 1.5-40 pc scales and in NGC 5253 at 40 pc scales. I then compare the molecular gas detections to the Central Molecular Zone in our Galaxy. Dense molecular gas was detected in all of the sources. For the regions in the LMC, molecular lines of CS, N2H+, C 2H, HNC, HCO+ and HCN were all detected in N159W and N113 while only HCN, HCO+, HNC, and C2H were detected in 30Dor-10. Toward NGC 5253 only HCO+, HCN, C2H and CS were detected. I observe anomalously large HCO+/HCN line ratios of >5 for the NGC 5253 SSC, 30Dor-10 and N159W clumps. However the ratio is <2 for N113, the least energetic source, on clump scales. NGC 5253, 30Dor-10 and N159W have anomalously faint HCN. The CMZ however, does not have anomalously faint HCN it actually has HCO+/HCN common of high metallicity environments, active galactic nuclei and ultra luminous infrared galaxies. These observations suggest the reason HCN has fainter emission than HCO+ must be a combination of low metallicity and energetics contributing to the change in the HCO+/HCN ratio. I find that the impact of the massive star forming regions on surrounding gas in different galaxies from small to large scales changes the chemistry within these regions. A more energetic region's chemistry seems to be different from a less energetic region. There is a richer chemistry within a less energetic region; which may suggest that the chemistry in an energetic environment is quenched due to increased photodissociation.

Ultra-High Spectral Resolution Observations of Fragmentation in Dark Cloud Cores

NASA Technical Reports Server (NTRS)

Velusamy, T.; Langer, W.; Kuiper, T; Levin, S.; Olsen, E.

1993-01-01

This paper presents new evidence of the fragmentary structure of dense cores in dark clouds using the high resolution spectra of the carbon chain molecule CCS transition (J subscript N = 2 subscript 1 - 1 subscript o) at 22.344033 GHz with 0.008 km s superscript -1 resolution.

Dust scattering from the Taurus Molecular Cloud

NASA Astrophysics Data System (ADS)

Narayan, Sathya; Murthy, Jayant; Karuppath, Narayanankutty

2017-04-01

We present an analysis of the diffuse ultraviolet emission near the Taurus Molecular Cloud based on observations made by the Galaxy Evolution Explorer. We used a Monte Carlo dust scattering model to show that about half of the scattered flux originates in the molecular cloud with 25 per cent arising in the foreground and 25 per cent behind the cloud. The best-fitting albedo of the dust grains is 0.3, but the geometry is such that we could not constrain the phase function asymmetry factor (g).

The emerging role of cloud computing in molecular modelling.

PubMed

Ebejer, Jean-Paul; Fulle, Simone; Morris, Garrett M; Finn, Paul W

2013-07-01

There is a growing recognition of the importance of cloud computing for large-scale and data-intensive applications. The distinguishing features of cloud computing and their relationship to other distributed computing paradigms are described, as are the strengths and weaknesses of the approach. We review the use made to date of cloud computing for molecular modelling projects and the availability of front ends for molecular modelling applications. Although the use of cloud computing technologies for molecular modelling is still in its infancy, we demonstrate its potential by presenting several case studies. Rapid growth can be expected as more applications become available and costs continue to fall; cloud computing can make a major contribution not just in terms of the availability of on-demand computing power, but could also spur innovation in the development of novel approaches that utilize that capacity in more effective ways. Copyright © 2013 Elsevier Inc. All rights reserved.

Isotopic evidence for primordial molecular cloud material in metal-rich carbonaceous chondrites.

PubMed

Van Kooten, Elishevah M M E; Wielandt, Daniel; Schiller, Martin; Nagashima, Kazuhide; Thomen, Aurélien; Larsen, Kirsten K; Olsen, Mia B; Nordlund, Åke; Krot, Alexander N; Bizzarro, Martin

2016-02-23

The short-lived (26)Al radionuclide is thought to have been admixed into the initially (26)Al-poor protosolar molecular cloud before or contemporaneously with its collapse. Bulk inner Solar System reservoirs record positively correlated variability in mass-independent (54)Cr and (26)Mg*, the decay product of (26)Al. This correlation is interpreted as reflecting progressive thermal processing of in-falling (26)Al-rich molecular cloud material in the inner Solar System. The thermally unprocessed molecular cloud matter reflecting the nucleosynthetic makeup of the molecular cloud before the last addition of stellar-derived (26)Al has not been identified yet but may be preserved in planetesimals that accreted in the outer Solar System. We show that metal-rich carbonaceous chondrites and their components have a unique isotopic signature extending from an inner Solar System composition toward a (26)Mg*-depleted and (54)Cr-enriched component. This composition is consistent with that expected for thermally unprocessed primordial molecular cloud material before its pollution by stellar-derived (26)Al. The (26)Mg* and (54)Cr compositions of bulk metal-rich chondrites require significant amounts (25-50%) of primordial molecular cloud matter in their precursor material. Given that such high fractions of primordial molecular cloud material are expected to survive only in the outer Solar System, we infer that, similarly to cometary bodies, metal-rich carbonaceous chondrites are samples of planetesimals that accreted beyond the orbits of the gas giants. The lack of evidence for this material in other chondrite groups requires isolation from the outer Solar System, possibly by the opening of disk gaps from the early formation of gas giants.

Isotopic evidence for primordial molecular cloud material in metal-rich carbonaceous chondrites

PubMed Central

Van Kooten, Elishevah M. M. E.; Wielandt, Daniel; Schiller, Martin; Nagashima, Kazuhide; Thomen, Aurélien; Olsen, Mia B.; Nordlund, Åke; Krot, Alexander N.; Bizzarro, Martin

2016-01-01

The short-lived 26Al radionuclide is thought to have been admixed into the initially 26Al-poor protosolar molecular cloud before or contemporaneously with its collapse. Bulk inner Solar System reservoirs record positively correlated variability in mass-independent 54Cr and 26Mg*, the decay product of 26Al. This correlation is interpreted as reflecting progressive thermal processing of in-falling 26Al-rich molecular cloud material in the inner Solar System. The thermally unprocessed molecular cloud matter reflecting the nucleosynthetic makeup of the molecular cloud before the last addition of stellar-derived 26Al has not been identified yet but may be preserved in planetesimals that accreted in the outer Solar System. We show that metal-rich carbonaceous chondrites and their components have a unique isotopic signature extending from an inner Solar System composition toward a 26Mg*-depleted and 54Cr-enriched component. This composition is consistent with that expected for thermally unprocessed primordial molecular cloud material before its pollution by stellar-derived 26Al. The 26Mg* and 54Cr compositions of bulk metal-rich chondrites require significant amounts (25–50%) of primordial molecular cloud matter in their precursor material. Given that such high fractions of primordial molecular cloud material are expected to survive only in the outer Solar System, we infer that, similarly to cometary bodies, metal-rich carbonaceous chondrites are samples of planetesimals that accreted beyond the orbits of the gas giants. The lack of evidence for this material in other chondrite groups requires isolation from the outer Solar System, possibly by the opening of disk gaps from the early formation of gas giants. PMID:26858438

In-vitro Comminution of Model Renal Calculi using Histotripsy

PubMed Central

Duryea, Alexander P.; Maxwell, Adam D.; Roberts, William W.; Xu, Zhen; Hall, Timothy L.; Cain, Charles A.

2013-01-01

Shock wave lithotripsy (SWL) suffers from the fact that it can produce residual stone fragments of significant size (>2 mm). Mechanistically, cavitation has been shown to play an important role in the reduction of such fragments to smaller debris. In this study we assessed the feasibility of using cavitationally-based pulsed ultrasound therapy (histotripsy) to erode kidney stones. Previous work has shown that histotripsy is capable of mechanically fractionating soft tissue into fine, acellular debris. Here, we investigated the potential for translating this technology to renal calculi through the use of a commonly accepted stone model, Ultracal-30 cement. Stones were sonicated using a 1-MHz focused transducer, with 5-cycle pulses delivered at a rate of 1 kHz. Pulses having peak negative pressures ranging from 3–21 MPa were tested. Results indicate that histotripsy is capable of effectively eroding the Ultracal-30 model, achieving an average stone erosion rate of 26 mg/min at maximum treatment pressure; substantial stone erosion was only observed in the presence of a dense cavitational bubble cloud. Sequential sieving of residual stone fragments indicated that debris produced by histotripsy was smaller than 100 μm in size, and treatment monitoring showed that both the cavitational bubble cloud and model stone appear as hyperechoic regions on B-mode imaging. These preliminary results indicate that histotripsy shows promise in its use for stone comminution, and an optimized erosion process may provide a potential adjunct to conventional SWL procedures. PMID:21622053

On the physical mechanisms governing the cloud lifecycle in the Central Molecular Zone of the Milky Way

NASA Astrophysics Data System (ADS)

Jeffreson, S. M. R.; Kruijssen, J. M. D.; Krumholz, M. R.; Longmore, S. N.

2018-05-01

We apply an analytic theory for environmentally-dependent molecular cloud lifetimes to the Central Molecular Zone of the Milky Way. Within this theory, the cloud lifetime in the Galactic centre is obtained by combining the time-scales for gravitational instability, galactic shear, epicyclic perturbations and cloud-cloud collisions. We find that at galactocentric radii ˜45-120 pc, corresponding to the location of the `100-pc stream', cloud evolution is primarily dominated by gravitational collapse, with median cloud lifetimes between 1.4 and 3.9 Myr. At all other galactocentric radii, galactic shear dominates the cloud lifecycle, and we predict that molecular clouds are dispersed on time-scales between 3 and 9 Myr, without a significant degree of star formation. Along the outer edge of the 100-pc stream, between radii of 100 and 120 pc, the time-scales for epicyclic perturbations and gravitational free-fall are similar. This similarity of time-scales lends support to the hypothesis that, depending on the orbital geometry and timing of the orbital phase, cloud collapse and star formation in the 100-pc stream may be triggered by a tidal compression at pericentre. Based on the derived time-scales, this should happen in approximately 20 per cent of all accretion events onto the 100-pc stream.

A molecular fragment cheminformatics roadmap for mesoscopic simulation.

PubMed

Truszkowski, Andreas; Daniel, Mirco; Kuhn, Hubert; Neumann, Stefan; Steinbeck, Christoph; Zielesny, Achim; Epple, Matthias

2014-12-01

Mesoscopic simulation studies the structure, dynamics and properties of large molecular ensembles with millions of atoms: Its basic interacting units (beads) are no longer the nuclei and electrons of quantum chemical ab-initio calculations or the atom types of molecular mechanics but molecular fragments, molecules or even larger molecular entities. For its simulation setup and output a mesoscopic simulation kernel software uses abstract matrix (array) representations for bead topology and connectivity. Therefore a pure kernel-based mesoscopic simulation task is a tedious, time-consuming and error-prone venture that limits its practical use and application. A consequent cheminformatics approach tackles these problems and provides solutions for a considerably enhanced accessibility. This study aims at outlining a complete cheminformatics roadmap that frames a mesoscopic Molecular Fragment Dynamics (MFD) simulation kernel to allow its efficient use and practical application. The molecular fragment cheminformatics roadmap consists of four consecutive building blocks: An adequate fragment structure representation (1), defined operations on these fragment structures (2), the description of compartments with defined compositions and structural alignments (3), and the graphical setup and analysis of a whole simulation box (4). The basis of the cheminformatics approach (i.e. building block 1) is a SMILES-like line notation (denoted f SMILES) with connected molecular fragments to represent a molecular structure. The f SMILES notation and the following concepts and methods for building blocks 2-4 are outlined with examples and practical usage scenarios. It is shown that the requirements of the roadmap may be partly covered by already existing open-source cheminformatics software. Mesoscopic simulation techniques like MFD may be considerably alleviated and broadened for practical use with a consequent cheminformatics layer that successfully tackles its setup subtleties and conceptual usage hurdles. Molecular Fragment Cheminformatics may be regarded as a crucial accelerator to propagate MFD and similar mesoscopic simulation techniques in the molecular sciences. Graphical abstractA molecular fragment cheminformatics roadmap for mesoscopic simulation.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cook, Ryan D.; Lin, Ying-Hsuan; Peng, Zhuoyu

Organic aerosol formation and transformation occurs within aqueous aerosol and cloud droplets, yet little is known about the composition of high molecular weight organic compounds in cloud water. Cloud water samples collected at Whiteface Mountain, New York, during August-September 2014 were analyzed by ultra-high-resolution mass spectrometry to investigate the molecular composition of dissolved organic carbon, with a focus on sulfur- and nitrogen-containing compounds. Organic molecular composition was evaluated in the context of cloud water inorganic ion concentrations, pH, and total organic carbon concentrations to gain insights into the sources and aqueous-phase processes of the observed high molecular weight organic compounds.more » Cloud water acidity was positively correlated with the average oxygen : carbon ratio of the organic constituents, suggesting the possibility for aqueous acid-catalyzed (prior to cloud droplet activation or during/after cloud droplet evaporation) and/or radical (within cloud droplets) oxidation processes. Many tracer compounds recently identified in laboratory studies of bulk aqueous-phase reactions were identified in the cloud water. Organosulfate compounds, with both biogenic and anthropogenic volatile organic compound precursors, were detected for cloud water samples influenced by air masses that had traveled over forested and populated areas. Oxidation products of long-chain (C 10-12) alkane precursors were detected during urban influence. Influence of Canadian wildfires resulted in increased numbers of identified sulfur-containing compounds and oligomeric species, including those formed through aqueous-phase reactions involving methylglyoxal. Light-absorbing aqueous-phase products of syringol and guaiacol oxidation were observed in the wildfire-influenced samples, and dinitroaromatic compounds were observed in all cloud water samples (wildfire, biogenic, and urban-influenced). Overall, the cloud water molecular composition depended on air mass source influence and reflected aqueous-phase reactions involving biogenic, urban, and biomass burning precursors.« less

A cylindrical quadrupole ion trap in combination with an electrospray ion source for gas-phase luminescence and absorption spectroscopy

DOE Office of Scientific and Technical Information (OSTI.GOV)

Stockett, Mark H., E-mail: stockett@phys.au.dk; Houmøller, Jørgen; Støchkel, Kristian

2016-05-15

A relatively simple setup for collection and detection of light emitted from isolated photo-excited molecular ions has been constructed. It benefits from a high collection efficiency of photons, which is accomplished by using a cylindrical ion trap where one end-cap electrode is a mesh grid combined with an aspheric condenser lens. The geometry permits nearly 10% of the emitted light to be collected and, after transmission losses, approximately 5% to be delivered to the entrance of a grating spectrometer equipped with a detector array. The high collection efficiency enables the use of pulsed tunable lasers with low repetition rates (e.g.,more » 20 Hz) instead of continuous wave (cw) lasers or very high repetition rate (e.g., MHz) lasers that are typically used as light sources for gas-phase fluorescence experiments on molecular ions. A hole has been drilled in the cylinder electrode so that a light pulse can interact with the ion cloud in the center of the trap. Simulations indicate that these modifications to the trap do not significantly affect the storage capability and the overall shape of the ion cloud. The overlap between the ion cloud and the laser light is basically 100%, and experimentally >50% of negatively charged chromophore ions are routinely photodepleted. The performance of the setup is illustrated based on fluorescence spectra of several laser dyes, and the quality of these spectra is comparable to those reported by other groups. Finally, by replacing the optical system with a channeltron detector, we demonstrate that the setup can also be used for gas-phase action spectroscopy where either depletion or fragmentation is monitored to provide an indirect measurement on the absorption spectrum of the ion.« less

FIRST OPTICAL AND NEAR-INFRARED POLARIMETRY OF A MOLECULAR CLOUD FORMING A PROTO-BROWN DWARF CANDIDATE

DOE Office of Scientific and Technical Information (OSTI.GOV)

Soam, A.; Maheswar, G.; Kwon, Jugmi

2015-04-20

LDN 328 is cited as an example of a fairly isolated clump contracting to form multiple sub-cores, possibly through gravitational fragmentation. In one of these sub-cores, a proto-brown dwarf (L328-IRS) candidate is in the process of formation through the self-gravitating contraction, similar to the formation scenario of a low-mass star. We present results of our optical and near-infrared polarization observations of regions toward LDN 328. This is the first observational attempt to map the magnetic field geometry of a cloud harboring a proto-brown dwarf candidate associated with a sub-parsec-scale molecular outflow. On a parsec scale, the magnetic field is foundmore » to follow the curved structure of the cloud showing a head–tail morphology. The magnetic field is found to be well ordered over a 0.02–0.2 pc scale around L328-IRS. Taking into account the uncertainties in the determination of position angles, the projected angular offset between the magnetic field direction and the outflow axis is found to be in the range of 0°–70°. Considering outflow to be the proxy for the rotation axis, the result obtained in this study implies that the rotation axis in L328 is preferably parallel to the local magnetic field. The magnetic field strength estimated in the close vicinity of L328-IRS is ∼20 μG. Results from the present study suggest that the magnetic field may be playing a vital role even in the cores that are forming sub-stellar sources.« less

A cylindrical quadrupole ion trap in combination with an electrospray ion source for gas-phase luminescence and absorption spectroscopy.

PubMed

Stockett, Mark H; Houmøller, Jørgen; Støchkel, Kristian; Svendsen, Annette; Brøndsted Nielsen, Steen

2016-05-01

A relatively simple setup for collection and detection of light emitted from isolated photo-excited molecular ions has been constructed. It benefits from a high collection efficiency of photons, which is accomplished by using a cylindrical ion trap where one end-cap electrode is a mesh grid combined with an aspheric condenser lens. The geometry permits nearly 10% of the emitted light to be collected and, after transmission losses, approximately 5% to be delivered to the entrance of a grating spectrometer equipped with a detector array. The high collection efficiency enables the use of pulsed tunable lasers with low repetition rates (e.g., 20 Hz) instead of continuous wave (cw) lasers or very high repetition rate (e.g., MHz) lasers that are typically used as light sources for gas-phase fluorescence experiments on molecular ions. A hole has been drilled in the cylinder electrode so that a light pulse can interact with the ion cloud in the center of the trap. Simulations indicate that these modifications to the trap do not significantly affect the storage capability and the overall shape of the ion cloud. The overlap between the ion cloud and the laser light is basically 100%, and experimentally >50% of negatively charged chromophore ions are routinely photodepleted. The performance of the setup is illustrated based on fluorescence spectra of several laser dyes, and the quality of these spectra is comparable to those reported by other groups. Finally, by replacing the optical system with a channeltron detector, we demonstrate that the setup can also be used for gas-phase action spectroscopy where either depletion or fragmentation is monitored to provide an indirect measurement on the absorption spectrum of the ion.

WHAT IS CONTROLLING THE FRAGMENTATION IN THE INFRARED DARK CLOUD G14.225–0.506?: DIFFERENT LEVELS OF FRAGMENTATION IN TWIN HUBS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Busquet, Gemma; Girart, Josep Miquel; Estalella, Robert

We present observations of the 1.3 mm continuum emission toward hub-N and hub-S of the infrared dark cloud G14.225–0.506 carried out with the Submillimeter Array, together with observations of the dust emission at 870 and 350 μm obtained with APEX and CSO telescopes. The large-scale dust emission of both hubs consists of a single peaked clump elongated in the direction of the associated filament. At small scales, the SMA images reveal that both hubs fragment into several dust condensations. The fragmentation level was assessed under the same conditions and we found that hub-N presents 4 fragments while hub-S is moremore » fragmented, with 13 fragments identified. We studied the density structure by means of a simultaneous fit of the radial intensity profile at 870 and 350 μm and the spectral energy distribution adopting a Plummer-like function to describe the density structure. The parameters inferred from the model are remarkably similar in both hubs, suggesting that density structure could not be responsible for determining the fragmentation level. We estimated several physical parameters, such as the level of turbulence and the magnetic field strength, and we found no significant differences between these hubs. The Jeans analysis indicates that the observed fragmentation is more consistent with thermal Jeans fragmentation compared with a scenario in which turbulent support is included. The lower fragmentation level observed in hub-N could be explained in terms of stronger UV radiation effects from a nearby H ii region, evolutionary effects, and/or stronger magnetic fields at small scales, a scenario that should be further investigated.« less

Star-Forming Clouds Feed, Churn, and Fall

NASA Astrophysics Data System (ADS)

Kohler, Susanna

2017-12-01

Molecular clouds, the birthplaces of stars in galaxies throughout the universe, are complicated and dynamic environments. A new series of simulations has explored how these clouds form, grow, and collapse over their lifetimes.This composite image shows part of the Taurus Molecular Cloud. [ESO/APEX (MPIfR/ESO/OSO)/A. Hacar et al./Digitized Sky Survey]Stellar BirthplacesMolecular clouds form out of the matter in between stars, evolving through constant interactions with their turbulent environments. These interactions taking the form of accretion flows and surface forces, while gravity, turbulence, and magnetic fields interplay are thought to drive the properties and evolution of the clouds.Our understanding of the details of this process, however, remains fuzzy. How does mass accretion affect these clouds as they evolve? What happens when nearby supernova explosions blast the outsides of the clouds? What makes the clouds churn, producing the motion within them that prevents them from collapsing? The answers to these questions can tellus about the gas distributed throughout galaxies, revealing information about the environments in which stars form.A still from the simulation results showing the broader population of molecular clouds that formed in the authors simulations, as well as zoom-in panels of three low-mass clouds tracked in high resolution. [Ibez-Meja et al. 2017]Models of TurbulenceIn a new study led by Juan Ibez-Meja (MPI Garching and Universities of Heidelberg and Cologne in Germany, and American Museum of Natural History), scientists have now explored these questions using a series of three-dimensional simulations of a population of molecular clouds forming and evolving in the turbulent interstellar medium.The simulations take into account a whole host of physics, including the effects of nearby supernova explosions, self-gravitation, magnetic fields, diffuse heating, and radiative cooling. After looking at the behavior of the broader population of clouds, the authors zoom in and explore three clouds in high-resolution to learn more about the details.Watching Clouds EvolveIbez-Meja and collaborators find that mass accretion occurring after the molecular clouds form plays an important role in the clouds evolution, increasing the mass available to form stars and carrying kinetic energy into the cloud. The accretion process is driven both by background turbulent flows and gravitational attraction as the cloud draws in the gas in its nearby environment.Plots of the cloud mass and radius (top) and mass accretion rate (bottom) for one of the three zoomed-in clouds, shown as a function of time over the 10-Myr simulation. [Adapted from Ibez-Meja et al. 2017]The simulations show that nearby supernovae have two opposing effects on a cloud. On one hand, the blast waves from supernovae compress the envelope of the cloud, increasing the instantaneous rate of accretion. On the other hand, the blast waves disrupt parts of the envelope and erode mass from the clouds surface, decreasing accretion overall. These events ensure that the mass accretion rate of molecular clouds is non-uniform, regularly punctuated by sporadic increases and decreases as the clouds are battered by nearby explosions.Lastly, Ibez-Meja and collaborators show that mass accretion alone isnt enough to power the turbulent internal motions we observe inside molecular clouds. Instead, they conclude, the cloud motions must be primarily powered by gravitational potential energy being converted into kinetic energy as the cloud contracts.The authors simulations therefore show that molecular clouds exist in a state of precarious balance, prevented from collapsing by internal turbulence driven by interactions with their environment and by their own contraction. These results give us an intriguing glimpse into the complex environments in which stars are born.BonusCheck out the animated figure below, which displays how the clouds in the authors simulations evolve over the span of 10 million years.http://cdn.iopscience.com/images/0004-637X/850/1/62/Full/apjaa93fef1_video.mp4CitationJuan C. Ibez-Meja et al 2017 ApJ 850 62. doi:10.3847/1538-4357/aa93fe

OH 18 cm TRANSITION AS A THERMOMETER FOR MOLECULAR CLOUDS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ebisawa, Yuji; Inokuma, Hiroshi; Yamamoto, Satoshi

We have observed the four hyperfine components of the 18 cm OH transition toward the translucent cloud eastward of Heiles Cloud 2 (HCL2E), the cold dark cloud L134N, and the photodissociation region of the ρ-Ophiuchi molecular cloud with the Effelsberg 100 m telescope. We have found intensity anomalies among the hyperfine components in all three regions. In particular, an absorption feature of the 1612 MHz satellite line against the cosmic microwave background has been detected toward HCL2E and two positions of the ρ-Ophiuchi molecular cloud. On the basis of statistical equilibrium calculations, we find that the hyperfine anomalies originate frommore » the non-LTE population of the hyperfine levels, and can be used to determine the kinetic temperature of the gas over a wide range of H{sub 2} densities (10{sup 2}–10{sup 7} cm{sup −3}). Toward the center of HCL2E, the gas kinetic temperature is determined to be 53 ± 1 K, and it increases toward the cloud peripheries (∼60 K). The ortho-to-para ratio of H{sub 2} is determined to be 3.5 ± 0.9 from the averaged spectrum for the eight positions. In L134N, a similar increase of the temperature is also seen toward the periphery. In the ρ-Ophiuchi molecular cloud, the gas kinetic temperature decreases as a function of the distance from the exciting star HD 147889. These results demonstrate a new aspect of the OH 18 cm line that can be used as a good thermometer of molecular cloud envelopes. The OH 18 cm line can be used to trace a new class of warm molecular gas surrounding a molecular cloud, which is not well traced by the emission of CO and its isotopologues.« less

Characterization of the cataloged Fengyun-1C fragments and their long-term effect on the LEO environment

NASA Astrophysics Data System (ADS)

Liou, J.-C.; Johnson, N. L.

2009-05-01

The intentional breakup of Fengyun-1C on 11 January 2007 created the most severe orbital debris cloud in history. The altitude where the event occurred was probably the worst location for a major breakup in the low Earth orbit (LEO) region, since it was already highly populated with operational satellites and debris generated from previous breakups. The addition of so many fragments not only poses a realistic threat to operational satellites in the region, but also increases the instability (i.e., collision cascade effect) of the debris population there. Detailed analysis of the large Fengyun-1C fragments indicates that their size and area-to-mass ratio (A/M) distributions are very different from those of other known events. About half of the fragments appear to be composed of light-weight materials and more than 100 of them have A/M values exceeding 1 m 2/kg, consistent with thermal blanket and solar panel pieces. In addition, the orbital elements of the fragments suggest non-trivial velocity gain by the fragment cloud during the impact. These important characteristics were incorporated into numerical simulations to assess the long-term impact of the Fengyun-1C fragments to the LEO debris environment. The collision probabilities between the Fengyun-1C fragments and the rest of the catalog population and the population growth in the low Earth orbit region in the next 100 years are summarized in the paper.

Magnetohydrodynamic Simulations of a Plunging Black Hole into a Molecular Cloud

NASA Astrophysics Data System (ADS)

Nomura, Mariko; Oka, Tomoharu; Yamada, Masaya; Takekawa, Shunya; Ohsuga, Ken; Takahashi, Hiroyuki R.; Asahina, Yuta

2018-05-01

Using two-dimensional magnetohydrodynamic simulations, we investigated the gas dynamics around a black hole (BH) plunging into a molecular cloud. In these calculations, we assumed a parallel-magnetic-field layer in the cloud. The size of the accelerated region is far larger than the Bondi–Hoyle–Lyttleton radius, being approximately inversely proportional to the Alfvén Mach number for the plunging BH. Our results successfully reproduce the “Y” shape in position–velocity maps of the “Bullet” in the W44 molecular cloud. The size of the Bullet is also reproduced within an order of magnitude using a reasonable parameter set. This consistency supports the shooting model of the Bullet, according to which an isolated BH plunged into a molecular cloud to form a compact broad-velocity-width feature.

Study of Molecular Clouds, Variable Stars and Related Topics at NUU and UBAI

NASA Astrophysics Data System (ADS)

Hojaev, A. S.

2017-07-01

The search of young PMS stars made by our team at Maidanak, Lulin and Beijing observatories, especially in NGC 6820/23 area, as well as monitoring of a sample of open clusters will be described and results will be presented. We consider physical conditions in different star forming regions, particularly in TDC and around Vul OB1, estimate SFE and SFR, energy balance and instability processes in these regions. We also reviewed all data on molecular clouds in the Galaxy and in other galaxies where the clouds were observed to prepare general catalog of molecular clouds, to study physical conditions, unsteadiness and possible star formation in them, the formation and evolution of molecular cloud systems, to analyze their role in formation of different types of galaxies and structural features therein.

Characterization of molecular structural changes in pectin during juice cloud destabilization in frozen concentrated orange juice

USDA-ARS?s Scientific Manuscript database

Pectin comprises one of the major components of cloud material in citrus juices. Juice cloud is a complex mixture of polysaccharides, proteins and lower molecular weight compounds that are responsible for the turbid appearance of citrus juices. The stability of juice cloud depends on a number of fac...

The temperature of large dust grains in molecular clouds

NASA Technical Reports Server (NTRS)

Clark, F. O.; Laureijs, R. J.; Prusti, T.

1991-01-01

The temperature of the large dust grains is calculated from three molecular clouds ranging in visual extinction from 2.5 to 8 mag, by comparing maps of either extinction derived from star counts or gas column density derived from molecular observations to I(100). Both techniques show the dust temperature declining into clouds. The two techniques do not agree in absolute scale.

The simulation of molecular clouds formation in the Milky Way

NASA Astrophysics Data System (ADS)

Khoperskov, S. A.; Vasiliev, E. O.; Sobolev, A. M.; Khoperskov, A. V.

2013-01-01

Using 3D hydrodynamic calculations we simulate formation of molecular clouds in the Galaxy. The simulations take into account molecular hydrogen chemical kinetics, cooling and heating processes. Comprehensive gravitational potential accounts for contributions from the stellar bulge, two- and four-armed spiral structure, stellar disc, dark halo and takes into account self-gravitation of the gaseous component. Gas clouds in our model form in the spiral arms due to shear and wiggle instabilities and turn into molecular clouds after t ≳ 100 Myr. At the times t ˜ 100-300 Myr the clouds form hierarchical structures and agglomerations with the sizes of 100 pc and greater. We analyse physical properties of the simulated clouds and find that synthetic statistical distributions like mass spectrum, `mass-size' relation and velocity dispersion are close to those observed in the Galaxy. The synthetic l-v (galactic longitude-radial velocity) diagram of the simulated molecular gas distribution resembles observed one and displays a structure with appearance similar to molecular ring of the Galaxy. Existence of this structure in our modelling can be explained by superposition of emission from the galactic bar and the spiral arms at ˜3-4 kpc.

Planck early results. XXIV. Dust in the diffuse interstellar medium and the Galactic halo

NASA Astrophysics Data System (ADS)

Planck Collaboration; Abergel, A.; Ade, P. A. R.; Aghanim, N.; Arnaud, M.; Ashdown, M.; Aumont, J.; Baccigalupi, C.; Balbi, A.; Banday, A. J.; Barreiro, R. B.; Bartlett, J. G.; Battaner, E.; Benabed, K.; Benoît, A.; Bernard, J.-P.; Bersanelli, M.; Bhatia, R.; Blagrave, K.; Bock, J. J.; Bonaldi, A.; Bond, J. R.; Borrill, J.; Bouchet, F. R.; Boulanger, F.; Bucher, M.; Burigana, C.; Cabella, P.; Cantalupo, C. M.; Cardoso, J.-F.; Catalano, A.; Cayón, L.; Challinor, A.; Chamballu, A.; Chiang, L.-Y.; Chiang, C.; Christensen, P. R.; Clements, D. L.; Colombi, S.; Couchot, F.; Coulais, A.; Crill, B. P.; Cuttaia, F.; Danese, L.; Davies, R. D.; Davis, R. J.; de Bernardis, P.; de Gasperis, G.; de Rosa, A.; de Zotti, G.; Delabrouille, J.; Delouis, J.-M.; Désert, F.-X.; Dickinson, C.; Donzelli, S.; Doré, O.; Dörl, U.; Douspis, M.; Dupac, X.; Efstathiou, G.; Enßlin, T. A.; Eriksen, H. K.; Finelli, F.; Forni, O.; Frailis, M.; Franceschi, E.; Galeotta, S.; Ganga, K.; Giard, M.; Giardino, G.; Giraud-Héraud, Y.; González-Nuevo, J.; Górski, K. M.; Gratton, S.; Gregorio, A.; Gruppuso, A.; Hansen, F. K.; Harrison, D.; Helou, G.; Henrot-Versillé, S.; Herranz, D.; Hildebrandt, S. R.; Hivon, E.; Hobson, M.; Holmes, W. A.; Hovest, W.; Hoyland, R. J.; Huffenberger, K. M.; Jaffe, A. H.; Joncas, G.; Jones, A.; Jones, W. C.; Juvela, M.; Keihänen, E.; Keskitalo, R.; Kisner, T. S.; Kneissl, R.; Knox, L.; Kurki-Suonio, H.; Lagache, G.; Lamarre, J.-M.; Lasenby, A.; Laureijs, R. J.; Lawrence, C. R.; Leach, S.; Leonardi, R.; Leroy, C.; Linden-Vørnle, M.; Lockman, F. J.; López-Caniego, M.; Lubin, P. M.; Macías-Pérez, J. F.; MacTavish, C. J.; Maffei, B.; Maino, D.; Mandolesi, N.; Mann, R.; Maris, M.; Marshall, D. J.; Martin, P.; Martínez-González, E.; Masi, S.; Matarrese, S.; Matthai, F.; Mazzotta, P.; McGehee, P.; Meinhold, P. R.; Melchiorri, A.; Mendes, L.; Mennella, A.; Miville-Deschênes, M.-A.; Moneti, A.; Montier, L.; Morgante, G.; Mortlock, D.; Munshi, D.; Murphy, A.; Naselsky, P.; Nati, F.; Natoli, P.; Netterfield, C. B.; Nørgaard-Nielsen, H. U.; Noviello, F.; Novikov, D.; Novikov, I.; O'Dwyer, I. J.; Osborne, S.; Pajot, F.; Paladini, R.; Pasian, F.; Patanchon, G.; Perdereau, O.; Perotto, L.; Perrotta, F.; Piacentini, F.; Piat, M.; Pinheiro Gonçalves, D.; Plaszczynski, S.; Pointecouteau, E.; Polenta, G.; Ponthieu, N.; Poutanen, T.; Prézeau, G.; Prunet, S.; Puget, J.-L.; Rachen, J. P.; Reach, W. T.; Reinecke, M.; Renault, C.; Ricciardi, S.; Riller, T.; Ristorcelli, I.; Rocha, G.; Rosset, C.; Rowan-Robinson, M.; Rubiño-Martín, J. A.; Rusholme, B.; Sandri, M.; Santos, D.; Savini, G.; Scott, D.; Seiffert, M. D.; Shellard, P.; Smoot, G. F.; Starck, J.-L.; Stivoli, F.; Stolyarov, V.; Stompor, R.; Sudiwala, R.; Sygnet, J.-F.; Tauber, J. A.; Terenzi, L.; Toffolatti, L.; Tomasi, M.; Torre, J.-P.; Tristram, M.; Tuovinen, J.; Umana, G.; Valenziano, L.; Vielva, P.; Villa, F.; Vittorio, N.; Wade, L. A.; Wandelt, B. D.; Wilkinson, A.; Yvon, D.; Zacchei, A.; Zonca, A.

2011-12-01

This paper presents the first results from a comparison of Planck dust maps at 353, 545 and 857GHz, along with IRAS data at 3000 (100 μm) and 5000GHz (60 μm), with Green Bank Telescope 21-cm observations of Hi in 14 fields covering more than 800 deg2 at high Galactic latitude. The main goal of this study is to estimate the far-infrared to sub-millimeter (submm) emissivity of dust in the diffuse local interstellar medium (ISM) and in the intermediate-velocity (IVC) and high-velocity clouds (HVC) of the Galactic halo. Galactic dust emission for fields with average Hi column density lower than 2 × 1020 cm-2 is well correlated with 21-cm emission because in such diffuse areas the hydrogen is predominantly in the neutral atomic phase. The residual emission in these fields, once the Hi-correlated emission is removed, is consistent with the expected statistical properties of the cosmic infrared background fluctuations. The brighter fields in our sample, with an average Hi column density greater than 2 × 1020 cm-2, show significant excess dust emission compared to the Hi column density. Regions of excess lie in organized structures that suggest the presence of hydrogen in molecular form, though they are not always correlated with CO emission. In the higher Hi column density fields the excess emission at 857 GHz is about 40% of that coming from the Hi, but over all the high latitude fields surveyed the molecular mass faction is about 10%. Dust emission from IVCs is detected with high significance by this correlation analysis. Its spectral properties are consistent with, compared to the local ISM values, significantly hotter dust (T ~ 20K), lower submm dust opacity normalized per H-atom, and a relative abundance of very small grains to large grains about four times higher. These results are compatible with expectations for clouds that are part of the Galactic fountain in which there is dust shattering and fragmentation. Correlated dust emission in HVCs is not detected; the average of the 99.9% confidence upper limits to the emissivity is 0.15 times the local ISM value at 857 and 3000GHz, in accordance with gas phase evidence for lower metallicity and depletion in these clouds. Unexpected anti-correlated variations of the dust temperature and emission cross-section per H atom are identified in the local ISM and IVCs, a trend that continues into molecular environments. This suggests that dust growth through aggregation, seen in molecular clouds, is active much earlier in the cloud condensation and star formation processes. Corresponding author: M.-A. Miville-Deschênes, e-mail: mamd@ias.u-psud.fr

Sulfur Chemistry in the Wake of Comet Shoemaker-Levy 9

NASA Technical Reports Server (NTRS)

Zahnle, Kevin; MacLow, Mordecai-Mark; Lodders, Katharina; Fegley, Bruce, Jr.

1995-01-01

A curious and unexpected result of the impact of P/Shoemaker Levy 9 with Jupiter was the production of enormous amounts of molecular sulfur (S2). Here we show that S2 is the natural product of disequilibrium chemistry at low pressures in shocked Jovian air, its formation a byproduct of hydrogen recombination. The species observed by the Hubble Space Telescope (HST) - S2, CS2, and H2S - imply that the G fragment penetrated the NH4SH cloud but did not reach the water table. A typical impact within or below the NH4SH clouds produces about 0.03 - 0.1 impactor masses of S2. Because comets are relatively hydrogen-poor, SO2, not S2, is the major product of shocking a water-rich comet, while S2, CS2 and OCS are major products of a dessicated comet. In all cases we find that as the gas cools, S2 converts to the stable low temperature allotrope S8, although other chemical fates not modeled here might intervene first.

An uncertainty principle for star formation - II. A new method for characterising the cloud-scale physics of star formation and feedback across cosmic history

NASA Astrophysics Data System (ADS)

Kruijssen, J. M. Diederik; Schruba, Andreas; Hygate, Alexander P. S.; Hu, Chia-Yu; Haydon, Daniel T.; Longmore, Steven N.

2018-05-01

The cloud-scale physics of star formation and feedback represent the main uncertainty in galaxy formation studies. Progress is hampered by the limited empirical constraints outside the restricted environment of the Local Group. In particular, the poorly-quantified time evolution of the molecular cloud lifecycle, star formation, and feedback obstructs robust predictions on the scales smaller than the disc scale height that are resolved in modern galaxy formation simulations. We present a new statistical method to derive the evolutionary timeline of molecular clouds and star-forming regions. By quantifying the excess or deficit of the gas-to-stellar flux ratio around peaks of gas or star formation tracer emission, we directly measure the relative rarity of these peaks, which allows us to derive their lifetimes. We present a step-by-step, quantitative description of the method and demonstrate its practical application. The method's accuracy is tested in nearly 300 experiments using simulated galaxy maps, showing that it is capable of constraining the molecular cloud lifetime and feedback time-scale to <0.1 dex precision. Access to the evolutionary timeline provides a variety of additional physical quantities, such as the cloud-scale star formation efficiency, the feedback outflow velocity, the mass loading factor, and the feedback energy or momentum coupling efficiencies to the ambient medium. We show that the results are robust for a wide variety of gas and star formation tracers, spatial resolutions, galaxy inclinations, and galaxy sizes. Finally, we demonstrate that our method can be applied out to high redshift (z≲ 4) with a feasible time investment on current large-scale observatories. This is a major shift from previous studies that constrained the physics of star formation and feedback in the immediate vicinity of the Sun.

Starbursts triggered by central overpressure in interacting galaxies

NASA Technical Reports Server (NTRS)

Jog, Chanda J.; Das, Mousumi

1993-01-01

A triggering mechanism for the origin of enhanced, massive-star formation in the central regions of interacting spiral galaxy pairs is proposed. Our mechanism is based on the detailed evolution of a realistic interstellar medium in a galaxy following an encounter. As a disk giant molecular cloud (GMC) tumbles into the central region following a galaxy encounter, it undergoes a radiative shock compression via the pre-existing high pressure of the central intercloud medium. The shocked outer shell of a GMC becomes gravitationally unstable and begins to fragment thus resulting in a burst of star formation, when the growth time for the gravitational instabilities in the shell becomes smaller than the crossing time of the shock. The resulting values of typical infrared luminosity agree with observations.

Variation of z-height of the molecular clouds on the Galactic Plane

NASA Astrophysics Data System (ADS)

Lee, Y.; Stark, A. A.

2002-12-01

Using the Bell Laboratories Galactic plane in the J=1-0 transition of 13CO, (l, b) = (-5o to 117o, -1o to +1o), and cloud identification code, 13CO clouds have been identified and cataloged as a function of threshold temperature. Distance estimates to the identified clouds have been made with several criteria. Minimum and maximum distances to each identified cloud are determined from a set of all the possible distances of a cloud. Several physical parameters can be determined with distances, such as z-height [D sin (b)], CO luminosity, virial mass and so forth. We select the clouds with a ratio of maximum and minimum of CO luminosities less than 3. The number of selected clouds is 281 out of 1400 identified clouds with 1 K threshold temperature. These clouds are mostly located on the tangential positions in the inner Galaxy, and some are in the Outer Galaxy. It is found that the z-height of lower luminosity clouds (less massive clouds) is systimatically larger than that of high-luminosity clouds (more massive clouds). We claim that this is the first observational evidence of the z-height variation depending on the luminosities (or masses) of molecular clouds on the Galactic plane. Our results could be a basis explaining the formation mechanism of massive clouds, such as giant molecular clouds.

Turbulence and star formation in molecular clouds

NASA Astrophysics Data System (ADS)

Larson, R. B.

1981-03-01

Consideration is given to the turbulence properties of molecular clouds and their implications for star formation. Data for 54 molecular clouds and condensations is presented which reveals cloud velocity dispersion and region size to follow a power-law relation, similar to the Kolmogoroff law for subsonic turbulence. Examination of the dynamics of the molecular clouds for which mass determinations are available reveals essentially all of them to be gravitationally bound, and to approximately satisfy the virial theorem. The observation of moderate scatter in the dispersion-size relation is noted to imply that most regions have not collapsed much since formation, suggesting that processes of turbulent hydrodynamics have played an important role in producing the observed substructures. A lower limit to the size of subcondensations at which their internal motions are no longer supersonic is shown to predict a minimum protostellar mass on the order of a few tenths of a solar mass, while massive protostellar clumps are found to develop complex internal structures, probably leading to the formation of prestellar condensation nuclei. The observed turbulence of molecular clouds is noted to imply lifetimes of less than 10 million years.

Characterization of the catalog Fengyun-1C fragments and their long-term effect on the LEO environment

NASA Astrophysics Data System (ADS)

Liou, J.-C.

The intentional breakup of Fengyun-1C on 11 January 2007 created the most severe orbital debris cloud in history. More than 2500 large fragments were identified and tracked by the U.S. Space Surveillance Network by the end of the year. The altitude where the event occurred was probably the worst location for a major breakup in the low Earth orbit (LEO) region, since it was already highly populated with operational satellites and debris generated from previous breakups. The addition of so many fragments not only poses a realistic threat to operational satellites in the region, but also increases the instability (i.e., collision cascade effect) of the debris population there. Preliminary analysis of the large Fengyun-1C fragments indicates that their size and area-tomass ratio (A/M) distributions are very different from those of other known events. About half of the fragments appear to be composed of light-weight materials and more than 100 of them have A/M values exceeding 1 m2 /kg, consistent with thermal blanket pieces. In addition, the orbital elements of the fragments suggest non-trivial velocity gain by the fragment cloud during the impact. These important characteristics were incorporated into a numerical simulation to assess the long-term impact of the Fengyun-1C fragments to the LEO debris environment. The main objectives of the simulation were to evaluate (1) the collision probabilities between the Fengyun-1C fragments and the rest of the catalog population and (2) the collision activities and population growth in the region in the next 100 years.

Nucleation of nitric acid hydrates in polar stratospheric clouds by meteoric material

NASA Astrophysics Data System (ADS)

James, Alexander D.; Brooke, James S. A.; Mangan, Thomas P.; Whale, Thomas F.; Plane, John M. C.; Murray, Benjamin J.

2018-04-01

Heterogeneous nucleation of crystalline nitric acid hydrates in polar stratospheric clouds (PSCs) enhances ozone depletion. However, the identity and mode of action of the particles responsible for nucleation remains unknown. It has been suggested that meteoric material may trigger nucleation of nitric acid trihydrate (NAT, or other nitric acid phases), but this has never been quantitatively demonstrated in the laboratory. Meteoric material is present in two forms in the stratosphere: smoke that results from the ablation and re-condensation of vapours, and fragments that result from the break-up of meteoroids entering the atmosphere. Here we show that analogues of both materials have a capacity to nucleate nitric acid hydrates. In combination with estimates from a global model of the amount of meteoric smoke and fragments in the polar stratosphere we show that meteoric material probably accounts for NAT observations in early season polar stratospheric clouds in the absence of water ice.

The Nonisothermal Stage of Magnetic Star Formation. I. Formulation of the Problem and Method of Solution

NASA Astrophysics Data System (ADS)

Kunz, Matthew W.; Mouschovias, Telemachos Ch.

2009-03-01

We formulate the problem of the formation and subsequent evolution of fragments (or cores) in magnetically supported, self-gravitating molecular clouds in two spatial dimensions. The six-fluid (neutrals, electrons, molecular and atomic ions, positively charged, negatively charged, and neutral grains) physical system is governed by the radiation, nonideal magnetohydrodynamic equations. The magnetic flux is not assumed to be frozen in any of the charged species. Its evolution is determined by a newly derived generalized Ohm's law, which accounts for the contributions of both elastic and inelastic collisions to ambipolar diffusion and Ohmic dissipation. The species abundances are calculated using an extensive chemical-equilibrium network. Both MRN and uniform grain size distributions are considered. The thermal evolution of the protostellar core and its effect on the dynamics are followed by employing the gray flux-limited diffusion approximation. Realistic temperature-dependent grain opacities are used that account for a variety of grain compositions. We have augmented the publicly available Zeus-MP code to take into consideration all these effects and have modified several of its algorithms to improve convergence, accuracy, and efficiency. Results of magnetic star formation simulations that accurately track the evolution of a protostellar fragment from a density sime103 cm-3 to a density sime1015 cm-3, while rigorously accounting for both nonideal MHD processes and radiative transfer, are presented in a separate paper.

A quantitative analysis of IRAS maps of molecular clouds

NASA Technical Reports Server (NTRS)

Wiseman, Jennifer J.; Adams, Fred C.

1994-01-01

We present an analysis of IRAS maps of five molecular clouds: Orion, Ophiuchus, Perseus, Taurus, and Lupus. For the classification and description of these astrophysical maps, we use a newly developed technique which considers all maps of a given type to be elements of a pseudometric space. For each physical characteristic of interest, this formal system assigns a distance function (a pseudometric) to the space of all maps: this procedure allows us to measure quantitatively the difference between any two maps and to order the space of all maps. We thus obtain a quantitative classification scheme for molecular clouds. In this present study we use the IRAS continuum maps at 100 and 60 micrometer(s) to produce column density (or optical depth) maps for the five molecular cloud regions given above. For this sample of clouds, we compute the 'output' functions which measure the distribution of density, the distribution of topological components, the self-gravity, and the filamentary nature of the clouds. The results of this work provide a quantitative description of the structure in these molecular cloud regions. We then order the clouds according to the overall environmental 'complexity' of these star-forming regions. Finally, we compare our results with the observed populations of young stellar objects in these clouds and discuss the possible environmental effects on the star-formation process. Our results are consistent with the recently stated conjecture that more massive stars tend to form in more 'complex' environments.

VizieR Online Data Catalog: M33 molecular clouds and young stellar clusters (Corbelli+, 2017)

NASA Astrophysics Data System (ADS)

Corbelli, E.; Braine, J.; Bandiera, R.; Brouillet, N.; Combes, F.; Druard, C.; Gratier, P.; Mata, J.; Schuster, K.; Xilouris, M.; Palla, F.

2017-04-01

Table 5 : Physical parameters for the 566 molecular clouds identified through the IRAM 30m CO J=2-1 survey of the star forming disk of M33. For each cloud the cloud type and the following properties are listed: celestial coordinates, galactocentric radius, cloud deconvolved effective radius and its uncertainty, CO(2-1) line velocity dispersion from CPROPS and its uncertainty, line velocity dispersion from a Gaussian fit, CO luminous mass and its uncertainty, and virial mass from a Gaussian fit. In the last column the identification number of the young stellar cluster candidates associated with the molecular cloud are listed. Notes: We identify up to four young stellar cluster candidates (YSCCs) associated with each molecular cloud and we list them according to the identification number of Sharma et al. (2011, Cat. J/A+A/545/A96) given also in Table 6. Table 6 : Physical parameters for the 630 young stellar cluster candidates identified via their mid-infrared emission in the star forming disk of M33. For each YSCC we list the type of source, the identified number of the molecular clouds associated with it (if any) and the corresponding cloud classes. In addition, for each YSCC we give the celestial coordinates, the bolometric, total infrared, FUV and Halpha luminosities, the estimated mass and age, the visual extinction, the galactocentric radius, the source size, and its flux at 24μm. (2 data files).

1.0 Mm Maps and Radial Density Distributions of Southern Hii/molecular Cloud Complexes

NASA Technical Reports Server (NTRS)

Cheung, L. H.; Frogel, J. A.; Gezar, D. Y.; Hauser, M. G.

1980-01-01

Several 1.0 continuum mapping observations were made of seven southern hemisphere h12/molecular cloud complexes with 65 arcsec resolution. The radial density distribution of the clouds with central luminosity sources was determined observationally. Strong similarities in morphology and general physical conditions were found to exist among all of the southern clouds in the sample.

Turbulence in molecular clouds - A new diagnostic tool to probe their origin

NASA Technical Reports Server (NTRS)

Canuto, V. M.; Battaglia, A.

1985-01-01

A method is presented to uncover the instability responsible for the type of turbulence observed in molecular clouds and the value of the physical parameters of the 'placental medium' from which turbulence originated. The method utilizes the observational relation between velocities and sizes of molecular clouds, together with a recent model for large-scale turbulence (constructed by Canuto and Goldman, 1985).

Comparing models for IMF variation across cosmological time in Milky Way-like galaxies

NASA Astrophysics Data System (ADS)

Guszejnov, Dávid; Hopkins, Philip F.; Ma, Xiangcheng

2017-12-01

One of the key observations regarding the stellar initial mass function (IMF) is its near-universality in the Milky Way (MW), which provides a powerful way to constrain different star formation models that predict the IMF. However, those models are almost universally 'cloud-scale' or smaller - they take as input or simulate single molecular clouds (GMCs), clumps or cores, and predict the resulting IMF as a function of the cloud properties. Without a model for the progenitor properties of all clouds that formed the stars at different locations in the MW (including ancient stellar populations formed in high redshift, likely gas-rich dwarf progenitor galaxies that looked little like the Galaxy today), the predictions cannot be fully explored nor safely applied to 'live' cosmological calculations of the IMF in different galaxies at different cosmological times. We therefore combine a suite of high-resolution cosmological simulations (from the Feedback In Realistic Environments project), which form MW-like galaxies with reasonable star formation properties and explicitly resolve massive GMCs, with various proposed cloud-scale IMF models. We apply the models independently to every star particle formed in the simulations to synthesize the predicted IMF in the present-day galaxy. We explore models where the IMF depends on Jeans mass, sonic or 'turbulent Bonnor-Ebert' mass, fragmentation with a polytropic equation of state, or where it is self-regulated by protostellar feedback. We show that all of these models, except the feedback-regulated ones, predict far more variation (∼0.6-1 dex 1σ scatter in the IMF turnover mass) in the simulations than is observed in the MW.

Universal scaling relations in scale-free structure formation

NASA Astrophysics Data System (ADS)

Guszejnov, Dávid; Hopkins, Philip F.; Grudić, Michael Y.

2018-07-01

A large number of astronomical phenomena exhibit remarkably similar scaling relations. The most well-known of these is the mass distribution dN/dM ∝ M-2 which (to first order) describes stars, protostellar cores, clumps, giant molecular clouds, star clusters, and even dark matter haloes. In this paper we propose that this ubiquity is not a coincidence and that it is the generic result of scale-free structure formation where the different scales are uncorrelated. We show that all such systems produce a mass function proportional to M-2 and a column density distribution with a power-law tail of dA/dln Σ ∝ Σ-1. In the case where structure formation is controlled by gravity the two-point correlation becomes ξ2D ∝ R-1. Furthermore, structures formed by such processes (e.g. young star clusters, DM haloes) tend to a ρ ∝ R-3 density profile. We compare these predictions with observations, analytical fragmentation cascade models, semi-analytical models of gravito-turbulent fragmentation, and detailed `full physics' hydrodynamical simulations. We find that these power laws are good first-order descriptions in all cases.

Universal Scaling Relations in Scale-Free Structure Formation

NASA Astrophysics Data System (ADS)

Guszejnov, Dávid; Hopkins, Philip F.; Grudić, Michael Y.

2018-04-01

A large number of astronomical phenomena exhibit remarkably similar scaling relations. The most well-known of these is the mass distribution dN/dM∝M-2 which (to first order) describes stars, protostellar cores, clumps, giant molecular clouds, star clusters and even dark matter halos. In this paper we propose that this ubiquity is not a coincidence and that it is the generic result of scale-free structure formation where the different scales are uncorrelated. We show that all such systems produce a mass function proportional to M-2 and a column density distribution with a power law tail of dA/d lnΣ∝Σ-1. In the case where structure formation is controlled by gravity the two-point correlation becomes ξ2D∝R-1. Furthermore, structures formed by such processes (e.g. young star clusters, DM halos) tend to a ρ∝R-3 density profile. We compare these predictions with observations, analytical fragmentation cascade models, semi-analytical models of gravito-turbulent fragmentation and detailed "full physics" hydrodynamical simulations. We find that these power-laws are good first order descriptions in all cases.

Carbon Isotope Chemistry in Molecular Clouds

NASA Technical Reports Server (NTRS)

Robertson, Amy N.; Willacy, Karen

2012-01-01

Few details of carbon isotope chemistry are known, especially the chemical processes that occur in astronomical environments like molecular clouds. Observational evidence shows that the C-12/C-13 abundance ratios vary due to the location of the C-13 atom within the molecular structure. The different abundances are a result of the diverse formation pathways that can occur. Modeling can be used to explore the production pathways of carbon molecules in an effort to understand and explain the chemical evolution of molecular clouds.

STAR FORMATION LAWS: THE EFFECTS OF GAS CLOUD SAMPLING

DOE Office of Scientific and Technical Information (OSTI.GOV)

Calzetti, D.; Liu, G.; Koda, J., E-mail: calzetti@astro.umass.edu

Recent observational results indicate that the functional shape of the spatially resolved star formation-molecular gas density relation depends on the spatial scale considered. These results may indicate a fundamental role of sampling effects on scales that are typically only a few times larger than those of the largest molecular clouds. To investigate the impact of this effect, we construct simple models for the distribution of molecular clouds in a typical star-forming spiral galaxy and, assuming a power-law relation between star formation rate (SFR) and cloud mass, explore a range of input parameters. We confirm that the slope and the scattermore » of the simulated SFR-molecular gas surface density relation depend on the size of the sub-galactic region considered, due to stochastic sampling of the molecular cloud mass function, and the effect is larger for steeper relations between SFR and molecular gas. There is a general trend for all slope values to tend to {approx}unity for region sizes larger than 1-2 kpc, irrespective of the input SFR-cloud relation. The region size of 1-2 kpc corresponds to the area where the cloud mass function becomes fully sampled. We quantify the effects of selection biases in data tracing the SFR, either as thresholds (i.e., clouds smaller than a given mass value do not form stars) or as backgrounds (e.g., diffuse emission unrelated to current star formation is counted toward the SFR). Apparently discordant observational results are brought into agreement via this simple model, and the comparison of our simulations with data for a few galaxies supports a steep (>1) power-law index between SFR and molecular gas.« less

Probes of turbulent driving mechanisms in molecular clouds from fluctuations in synchrotron intensity

NASA Astrophysics Data System (ADS)

Herron, C. A.; Federrath, C.; Gaensler, B. M.; Lewis, G. F.; McClure-Griffiths, N. M.; Burkhart, Blakesley

2017-04-01

Previous studies have shown that star formation depends on the driving of molecular cloud turbulence, and differences in the driving can produce an order of magnitude difference in the star formation rate. The turbulent driving is characterized by the parameter ζ, with ζ = 0 for compressive, curl-free driving (e.g. accretion or supernova explosions), and ζ = 1 for solenoidal, divergence-free driving (e.g. Galactic shear). Here we develop a new method to measure ζ from observations of synchrotron emission from molecular clouds. We calculate statistics of mock synchrotron intensity images produced from magnetohydrodynamic simulations of molecular clouds, in which the driving was controlled to produce different values of ζ. We find that the mean and standard deviation of the log-normalized synchrotron intensity are sensitive to ζ, for values of ζ between 0 (curl-free driving) and 0.5 (naturally mixed driving). We quantify the dependence of zeta on the direction of the magnetic field relative to the line of sight. We provide best-fitting formulae for ζ in terms of the log-normalized mean and standard deviation of synchrotron intensity, with which ζ can be determined for molecular clouds that have similar Alfvénic Mach number to our simulations. These formulae are independent of the sonic Mach number. Signal-to-noise ratios larger than 5, and angular resolutions smaller than 5 per cent of the cloud diameter, are required to apply these formulae. Although there are no firm detections of synchrotron emission from molecular clouds, by combining Green Bank Telescope and Very Large Array observations it should be possible to detect synchrotron emission from molecular clouds, thereby constraining the value of ζ.

Cloud Structure of Galactic OB Cluster-forming Regions from Combining Ground- and Space-based Bolometric Observations

NASA Astrophysics Data System (ADS)

Lin, Yuxin; Liu, Hauyu Baobab; Li, Di; Zhang, Zhi-Yu; Ginsburg, Adam; Pineda, Jaime E.; Qian, Lei; Galván-Madrid, Roberto; McLeod, Anna Faye; Rosolowsky, Erik; Dale, James E.; Immer, Katharina; Koch, Eric; Longmore, Steve; Walker, Daniel; Testi, Leonardo

2016-09-01

We have developed an iterative procedure to systematically combine the millimeter and submillimeter images of OB cluster-forming molecular clouds, which were taken by ground-based (CSO, JCMT, APEX, and IRAM-30 m) and space telescopes (Herschel and Planck). For the seven luminous (L\\gt {10}6 L ⊙) Galactic OB cluster-forming molecular clouds selected for our analyses, namely W49A, W43-Main, W43-South, W33, G10.6-0.4, G10.2-0.3, and G10.3-0.1, we have performed single-component, modified blackbody fits to each pixel of the combined (sub)millimeter images, and the Herschel PACS and SPIRE images at shorter wavelengths. The ˜10″ resolution dust column density and temperature maps of these sources revealed dramatically different morphologies, indicating very different modes of OB cluster-formation, or parent molecular cloud structures in different evolutionary stages. The molecular clouds W49A, W33, and G10.6-0.4 show centrally concentrated massive molecular clumps that are connected with approximately radially orientated molecular gas filaments. The W43-Main and W43-South molecular cloud complexes, which are located at the intersection of the Galactic near 3 kpc (or Scutum) arm and the Galactic bar, show a widely scattered distribution of dense molecular clumps/cores over the observed ˜10 pc spatial scale. The relatively evolved sources G10.2-0.3 and G10.3-0.1 appear to be affected by stellar feedback, and show a complicated cloud morphology embedded with abundant dense molecular clumps/cores. We find that with the high angular resolution we achieved, our visual classification of cloud morphology can be linked to the systematically derived statistical quantities (I.e., the enclosed mass profile, the column density probability distribution function (N-PDF), the two-point correlation function of column density, and the probability distribution function of clump/core separations). In particular, the massive molecular gas clumps located at the center of G10.6-0.4 and W49A, which contribute to a considerable fraction of their overall cloud masses, may be special OB cluster-forming environments as a direct consequence of global cloud collapse. These centralized massive molecular gas clumps also uniquely occupy much higher column densities than what is determined by the overall fit of power-law N-PDF. We have made efforts to archive the derived statistical quantities of individual target sources, to permit comparisons with theoretical frameworks, numerical simulations, and other observations in the future.

Speeding Clouds May Reveal Invisible Black Holes

NASA Astrophysics Data System (ADS)

Kohler, Susanna

2017-07-01

Several small, speeding clouds have been discovered at the center of our galaxy. A new study suggests that these unusual objects may reveal the lurking presence of inactive black holes.Peculiar Cloudsa) Velocity-integrated intensity map showing the location of the two high-velocity compact clouds, HCN0.0090.044 and HCN0.0850.094, in the context of larger molecular clouds. b) and c) Latitude-velocity and longitude-velocity maps for HCN0.0090.044 and HCN0.0850.094, respectively. d) and e) spectra for the two compacts clouds, respectively. Click for a closer look. [Takekawa et al. 2017]Sgr A*, the supermassive black hole marking the center of our galaxy, is surrounded by a region roughly 650 light-years across known as the Central Molecular Zone. This area at the heart of our galaxy is filled with large amounts of warm, dense molecular gas that has a complex distribution and turbulent kinematics.Several peculiar gas clouds have been discovered within the Central Molecular Zone within the past two decades. These clouds, dubbed high-velocity compact clouds, are characterized by their compact sizes and extremely broad velocity widths.What created this mysterious population of energetic clouds? The recent discovery of two new high-velocity compact clouds, reported on in a paper led by Shunya Takekawa (Keio University, Japan), may help us to answer this question.Two More to the CountUsing the James Clerk Maxwell Telescope in Hawaii, Takekawa and collaborators detected the small clouds near the circumnuclear disk at the centermost part of our galaxy. These two clouds have velocity spreads of -80 to -20 km/s and -80 to 0 km/s and compact sizes of just over 1 light-year. The clouds similar appearances and physical properties suggest that they may both have been formed by the same process.Takekawa and collaborators explore and discard several possible origins for these clouds, such as outflows from massive protostars (no massive, luminous stars have been detected affiliated with these clouds), interaction with supernova remnants (no supernova remnants have been detected toward the clouds), and cloudcloud collisions (such collisions leave other signs, like cavities in the parent cloud, which are not detected here).Masses and velocities of black holes that could create the two high-velocity compact clouds fall above the red and blue lines here. [Takekawa et al. 2017]Revealed on the PlungeAs an alternative explanation, Takekawa and collaborators propose that these two small,speeding cloudswere each created when a massive compact object plunged into a nearby molecular cloud. Since we dont seeany luminous stellar counterparts to the high-velocity compact clouds, this suggests that the responsibleobjects were invisible black holes. As each black hole tore through a molecular cloud, it dragged some of the clouds gas along behind it to form the high-velocity compact cloud.Does this explanation make sense statistically? The authors point out that the number of black holes predicted to silently lurk in the central 30 light-years of the Milky Way is around 10,000. This makes it entirely plausible that we could have caught sight of two of them as they revealed their presence while plunging through molecular clouds.If the authors interpretation is correct, then high-velocity compact clouds provide an excellent opportunity: we can search for these speeding bodiesto potentially discover inactive black holes that would otherwise go undetected.CitationShunya Takekawa et al 2017 ApJL 843 L11. doi:10.3847/2041-8213/aa79ee

Structure formation in a colliding flow: The Herschel view of the Draco nebula

NASA Astrophysics Data System (ADS)

Miville-Deschênes, M.-A.; Salomé, Q.; Martin, P. G.; Joncas, G.; Blagrave, K.; Dassas, K.; Abergel, A.; Beelen, A.; Boulanger, F.; Lagache, G.; Lockman, F. J.; Marshall, D. J.

2017-03-01

Context. The Draco nebula is a high Galactic latitude interstellar cloud observed at velocities corresponding to the intermediate velocity cloud regime. This nebula shows unusually strong CO emission and remarkably high-contrast small-scale structures for such a diffuse high Galactic latitude cloud. The 21 cm emission of the Draco nebula reveals that it is likely to have been formed by the collision of a cloud entering the disk of the Milky Way. Such physical conditions are ideal to study the formation of cold and dense gas in colliding flows of diffuse and warm gas. Aims: The objective of this study is to better understand the process of structure formation in a colliding flow and to describe the effects of matter entering the disk on the interstellar medium. Methods: We conducted Herschel-SPIRE observations of the Draco nebula. The clumpfind algorithm was used to identify and characterize the small-scale structures of the cloud. Results: The high-resolution SPIRE map reveals the fragmented structure of the interface between the infalling cloud and the Galactic layer. This front is characterized by a Rayleigh-Taylor (RT) instability structure. From the determination of the typical length of the periodic structure (2.2 pc) we estimated the gas kinematic viscosity. This allowed us to estimate the dissipation scale of the warm neutral medium (0.1 pc), which was found to be compatible with that expected if ambipolar diffusion were the main mechanism of turbulent energy dissipation. The statistical properties of the small-scale structures identified with clumpfind are found to be typical of that seen in molecular clouds and hydrodynamical turbulence in general. The density of the gas has a log-normal distribution with an average value of 103 cm-3. The typical size of the structures is 0.1-0.2 pc, but this estimate is limited by the resolution of the observations. The mass of these structures ranges from 0.2 to 20 M⊙ and the distribution of the more massive structures follows a power-law dN/ dlog (M) M-1.4. We identify a mass-size relation with the same exponent as that found in molecular clouds (M L2.3). On the other hand, we found that only 15% of the mass of the cloud is in gravitationally bound structures. Conclusions: We conclude that the collision of diffuse gas from the Galactic halo with the diffuse interstellar medium of the outer layer of the disk is an efficient mechanism for producing dense structures. The increase of pressure induced by the collision is strong enough to trigger the formation of cold neutral medium out of the warm gas. It is likely that ambipolar diffusion is the mechanism dominating the turbulent energy dissipation. In that case the cold structures are a few times larger than the energy dissipation scale. The dense structures of Draco are the result of the interplay between magnetohydrodynamical turbulence and thermal instability as self-gravity is not dominating the dynamics. Interestingly they have properties typical of those found in more classical molecular clouds. Herschel is an ESA space observatory with science instruments provided by European-led Principal Investigator consortia and with important participation from NASA.The reduced Herschel data (FITS files) are only available at the CDS via anonymous ftp to http://cdsarc.u-strasbg.fr (http://130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/599/A109

Satellite disintegration dynamics

NASA Technical Reports Server (NTRS)

Dasenbrock, R. R.; Kaufman, B.; Heard, W. B.

1975-01-01

The subject of satellite disintegration is examined in detail. Elements of the orbits of individual fragments, determined by DOD space surveillance systems, are used to accurately predict the time and place of fragmentation. Dual time independent and time dependent analyses are performed for simulated and real breakups. Methods of statistical mechanics are used to study the evolution of the fragment clouds. The fragments are treated as an ensemble of non-interacting particles. A solution of Liouville's equation is obtained which enables the spatial density to be calculated as a function of position, time and initial velocity distribution.

Fragmentation-based QM/MM simulations: length dependence of chain dynamics and hydrogen bonding of polyethylene oxide and polyethylene in aqueous solutions.

PubMed

Li, Hui; Li, Wei; Li, Shuhua; Ma, Jing

2008-06-12

Molecular fragmentation quantum mechanics (QM) calculations have been combined with molecular mechanics (MM) to construct the fragmentation QM/MM method for simulations of dilute solutions of macromolecules. We adopt the electrostatics embedding QM/MM model, where the low-cost generalized energy-based fragmentation calculations are employed for the QM part. Conformation energy calculations, geometry optimizations, and Born-Oppenheimer molecular dynamics simulations of poly(ethylene oxide), PEO(n) (n = 6-20), and polyethylene, PE(n) ( n = 9-30), in aqueous solution have been performed within the framework of both fragmentation and conventional QM/MM methods. The intermolecular hydrogen bonding and chain configurations obtained from the fragmentation QM/MM simulations are consistent with the conventional QM/MM method. The length dependence of chain conformations and dynamics of PEO and PE oligomers in aqueous solutions is also investigated through the fragmentation QM/MM molecular dynamics simulations.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jansson, Karl Wahlberg; Johansen, Anders; Syed, Mohtashim Bukhari

Some scenarios for planetesimal formation go through a phase of collapse of gravitationally bound clouds of millimeter- to centimeter-size pebbles. Such clouds can form, for example, through the streaming instability in protoplanetary disks. We model the collapse process with a statistical model to obtain the internal structure of planetesimals with solid radii between 10 and 1000 km. During the collapse, pebbles collide, and depending on their relative speeds, collisions have different outcomes. A mixture of particle sizes inside a planetesimal leads to better packing capabilities and higher densities. In this paper we apply results from new laboratory experiments of dustmore » aggregate collisions (presented in a companion paper) to model collision outcomes. We find that the internal structure of a planetesimal is strongly dependent on both its mass and the applied fragmentation model. Low-mass planetesimals have no/few fragmenting pebble collisions in the collapse phase and end up as porous pebble piles. The number of fragmenting collisions increases with increasing cloud mass, resulting in wider particle size distributions and higher density. The collapse is nevertheless “cold” in the sense that collision speeds are damped by the high collision frequency. This ensures that a significant fraction of large pebbles survive the collapse in all but the most massive clouds. Our results are in broad agreement with the observed increase in density of Kuiper Belt objects with increasing size, as exemplified by the recent characterization of the highly porous comet 67P/Churyumov–Gerasimenko.« less

Fragment-orbital tunneling currents and electronic couplings for analysis of molecular charge-transfer systems.

PubMed

Hwang, Sang-Yeon; Kim, Jaewook; Kim, Woo Youn

2018-04-04

In theoretical charge-transfer research, calculation of the electronic coupling element is crucial for examining the degree of the electronic donor-acceptor interaction. The tunneling current (TC), representing the magnitudes and directions of electron flow, provides a way of evaluating electronic couplings, along with the ability of visualizing how electrons flow in systems. Here, we applied the TC theory to π-conjugated organic dimer systems, in the form of our fragment-orbital tunneling current (FOTC) method, which uses the frontier molecular-orbitals of system fragments as diabatic states. For a comprehensive test of FOTC, we assessed how reasonable the computed electronic couplings and the corresponding TC densities are for the hole- and electron-transfer databases HAB11 and HAB7. FOTC gave 12.5% mean relative unsigned error with regard to the high-level ab initio reference. The shown performance is comparable with that of fragment-orbital density functional theory, which gave the same error by 20.6% or 13.9% depending on the formulation. In the test of a set of nucleobase π stacks, we showed that the original TC expression is also applicable to nondegenerate cases under the condition that the overlap between the charge distributions of diabatic states is small enough to offset the energy difference. Lastly, we carried out visual analysis on the FOTC densities of thiophene dimers with different intermolecular alignments. The result depicts an intimate topological connection between the system geometry and electron flow. Our work provides quantitative and qualitative grounds for FOTC, showing it to be a versatile tool in characterization of molecular charge-transfer systems.

Fragment-based {sup 13}C nuclear magnetic resonance chemical shift predictions in molecular crystals: An alternative to planewave methods

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hartman, Joshua D.; Beran, Gregory J. O., E-mail: gregory.beran@ucr.edu; Monaco, Stephen

2015-09-14

We assess the quality of fragment-based ab initio isotropic {sup 13}C chemical shift predictions for a collection of 25 molecular crystals with eight different density functionals. We explore the relative performance of cluster, two-body fragment, combined cluster/fragment, and the planewave gauge-including projector augmented wave (GIPAW) models relative to experiment. When electrostatic embedding is employed to capture many-body polarization effects, the simple and computationally inexpensive two-body fragment model predicts both isotropic {sup 13}C chemical shifts and the chemical shielding tensors as well as both cluster models and the GIPAW approach. Unlike the GIPAW approach, hybrid density functionals can be used readilymore » in a fragment model, and all four hybrid functionals tested here (PBE0, B3LYP, B3PW91, and B97-2) predict chemical shifts in noticeably better agreement with experiment than the four generalized gradient approximation (GGA) functionals considered (PBE, OPBE, BLYP, and BP86). A set of recommended linear regression parameters for mapping between calculated chemical shieldings and observed chemical shifts are provided based on these benchmark calculations. Statistical cross-validation procedures are used to demonstrate the robustness of these fits.« less

Bat-Fruit Interactions Are More Specialized in Shaded-Coffee Plantations than in Tropical Mountain Cloud Forest Fragments

PubMed Central

Hernández-Montero, Jesús R.; Saldaña-Vázquez, Romeo A.; Galindo-González, Jorge; Sosa, Vinicio J.

2015-01-01

Forest disturbance causes specialization of plant-frugivore networks and jeopardizes mutualistic interactions through reduction of ecological redundancy. To evaluate how simplification of a forest into an agroecosystem affects plant-disperser mutualistic interactions, we compared bat-fruit interaction indexes of specialization in tropical montane cloud forest fragments (TMCF) and shaded-coffee plantations (SCP). Bat-fruit interactions were surveyed by collection of bat fecal samples. Bat-fruit interactions were more specialized in SCP (mean H2 ' = 0.55) compared to TMCF fragments (mean H2 ' = 0.27), and were negatively correlated to bat abundance in SCP (R = -0.35). The number of shared plant species was higher in the TMCF fragments (mean = 1) compared to the SCP (mean = 0.51) and this was positively correlated to the abundance of frugivorous bats (R= 0.79). The higher specialization in SCP could be explained by lower bat abundance and lower diet overlap among bats. Coffee farmers and conservation policy makers must increase the proportion of land assigned to TMCF within agroecosystem landscapes in order to conserve frugivorous bats and their invaluable seed dispersal service. PMID:25992550

Bat-fruit interactions are more specialized in shaded-coffee plantations than in tropical mountain cloud forest fragments.

PubMed

Hernández-Montero, Jesús R; Saldaña-Vázquez, Romeo A; Galindo-González, Jorge; Sosa, Vinicio J

2015-01-01

Forest disturbance causes specialization of plant-frugivore networks and jeopardizes mutualistic interactions through reduction of ecological redundancy. To evaluate how simplification of a forest into an agroecosystem affects plant-disperser mutualistic interactions, we compared bat-fruit interaction indexes of specialization in tropical montane cloud forest fragments (TMCF) and shaded-coffee plantations (SCP). Bat-fruit interactions were surveyed by collection of bat fecal samples. Bat-fruit interactions were more specialized in SCP (mean H2 ' = 0.55) compared to TMCF fragments (mean H2 ' = 0.27), and were negatively correlated to bat abundance in SCP (R = -0.35). The number of shared plant species was higher in the TMCF fragments (mean = 1) compared to the SCP (mean = 0.51) and this was positively correlated to the abundance of frugivorous bats (R= 0.79). The higher specialization in SCP could be explained by lower bat abundance and lower diet overlap among bats. Coffee farmers and conservation policy makers must increase the proportion of land assigned to TMCF within agroecosystem landscapes in order to conserve frugivorous bats and their invaluable seed dispersal service.

Resolving the substructure of molecular clouds in the LMC

NASA Astrophysics Data System (ADS)

Wong, Tony; Hughes, Annie; Tokuda, Kazuki; Indebetouw, Remy; Wojciechowski, Evan; Bandurski, Jeffrey; MC3 Collaboration

2018-01-01

We present recent wide-field CO and 13CO mapping of giant molecular clouds in the Large Magellanic Cloud with ALMA. Our sample exhibits diverse star-formation properties, and reveals comparably diverse molecular cloud properties including surface density and velocity dispersion at a given scale. We first present the results of a recent study comparing two GMCs at the extreme ends of the star formation activity spectrum. Our quiescent cloud exhibits 10 times lower surface density and 5 times lower velocity dispersion than the active 30 Doradus cloud, yet in both clouds we find a wide range of line widths at the smallest resolved scales, spanning nearly the full range of line widths seen at all scales. This suggests an important role for feedback on sub-parsec scales, while the energetics on larger scales are dominated by clump-to-clump relative velocities. We then extend our analysis to four additional clouds that exhibit intermediate levels of star formation activity.

Use of noncrystallographic symmetry for automated model building at medium to low resolution.

PubMed

Wiegels, Tim; Lamzin, Victor S

2012-04-01

A novel method is presented for the automatic detection of noncrystallographic symmetry (NCS) in macromolecular crystal structure determination which does not require the derivation of molecular masks or the segmentation of density. It was found that throughout structure determination the NCS-related parts may be differently pronounced in the electron density. This often results in the modelling of molecular fragments of variable length and accuracy, especially during automated model-building procedures. These fragments were used to identify NCS relations in order to aid automated model building and refinement. In a number of test cases higher completeness and greater accuracy of the obtained structures were achieved, specifically at a crystallographic resolution of 2.3 Å or poorer. In the best case, the method allowed the building of up to 15% more residues automatically and a tripling of the average length of the built fragments.

Discovery of Molecular and Atomic Clouds Associated with the Magellanic Superbubble 30 Doradus C

NASA Astrophysics Data System (ADS)

Sano, H.; Yamane, Y.; Voisin, F.; Fujii, K.; Yoshiike, S.; Inaba, T.; Tsuge, K.; Babazaki, Y.; Mitsuishi, I.; Yang, R.; Aharonian, F.; Rowell, G.; Filipović, M. D.; Mizuno, N.; Tachihara, K.; Kawamura, A.; Onishi, T.; Fukui, Y.

2017-07-01

We analyzed the 2.6 mm CO and 21 cm H I lines toward the Magellanic superbubble 30 Doradus C, in order to reveal the associated molecular and atomic gas. We uncovered five molecular clouds in a velocity range from 251 to 276 km s-1 toward the western shell. The non-thermal X-rays are clearly enhanced around the molecular clouds on a parsec scale, suggesting possible evidence for magnetic field amplification via shock-cloud interaction. The thermal X-rays are brighter in the eastern shell, where there are no dense molecular or atomic clouds, opposite to the western shell. The TeV γ-ray distribution may spatially match the total interstellar proton column density as well as the non-thermal X-rays. If the hadronic γ-ray is dominant, the total energy of the cosmic-ray protons is at least ˜ 1.2× {10}50 erg with the estimated mean interstellar proton density ˜60 cm-3. In addition, the γ-ray flux associated with the molecular cloud (e.g., MC3) could be detected and resolved by the Cherenkov Telescope Array (CTA). This should permit CTA to probe the diffusion of cosmic-rays into the associated dense ISM.

Practical quantum mechanics-based fragment methods for predicting molecular crystal properties.

PubMed

Wen, Shuhao; Nanda, Kaushik; Huang, Yuanhang; Beran, Gregory J O

2012-06-07

Significant advances in fragment-based electronic structure methods have created a real alternative to force-field and density functional techniques in condensed-phase problems such as molecular crystals. This perspective article highlights some of the important challenges in modeling molecular crystals and discusses techniques for addressing them. First, we survey recent developments in fragment-based methods for molecular crystals. Second, we use examples from our own recent research on a fragment-based QM/MM method, the hybrid many-body interaction (HMBI) model, to analyze the physical requirements for a practical and effective molecular crystal model chemistry. We demonstrate that it is possible to predict molecular crystal lattice energies to within a couple kJ mol(-1) and lattice parameters to within a few percent in small-molecule crystals. Fragment methods provide a systematically improvable approach to making predictions in the condensed phase, which is critical to making robust predictions regarding the subtle energy differences found in molecular crystals.

Boundary conditions for the paleoenvironment: Chemical and physical processes in the pre-solar nebula. [molecular clouds, interstellar matter, and abundance

NASA Technical Reports Server (NTRS)

Irvine, W. M.; Schloerb, F. P.

1985-01-01

Two additional hyperfine components of the interstellar radical C3H were detected. In addition, methanol was discovered in interstellar clouds. The abundance of HCCN and various chemical isomers in molecular clouds was investigated.

Rotation in young massive star clusters

NASA Astrophysics Data System (ADS)

Mapelli, Michela

2017-05-01

Hydrodynamical simulations of turbulent molecular clouds show that star clusters form from the hierarchical merger of several sub-clumps. We run smoothed-particle hydrodynamics simulations of turbulence-supported molecular clouds with mass ranging from 1700 to 43 000 M⊙. We study the kinematic evolution of the main cluster that forms in each cloud. We find that the parent gas acquires significant rotation, because of large-scale torques during the process of hierarchical assembly. The stellar component of the embedded star cluster inherits the rotation signature from the parent gas. Only star clusters with final mass < few × 100 M⊙ do not show any clear indication of rotation. Our simulated star clusters have high ellipticity (˜0.4-0.5 at t = 4 Myr) and are subvirial (Qvir ≲ 0.4). The signature of rotation is stronger than radial motions due to subvirial collapse. Our results suggest that rotation is common in embedded massive (≳1000 M⊙) star clusters. This might provide a key observational test for the hierarchical assembly scenario.

Formation of compact HII regions possibly triggered by cloud-cloud collision

NASA Astrophysics Data System (ADS)

Ohama, Akio; Torii, Kazufumi; Hasegawa, Keisuke; Fukui, Yasuo

2015-08-01

Compact HII regions are ionized by young high-mass star(s) and ~1000 compact HII regions are cataloged in the Galaxy (Urquhart et al. MNRAS 443, 1555-1586 (2014)). Compact HII regions are one of the major populations of Galactic HII regions. The molecular environments around compact HII regions are however not well understood due to lack of extensive molecular surveys. In order to better understand formation of exciting stars and compact HII regions, we have carried out a systematic study of molecular clouds toward compact HII regions by using the 12CO datasets obtained with the JCMT and NANTEN2 telescopes for l = 10 - 56, and present here the first results.In one of the present samples, RCW166, we have discovered that the HII region is associated with two molecular clouds whose velocity separation is ~10 km s-1 the two clouds show complimentary spatial distributions, where one of the clouds have a cavity-like distribution apparently embracing the other. We present an interpretation that the two clouds collided with each other and the cavity-like distribution represents a hole created by the collision in the larger cloud as modeled by Habe and Ohta (1992). Similar molecular distributions are often found in the other compact HII regions in the present study.A recent study by Torii et al. (2015, arXiv:1503.00070) indicates that the Spitzer bubble RCW120 was formed by cloud-cloud collision where the inside of the cavity is fully ionized by the exiting stars. RCW166, on the other hand, shows that only a small part of the cavity, the compact HII region, is ionized. We thus suggest that RCW166 represents an evolutionary stage corresponding to an earlier phase of RCW120 in the collision scenario.

An Empirical Non-TNT Approach to Launch Vehicle Explosion Modeling

NASA Technical Reports Server (NTRS)

Blackwood, James M.; Skinner, Troy; Richardson, Erin H.; Bangham, Michal E.

2015-01-01

In an effort to increase crew survivability from catastrophic explosions of Launch Vehicles (LV), a study was conducted to determine the best method for predicting LV explosion environments in the near field. After reviewing such methods as TNT equivalence, Vapor Cloud Explosion (VCE) theory, and Computational Fluid Dynamics (CFD), it was determined that the best approach for this study was to assemble all available empirical data from full scale launch vehicle explosion tests and accidents. Approximately 25 accidents or full-scale tests were found that had some amount of measured blast wave, thermal, or fragment explosion environment characteristics. Blast wave overpressure was found to be much lower in the near field than predicted by most TNT equivalence methods. Additionally, fragments tended to be larger, fewer, and slower than expected if the driving force was from a high explosive type event. In light of these discoveries, a simple model for cryogenic rocket explosions is presented. Predictions from this model encompass all known applicable full scale launch vehicle explosion data. Finally, a brief description of on-going analysis and testing to further refine the launch vehicle explosion environment is discussed.

First X-ray Statistical Tests for Clumpy-Torus Models: Constraints from RXTEmonitoring of Seyfert AGN

NASA Astrophysics Data System (ADS)

Markowitz, Alex; Krumpe, Mirko; Nikutta, R.

2016-06-01

In two papers (Markowitz, Krumpe, & Nikutta 2014, and Nikutta et al., in prep.), we derive the first X-ray statistical constraints for clumpy-torus models in Seyfert AGN by quantifying multi-timescale variability in line of-sight X-ray absorbing gas as a function of optical classification.We systematically search for discrete absorption events in the vast archive of RXTE monitoring of 55 nearby type Is and Compton-thin type IIs. We are sensitive to discrete absorption events due to clouds of full-covering, neutral/mildly ionized gas transiting the line of sight. Our results apply to both dusty and non-dusty clumpy media, and probe model parameter space complementary to that for eclipses observed with XMM-Newton, Suzaku, and Chandra.We detect twelve eclipse events in eight Seyferts, roughly tripling the number previously published from this archive. Event durations span hours to years. Most of our detected clouds are Compton-thin, and most clouds' distances from the black hole are inferred to be commensurate with the outer portions of the BLR or the inner regions of infrared-emitting dusty tori.We present the density profiles of the highest-quality eclipse events; the column density profile for an eclipsing cloud in NGC 3783 is doubly spiked, possibly indicating a cloud that is being tidallysheared. We discuss implications for cloud distributions in the context of clumpy-torus models. We calculate eclipse probabilities for orientation-dependent Type I/II unification schemes.We present constraints on cloud sizes, stability, and radial distribution. We infer that clouds' small angular sizes as seen from the SMBH imply 107 clouds required across the BLR + torus. Cloud size is roughly proportional to distance from the black hole, hinting at the formation processes (e.g., disk fragmentation). All observed clouds are sub-critical with respect to tidal disruption; self-gravity alone cannot contain them. External forces, such as magnetic fields or ambient pressure, are needed to contain them; otherwise, clouds must be short-lived.

Water in dense molecular clouds

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wannier, P.G.; Kuiper, T.B.H.; Frerking, M.A.

1991-08-01

The G.P. Kuiper Airborne Observatory (KAO) was used to make initial observations of the half-millimeter ground-state transition of water in seven giant molecular clouds and in two late-type stars. No significant detections were made, and the resulting upper limits are significantly below those expected from other, indirect observations and from several theoretical models. The implied interstellar H2O/CO abundance is less than 0.003 in the cores of three giant molecular clouds. This value is less than expected from cloud chemistry models and also than estimates based on HDO and H3O(+) observations. 78 refs.

Testing the Two-Layer Model for Correcting Near Cloud Reflectance Enhancement Using LES SHDOM Simulated Radiances

NASA Technical Reports Server (NTRS)

Wen, Guoyong; Marshak, Alexander; Varnai, Tamas; Levy, Robert

2016-01-01

A transition zone exists between cloudy skies and clear sky; such that, clouds scatter solar radiation into clear-sky regions. From a satellite perspective, it appears that clouds enhance the radiation nearby. We seek a simple method to estimate this enhancement, since it is so computationally expensive to account for all three-dimensional (3-D) scattering processes. In previous studies, we developed a simple two-layer model (2LM) that estimated the radiation scattered via cloud-molecular interactions. Here we have developed a new model to account for cloud-surface interaction (CSI). We test the models by comparing to calculations provided by full 3-D radiative transfer simulations of realistic cloud scenes. For these scenes, the Moderate Resolution Imaging Spectroradiometer (MODIS)-like radiance fields were computed from the Spherical Harmonic Discrete Ordinate Method (SHDOM), based on a large number of cumulus fields simulated by the University of California, Los Angeles (UCLA) large eddy simulation (LES) model. We find that the original 2LM model that estimates cloud-air molecule interactions accounts for 64 of the total reflectance enhancement and the new model (2LM+CSI) that also includes cloud-surface interactions accounts for nearly 80. We discuss the possibility of accounting for cloud-aerosol radiative interactions in 3-D cloud-induced reflectance enhancement, which may explain the remaining 20 of enhancements. Because these are simple models, these corrections can be applied to global satellite observations (e.g., MODIS) and help to reduce biases in aerosol and other clear-sky retrievals.

Dissipative particle dynamics (DPD) simulations with fragment molecular orbital (FMO) based effective parameters for 1-Palmitoyl-2-oleoyl phosphatidyl choline (POPC) membrane

NASA Astrophysics Data System (ADS)

Doi, Hideo; Okuwaki, Koji; Mochizuki, Yuji; Ozawa, Taku; Yasuoka, Kenji

2017-09-01

In dissipative particle dynamics (DPD) simulations, it is necessary to use the so-called χ parameter set that express the effective interactions between particles. Recently, we have developed a new scheme to evaluate the χ parameters in a non-empirical way through a series of fragment molecular orbital (FMO) calculations. As a challenging test, we have performed the DPD simulations using the FMO-based χ parameters for a mixture of 1-Palmitoyl-2-oleoyl phosphatidyl choline (POPC) and water. The structures of both membrane and vesicle were formed successfully. The calculated structural parameters of membrane were in good agreement with experimental results.

Metabolite identification through multiple kernel learning on fragmentation trees.

PubMed

Shen, Huibin; Dührkop, Kai; Böcker, Sebastian; Rousu, Juho

2014-06-15

Metabolite identification from tandem mass spectrometric data is a key task in metabolomics. Various computational methods have been proposed for the identification of metabolites from tandem mass spectra. Fragmentation tree methods explore the space of possible ways in which the metabolite can fragment, and base the metabolite identification on scoring of these fragmentation trees. Machine learning methods have been used to map mass spectra to molecular fingerprints; predicted fingerprints, in turn, can be used to score candidate molecular structures. Here, we combine fragmentation tree computations with kernel-based machine learning to predict molecular fingerprints and identify molecular structures. We introduce a family of kernels capturing the similarity of fragmentation trees, and combine these kernels using recently proposed multiple kernel learning approaches. Experiments on two large reference datasets show that the new methods significantly improve molecular fingerprint prediction accuracy. These improvements result in better metabolite identification, doubling the number of metabolites ranked at the top position of the candidates list. © The Author 2014. Published by Oxford University Press.

Star formation in massive Milky Way molecular clouds: Building a bridge to distant galaxies

NASA Astrophysics Data System (ADS)

Willis, Sarah Elizabeth

The Kennicutt-Schmidt relation is an empirical power-law linking the surface density of the star formation rate (SigmaSFR) to the surface density of gas (Sigmagas ) averaged over the observed face of a starforming galaxy Kennicutt (1998). The original presentation used observations of CO to measure gas density and H alpha emission to measure the population of hot, massive young stars (and infer the star formation rate). Observations of Sigma SFR from a census of young stellar objects in nearby molecular clouds in our Galaxy are up to 17 times higher than the extragalactic relation would predict given their Sigmagas. These clouds primarily form low-mass stars that are essentially invisible to star formation rate tracers. A sample of six giant molecular cloud (GMC) complexes with signposts of massive star formation was identified in our galaxy. The regions selected have a range of total luminosity and morphology. Deep ground-based observations in the near-infrared with NEWFIRM and IRAC observations with the Spitzer Space Telescope were used to conduct a census of the young stellar content associated with each of these clouds. The star formation rates from the stellar census in each of these regions was compared with the star formation rates measured by extragalactic star formation rate tracers based on monochromatic mid-infrared luminosities. Far-infrared Herschel observations from 160 through 500 mum were used to determine the column density and temperature in each region. The region NGC 6334 served as a test case to compare the Herschel column density measurements with the measurements for near-infrared extinction. The combination of the column density maps and the stellar census lets us examine SigmaSFR vs. Sigma gas for the massive GMCs. These regions are consistent with the results for the low-mass molecular clouds, indicating Sigma SFR levels that are higher than predicted based on Sigma gas. The overall Sigmagas levels are higher for the massive star forming regions, indicating that they have a higher fraction of dense gas than the clouds that are forming primarily low mass stars. There is still significant spread at a given average gas density, indicating that the star formation history and dense gas fraction play important roles in determining an individual molecular cloud's place in a Sigma SFR vs. Sigmagas diagram. Zooming in, SigmaSFR vs. Sigma gas was examined within the individual clouds, revealing a decrease relative to the spread that is observed for the average over whole clouds. The dependence of SigmaSFR on Sigma gas increases significantly above AV ˜ 5 - 10 which is consistent with previous measurements of a threshold for star formation around AV = 8 or Sigma gas = 0.04 g cm-2. NGC 6334 was found to be consistent with a threshold for massive star formation at Sigmagas = 1 g cm-2.

Characterization of the Catalog Fengyun-1C Fragments and Their Long-term Effect on the LEO Environment

NASA Technical Reports Server (NTRS)

Liou, J.-C.; Johnson, N. L.

2008-01-01

The intentional breakup of Fengyun-1C on 11 January 2007 created the most severe orbital debris cloud in history. More than 2500 large fragments were identified and tracked by the U.S. Space Surveillance Network by the end of the year. The altitude where the event occurred was probably the worst location for a major breakup in the low Earth orbit (LEO) region, since it was already highly populated with operational satellites and debris generated from previous breakups. The addition of so many fragments not only poses a realistic threat to operational satellites in the region, but also increases the instability (i.e., collision cascade effect) of the debris population there. Preliminary analysis of the large Fengyun-1C fragments indicates that their size and area-to-mass ratio (A/M) distributions are very different from those of other known events. About half of the fragments appear to be composed of light-weight materials and more than 100 of them have A/M values exceeding 1 square meter per kilogram, consistent with thermal blanket pieces. In addition, the orbital elements of the fragments suggest nontrivial velocity gain by the fragment cloud during the impact. These important characteristics were incorporated into a numerical simulation to assess the long-term impact of the Fengyun-1C fragments to the LEO debris environment. The main objectives of the simulation were to evaluate (1) the collision probabilities between the Fengyun-1C fragments and the rest of the catalog population and (2) the collision activities and population growth in the region in the next 100 years.

EMBEDDED CLUSTERS IN THE LARGE MAGELLANIC CLOUD USING THE VISTA MAGELLANIC CLOUDS SURVEY

DOE Office of Scientific and Technical Information (OSTI.GOV)

Romita, Krista; Lada, Elizabeth; Cioni, Maria-Rosa, E-mail: k.a.romita@ufl.edu, E-mail: elada@ufl.edu, E-mail: mcioni@aip.de

We present initial results of the first large-scale survey of embedded star clusters in molecular clouds in the Large Magellanic Cloud (LMC) using near-infrared imaging from the Visible and Infrared Survey Telescope for Astronomy Magellanic Clouds Survey. We explored a ∼1.65 deg{sup 2} area of the LMC, which contains the well-known star-forming region 30 Doradus as well as ∼14% of the galaxy’s CO clouds, and identified 67 embedded cluster candidates, 45 of which are newly discovered as clusters. We have determined the sizes, luminosities, and masses for these embedded clusters, examined the star formation rates (SFRs) of their corresponding molecularmore » clouds, and made a comparison between the LMC and the Milky Way. Our preliminary results indicate that embedded clusters in the LMC are generally larger, more luminous, and more massive than those in the local Milky Way. We also find that the surface densities of both embedded clusters and molecular clouds is ∼3 times higher than in our local environment, the embedded cluster mass surface density is ∼40 times higher, the SFR is ∼20 times higher, and the star formation efficiency is ∼10 times higher. Despite these differences, the SFRs of the LMC molecular clouds are consistent with the SFR scaling law presented in Lada et al. This consistency indicates that while the conditions of embedded cluster formation may vary between environments, the overall process within molecular clouds may be universal.« less

Angular momentum of the N2H+ cores in the Orion A cloud

NASA Astrophysics Data System (ADS)

Tatematsu, Ken'ichi; Ohashi, Satoshi; Sanhueza, Patricio; Nguyen Luong, Quang; Umemoto, Tomofumi; Mizuno, Norikazu

2016-04-01

We have analyzed the angular momentum of the molecular cloud cores in the Orion A giant molecular cloud observed in the N2H+ J = 1-0 line with the Nobeyama 45 m radio telescope. We have measured the velocity gradient using position-velocity diagrams passing through core centers, and made sinusoidal fits against the position angle. Twenty-seven out of 34 N2H+ cores allowed us to measure the velocity gradient without serious confusion. The derived velocity gradient ranges from 0.5 to 7.8 km s-1 pc-1. We marginally found that the specific angular momentum J/M (against the core radius R) of the Orion N2H+ cores tends to be systematically larger than that of molecular cloud cores in cold dark clouds obtained by Goodman et al., in the J/M-R relation. The ratio β of rotational to gravitational energy is derived to be β = 10-2.3±0.7, and is similar to that obtained for cold dark cloud cores in a consistent definition. The large-scale rotation of the ∫-shaped filament of the Orion A giant molecular cloud does not likely govern the core rotation at smaller scales.

Molecular digital pathology: progress and potential of exchanging molecular data.

PubMed

Roy, Somak; Pfeifer, John D; LaFramboise, William A; Pantanowitz, Liron

2016-09-01

Many of the demands to perform next generation sequencing (NGS) in the clinical laboratory can be resolved using the principles of telepathology. Molecular telepathology can allow facilities to outsource all or a portion of their NGS operation such as cloud computing, bioinformatics pipelines, variant data management, and knowledge curation. Clinical pathology laboratories can electronically share diverse types of molecular data with reference laboratories, technology service providers, and/or regulatory agencies. Exchange of electronic molecular data allows laboratories to perform validation of rare diseases using foreign data, check the accuracy of their test results against benchmarks, and leverage in silico proficiency testing. This review covers the emerging subject of molecular telepathology, describes clinical use cases for the appropriate exchange of molecular data, and highlights key issues such as data integrity, interoperable formats for massive genomic datasets, security, malpractice and emerging regulations involved with this novel practice.

VizieR Online Data Catalog: Very Low-Luminosity Objects (VeLLOs) from 1.25-850um (Kim+, 2016)

NASA Astrophysics Data System (ADS)

Kim, M.-R.; Lee, C. W.; Dunham, M. M.; Evans, N. J., II; Kim, G.; Allen, L. E.

2016-10-01

The Spitzer Gould Belt Survey (GBS) is a project to survey about 21 square degrees of 11 nearby molecular clouds at 3.6-160um to provide a census of star formation in nearby large clouds (P.I. L. Allen). Spitzer has mapped a total of 11 molecular clouds, CMC, Chamaeleon I, Chamaeleon III, Musca, Lupus V, Lupus VI, Ophiuchus North, Aquila, CrA, Cepheus, and IC 5146 with the IRAC and MIPS between 2004 March and 2008 October. We utilized the data provided by the c2d/GBS projects (Evans et al. 2009, J/ApJS/181/321; Dunham et al. 2015, J/ApJS/220/11). There are two cloud complexes which were not listed in the c2d/GBS projects, but observed by other projects, the Taurus molecular clouds and the Orion molecular clouds. The Taurus molecular clouds have been observed over an area of ~44 square degrees by one of the GTO programs (P.I. D. Padgett) with the IRAC and the MIPS instruments. The Orion molecular clouds have been surveyed in ~9°2 area by Spitzer (P.I. T. Megeath). See section 2.1 for further details. Complementary archive infrared data were retrieved from 2MASS and Herschel PACS and SPIRE and JCMT SCUBA-2; see section 2.2. We observed our sources with the N2H+(1-0) line with the Korean Very Long Baseline Interferometry Network (KVN) 21m radio telescopes from 2011 October to 2016 May for the northern hemisphere sources, and the Mopra 22m telescope in 2012 April for the southern hemisphere sources. See section 2.3 for further explanations. (8 data files).

[Cii] emission from L1630 in the Orion B molecular cloud.

PubMed

Pabst, C H M; Goicoechea, J R; Teyssier, D; Berné, O; Ochsendorf, B B; Wolfire, M G; Higgins, R D; Riquelme, D; Risacher, C; Pety, J; Le Petit, F; Roueff, E; Bron, E; Tielens, A G G M

2017-10-01

L1630 in the Orion B molecular cloud, which includes the iconic Horsehead Nebula, illuminated by the star system σ Ori, is an example of a photodissociation region (PDR). In PDRs, stellar radiation impinges on the surface of dense material, often a molecular cloud, thereby inducing a complex network of chemical reactions and physical processes. Observations toward L1630 allow us to study the interplay between stellar radiation and a molecular cloud under relatively benign conditions, that is, intermediate densities and an intermediate UV radiation field. Contrary to the well-studied Orion Molecular Cloud 1 (OMC1), which hosts much harsher conditions, L1630 has little star formation. Our goal is to relate the [Cii] fine-structure line emission to the physical conditions predominant in L1630 and compare it to studies of OMC1. The [Cii] 158 μ m line emission of L1630 around the Horsehead Nebula, an area of 12' × 17', was observed using the upgraded German Receiver for Astronomy at Terahertz Frequencies (upGREAT) onboard the Stratospheric Observatory for Infrared Astronomy (SOFIA). Of the [Cii] emission from the mapped area 95%, 13 L ⊙ , originates from the molecular cloud; the adjacent Hii region contributes only 5%, that is, 1 L ⊙ . From comparison with other data (CO(1-0)-line emission, far-infrared (FIR) continuum studies, emission from polycyclic aromatic hydrocarbons (PAHs)), we infer a gas density of the molecular cloud of n H ∼ 3 · 10 3 cm -3 , with surface layers, including the Horsehead Nebula, having a density of up to n H ∼ 4 · 10 4 cm -3 . The temperature of the surface gas is T ∼ 100 K. The average [Cii] cooling efficiency within the molecular cloud is 1.3 · 10 -2 . The fraction of the mass of the molecular cloud within the studied area that is traced by [Cii] is only 8%. Our PDR models are able to reproduce the FIR-[Cii] correlations and also the CO(1-0)-[Cii] correlations. Finally, we compare our results on the heating efficiency of the gas with theoretical studies of photoelectric heating by PAHs, clusters of PAHs, and very small grains, and find the heating efficiency to be lower than theoretically predicted, a continuation of the trend set by other observations. In L1630 only a small fraction of the gas mass is traced by [Cii]. Most of the [Cii] emission in the mapped area stems from PDR surfaces. The layered edge-on structure of the molecular cloud and limitations in spatial resolution put constraints on our ability to relate different tracers to each other and to the physical conditions. From our study, we conclude that the relation between [Cii] emission and physical conditions is likely to be more complicated than often assumed. The theoretical heating efficiency is higher than the one we calculate from the observed [Cii] emission in the L1630 molecular cloud.

[Cii] emission from L1630 in the Orion B molecular cloud

PubMed Central

Pabst, C. H. M.; Goicoechea, J. R.; Teyssier, D.; Berné, O.; Ochsendorf, B. B.; Wolfire, M. G.; Higgins, R. D.; Riquelme, D.; Risacher, C.; Pety, J.; Le Petit, F.; Roueff, E.; Bron, E.; Tielens, A. G. G. M.

2017-01-01

Context L1630 in the Orion B molecular cloud, which includes the iconic Horsehead Nebula, illuminated by the star system σ Ori, is an example of a photodissociation region (PDR). In PDRs, stellar radiation impinges on the surface of dense material, often a molecular cloud, thereby inducing a complex network of chemical reactions and physical processes. Aims Observations toward L1630 allow us to study the interplay between stellar radiation and a molecular cloud under relatively benign conditions, that is, intermediate densities and an intermediate UV radiation field. Contrary to the well-studied Orion Molecular Cloud 1 (OMC1), which hosts much harsher conditions, L1630 has little star formation. Our goal is to relate the [Cii] fine-structure line emission to the physical conditions predominant in L1630 and compare it to studies of OMC1. Methods The [Cii] 158 μm line emission of L1630 around the Horsehead Nebula, an area of 12′ × 17′, was observed using the upgraded German Receiver for Astronomy at Terahertz Frequencies (upGREAT) onboard the Stratospheric Observatory for Infrared Astronomy (SOFIA). Results Of the [Cii] emission from the mapped area 95%, 13 L⊙, originates from the molecular cloud; the adjacent Hii region contributes only 5%, that is, 1 L⊙. From comparison with other data (CO(1-0)-line emission, far-infrared (FIR) continuum studies, emission from polycyclic aromatic hydrocarbons (PAHs)), we infer a gas density of the molecular cloud of nH ∼ 3 · 103 cm−3, with surface layers, including the Horsehead Nebula, having a density of up to nH ∼ 4 · 104 cm−3. The temperature of the surface gas is T ∼ 100 K. The average [Cii] cooling efficiency within the molecular cloud is 1.3 · 10−2. The fraction of the mass of the molecular cloud within the studied area that is traced by [Cii] is only 8%. Our PDR models are able to reproduce the FIR-[Cii] correlations and also the CO(1-0)-[Cii] correlations. Finally, we compare our results on the heating efficiency of the gas with theoretical studies of photoelectric heating by PAHs, clusters of PAHs, and very small grains, and find the heating efficiency to be lower than theoretically predicted, a continuation of the trend set by other observations. Conclusions In L1630 only a small fraction of the gas mass is traced by [Cii]. Most of the [Cii] emission in the mapped area stems from PDR surfaces. The layered edge-on structure of the molecular cloud and limitations in spatial resolution put constraints on our ability to relate different tracers to each other and to the physical conditions. From our study, we conclude that the relation between [Cii] emission and physical conditions is likely to be more complicated than often assumed. The theoretical heating efficiency is higher than the one we calculate from the observed [Cii] emission in the L1630 molecular cloud. PMID:28989177

Binary star formation: gravitational fragmentation followed by capture

NASA Astrophysics Data System (ADS)

Turner, J. A.; Chapman, S. J.; Bhattal, A. S.; Disney, M. J.; Pongracic, H.; Whitworth, A. P.

1995-11-01

We describe in detail one of a sequence of numerical simulations which realize the mechanism of binary star formation proposed by Pringle. In these simulations, collisions between stable molecular cloud clumps produce dense shocked layers, which cool radiatively and fragment gravitationally. The resulting fragments then condense to form protostellar discs, which at the same time fall together and, as a result of tidal and viscous interactions, capture one another to form binary systems. We refer to this mechanism as shock-induced gravitational fragmentation followed by capture, or SGF+C. When the initial clumps are sufficiently massive and/or the Mach number of the collision is sufficiently high, a large number (>~10) of protostellar discs is produced; under these circumstances, the layer fragments first into filaments, and then into beads along the filaments. The marriage of two protostellar discs in this way is `arranged' in the sense that the protostellar discs involved do not form independently. First, they both condense out of the same layer, and probably also out of the same filament within this layer; this significantly increases the likelihood of them interacting dynamically. Secondly, there tends to be alignment between the orbital and spin angular momenta of the interacting protostellar discs, reflecting the fact that these angular momenta derive mainly from the systematic global angular momentum of the off-axis collision which produced the layer; this alignment of the various angular momenta pre-disposes the discs to very dissipative interactions, thereby increasing the probability of producing a strongly bound, long-lasting union. It is a marriage because the binary orbit stabilizes itself rather quickly. Any subsequent orbit evolution, as the protostellar discs `mop up' the surrounding residual gas and interact tidally, tends to harden the orbit. Therefore, as long as a third body does not intervene, the union is binding. Even if a third body does intervene, provided the binary components are well matched (i.e. of comparable mass) and the third body is not too massive, such interventions will - more often than not - harden the orbit further. In two appendices we describe the code used in the simulations presented in this and the companion paper, and the tests performed to demonstrate the code's ability to handle the physical processes involved.

A composite large-scale CO survey at high galactic latitudes in the second quadrant

NASA Technical Reports Server (NTRS)

Heithausen, A.; Stacy, J. G.; De Vries, H. W.; Mebold, U.; Thaddeus, P.

1993-01-01

Surveys undertaken in the 2nd quadrant of the Galaxy with the CfA 1.2 m telescope have been combined to produce a map covering about 620 sq deg in the 2.6 mm CO(J = 1 - 0) line at high galactic latitudes. There is CO emission from molecular 'cirrus' clouds in about 13 percent of the region surveyed. The CO clouds are grouped together into three major cloud complexes with 29 individual members. All clouds are associated with infrared emission at 100 micron, although there is no one-to-one correlation between the corresponding intensities. CO emission is detected in all bright and dark Lynds' nebulae cataloged in that region; however not all CO clouds are visible on optical photographs as reflection or absorption features. The clouds are probably local. At an adopted distance of 240 pc cloud sizes range from O.1 to 30 pc and cloud masses from 1 to 1600 solar masses. The molecular cirrus clouds contribute between 0.4 and 0.8 M solar mass/sq pc to the surface density of molecular gas in the galactic plane. Only 26 percent of the 'infrared-excess clouds' in the area surveyed actually show CO and about 2/3 of the clouds detected in CO do not show an infrared excess.

Delayed genetic effects of habitat fragmentation on the ecologically specialized Florida sand skink (Plestiodon reynoldsi)

USGS Publications Warehouse

Richmond, Jonathan Q.; Reid, Duncan T.; Ashton, Kyle G.; Zamudio, Kelly R.

2009-01-01

Populations rarely show immediate genetic responses to habitat fragmentation, even in taxa that possess suites of traits known to increase their vulnerability to extinction. Thus conservation geneticists must consider the time scale over which contemporary evolutionary processes operate to accurately portray the effects of habitat isolation. Here, we examine the genetic impacts of fragmentation on the Florida sand skink Plestiodon reynoldsi, a sand swimming lizard that is highly adapted to the upland scrub habitat of central Florida. We studied fragments located on the southern Lake Wales Ridge, where human activity in the latter half of the 20th century has modified the natural patchiness of the landscape. Based on a relaxed molecular clock method, we estimate that sand skinks have persisted in this region for approximately 1.5 million years and that the time frame of human disturbance is equivalent to fewer than 30 skink generations. Using genotypes from eight microsatellite loci, we screened for molecular signatures of this disturbance by assessing congruence between population structure, as inferred from spatially-informed Bayesian assignment tests, and the current geography of scrub fragments. We also tested for potential intrapopulation genetic effects of inbreeding in isolated populations by comparing the average pairwise relatedness of individuals within fragments of different areas and isolation. Our results indicate that although some patches show a higher degree of relatedness than expected under random mating, the genetic effects of recent isolation are not evident in this part of the species’ range. We argue that this result is an artefact of a time-lag in the response to disturbance, and that species-typical demographic features may explain the genetic inertia observed in these populations.

Optimal Cloning of PCR Fragments by Homologous Recombination in Escherichia coli

PubMed Central

Jacobus, Ana Paula; Gross, Jeferson

2015-01-01

PCR fragments and linear vectors containing overlapping ends are easily assembled into a propagative plasmid by homologous recombination in Escherichia coli. Although this gap-repair cloning approach is straightforward, its existence is virtually unknown to most molecular biologists. To popularize this method, we tested critical parameters influencing the efficiency of PCR fragments cloning into PCR-amplified vectors by homologous recombination in the widely used E. coli strain DH5α. We found that the number of positive colonies after transformation increases with the length of overlap between the PCR fragment and linear vector. For most practical purposes, a 20 bp identity already ensures high-cloning yields. With an insert to vector ratio of 2:1, higher colony forming numbers are obtained when the amount of vector is in the range of 100 to 250 ng. An undesirable cloning background of empty vectors can be minimized during vector PCR amplification by applying a reduced amount of plasmid template or by using primers in which the 5′ termini are separated by a large gap. DpnI digestion of the plasmid template after PCR is also effective to decrease the background of negative colonies. We tested these optimized cloning parameters during the assembly of five independent DNA constructs and obtained 94% positive clones out of 100 colonies probed. We further demonstrated the efficient and simultaneous cloning of two PCR fragments into a vector. These results support the idea that homologous recombination in E. coli might be one of the most effective methods for cloning one or two PCR fragments. For its simplicity and high efficiency, we believe that recombinational cloning in E. coli has a great potential to become a routine procedure in most molecular biology-oriented laboratories. PMID:25774528

NOEMA Observations of a Molecular Cloud in the Low-metallicity Galaxy Kiso 5639

NASA Astrophysics Data System (ADS)

Elmegreen, Bruce G.; Herrera, Cinthya; Rubio, Monica; Elmegreen, Debra Meloy; Sánchez Almeida, Jorge; Muñoz-Tuñón, Casiana; Olmo-García, Amanda

2018-06-01

A giant star-forming region in a metal-poor dwarf galaxy has been observed in optical lines with the 10 m Gran Telescopio Canarias (GTC) and in the emission line of CO(1–0) with the Northern Extended Millimeter Array (NOEMA) mm-wave interferometer. The metallicity was determined to be 12+{log}({{O}}/{{H}})=7.83+/- 0.09, from which we estimate a conversion factor of α CO ∼ 100 M ⊙ pc‑2(K km s‑1)‑1 and a molecular cloud mass of ∼2.9 × 107 M ⊙. This is an enormous concentration of molecular mass at one end of a small galaxy, suggesting a recent accretion. The molecular cloud properties seem normal: the surface density, 120 M ⊙ pc‑2, is comparable to that of a standard giant molecular cloud; the cloud’s virial ratio of ∼1.8 is in the star formation range; and the gas consumption time, 0.5 Gyr, at the present star formation rate is typical for molecular regions. The low metallicity implies that the cloud has an average visual extinction of only 0.8 mag, which is close to the threshold for molecule formation. With such an extinction threshold, molecular clouds in metal-poor regions should have high surface densities and high internal pressures. If high pressure is associated with the formation of massive clusters, then metal-poor galaxies such as dwarfs in the early universe could have been the hosts of metal-poor globular clusters.

Some Dynamical Features of Molecular Fragmentation by Electrons and Swift Ions

NASA Astrophysics Data System (ADS)

Montenegro, E. C.; Sigaud, L.; Wolff, W.; Luna, H.; Natalia, Ferreira

To date, the large majority of studies on molecular fragmentation by swift charged particles have been carried out using simple molecules, for which reliable Potential Energy Curves are available to interpret the measured fragmentation yields. For complex molecules the scenario is quite different and such guidance is not available, obscuring even a simple organization of the data which are currently obtained for a large variety of molecules of biological or technological interest. In this work we show that a general and relatively simple methodology can be used to obtain a broader picture of the fragmentation pattern of an arbitrary molecule. The electronic ionization or excitation cross section of a given molecular orbital, which is the first part of the fragmentation process, can be well scaled by a simple and general procedure at high projectile velocities. The fragmentation fractions arising from each molecular orbital can then be achieved by matching the calculated ionization with the measured fragmentation cross sections. Examples for Oxygen, Chlorodifluoromethane and Pyrimidine molecules are presented.

Chemical abundances in cold, dark interstellar clouds

NASA Technical Reports Server (NTRS)

Irvine, William M.; Kaifu, Norio; Ohishi, Masatoshi

1991-01-01

Current tabulations are presented of the entire range of known interstellar molecules, giving attention to that subset which has been identified in the cold, dark interstellar clouds out of which the sun has been suggested to have formed. The molecular abundances of two such clouds, Taurus Molecular Cloud 1 and Lynd's 134N, exhibit prepossessing chemical differences despite considerable physical similarities. This discrepancy may be accounted for by the two clouds' differing evolutionary stages. Two novel classes of interstellar molecules are noted: sulfur-terminated carbon chains and silicon-terminated ones.

STAR FORMATION IN THE MOLECULAR CLOUD ASSOCIATED WITH THE MONKEY HEAD NEBULA: SEQUENTIAL OR SPONTANEOUS?

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chibueze, James O.; Imura, Kenji; Omodaka, Toshihiro

2013-01-01

We mapped the (1,1), (2,2), and (3,3) lines of NH{sub 3} toward the molecular cloud associated with the Monkey Head Nebula (MHN) with a 1.'6 angular resolution using a Kashima 34 m telescope operated by the National Institute of Information and Communications Technology (NICT). The kinetic temperature of the molecular gas is 15-30 K in the eastern part and 30-50 K in the western part. The warmer gas is confined to a small region close to the compact H II region S252A. The cooler gas is extended over the cloud even near the extended H II region, the MHN. Wemore » made radio continuum observations at 8.4 GHz using the Yamaguchi 32 m radio telescope. The resultant map shows no significant extension from the H{alpha} image. This means that the molecular cloud is less affected by the MHN, suggesting that the molecular cloud did not form by the expanding shock of the MHN. Although the spatial distribution of the Wide-field Infrared Survey Explorer and Two Micron All Sky Survey point sources suggests that triggered low- and intermediate-mass star formation took place locally around S252A, but the exciting star associated with it should be formed spontaneously in the molecular cloud.« less

First X-ray Statistical Tests for Clumpy Torii Models: Constraints from RXTE monitoring of Seyfert AGN

NASA Astrophysics Data System (ADS)

Markowitz, A.

2015-09-01

We summarize two papers providing the first X-ray-derived statistical constraints for both clumpy-torus model parameters and cloud ensemble properties. In Markowitz, Krumpe, & Nikutta (2014), we explored multi-timescale variability in line-of-sight X-ray absorbing gas as a function of optical classification. We examined 55 Seyferts monitored with the Rossi X-ray Timing Explorer, and found in 8 objects a total of 12 eclipses, with durations between hours and years. Most clouds are commensurate with the outer portions of the BLR, or the inner regions of infrared-emitting dusty tori. The detection of eclipses in type Is disfavors sharp-edged tori. We provide probabilities to observe a source undergoing an absorption event for both type Is and IIs, yielding constraints in [N_0, sigma, i] parameter space. In Nikutta et al., in prep., we infer that the small cloud angular sizes, as seen from the SMBH, imply the presence of >10^7 clouds in BLR+torus to explain observed covering factors. Cloud size is roughly proportional to distance from the SMBH, hinting at the formation processes (e.g. disk fragmentation). All observed clouds are sub-critical with respect to tidal disruption; self-gravity alone cannot contain them. External forces (e.g. magnetic fields, ambient pressure) are needed to contain them, or otherwise the clouds must be short-lived. Finally, we infer that the radial cloud density distribution behaves as 1/r^{0.7}, compatible with VLTI observations. Our results span both dusty and non-dusty clumpy media, and probe model parameter space complementary to that for short-term eclipses observed with XMM-Newton, Suzaku, and Chandra.

ChemCalc: a building block for tomorrow's chemical infrastructure.

PubMed

Patiny, Luc; Borel, Alain

2013-05-24

Web services, as an aspect of cloud computing, are becoming an important part of the general IT infrastructure, and scientific computing is no exception to this trend. We propose a simple approach to develop chemical Web services, through which servers could expose the essential data manipulation functionality that students and researchers need for chemical calculations. These services return their results as JSON (JavaScript Object Notation) objects, which facilitates their use for Web applications. The ChemCalc project http://www.chemcalc.org demonstrates this approach: we present three Web services related with mass spectrometry, namely isotopic distribution simulation, peptide fragmentation simulation, and molecular formula determination. We also developed a complete Web application based on these three Web services, taking advantage of modern HTML5 and JavaScript libraries (ChemDoodle and jQuery).

A Catalog of Distances to Molecular Clouds from Pan-STARRS1

NASA Astrophysics Data System (ADS)

Schlafly, Eddie; Green, G.; Finkbeiner, D. P.; Rix, H.

2014-01-01

We present a catalog of distances to molecular clouds, derived from PanSTARRS-1 photometry. We simultaneously infer the full probability distribution function of reddening and distance of the stars towards these clouds using the technique of Green et al. (2013) (see neighboring poster). We fit the resulting measurements using a simple dust screen model to infer the distance to each cloud. The result is a large, homogeneous catalog of distances to molecular clouds. For clouds with heliocentric distances greater than about 200 pc, typical statistical uncertainties in the distances are 5%, with systematic uncertainty stemming from the quality of our stellar models of about 10%. We have applied this analysis to many of the most well-studied clouds in the δ > -30° sky, including Orion, California, Taurus, Perseus, and Cepheus. We have also studied the entire catalog of Magnani, Blitz, and Mundy (1985; MBM), though for about half of those clouds we can provide only upper limits on the distances. We compare our distances with distances from the literature, when available, and find good agreement.

H2, CO, and dust absorption through cold molecular clouds

NASA Astrophysics Data System (ADS)

Lacy, John H.; Sneden, Chris; Kim, Hwihyun; Jaffe, Daniel Thomas

2017-06-01

We have made observations with IGRINS on the Harlan J. Smith telescope at McDonald Observatory of near-infrared absorption by H2, CO, and dust toward stars behind molecular clouds, primarily the TMC. Prior to these observations, the abundance of H2 in molecular clouds, relative to the commonly used tracer CO, had only been measured toward a few embedded stars, which may be surrounded by atypical gas. The new observations provide a representative sample of these molecules in cold molecular gas. We find N(H2)/Av ~ 0.9e+21, N(CO)/Av ~ 1.6e+17, and H2/CO ~ 6000. The measured H2/CO ratio is consistent with that measured toward embedded stars in various molecular clouds, but half that derived from mm-wave observations of CO emission and star counts or other determinations of Av.

A Herschel-SPIRE Survey of the MonR2 Giant Molecular Cloud

NASA Astrophysics Data System (ADS)

Pokhrel, Riwaj; Gutermuth, Robert A.; Ali, Babar; Megeath, S. Thomas; Pipher, Judith; Myers, Philip C.; Fischer, William J.; Henning, Thomas; Wolk, Scott J.; Allen, Lori; Tobin, John J.

2014-06-01

We present a new survey of the MonR2 giant molecular cloud with SPIRE on the Herschel Space Observatory. We cross-calibrated SPIRE data with Planck-HFI and accounted for its absolute offset and zero point correction. We fixed emissivity with the help of flux-error and flux ratio plots. As the best representation of cold dusty molecular clouds, we did greybody fits of the SEDs. We studied the nature of distribution of column densities above and below certain critical limit, followed by the mass and temperature distributions for different regions. We isolated the filaments and studied radial column density profile in this cloud.

ALMA Observations of a Quiescent Molecular Cloud in the Large Magellanic Cloud

NASA Astrophysics Data System (ADS)

Wong, Tony; Hughes, Annie; Tokuda, Kazuki; Indebetouw, Rémy; Bernard, Jean-Philippe; Onishi, Toshikazu; Wojciechowski, Evan; Bandurski, Jeffrey B.; Kawamura, Akiko; Roman-Duval, Julia; Cao, Yixian; Chen, C.-H. Rosie; Chu, You-hua; Cui, Chaoyue; Fukui, Yasuo; Montier, Ludovic; Muller, Erik; Ott, Juergen; Paradis, Deborah; Pineda, Jorge L.; Rosolowsky, Erik; Sewiło, Marta

2017-12-01

We present high-resolution (subparsec) observations of a giant molecular cloud in the nearest star-forming galaxy, the Large Magellanic Cloud. ALMA Band 6 observations trace the bulk of the molecular gas in 12CO(2-1) and the high column density regions in 13CO(2-1). Our target is a quiescent cloud (PGCC G282.98-32.40, which we refer to as the “Planck cold cloud” or PCC) in the southern outskirts of the galaxy where star formation activity is very low and largely confined to one location. We decompose the cloud into structures using a dendrogram and apply an identical analysis to matched-resolution cubes of the 30 Doradus molecular cloud (located near intense star formation) for comparison. Structures in the PCC exhibit roughly 10 times lower surface density and five times lower velocity dispersion than comparably sized structures in 30 Dor, underscoring the non-universality of molecular cloud properties. In both clouds, structures with relatively higher surface density lie closer to simple virial equilibrium, whereas lower surface-density structures tend to exhibit supervirial line widths. In the PCC, relatively high line widths are found in the vicinity of an infrared source whose properties are consistent with a luminous young stellar object. More generally, we find that the smallest resolved structures (“leaves”) of the dendrogram span close to the full range of line widths observed across all scales. As a result, while the bulk of the kinetic energy is found on the largest scales, the small-scale energetics tend to be dominated by only a few structures, leading to substantial scatter in observed size-line-width relationships.

The Global Evolution of Giant Molecular Clouds. I. Model Formulation and Quasi-Equilibrium Behavior

NASA Astrophysics Data System (ADS)

Krumholz, Mark R.; Matzner, Christopher D.; McKee, Christopher F.

2006-12-01

We present semianalytic dynamical models for giant molecular clouds evolving under the influence of H II regions launched by newborn star clusters. In contrast to previous work, we neither assume that clouds are in virial or energetic equilibrium, nor do we ignore the effects of star formation feedback. The clouds, which we treat as spherical, can expand and contract homologously. Photoionization drives mass ejection; the recoil of cloud material both stirs turbulent motions and leads to an effective confining pressure. The balance between these effects and the decay of turbulent motions through isothermal shocks determines clouds' dynamical and energetic evolution. We find that for realistic values of the rates of turbulent dissipation, photoevaporation, and energy injection by H II regions, the massive clouds where most molecular gas in the Galaxy resides live for a few crossing times, in good agreement with recent observational estimates that large clouds in Local Group galaxies survive roughly 20-30 Myr. During this time clouds remain close to equilibrium, with virial parameters of 1-3 and column densities near 1022 H atoms cm-2, also in agreement with observed cloud properties. Over their lives they convert 5%-10% of their mass into stars, after which point most clouds are destroyed when a large H II region unbinds them. In contrast, small clouds like those found in the solar neighborhood only survive ~1 crossing time before being destroyed.

Featured Image: Stars from Broken Clouds and Disks

NASA Astrophysics Data System (ADS)

Kohler, Susanna

2018-04-01

This still from a simulation captures binary star formation in action. Researchers have long speculated on the processes that lead to clouds of gas and dust breaking up into smaller pieces to form multiple-star systems but these take place over a large range of scales, making them difficult to simulate. In a new study led by Leonardo Sigalotti (UAM Azcapotzalco, Mexico), researchers have used a smoothed-particle hydrodynamics code to model binary star formation on scales of thousands of AU down to scales as small as 0.1 AU. In the scene shown above, a collapsing cloud of gas and dust has recently fragmented into two pieces, forming a pair of disks separated by around 200 AU. In addition, we can see that smaller-scale fragmentation is just starting in one of these disks, Disk B. Here, one of the disks spiral arms has become unstable and is beginning to condense; it will eventually form another star, producing a hierarchical system: a close binary within the larger-scale binary. Check out the broaderprocessin the four panels below (which show the system as it evolves over time), or visitthe paper linked below for more information about what the authors learned.Evolution of a collapsed cloud after large-scale fragmentation into a binary protostar: (a) 44.14 kyr, (b) 44.39 kyr, (c) 44.43 kyr, and (d) 44.68 kyr. The insets show magnifications of the binary cores. [Adapted from Sigalotti et al. 2018]CitationLeonardo Di G. Sigalotti et al 2018 ApJ 857 40. doi:10.3847/1538-4357/aab619

Molecular clouds toward three Spitzer bubbles S116, S117, and S118: Evidence for a cloud-cloud collision which formed the three H II regions and a 10 pc scale molecular cavity

NASA Astrophysics Data System (ADS)

Fukui, Yasuo; Ohama, Akio; Kohno, Mikito; Torii, Kazufumi; Fujita, Shinji; Hattori, Yusuke; Nishimura, Atsushi; Yamamoto, Hiroaki; Tachihara, Kengo

2018-05-01

We carried out a molecular-line study toward the three Spitzer bubbles S116, S117, and S118, which show active formation of high-mass stars. We found molecular gas consisting of two components with a velocity difference of ˜5 km s-1. One of them, the small cloud, has a typical velocity of -63 km s-1 and the other, the large cloud, has one of -58 km s-1. The large cloud has a nearly circular intensity depression, the size of which is similar to that of the small cloud. We present an interpretation that its cavity was created by a collision between the two clouds and that this collision compressed the gas into a dense layer elongating along the western rim of the small cloud. In this scenario, the O stars including those in the three Spitzer bubbles were formed in the interface layer compressed by the collision. Assuming that the relative motion of the clouds has a tilt of 45° to the line of sight, we estimate that the collision continued for the last 1 Myr at a relative velocity of ˜10 km s-1. In the S116-S117-S118 system the H II regions are located outside of the cavity. This morphology is ascribed to the density-bound distribution of the large cloud which caused the H II regions to expand more easily toward the outer part of the large cloud than towards the inside of the cavity. The present case proves that a cloud-cloud collision creates a cavity without the action of O-star feedback, and suggests that the collision-compressed layer is highly filamentary.

Molecular Dynamics Simulations of a Cyclic DP-240 Amylose Fragment in a Periodic Cell: Glass Transition Temperature and Water Diffusion

USDA-ARS?s Scientific Manuscript database

Molecular dynamics simulations using AMB06C, an in-house carbohydrate force field, (NPT ensembles, 1atm) were carried out on a periodic cell that contained a cyclic-DP-240 amylose fragment and TIP3P water molecules. Molecular conformation and movement of the amylose fragment and water molecules at ...

XMM-Newton observation of the supernova remnant Kes 78 (G32.8-0.1): Evidence of shock-cloud interaction

NASA Astrophysics Data System (ADS)

Miceli, M.; Bamba, A.; Orlando, S.; Zhou, P.; Safi-Harb, S.; Chen, Y.; Bocchino, F.

2017-03-01

Context. The Galactic supernova remnant Kes 78 is surrounded by dense molecular clouds, whose projected position overlaps with the extended HESS γ-ray source HESS J1852-000. The X-ray emission from the remnant has recently been revealed by Suzaku observations, which have shown indications for a hard X-ray component in the spectra that might be associated with synchrotron radiation. Aims: We describe the spatial distribution of the physical properties of the X-ray emitting plasma and reveal the effects of the interaction of the remnant with the inhomogeneous ambient medium. We also investigate the origin of the γ-ray emission, which may be inverse-Compton radiation associated with X-ray synchrotron-emitting electrons or hadronic emission originating from the impact of high-energy protons on the nearby clouds. Methods: We analyzed an XMM-Newton EPIC observation of Kes 78 by performing image analysis and spatially resolved spectral analysis on a set of three regions. We tested our findings against the observations of the 12CO and 13CO emission in the environment of the remnant. Results: We reveal the complex X-ray morphology of Kes 78 and find variations in the spectral properties of the plasma, with significantly denser and cooler material at the eastern edge of the remnant, which we interpret as a signature of interaction with a molecular cloud. We also exclude that narrow filaments emit the X-ray synchrotron radiation. Conclusions: Assuming that the very high energy γ-ray emission is associated with Kes 78, the lack of synchrotron emission rules out a leptonic origin. A hadronic origin is further supported by evidence of interaction of the remnant with a dense molecular cloud in its eastern limb.

The structure of tracheobronchial mucins from cystic fibrosis and control patients.

PubMed

Gupta, R; Jentoft, N

1992-02-15

Tracheobronchial mucin samples from control and cystic fibrosis patients were purified by gel filtration chromatography on Sephacryl S-1000 and by density gradient centrifugation. Normal secretions contained high molecular weight (approximately 10(7] mucins, whereas the cystic fibrosis secretions contained relatively small amounts of high molecular weight mucin together with larger quantities of lower molecular weight mucin fragments. These probably represent products of protease digestion. Reducing the disulfide bonds in either the control or cystic fibrosis high molecular weight mucin fractions released subunits of approximately 2000 kDa. Treating these subunits with trypsin released glycopeptides of 300 kDa. Trypsin treatment of unreduced mucin also released fragments of 2000 kDa that could be converted into 300-kDa glycopeptides upon disulfide bond reduction. Thus, protease-susceptible linkages within these mucins must be cross-linked by disulfide bonds so that the full effects of proteolytic degradation of mucins remain cryptic until disulfide bonds are reduced. Since various combinations of protease treatment and disulfide bond reduction release either 2000- or 300-kDa fragments, these fragments must represent important elements of mucin structure. The high molecular weight fractions of cystic fibrosis mucins appear to be indistinguishable from control mucins. Their amino acid compositions are the same, and various combinations of disulfide bond reduction and protease treatment release products of identical size and amino acid composition. Sulfate and carbohydrate compositions did vary considerably from sample to sample, but the limited number of samples tested did not demonstrate a cystic fibrosis-specific pattern. Thus, tracheobronchial mucins from cystic fibrosis and control patients are very similar, and both share the same generalized structure previously determined for salivary, cervical, and intestinal mucins.

74 MHz nonthermal emission from molecular clouds: evidence for a cosmic ray dominated region at the galactic center.

PubMed

Yusef-Zadeh, F; Wardle, M; Lis, D; Viti, S; Brogan, C; Chambers, E; Pound, M; Rickert, M

2013-10-03

We present 74 MHz radio continuum observations of the Galactic center region. These measurements show nonthermal radio emission arising from molecular clouds that is unaffected by free–free absorption along the line of sight. We focus on one cloud, G0.13-0.13, representative of the population of molecular clouds that are spatially correlated with steep spectrum (α(327MHz)(74MHz) = 1.3 ± 0.3) nonthermal emission from the Galactic center region. This cloud lies adjacent to the nonthermal radio filaments of the Arc near l 0.2° and is a strong source of 74 MHz continuum, SiO (2-1), and Fe I Kα 6.4 keV line emission. This three-way correlation provides the most compelling evidence yet that relativistic electrons, here traced by 74 MHz emission, are physically associated with the G0.13-0.13 molecular cloud and that low-energy cosmic ray electrons are responsible for the Fe I Kα line emission. The high cosmic ray ionization rate 10(–1)3 s(–1) H(–1) is responsible for heating the molecular gas to high temperatures and allows the disturbed gas to maintain a high-velocity dispersion. Large velocity gradient (LVG) modeling of multitransition SiO observations of this cloud implies H2 densities 10(4–5) cm(–3) and high temperatures. The lower limit to the temperature of G0.13-0.13 is 100 K, whereas the upper limit is as high as 1000 K. Lastly, we used a time-dependent chemical model in which cosmic rays drive the chemistry of the gas to investigate for molecular line diagnostics of cosmic ray heating. When the cloud reaches chemical equilibrium, the abundance ratios of HCN/HNC and N2H+/HCO+ are consistent with measured values. In addition, significant abundance of SiO is predicted in the cosmic ray dominated region of the Galactic center. We discuss different possibilities to account for the origin of widespread SiO emission detected from Galactic center molecular clouds.

Automated building of organometallic complexes from 3D fragments.

PubMed

Foscato, Marco; Venkatraman, Vishwesh; Occhipinti, Giovanni; Alsberg, Bjørn K; Jensen, Vidar R

2014-07-28

A method for the automated construction of three-dimensional (3D) molecular models of organometallic species in design studies is described. Molecular structure fragments derived from crystallographic structures and accurate molecular-level calculations are used as 3D building blocks in the construction of multiple molecular models of analogous compounds. The method allows for precise control of stereochemistry and geometrical features that may otherwise be very challenging, or even impossible, to achieve with commonly available generators of 3D chemical structures. The new method was tested in the construction of three sets of active or metastable organometallic species of catalytic reactions in the homogeneous phase. The performance of the method was compared with those of commonly available methods for automated generation of 3D models, demonstrating higher accuracy of the prepared 3D models in general, and, in particular, a much wider range with respect to the kind of chemical structures that can be built automatically, with capabilities far beyond standard organic and main-group chemistry.

The Monoceros R2 Molecular Cloud

NASA Astrophysics Data System (ADS)

Carpenter, J. M.; Hodapp, K. W.

2008-12-01

The Monoceros R2 region was first recognized as a chain of reflection nebulae illuminated by A- and B-type stars. These nebulae are associated with a giant molecular cloud that is one of the closest massive star forming regions to the Sun. This chapter reviews the properties of the Mon R2 region, including the namesake reflection nebulae, the large scale molecula= r cloud, global star formation activity, and properties of prominent star forming regions in the cloud.

The Seahorse Nebula: New views of the filamentary infrared dark cloud G304.74+01.32 from SABOCA, Herschel, and WISE

NASA Astrophysics Data System (ADS)

Miettinen, O.

2018-02-01

Context. Filamentary molecular clouds, such as many of the infrared dark clouds (IRDCs), can undergo hierarchical fragmentation into substructures (clumps and cores) that can eventually collapse to form stars. Aims: We aim to determine the occurrence of fragmentation into cores in the clumps of the filamentary IRDC G304.74+01.32 (hereafter, G304.74). We also aim to determine the basic physical characteristics (e.g. mass, density, and young stellar object (YSO) content) of the clumps and cores in G304.74. Methods: We mapped the G304.74 filament at 350 μm using the Submillimetre APEX Bolometer Camera (SABOCA) bolometer. The new SABOCA data have a factor of 2.2 times higher resolution than our previous Large APEX BOlometer CAmera (LABOCA) 870 μm map of the cloud (9″ vs. 19\\farcs86). We also employed the Herschel far-infrared (IR) and submillimetre, and Wide-field Infrared Survey Explorer (WISE) IR imaging data available for G304.74. The WISE data allowed us to trace the IR emission of the YSOs associated with the cloud. Results: The SABOCA 350 μm data show that G304.74 is composed of a dense filamentary structure with a mean width of only 0.18 ± 0.05 pc. The percentage of LABOCA clumps that are found to be fragmented into SABOCA cores is 36% ± 16%, but the irregular morphology of some of the cores suggests that this multiplicity fraction could be higher. The WISE data suggest that 65% ± 18% of the SABOCA cores host YSOs. The mean dust temperature of the clumps, derived by comparing the Herschel 250, 350, and 500 μm flux densities, was found to be 15.0 ± 0.8 K. The mean mass, beam-averaged H2 column density, and H2 number density of the LABOCA clumps are estimated to be 55 ± 10M⊙, (2.0 ± 0.2) × 1022 cm-2, and (3.1 ± 0.2) × 104 cm-3. The corresponding values for the SABOCA cores are 29 ± 3M⊙, (2.9 ± 0.3) × 1022 cm-2, and (7.9 ± 1.2) × 104 cm-3. The G304.74 filament is estimated to be thermally supercritical by a factor of ≳ 3.5 on the scale probed by LABOCA, and by a factor of ≳ 1.5 for the SABOCA filament. Conclusions: Our data strongly suggest that the IRDC G304.74 has undergone hierarchical fragmentation. On the scale where the clumps have fragmented into cores, the process can be explained in terms of gravitational Jeans instability. Besides the filament being fragmented, the finding of embedded YSOs in G304.74 indicates its thermally supercritical state, although the potential non-thermal (turbulent) motions can render the cloud a virial equilibrium system on scale traced by LABOCA. The IRDC G304.74 has a seahorse-like morphology in the Herschel images, and the filament appears to be attached by elongated, perpendicular striations. This is potentially evidence that G304.74 is still accreting mass from the surrounding medium, and the accretion process can contribute to the dynamical evolution of the main filament. One of the clumps in G304.74, IRAS 13039-6108, is already known to be associated with high-mass star formation, but the remaining clumps and cores in this filament might preferentially form low and intermediate-mass stars owing to their mass reservoirs and sizes. Besides the presence of perpendicularly oriented, dusty striations and potential embedded intermediate-mass YSOs, G304.74 is a relatively nearby (d 2.5 kpc) IRDC, which makes it a useful target for future star formation studies. Owing to its observed morphology, we propose that G304.74 could be nicknamed the Seahorse Nebula. This publication is based on data acquired with the Atacama Pathfinder EXperiment (APEX) under programmes 083.F-9302(A) and 089.F-9310(A). APEX is a collaboration between the Max-Planck-Institut für Radioastronomie, the European Southern Observatory, and the Onsala Space Observatory.The SABOCA and LABOCA maps shown in Fig. 1 are only available at the CDS via anonymous ftp to http://cdsarc.u-strasbg.fr (http://130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/609/A123

Supernovae-generated high-velocity compact clouds

NASA Astrophysics Data System (ADS)

Yalinewich, A.; Beniamini, P.

2018-05-01

Context. A previous study claimed the discovery of an intermediate-mass black hole (IMBH). This hypothetical black hole was invoked in order to explain the high-velocity dispersion in one of several dense molecular clouds near the Galactic center. The same study considered the possibility that this cloud was due to a supernova explosion, but disqualified this scenario because no X-rays were detected. Aims: We here check whether a supernova explosion could have produced that cloud, and whether this explanation is more likely than an IMBH. More specifically, we wish to determine whether a supernova inside a dense molecular cloud would emit in the X-rays. Methods: We have approached this problem from two different directions. First, we performed an analytic calculation to determine the cooling rate by thermal bremsstrahlung and compared this time to the lifetime of the cloud. Second, we estimated the creation rate of these dense clouds in the central molecular zone (CMZ) region near the Galactic center, where they were observed. Based on this rate, we can place lower bounds on the total mass of IMBHs and clouds and compare this to the masses of the components of the CMZ. Results: We find that the cooling time of the supernova remnant inside a molecular cloud is shorter than its dynamical time. This means that the temperature in such a remnant would be much lower than that of a typical supernova remnant. At such a low temperature, the remnant is not expected to emit in the X-rays. We also find that to explain the rate at which such dense clouds are created requires fine-tuning the number of IMBHs. Conclusions: We find the supernova model to be a more likely explanation for the formation of high-velocity compact clouds than an IMBH.

The 27-28 October 1986 FIRE IFO Cirrus Case Study: Cloud Optical Properties Determined by High Spectral Resolution Lidar

NASA Technical Reports Server (NTRS)

Grund, C. J.; Eloranta, E. W.

1996-01-01

During the First ISCCP Region Experiment (FIRE) cirrus intensive field observation (IFO) the High Spectral Resolution Lidar was operated from a roof top site on the University of Wisconsin-Madison campus. Because the HSRL technique separately measures the molecular and cloud particle backscatter components of the lidar return, the optical thickness is determined independent of particle backscatter. This is accomplished by comparing the known molecular density distribution to the observed decrease in molecular backscatter signal with altitude. The particle to molecular backscatter ratio yields calibrated measurements of backscatter cross sections that can be plotted ro reveal cloud morphology without distortion due to attenuation. Changes in cloud particle size, shape, and phase affect the backscatter to extinction ratio (backscatter-phase function). The HSRL independently measures cloud particle backscatter phase function. This paper presents a quantitative analysis of the HSRL cirrus cloud data acquired over an approximate 33 hour period of continuous near zenith observations. Correlations between small scale wind structure and cirrus cloud morphology have been observed. These correlations can bias the range averaging inherent in wind profiling lidars of modest vertical resolution, leading to increased measurement errors at cirrus altitudes. Extended periods of low intensity backscatter were noted between more strongly organized cirrus cloud activity. Optical thicknesses ranging from 0.01-1.4, backscatter phase functions between 0.02-0.065 sr (exp -1) and backscatter cross sections spanning 4 orders of magnitude were observed. the altitude relationship between cloud top and bottom boundaries and the cloud optical center altitude was dependent on the type of formation observed Cirrus features were observed with characteristic wind drift estimated horizontal sizes of 5-400 km. The clouds frequently exhibited cellular structure with vertical to horizontal dimension ratios of 1:5-1:1.

High spectral resolution observations of fluorescent molecular hydrogen in molecular clouds

NASA Technical Reports Server (NTRS)

Burton, Michael G.; Geballe, T. R.; Brand, P. W. J. L.; Moorhouse, A.

1990-01-01

The 1-0 S(1) line of molecular hydrogen has been observed at high spectral resolution in several sources where the emission was suspected of being fluorescent. In NGC 2023, the Orion Bar, and Parsamyan 18, the S(1) line is unresolved, and the line center close to the rest velocity of the ambient molecular cloud. Such behavior is expected for UV-excited line emission. The H2 line widths in molecular clouds thus can serve as diagnostic for shocked and UV-excitation mechanisms. If the lines are broader than several km/s or velocity shifts are observed across a source it is likely that shocks are responsible for the excitation of the gas.

Triggered O Star Formation in M20 via Cloud-Cloud Collision: Comparisons between High-resolution CO Observations and Simulations

NASA Astrophysics Data System (ADS)

Torii, K.; Hattori, Y.; Hasegawa, K.; Ohama, A.; Haworth, T. J.; Shima, K.; Habe, A.; Tachihara, K.; Mizuno, N.; Onishi, T.; Mizuno, A.; Fukui, Y.

2017-02-01

Understanding high-mass star formation is one of the top-priority issues in astrophysics. Recent observational studies have revealed that cloud-cloud collisions may play a role in high-mass star formation in several places in the Milky Way and the Large Magellanic Cloud. The Trifid Nebula M20 is a well-known Galactic H II region ionized by a single O7.5 star. In 2011, based on the CO observations with NANTEN2, we reported that the O star was formed by the collision between two molecular clouds ˜0.3 Myr ago. Those observations identified two molecular clouds toward M20, traveling at a relative velocity of 7.5 {km} {{{s}}}-1. This velocity separation implies that the clouds cannot be gravitationally bound to M20, but since the clouds show signs of heating by the stars there they must be spatially coincident with it. A collision is therefore highly possible. In this paper we present the new CO J = 1-0 and J = 3-2 observations of the colliding clouds in M20 performed with the Mopra and ASTE telescopes. The high-resolution observations revealed that the two molecular clouds have peculiar spatial and velocity structures, I.e., a spatially complementary distribution between the two clouds and a bridge feature that connects the two clouds in velocity space. Based on a new comparison with numerical models, we find that this complementary distribution is an expected outcome of cloud-cloud collisions, and that the bridge feature can be interpreted as the turbulent gas excited at the interface of the collision. Our results reinforce the cloud-cloud collision scenario in M20.

Rupturing of Biological Spores As a Source of Secondary Particles in Amazonia.

PubMed

China, Swarup; Wang, Bingbing; Weis, Johannes; Rizzo, Luciana; Brito, Joel; Cirino, Glauber G; Kovarik, Libor; Artaxo, Paulo; Gilles, Mary K; Laskin, Alexander

2016-11-15

Airborne biological particles, such as fungal spores and pollen, are ubiquitous in the Earth's atmosphere and may influence the atmospheric environment and climate, impacting air quality, cloud formation, and the Earth's radiation budget. The atmospheric transformations of airborne biological spores at elevated relative humidity remain poorly understood and their climatic role is uncertain. Using an environmental scanning electron microscope (ESEM), we observed rupturing of Amazonian fungal spores and subsequent release of submicrometer size fragments after exposure to high humidity. We find that fungal fragments contain elements of inorganic salts (e.g., Na and Cl). They are hygroscopic in nature with a growth factor up to 2.3 at 96% relative humidity, thus they may potentially influence cloud formation. Due to their hygroscopic growth, light scattering cross sections of the fragments are enhanced by up to a factor of 10. Furthermore, rupturing of fungal spores at high humidity may explain the bursting events of new particle formation in Amazonia.

Theory of grain alignment in molecular clouds

NASA Technical Reports Server (NTRS)

Roberge, Wayne G.

1993-01-01

Research accomplishments are presented and include the following: (1) mathematical theory of grain alignment; (2) super-paramagnetic alignment of molecular cloud grains; and (3) theory of grain alignment by ambipolar diffusion.

Characterization of organic matter in cloud waters sampled at the puy de Dôme mountain using FT-ICR-MS

NASA Astrophysics Data System (ADS)

Bianco, A.; Chaumerliac, N.; Vaitilingom, M.; Deguillaume, L.; Bridoux, M. C.

2017-12-01

The chemical composition of organic matter in cloud water is highly complex. The organic species result from their dissolution from the gas phase or from the soluble fraction of the particle phase. They are also produced by aqueous phase reactivity. Several low molecular weight organic species have been quantified such as aldehydes and carboxylic acids. Recently, amino acids were also detected in cloud water and their presence is related to the presence of microorganisms. Compounds presenting similarities with high molecular weight organic substances or HULIS found in aerosols were also observed in clouds. Overall, these studies mainly focused on individual compounds or functional groups rather than the complex mixture at the molecular level. This study presents a non-targeted approach to characterize the organic matter in clouds. Samples were collected at the puy de Dôme Mountain (France). Two cloud water samples (June & July 2016) were analyzed using high resolution mass spectrometry (ESI-FT-ICR-MS 9.4T). A reversed solid phase extraction (SPE) procedure was performed to concentrate dissolved organic matter components. Composer (v.1.5.3) software was used to filter the mass spectral data, recalibrate externally the dataset and calculate all possible formulas for detected anions. The first cloud sample (June) resulted from air mass coming from the North (North Sea) while the second one (July) resulted from air mass coming from the West (Atlantic Ocean). Thus, both cloud events derived from marine air masses but were characterized by different hydrogen peroxide concentration and dissolved organic carbon content and were sampled at different periods during the day. Elemental compositions of 6487 and 3284 unique molecular species were identified in each sample. Nitrogen-containing compounds (CHNO compounds), sulfur-containing compounds (CHOS & CHNOS compounds) and other oxygen-containing compounds (CHO compounds) with molecular weights up to 800 Da were detected. The main class is CHNO (53% for both samples) while sulfur-containing compounds represent for the two samples respectively 21 & 14% of the total assigned molecular formulas. CHO compounds molecular formulas are respectively 25 & 32%. Among the two samples, only 2490 molecular formulas were found common to the two samples.

How do binary separations depend on cloud initial conditions?

NASA Astrophysics Data System (ADS)

Sterzik, M. F.; Durisen, R. H.; Zinnecker, H.

2003-11-01

We explore the consequences of a star formation scenario in which the isothermal collapse of a rotating, star-forming core is followed by prompt fragmentation into a cluster containing a small number (N <~ 10) of protostars and/or substellar objects. The subsequent evolution of the cluster is assumed to be dominated by dynamical interactions among cluster members, and this establishes the final properties of the binary and multiple systems. The characteristic scale of the fragmenting core is determined by the cloud initial conditions (such as temperature, angular momentum and mass), and we are able to relate the separation distributions of the final binary population to the properties of the star-forming core. Because the fragmentation scale immediately after the isothermal collapse is typically a factor of 3-10 too large, we conjecture that fragmentation into small clusters followed by dynamical evolution is required to account for the observed binary separation distributions. Differences in the environmental properties of the cores are expected to imprint differences on the characteristic dimensions of the binary systems they form. Recent observations of hierarchical systems, differences in binary characteristics among star forming regions and systematic variations in binary properties with primary mass can be interpreted in the context of this scenario.

Combining NMR and X-ray crystallography in fragment-based drug discovery: discovery of highly potent and selective BACE-1 inhibitors.

PubMed

Wyss, Daniel F; Wang, Yu-Sen; Eaton, Hugh L; Strickland, Corey; Voigt, Johannes H; Zhu, Zhaoning; Stamford, Andrew W

2012-01-01

Fragment-based drug discovery (FBDD) has become increasingly popular over the last decade. We review here how we have used highly structure-driven fragment-based approaches to complement more traditional lead discovery to tackle high priority targets and those struggling for leads. Combining biomolecular nuclear magnetic resonance (NMR), X-ray crystallography, and molecular modeling with structure-assisted chemistry and innovative biology as an integrated approach for FBDD can solve very difficult problems, as illustrated in this chapter. Here, a successful FBDD campaign is described that has allowed the development of a clinical candidate for BACE-1, a challenging CNS drug target. Crucial to this achievement were the initial identification of a ligand-efficient isothiourea fragment through target-based NMR screening and the determination of its X-ray crystal structure in complex with BACE-1, which revealed an extensive H-bond network with the two active site aspartate residues. This detailed 3D structural information then enabled the design and validation of novel, chemically stable and accessible heterocyclic acylguanidines as aspartic acid protease inhibitor cores. Structure-assisted fragment hit-to-lead optimization yielded iminoheterocyclic BACE-1 inhibitors that possess desirable molecular properties as potential therapeutic agents to test the amyloid hypothesis of Alzheimer's disease in a clinical setting.

A hybrid method for solutes in complex solvents: Density functional theory combined with empirical force fields

NASA Astrophysics Data System (ADS)

Eichinger, M.; Tavan, P.; Hutter, J.; Parrinello, M.

1999-06-01

We present a hybrid method for molecular dynamics simulations of solutes in complex solvents as represented, for example, by substrates within enzymes. The method combines a quantum mechanical (QM) description of the solute with a molecular mechanics (MM) approach for the solvent. The QM fragment of a simulation system is treated by ab initio density functional theory (DFT) based on plane-wave expansions. Long-range Coulomb interactions within the MM fragment and between the QM and the MM fragment are treated by a computationally efficient fast multipole method. For the description of covalent bonds between the two fragments, we introduce the scaled position link atom method (SPLAM), which removes the shortcomings of related procedures. The various aspects of the hybrid method are scrutinized through test calculations on liquid water, the water dimer, ethane and a small molecule related to the retinal Schiff base. In particular, the extent to which vibrational spectra obtained by DFT for the solute can be spoiled by the lower quality force field of the solvent is checked, including cases in which the two fragments are covalently joined. The results demonstrate that our QM/MM hybrid method is especially well suited for the vibrational analysis of molecules in condensed phase.

Fast Molecular Cloud Destruction Requires Fast Cloud Formation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mac Low, Mordecai-Mark; Burkert, Andreas; Ibáñez-Mejía, Juan C., E-mail: mordecai@amnh.org, E-mail: burkert@usm.lmu.de, E-mail: ibanez@ph1.uni-koeln.de

A large fraction of the gas in the Galaxy is cold, dense, and molecular. If all this gas collapsed under the influence of gravity and formed stars in a local free-fall time, the star formation rate in the Galaxy would exceed that observed by more than an order of magnitude. Other star-forming galaxies behave similarly. Yet, observations and simulations both suggest that the molecular gas is indeed gravitationally collapsing, albeit hierarchically. Prompt stellar feedback offers a potential solution to the low observed star formation rate if it quickly disrupts star-forming clouds during gravitational collapse. However, this requires that molecular cloudsmore » must be short-lived objects, raising the question of how so much gas can be observed in the molecular phase. This can occur only if molecular clouds form as quickly as they are destroyed, maintaining a global equilibrium fraction of dense gas. We therefore examine cloud formation timescales. We first demonstrate that supernova and superbubble sweeping cannot produce dense gas at the rate required to match the cloud destruction rate. On the other hand, Toomre gravitational instability can reach the required production rate. We thus argue that, although dense, star-forming gas may last only around a single global free-fall time; the dense gas in star-forming galaxies can globally exist in a state of dynamic equilibrium between formation by gravitational instability and disruption by stellar feedback. At redshift z ≳ 2, the Toomre instability timescale decreases, resulting in a prediction of higher molecular gas fractions at early times, in agreement with the observations.« less

[C II] emission from L1630 in the Orion B molecular cloud

NASA Astrophysics Data System (ADS)

Pabst, C. H. M.; Goicoechea, J. R.; Teyssier, D.; Berné, O.; Ochsendorf, B. B.; Wolfire, M. G.; Higgins, R. D.; Riquelme, D.; Risacher, C.; Pety, J.; Le Petit, F.; Roueff, E.; Bron, E.; Tielens, A. G. G. M.

2017-10-01

Context. L1630 in the Orion B molecular cloud, which includes the iconic Horsehead Nebula, illuminated by the star system σ Ori, is an example of a photodissociation region (PDR). In PDRs, stellar radiation impinges on the surface of dense material, often a molecular cloud, thereby inducing a complex network of chemical reactions and physical processes. Aims: Observations toward L1630 allow us to study the interplay between stellar radiation and a molecular cloud under relatively benign conditions, that is, intermediate densities and an intermediate UV radiation field. Contrary to the well-studied Orion Molecular Cloud 1 (OMC1), which hosts much harsher conditions, L1630 has little star formation. Our goal is to relate the [C II] fine-structure line emission to the physical conditions predominant in L1630 and compare it to studies of OMC1. Methods: The [C II] 158 μm line emission of L1630 around the Horsehead Nebula, an area of 12' × 17', was observed using the upgraded German Receiver for Astronomy at Terahertz Frequencies (upGREAT) onboard the Stratospheric Observatory for Infrared Astronomy (SOFIA). Results: Of the [C II] emission from the mapped area 95%, 13 L⊙, originates from the molecular cloud; the adjacent H II region contributes only 5%, that is, 1 L⊙. From comparison with other data (CO (1 - 0)-line emission, far-infrared (FIR) continuum studies, emission from polycyclic aromatic hydrocarbons (PAHs)), we infer a gas density of the molecular cloud of nH 3 × 103 cm-3, with surface layers, including the Horsehead Nebula, having a density of up to nH 4 × 104 cm-3. The temperature of the surface gas is T 100 K. The average [C II] cooling efficiency within the molecular cloud is 1.3 × 10-2. The fraction of the mass of the molecular cloud within the studied area that is traced by [C II] is only 8%. Our PDR models are able to reproduce the FIR-[C II] correlations and also the CO (1 - 0)-[C II] correlations. Finally, we compare our results on the heating efficiency of the gas with theoretical studies of photoelectric heating by PAHs, clusters of PAHs, and very small grains, and find the heating efficiency to be lower than theoretically predicted, a continuation of the trend set by other observations. Conclusions: In L1630 only a small fraction of the gas mass is traced by [C II]. Most of the [C II] emission in the mapped area stems from PDR surfaces. The layered edge-on structure of the molecular cloud and limitations in spatial resolution put constraints on our ability to relate different tracers to each other and to the physical conditions. From our study, we conclude that the relation between [C II] emission and physical conditions is likely to be more complicated than often assumed. The theoretical heating efficiency is higher than the one we calculate from the observed [C II] emission in the L1630 molecular cloud.

Dynamics of fragment formation in neutron-rich matter

NASA Astrophysics Data System (ADS)

Alcain, P. N.; Dorso, C. O.

2018-01-01

Background: Neutron stars are astronomical systems with nucleons subjected to extreme conditions. Due to the longer range Coulomb repulsion between protons, the system has structural inhomogeneities. Several interactions tailored to reproduce nuclear matter plus a screened Coulomb term reproduce these inhomogeneities known as nuclear pasta. These structural inhomogeneities, located in the crusts of neutron stars, can also arise in expanding systems depending on the thermodynamic conditions (temperature, proton fraction, etc.) and the expansion velocity. Purpose: We aim to find the dynamics of the fragment formation for expanding systems simulated according to the little big bang model. This expansion resembles the evolution of merging neutron stars. Method: We study the dynamics of the nucleons with semiclassical molecular dynamics models. Starting with an equilibrium configuration, we expand the system homogeneously until we arrive at an asymptotic configuration (i.e., very low final densities). We study, with four different cluster recognition algorithms, the fragment distribution throughout this expansion and the dynamics of the cluster formation. Results: Studying the topology of the equilibrium states, before the expansion, we reproduced the known pasta phases plus a novel phase we called pregnocchi, consisting of proton aggregates embedded in a neutron sea. We have identified different fragmentation regimes, depending on the initial temperature and fragment velocity. In particular, for the already mentioned pregnocchi, a neutron cloud surrounds the clusters during the early stages of the expansion, resulting in systems that give rise to configurations compatible with the emergence of the r process. Conclusions: We showed that a proper identification of the cluster distribution is highly dependent on the cluster recognition algorithm chosen, and found that the early cluster recognition algorithm (ECRA) was the most stable one. This approach allowed us to identify the dynamics of the fragment formation. These calculations pave the way to a comparison between Earth experiments and neutron star studies.

An observational estimate of the probability of encounters between mass-losing evolved stars and molecular clouds

NASA Astrophysics Data System (ADS)

Kastner, Joel H.; Myers, P. C.

1994-02-01

One hypothesis for the elevated abundance of Al-26 present during the formation of the solar system is that an asymptotic giant branch (AGB) star expired within the molecular cloud (MC) containing the protosolar nebula. To test this hypothesis for star-forming clouds at the present epoch, we compared nearly complete lists of rapidly mass-losing AGB stars and MCs in the solar neighborhood and identified those stars which are most likely to encounter a nearby cloud. Roughly 10 stars satisfy our selection criteria. We estimated probabilities of encounter for these stars from the position of each star relative to cloud CO emission and the likely star-cloud distance along the line of sight. Typical encounter probabilities are approximately 1%. The number of potential encounters and the probability for each star-cloud pair to result in an encounter suggests that within 1 kpc of the Sun, there is a approximately 1% chance that a given cloud will be visited by a mass-losing AGB star over the next million years. The estimate is dominated by the possibility of encounters involving the stars IRC +60041 and S Cep. Over a MC lifetime, the probability for AGB encounter may be as high as approximately 70%. We discuss the implications of these results for theories of AL-26 enrichment of processed and unprocessed meteoritic inclusions. If the Al-26 in either type of inclusion arose from AGB-MC interaction, the low probability estimated here seems to require that AGB-MC encounters trigger multiple star formation and/or that the production rate of AGB stars was higher during the epoch of solar system formation than at present. Various lines of evidence suggest only the more massive (5-8 solar mass) AGB stars can produce significant AL-26 enrichment of star-forming clouds.

A Massive Prestellar Clump Hosting No High-mass Cores

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sanhueza, Patricio; Lu, Xing; Tatematsu, Ken’ichi

The infrared dark cloud (IRDC) G028.23-00.19 hosts a massive (1500 M {sub ⊙}), cold (12 K), and 3.6–70 μ m IR dark clump (MM1) that has the potential to form high-mass stars. We observed this prestellar clump candidate with the Submillimeter Array (∼3.″5 resolution) and Jansky Very Large Array (∼2.″1 resolution) in order to characterize the early stages of high-mass star formation and to constrain theoretical models. Dust emission at 1.3 mm wavelength reveals five cores with masses ≤15 M {sub ⊙}. None of the cores currently have the mass reservoir to form a high-mass star in the prestellar phase.more » If the MM1 clump will ultimately form high-mass stars, its embedded cores must gather a significant amount of additional mass over time. No molecular outflows are detected in the CO (2-1) and SiO (5-4) transitions, suggesting that the SMA cores are starless. By using the NH{sub 3} (1, 1) line, the velocity dispersion of the gas is determined to be transonic or mildly supersonic (Δ V {sub nt}/Δ V {sub th} ∼ 1.1–1.8). The cores are not highly supersonic as some theories of high-mass star formation predict. The embedded cores are four to seven times more massive than the clump thermal Jeans mass and the most massive core (SMA1) is nine times less massive than the clump turbulent Jeans mass. These values indicate that neither thermal pressure nor turbulent pressure dominates the fragmentation of MM1. The low virial parameters of the cores (0.1–0.5) suggest that they are not in virial equilibrium, unless strong magnetic fields of ∼1–2 mG are present. We discuss high-mass star formation scenarios in a context based on IRDC G028.23-00.19, a study case believed to represent the initial fragmentation of molecular clouds that will form high-mass stars.« less

Recent observations of interstellar molecules - Detection of CCO and a limit on H2C3O

NASA Technical Reports Server (NTRS)

Brown, R. D.; Cragg, D. M.; Godfrey, P. D.; Irvine, W. M.; Mcgonagle, D.; Ohishi, M.

1992-01-01

In order to test gas-phase reaction schemes for the production of small oxides of carbon in cold, dense interstellar clouds, we have searched for the radical CCO and for propadienone (H2C3O) in Taurus Molecular Cloud 1, a nearby cloud which exhibits a rich organic chemistry. The radical CCO has been detected with a fractional abundance some two orders of magnitude less than that of CCS, about one order of magnitude less than that of H2CCO, and slightly less than that of C3O. An upper limit has been obtained on the abundance of propadienone which is slightly less than that of its isomer propynal (HC2CHO).

Molecules in interstellar clouds. [physical and chemical conditions of star formation and biological evolution

NASA Technical Reports Server (NTRS)

Irvine, W. M.; Hjalmarson, A.; Rydbeck, O. E. H.

1981-01-01

The physical conditions and chemical compositions of the gas in interstellar clouds are reviewed in light of the importance of interstellar clouds for star formation and the origin of life. The Orion A region is discussed as an example of a giant molecular cloud where massive stars are being formed, and it is pointed out that conditions in the core of the cloud, with a kinetic temperature of about 75 K and a density of 100,000-1,000,000 molecules/cu cm, may support gas phase ion-molecule chemistry. The Taurus Molecular Clouds are then considered as examples of cold, dark, relatively dense interstellar clouds which may be the birthplaces of solar-type stars and which have been found to contain the heaviest interstellar molecules yet discovered. The molecular species identified in each of these regions are tabulated, including such building blocks of biological monomers as H2O, NH3, H2CO, CO, H2S, CH3CN and H2, and more complex species such as HCOOCH3 and CH3CH2CN.

Dispersal of Giant Molecular Clouds by Photoionization and Radiation Pressure

NASA Astrophysics Data System (ADS)

Kim, Jeong-Gyu; Kim, Woong-Tae; Ostriker, Eve C.

2018-01-01

UV radiation feedback from young massive stars plays a key role in the evolution of giant molecular clouds (GMCs) by forming HII regions and driving their expansion. We present the results of radiation hydrodynamic simulations of star cluster formation in turbulent GMCs, focusing on the effects of photoionization and radiation pressure on regulating the net star formation efficiency (SFE) and lifetime of clouds. We find that the net SFE depends primarily on the initial gas surface density, $\\Sigma_0$, such that the net SFE increases from 4% to 50% as $\\Sigma_0$ increases from $20\\,M_{\\odot}\\,{\\rm pc}^{-2}$ to $1300\\,M_{\\odot}\\,{\\rm pc}^{-2}$. Cloud dispersal occurs within $10\\,{\\rm Myr}$ after the onset of radiation feedback, or within 0.7--4.0 free-fall times that increases with $\\Sigma_0$. Photoionization plays a dominant role in destroying molecular clouds typical of the Milky Way, while radiation pressure takes over in massive, dense clouds. Based on the analysis of mass loss processes by photoevaporation or momentum injection, we develop a semi-analytic model for cloud dispersal and compare it with the numerical results.

From Head to Sword: The Clustering Properties of Stars in Orion

NASA Astrophysics Data System (ADS)

Gomez, Mercedes; Lada, Charles J.

1998-04-01

We investigate the structure in the spatial distributions of optically selected samples of young stars in the Head (lambda Orionis) and in the Sword (Orion A) regions of the constellation of Orion with the aid of stellar surface density maps and the two-point angular correlation function. The distributions of young stars in both regions are found to be nonrandom and highly clustered. Stellar surface density maps reveal three distinct clusters in the lambda Ori region. The two-point correlation function displays significant features at angular scales that correspond to the radii and separations of the three clusters identified in the surface density maps. Most young stars in the lambda Ori region (~80%) are presently found within these three clusters, consistent with the idea that the majority of young stars in this region were formed in dense protostellar clusters that have significantly expanded since their formation. Over a scale of ~0.05d-0.5d the correlation function is well described by a single power law that increases smoothly with decreasing angular scale. This suggests that, within the clusters, the stars either are themselves hierarchically clustered or have a volume density distribution that falls steeply with radius. The relative lack of Hα emission-line stars in the one cluster in this region that contains OB stars suggests a timescale for emission-line activity of less than 4 Myr around late-type stars in the cluster and may indicate that the lifetimes of protoplanetary disks around young stellar objects are reduced in clusters containing O stars. The spatial distribution of young stars in the Orion A region is considerably more complex. The angular correlation function of the OB stars (which are mostly foreground to the Orion A molecular cloud) is very similar to that of the Hα stars (which are located mostly within the molecular cloud) and significantly different from that of the young stars in the lambda Ori region. This suggests that, although spatially separated, both populations in the Orion A region may have originated from a similar fragmentation process. Stellar surface density maps and modeling of the angular correlation function suggest that somewhat less than half of the OB and Hα stars in the Orion A cloud are presently within well-defined stellar clusters. Although all the OB stars could have originated in rich clusters, a significant fraction of the Hα stars appear to have formed outside such clusters in a more spatially dispersed manner. The close similarity of the angular correlation functions of the OB and Hα stars toward the molecular cloud, in conjunction with the earlier indications of a relatively high star formation rate and high gas pressure in this cloud, is consistent with the idea that older, foreground OB stars triggered the current episode of star formation in the Orion A cloud. One of the OB clusters (Upper Sword) that is foreground to the cloud does not appear to be associated with any of the clusterings of emission-line stars, again suggesting a timescale (<4 Myr) for emission-line activity and disk lifetimes around late-type stars born in OB clusters.

Formation and fragmentation of quadruply charged molecular ions by intense femtosecond laser pulses.

PubMed

Yatsuhashi, Tomoyuki; Nakashima, Nobuaki

2010-07-22

We investigated the formation and fragmentation of multiply charged molecular ions of several aromatic molecules by intense nonresonant femtosecond laser pulses of 1.4 mum with a 130 fs pulse duration (up to 2 x 10(14) W cm(-2)). Quadruply charged states were produced for 2,3-benzofluorene and triphenylene molecular ion in large abundance, whereas naphthalene and 1,1'-binaphthyl resulted only in up to triply charged molecular ions. The laser wavelength was nonresonant with regard to the electronic transitions of the neutral molecules, and the degree of fragmentation was strongly correlated with the absorption of the singly charged cation radical. Little fragmentation was observed for naphthalene (off-resonant with cation), whereas heavy fragmentation was observed in the case of 1,1'-binaphthyl (resonant with cation). The degree of H(2) (2H) and 2H(2) (4H) elimination from molecular ions increased as the charge states increased in all the molecules examined. A striking difference was found between triply and quadruply charged 2,3-benzofluorene: significant suppression of molecular ions with loss of odd number of hydrogen was observed in the quadruply charged ions. The Coulomb explosion of protons in the quadruply charged state and succeeding fragmentation resulted in the formation of triply charged molecular ions with an odd number of hydrogens. The hydrogen elimination mechanism in the highly charged state is discussed.

Red Fluorescent Line Emission from Hydrogen Molecules in Diffuse Molecular Clouds

NASA Technical Reports Server (NTRS)

Neufeld, David A.; Spaans, Marco

1996-01-01

We have modeled the fluorescent pumping of electronic and vibrational emissions of molecular hydrogen (H2) within diffuse molecular clouds that are illuminated by ultraviolet continuum radiation. Fluorescent line intensities are predicted for transitions at ultraviolet, infrared, and red visible wavelengths as functions of the gas density, the visual extinction through the cloud, and the intensity of the incident UV continuum radiation. The observed intensity in each fluorescent transition is roughly proportional to the integrated rate of H2 photodissociation along the line of sight. Although the most luminous fluorescent emissions detectable from ground-based observatories lie at near-infrared wavelengths, we argue that the lower sky brightness at visible wavelengths makes the red fluorescent transitions a particularly sensitive probe. Fabry-Perot spectrographs of the type that have been designed to observe very faint diffuse Ha emissions are soon expected to yield sensitivities that will be adequate to detect H2 vibrational emissions from molecular clouds that are exposed to ultraviolet radiation no stronger than the mean radiation field within the Galaxy. Observations of red H2 fluorescent emission together with cospatial 21 cm H I observations could serve as a valuable probe of the gas density in diffuse molecular clouds.

Giant molecular cloud scaling relations: the role of the cloud definition

NASA Astrophysics Data System (ADS)

Khoperskov, S. A.; Vasiliev, E. O.; Ladeyschikov, D. A.; Sobolev, A. M.; Khoperskov, A. V.

2016-01-01

We investigate the physical properties of molecular clouds in disc galaxies with different morphologies: a galaxy without prominent structure, a spiral barred galaxy and a galaxy with flocculent structure. Our N-body/hydrodynamical simulations take into account non-equilibrium H2 and CO chemical kinetics, self-gravity, star formation and feedback processes. For the simulated galaxies, the scaling relations of giant molecular clouds, or so-called Larson's relations, are studied for two types of cloud definition (or extraction method): the first is based on total column density position-position (PP) data sets and the second is indicated by the CO (1-0) line emission used in position-position-velocity (PPV) data. We find that the cloud populations obtained using both cloud extraction methods generally have similar physical parameters, except that for the CO data the mass spectrum of clouds has a tail with low-mass objects M ˜ 103-104 M⊙. Owing toa varying column density threshold, the power-law indices in the scaling relations are significantly changed. In contrast, the relations are invariant to the CO brightness temperature threshold. Finally, we find that the mass spectra of clouds for PPV data are almost insensitive to the galactic morphology, whereas the spectra for PP data demonstrate significant variation.

A Catalog of Molecular Clouds in the Milky Way Galaxy

NASA Astrophysics Data System (ADS)

Wahl, Matthew; Koda, J.

2010-01-01

We have created a complete catalog of molecular clouds in the Milky Way Galaxy. This is an extension of our previous study (Koda et al. 2006) which used a preliminary data set from The Boston University Five College Radio Astronomy Observatory Galactic Ring Survey (BUFCRAO GRS). This work is of the complete data set from this GRS. The data covers the inner part of the northern Galactic disk between galactic longitudes 15 to 56 degrees, galactic latitudes -1.1 to 1.1 degrees, and the entire Galactic velocities. We used the standard cloud identification method. This method searches the data cube for a peak in temperature above a specified value, and then searches around that peak in all directions until the extents of the cloud are found. This method is iterated until all clouds are found. We prefer this method over other methods, because of its simplicity. The properties of our molecular clouds are very similar to those based on a more evolved method (Rathborne et al. 2009).

Molecular Cloud Evolution VI. Measuring cloud ages

NASA Astrophysics Data System (ADS)

Vázquez-Semadeni, Enrique; Zamora-Avilés, Manuel; Galván-Madrid, Roberto; Forbrich, Jan

2018-06-01

In previous contributions, we have presented an analytical model describing the evolution of molecular clouds (MCs) undergoing hierarchical gravitational contraction. The cloud's evolution is characterized by an initial increase in its mass, density, and star formation rate (SFR) and efficiency (SFE) as it contracts, followed by a decrease of these quantities as newly formed massive stars begin to disrupt the cloud. The main parameter of the model is the maximum mass reached by the cloud during its evolution. Thus, specifying the instantaneous mass and some other variable completely determines the cloud's evolutionary stage. We apply the model to interpret the observed scatter in SFEs of the cloud sample compiled by Lada et al. as an evolutionary effect so that, although clouds such as California and Orion A have similar masses, they are in very different evolutionary stages, causing their very different observed SFRs and SFEs. The model predicts that the California cloud will eventually reach a significantly larger total mass than the Orion A cloud. Next, we apply the model to derive estimated ages of the clouds since the time when approximately 25% of their mass had become molecular. We find ages from ˜1.5 to 27 Myr, with the most inactive clouds being the youngest. Further predictions of the model are that clouds with very low SFEs should have massive atomic envelopes constituting the majority of their gravitational mass, and that low-mass clouds (M ˜ 103-104M⊙) end their lives with a mini-burst of star formation, reaching SFRs ˜300-500 M⊙ Myr-1. By this time, they have contracted to become compact (˜1 pc) massive star-forming clumps, in general embedded within larger GMCs.

KINEMATIC STRUCTURE OF MOLECULAR GAS AROUND HIGH-MASS YSO, PAPILLON NEBULA, IN N159 EAST IN THE LARGE MAGELLANIC CLOUD: A NEW PERSPECTIVE WITH ALMA

DOE Office of Scientific and Technical Information (OSTI.GOV)

Saigo, Kazuya; Harada, Ryohei; Kawamura, Akiko

We present the ALMA Band 3 and Band 6 results of {sup 12}CO(2-1), {sup 13}CO(2-1), H30 α recombination line, free–free emission around 98 GHz, and the dust thermal emission around 230 GHz toward the N159 East Giant Molecular Cloud (N159E) in the Large Magellanic Cloud (LMC). LMC is the nearest active high-mass star-forming face-on galaxy at a distance of 50 kpc and is the best target for studing high-mass star formation. ALMA observations show that N159E is the complex of filamentary clouds with the width and length of ∼1 pc and several parsecs. The total molecular mass is 0.92 ×more » 10{sup 5} M {sub ⊙} from the {sup 13}CO(2-1) intensity. N159E harbors the well-known Papillon Nebula, a compact high-excitation H ii region. We found that a YSO associated with the Papillon Nebula has the mass of 35 M {sub ⊙} and is located at the intersection of three filamentary clouds. It indicates that the formation of the high-mass YSO was induced by the collision of filamentary clouds. Fukui et al. reported a similar kinematic structure toward two YSOs in the N159 West region, which are the other YSOs that have the mass of ≳35 M {sub ⊙}. This suggests that the collision of filamentary clouds is a primary mechanism of high-mass star formation. We found a small molecular hole around the YSO in Papillon Nebula with a sub-parsec scale. It is filled by free–free and H30 α emission. The temperature of the molecular gas around the hole reaches ∼80 K. It indicates that this YSO has just started the distruction of parental molecular cloud.« less

Kinematic Structure of Molecular Gas around High-mass YSO, Papillon Nebula, in N159 East in the Large Magellanic Cloud: A New Perspective with ALMA

NASA Astrophysics Data System (ADS)

Saigo, Kazuya; Onishi, Toshikazu; Nayak, Omnarayani; Meixner, Margaret; Tokuda, Kazuki; Harada, Ryohei; Morioka, Yuuki; Sewiło, Marta; Indebetouw, Remy; Torii, Kazufumi; Kawamura, Akiko; Ohama, Akio; Hattori, Yusuke; Yamamoto, Hiroaki; Tachihara, Kengo; Minamidani, Tetsuhiro; Inoue, Tsuyoshi; Madden, Suzanne; Galametz, Maud; Lebouteiller, Vianney; Chen, C.-H. Rosie; Mizuno, Norikazu; Fukui, Yasuo

2017-01-01

We present the ALMA Band 3 and Band 6 results of 12CO(2-1), 13CO(2-1), H30α recombination line, free-free emission around 98 GHz, and the dust thermal emission around 230 GHz toward the N159 East Giant Molecular Cloud (N159E) in the Large Magellanic Cloud (LMC). LMC is the nearest active high-mass star-forming face-on galaxy at a distance of 50 kpc and is the best target for studing high-mass star formation. ALMA observations show that N159E is the complex of filamentary clouds with the width and length of ˜1 pc and several parsecs. The total molecular mass is 0.92 × 105 M⊙ from the 13CO(2-1) intensity. N159E harbors the well-known Papillon Nebula, a compact high-excitation H II region. We found that a YSO associated with the Papillon Nebula has the mass of 35 M⊙ and is located at the intersection of three filamentary clouds. It indicates that the formation of the high-mass YSO was induced by the collision of filamentary clouds. Fukui et al. reported a similar kinematic structure toward two YSOs in the N159 West region, which are the other YSOs that have the mass of ≳35 M⊙. This suggests that the collision of filamentary clouds is a primary mechanism of high-mass star formation. We found a small molecular hole around the YSO in Papillon Nebula with a sub-parsec scale. It is filled by free-free and H30α emission. The temperature of the molecular gas around the hole reaches ˜80 K. It indicates that this YSO has just started the distruction of parental molecular cloud.

Carbon chemistry in dense molecular clouds: Theory and observational constraints

NASA Technical Reports Server (NTRS)

Blake, Geoffrey A.

1990-01-01

For the most part, gas phase models of the chemistry of dense molecular clouds predict the abundances of simple species rather well. However, for larger molecules and even for small systems rich in carbon these models often fail spectacularly. Researchers present a brief review of the basic assumptions and results of large scale modeling of the carbon chemistry in dense molecular clouds. Particular attention is to the influence of the gas phase C/O ratio in molecular clouds, and the likely role grains play in maintaining this ratio as clouds evolve from initially diffuse objects to denser cores with associated stellar and planetary formation. Recent spectral line surveys at centimeter and millimeter wavelengths along with selected observations in the submillimeter have now produced an accurate inventory of the gas phase carbon budget in several different types of molecular clouds, though gaps in our knowledge clearly remain. The constraints these observations place on theoretical models of interstellar chemistry can be used to gain insights into why the models fail, and show also which neglected processes must be included in more complete analyses. Looking toward the future, larger molecules are especially difficult to study both experimentally and theoretically in such dense, cold regions, and some new methods are therefore outlined which may ultimately push the detectability of small carbon chains and rings to much heavier species.

AN EXPLORATION OF THE STATISTICAL SIGNATURES OF STELLAR FEEDBACK

DOE Office of Scientific and Technical Information (OSTI.GOV)

Boyden, Ryan D.; Offner, Stella S. R.; Koch, Eric W.

2016-12-20

All molecular clouds are observed to be turbulent, but the origin, means of sustenance, and evolution of the turbulence remain debated. One possibility is that stellar feedback injects enough energy into the cloud to drive observed motions on parsec scales. Recent numerical studies of molecular clouds have found that feedback from stars, such as protostellar outflows and winds, injects energy and impacts turbulence. We expand upon these studies by analyzing magnetohydrodynamic simulations of molecular clouds, including stellar winds, with a range of stellar mass-loss rates and magnetic field strengths. We generate synthetic {sup 12}CO(1–0) maps assuming that the simulations aremore » at the distance of the nearby Perseus molecular cloud. By comparing the outputs from different initial conditions and evolutionary times, we identify differences in the synthetic observations and characterize these using common astrostatistics. We quantify the different statistical responses using a variety of metrics proposed in the literature. We find that multiple astrostatistics, including the principal component analysis, the spectral correlation function, and the velocity coordinate spectrum (VCS), are sensitive to changes in stellar mass-loss rates and/or time evolution. A few statistics, including the Cramer statistic and VCS, are sensitive to the magnetic field strength. These findings demonstrate that stellar feedback influences molecular cloud turbulence and can be identified and quantified observationally using such statistics.« less

Molecular gas in the H II-region complex RCW 166: Possible evidence for an early phase of cloud-cloud collision prior to the bubble formation

NASA Astrophysics Data System (ADS)

Ohama, Akio; Kohno, Mikito; Fujita, Shinji; Tsutsumi, Daichi; Hattori, Yusuke; Torii, Kazufumi; Nishimura, Atsushi; Sano, Hidetoshi; Yamamoto, Hiroaki; Tachihara, Kengo; Fukui, Yasuo

2018-05-01

Young H II regions are an important site for the study of O star formation based on distributions of ionized and molecular gas. We reveal that two molecular clouds at ˜48 km s-1 and ˜53 km s-1 are associated with the H II regions G018.149-00.283 in RCW 166 by using the JCMT CO High-Resolution Survey (COHRS) of the 12CO(J = 3-2) emission. G018.149-00.283 comprises a bright ring at 8 μm and an extended H II region inside the ring. The ˜48 km s-1 cloud delineates the ring, and the ˜53 km s-1 cloud is located within the ring, indicating a complementary distribution between the two molecular components. We propose a hypothesis that high-mass stars within G018.149-00.283 were formed by triggering during cloud-cloud collision at a projected velocity separation of ˜5 km s-1. We argue that G018.149-00.283 is in an early evolutionary stage, ˜0.1 Myr after the collision according to the scheme detailed by Habe and Ohta (1992, PASJ, 44, 203), which will be followed by a bubble formation stage like RCW 120. We also suggest that nearby H II regions N21 and N22 are candidates for bubbles possibly formed by cloud-cloud collision. Inoue and Fukui (2013, ApJ, 774, L31) showed that the interface gas becomes highly turbulent and realizes a high-mass accretion rate of 10-3-10-4 M⊙ yr-1 by magnetohydrodynamical numerical simulations, which offers an explanation of the O-star formation. The fairly high frequency of cloud-cloud collision in RCW 166 is probably due to the high cloud density in this part of the Scutum arm.

Properties and rotation of molecular clouds in M 33

NASA Astrophysics Data System (ADS)

Braine, J.; Rosolowsky, E.; Gratier, P.; Corbelli, E.; Schuster, K.-F.

2018-04-01

The sample of 566 molecular clouds identified in the CO(2-1) IRAM survey covering the disk of M 33 is explored in detail. The clouds were found using CPROPS and were subsequently catalogued in terms of their star-forming properties as non-star-forming (A), with embedded star formation (B), or with exposed star formation (C, e.g., presence of Hα emission). We find that the size-linewidth relation among the M 33 clouds is quite weak but, when comparing with clouds in other nearby galaxies, the linewidth scales with average metallicity. The linewidth and particularly the line brightness decrease with galactocentric distance. The large number of clouds makes it possible to calculate well-sampled cloud mass spectra and mass spectra of subsamples. As noted earlier, but considerably better defined here, the mass spectrum steepens (i.e., higher fraction of small clouds) with galactocentric distance. A new finding is that the mass spectrum of A clouds is much steeper than that of the star-forming clouds. Further dividing the sample, this difference is strong at both large and small galactocentric distances and the A vs. C difference is a stronger effect than the inner vs. outer disk difference in mass spectra. Velocity gradients are identified in the clouds using standard techniques. The gradients are weak and are dominated by prograde rotation; the effect is stronger for the high signal-to-noise clouds. A discussion of the uncertainties is presented. The angular momenta are low but compatible with at least some simulations. Finally, the cloud velocity gradients are compared with the gradient of disk rotation. The cloud and galactic gradients are similar; the cloud rotation periods are much longer than cloud lifetimes and comparable to the galactic rotation period. The rotational kinetic energy is 1-2% of the gravitational potential energy and the cloud edge velocity is well below the escape velocity, such that cloud-scale rotation probably has little influence on the evolution of molecular clouds.

MOLECULAR CLOUDS AND CLUMPS IN THE BOSTON UNIVERSITY-FIVE COLLEGE RADIO ASTRONOMY OBSERVATORY GALACTIC RING SURVEY

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rathborne, J. M.; Johnson, A. M.; Jackson, J. M.

2009-05-15

The Boston University-Five College Radio Astronomy Observatory (BU-FCRAO) Galactic Ring Survey (GRS) of {sup 13}CO J = 1 {yields} 0 emission covers Galactic longitudes 18{sup 0} < l < 55.{sup 0}7 and Galactic latitudes |b| {<=} 1{sup 0}. Using the SEQUOIA array on the FCRAO 14 m telescope, the GRS fully sampled the {sup 13}CO Galactic emission (46'' angular resolution on a 22'' grid) and achieved a spectral resolution of 0.21 km s{sup -1}. Because the GRS uses {sup 13}CO, an optically thin tracer, rather than {sup 12}CO, an optically thick tracer, the GRS allows a much better determination ofmore » column density and also a cleaner separation of velocity components along a line of sight. With this homogeneous, fully sampled survey of {sup 13}CO emission, we have identified 829 molecular clouds and 6124 clumps throughout the inner Galaxy using the CLUMPFIND algorithm. Here we present details of the catalog and a preliminary analysis of the properties of the molecular clouds and their clumps. Moreover, we compare clouds inside and outside of the 5 kpc ring and find that clouds within the ring typically have warmer temperatures, higher column densities, larger areas, and more clumps compared with clouds located outside the ring. This is expected if these clouds are actively forming stars. This catalog provides a useful tool for the study of molecular clouds and their embedded young stellar objects.« less

The density structure and star formation rate of non-isothermal polytropic turbulence

NASA Astrophysics Data System (ADS)

Federrath, Christoph; Banerjee, Supratik

2015-04-01

The interstellar medium of galaxies is governed by supersonic turbulence, which likely controls the star formation rate (SFR) and the initial mass function (IMF). Interstellar turbulence is non-universal, with a wide range of Mach numbers, magnetic fields strengths and driving mechanisms. Although some of these parameters were explored, most previous works assumed that the gas is isothermal. However, we know that cold molecular clouds form out of the warm atomic medium, with the gas passing through chemical and thermodynamic phases that are not isothermal. Here we determine the role of temperature variations by modelling non-isothermal turbulence with a polytropic equation of state (EOS), where pressure and temperature are functions of gas density, P˜ ρ ^Γ, T ˜ ρΓ - 1. We use grid resolutions of 20483 cells and compare polytropic exponents Γ = 0.7 (soft EOS), Γ = 1 (isothermal EOS) and Γ = 5/3 (stiff EOS). We find a complex network of non-isothermal filaments with more small-scale fragmentation occurring for Γ < 1, while Γ > 1 smoothes out density contrasts. The density probability distribution function (PDF) is significantly affected by temperature variations, with a power-law tail developing at low densities for Γ > 1. In contrast, the PDF becomes closer to a lognormal distribution for Γ ≲ 1. We derive and test a new density variance-Mach number relation that takes Γ into account. This new relation is relevant for theoretical models of the SFR and IMF, because it determines the dense gas mass fraction of a cloud, from which stars form. We derive the SFR as a function of Γ and find that it decreases by a factor of ˜5 from Γ = 0.7 to 5/3.

Novel strategies to construct complex synthetic vectors to produce DNA molecular weight standards.

PubMed

Chen, Zhe; Wu, Jianbing; Li, Xiaojuan; Ye, Chunjiang; Wenxing, He

2009-05-01

DNA molecular weight standards (DNA markers, nucleic acid ladders) are commonly used in molecular biology laboratories as references to estimate the size of various DNA samples in electrophoresis process. One method of DNA marker production is digestion of synthetic vectors harboring multiple DNA fragments of known sizes by restriction enzymes. In this article, we described three novel strategies-sequential DNA fragment ligation, screening of ligation products by polymerase chain reaction (PCR) with end primers, and "small fragment accumulation"-for constructing complex synthetic vectors and minimizing the mass differences between DNA fragments produced from restrictive digestion of synthetic vectors. The strategy could be applied to construct various complex synthetic vectors to produce any type of low-range DNA markers, usually available commercially. In addition, the strategy is useful for single-step ligation of multiple DNA fragments for construction of complex synthetic vectors and other applications in molecular biology field.

RCW 36 in the Vela Molecular Ridge: Evidence for high-mass star-cluster formation triggered by cloud-cloud collision

NASA Astrophysics Data System (ADS)

Sano, Hidetoshi; Enokiya, Rei; Hayashi, Katsuhiro; Yamagishi, Mitsuyoshi; Saeki, Shun; Okawa, Kazuki; Tsuge, Kisetsu; Tsutsumi, Daichi; Kohno, Mikito; Hattori, Yusuke; Yoshiike, Satoshi; Fujita, Shinji; Nishimura, Atsushi; Ohama, Akio; Tachihara, Kengo; Torii, Kazufumi; Hasegawa, Yutaka; Kimura, Kimihiro; Ogawa, Hideo; Wong, Graeme F.; Braiding, Catherine; Rowell, Gavin; Burton, Michael G.; Fukui, Yasuo

2018-02-01

A collision between two molecular clouds is one possible candidate for high-mass star formation. The H II region RCW 36, located in the Vela molecular ridge, contains a young star cluster (˜ 1 Myr old) and two O-type stars. We present new CO observations of RCW 36 made with NANTEN2, Mopra, and ASTE using 12CO(J = 1-0, 2-1, 3-2) and 13CO(J = 2-1) emission lines. We have discovered two molecular clouds lying at the velocities VLSR ˜ 5.5 and 9 km s-1. Both clouds are likely to be physically associated with the star cluster, as verified by the good spatial correspondence among the two clouds, infrared filaments, and the star cluster. We also found a high intensity ratio of ˜ 0.6-1.2 for CO J = 3-2/1-0 toward both clouds, indicating that the gas temperature has been increased due to heating by the O-type stars. We propose that the O-type stars in RCW 36 were formed by a collision between the two clouds, with a relative velocity separation of 5 km s-1. The complementary spatial distributions and the velocity separation of the two clouds are in good agreement with observational signatures expected for O-type star formation triggered by a cloud-cloud collision. We also found a displacement between the complementary spatial distributions of the two clouds, which we estimate to be 0.3 pc assuming the collision angle to be 45° relative to the line-of-sight. We estimate the collision timescale to be ˜ 105 yr. It is probable that the cluster age found by Ellerbroek et al. (2013b, A&A, 558, A102) is dominated by the low-mass members which were not formed under the triggering by cloud-cloud collision, and that the O-type stars in the center of the cluster are explained by the collisional triggering independently from the low-mass star formation.

RCW 36 in the Vela Molecular Ridge: Evidence for high-mass star-cluster formation triggered by cloud-cloud collision

NASA Astrophysics Data System (ADS)

Sano, Hidetoshi; Enokiya, Rei; Hayashi, Katsuhiro; Yamagishi, Mitsuyoshi; Saeki, Shun; Okawa, Kazuki; Tsuge, Kisetsu; Tsutsumi, Daichi; Kohno, Mikito; Hattori, Yusuke; Yoshiike, Satoshi; Fujita, Shinji; Nishimura, Atsushi; Ohama, Akio; Tachihara, Kengo; Torii, Kazufumi; Hasegawa, Yutaka; Kimura, Kimihiro; Ogawa, Hideo; Wong, Graeme F.; Braiding, Catherine; Rowell, Gavin; Burton, Michael G.; Fukui, Yasuo

2018-05-01

A collision between two molecular clouds is one possible candidate for high-mass star formation. The H II region RCW 36, located in the Vela molecular ridge, contains a young star cluster (˜ 1 Myr old) and two O-type stars. We present new CO observations of RCW 36 made with NANTEN2, Mopra, and ASTE using 12CO(J = 1-0, 2-1, 3-2) and 13CO(J = 2-1) emission lines. We have discovered two molecular clouds lying at the velocities VLSR ˜ 5.5 and 9 km s-1. Both clouds are likely to be physically associated with the star cluster, as verified by the good spatial correspondence among the two clouds, infrared filaments, and the star cluster. We also found a high intensity ratio of ˜ 0.6-1.2 for CO J = 3-2/1-0 toward both clouds, indicating that the gas temperature has been increased due to heating by the O-type stars. We propose that the O-type stars in RCW 36 were formed by a collision between the two clouds, with a relative velocity separation of 5 km s-1. The complementary spatial distributions and the velocity separation of the two clouds are in good agreement with observational signatures expected for O-type star formation triggered by a cloud-cloud collision. We also found a displacement between the complementary spatial distributions of the two clouds, which we estimate to be 0.3 pc assuming the collision angle to be 45° relative to the line-of-sight. We estimate the collision timescale to be ˜ 105 yr. It is probable that the cluster age found by Ellerbroek et al. (2013b, A&A, 558, A102) is dominated by the low-mass members which were not formed under the triggering by cloud-cloud collision, and that the O-type stars in the center of the cluster are explained by the collisional triggering independently from the low-mass star formation.

Characterization of airborne ice-nucleation-active bacteria and bacterial fragments

NASA Astrophysics Data System (ADS)

Šantl-Temkiv, Tina; Sahyoun, Maher; Finster, Kai; Hartmann, Susan; Augustin-Bauditz, Stefanie; Stratmann, Frank; Wex, Heike; Clauss, Tina; Nielsen, Niels Woetmann; Sørensen, Jens Havskov; Korsholm, Ulrik Smith; Wick, Lukas Y.; Karlson, Ulrich Gosewinkel

2015-05-01

Some bacteria have the unique capacity of synthesising ice-nucleation-active (INA) proteins and exposing them at their outer membrane surface. As INA bacteria enter the atmosphere, they may impact the formation of clouds and precipitation. We studied members of airborne bacterial communities for their capacity to catalyse ice formation and we report on the excretion of INA proteins by airborne Pseudomonas sp. We also observed for the first time that INA biological fragments <220 nm were present in precipitation samples (199 and 482 INA fragments per L of precipitation), which confirms the presence of submicron INA biological fragments in the atmosphere. During 14 precipitation events, strains affiliated with the genus Pseudomonas, which are known to carry ina genes, were dominant. A screening for INA properties revealed that ∼12% of the cultivable bacteria caused ice formation at ≤-7 °C. They had likely been emitted to the atmosphere from terrestrial surfaces, e.g. by convective transport. We tested the ability of isolated INA strains to produce outer membrane vesicles and found that two isolates could do so. However, only very few INA vesicles were released per INA cell. Thus, the source of the submicron INA proteinaceous particles that we detected in the atmosphere remains to be elucidated.

Boundary conditions for the paleoenvironment: Chemical and Physical Processes in dense interstellar clouds

NASA Technical Reports Server (NTRS)

Irvine, W. M.; Schloerb, F. P.; Ziurys, L. M.

1986-01-01

The present research includes searches for important new interstellar constituents; observations relevant to differentiating between different models for the chemical processes that are important in the interstellar environment; and coordinated studies of the chemistry, physics, and dynamics of molecular clouds which are the sites or possible future sites of star formation. Recent research has included the detection and study of four new interstellar molecules; searches which have placed upper limits on the abundance of several other potential constituents of interstellar clouds; quantitative studies of comparative molecular abundances in different types of interstellar clouds; investigation of reaction pathways for astrochemistry from a comparison of theory and the observed abundance of related species such as isomers and isotopic variants; studies of possible tracers of energenic events related to star formation, including silicon and sulfur containing molecules; and mapping of physical, chemical, and dynamical properties over extended regions of nearby cold molecular clouds.

Measuring the Internal Structure and Physical Conditions in Star and Planet Forming Clouds Core: Toward a Quantitative Description of Cloud Evolution

NASA Technical Reports Server (NTRS)

Lada, Charles J.

2005-01-01

This grant funds a research program to use infrared extinction measurements to probe the detailed structure of dark molecular cloud cores and investigate the physical conditions which give rise to star and planet formation. The goals of this program are to acquire, reduce and analyze deep infrared and molecular-line observations of a carefully selected sample of nearby dark clouds in order to internal structure of starless cloud cores and to quantitatively investigate the evolution of such structure through the star and planet formation process. During the second year of this grant, progress toward these goals is discussed.

Giant molecular clouds as regions of particle acceleration

NASA Technical Reports Server (NTRS)

Dogiel, V. A.; Gurevich, A. V.; Istomin, Y. N.; Zybin, K. A.

1985-01-01

One of the most interesting results of investigations carried out on the satellites SAS-II and COS-B is the discovery of unidentified discrete gamma sources. Possibly a considerable part of them may well be giant molecular clouds. Gamma emission from clouds is caused by the processes with participation of cosmic rays. The estimation of the cosmic ray density in clouds has shown that for the energy E approx. = I GeV their density can 10 to 1000 times exceed the one in intercloud space. We have made an attempt to determine the mechanism which could lead to the increase in the cosmic ray density in clouds.

Measuring the Internal Structure and Physical Conditions in Star and Planet Forming Clouds Cores: Towards a Quantitative Description of Cloud Evolution

NASA Technical Reports Server (NTRS)

Lada, Charles J.

2004-01-01

This grant funds a research program to use infrared extinction measurements to probe the detailed structure of dark molecular cloud cores and investigate the physical conditions which give rise to star and planet formation. The goals of this program are to acquire, reduce and analyze deep infrared and molecular-line observations of a carefully selected sample of nearby dark clouds in order to determine the detailed initial conditions for star formation from quantitative measurements of the internal structure of starless cloud cores and to quantitatively investigate the evolution of such structure through the star and planet formation process.

Pillars of Creation among Destruction: Star Formation in Molecular Clouds near R136 in 30 Doradus

NASA Astrophysics Data System (ADS)

Kalari, Venu M.; Rubio, Mónica; Elmegreen, Bruce G.; Guzmán, Viviana V.; Zinnecker, Hans; Herrera, Cinthya N.

2018-01-01

We present new sensitive CO(2–1) observations of the 30 Doradus region in the Large Magellanic Cloud. We identify a chain of three newly discovered molecular clouds that we name KN1, KN2, and KN3 lying within 2–14 pc in projection from the young massive cluster R136 in 30 Doradus. Excited H2 2.12 μm emission is spatially coincident with the molecular clouds, but ionized Brγ emission is not. We interpret these observations as the tails of pillar-like structures whose ionized heads are pointing toward R136. Based on infrared photometry, we identify a new generation of stars forming within this structure.

Structure-guided fragment-based in silico drug design of dengue protease inhibitors.

PubMed

Knehans, Tim; Schüller, Andreas; Doan, Danny N; Nacro, Kassoum; Hill, Jeffrey; Güntert, Peter; Madhusudhan, M S; Weil, Tanja; Vasudevan, Subhash G

2011-03-01

An in silico fragment-based drug design approach was devised and applied towards the identification of small molecule inhibitors of the dengue virus (DENV) NS2B-NS3 protease. Currently, no DENV protease co-crystal structure with bound inhibitor and fully formed substrate binding site is available. Therefore a homology model of DENV NS2B-NS3 protease was generated employing a multiple template spatial restraints method and used for structure-based design. A library of molecular fragments was derived from the ZINC screening database with help of the retrosynthetic combinatorial analysis procedure (RECAP). 150,000 molecular fragments were docked to the DENV protease homology model and the docking poses were rescored using a target-specific scoring function. High scoring fragments were assembled to small molecule candidates by an implicit linking cascade. The cascade included substructure searching and structural filters focusing on interactions with the S1 and S2 pockets of the protease. The chemical space adjacent to the promising candidates was further explored by neighborhood searching. A total of 23 compounds were tested experimentally and two compounds were discovered to inhibit dengue protease (IC(50) = 7.7 μM and 37.9 μM, respectively) and the related West Nile virus protease (IC(50) = 6.3 μM and 39.0 μM, respectively). This study demonstrates the successful application of a structure-guided fragment-based in silico drug design approach for dengue protease inhibitors providing straightforward hit generation using a combination of homology modeling, fragment docking, chemical similarity and structural filters.

Structure-guided fragment-based in silico drug design of dengue protease inhibitors

NASA Astrophysics Data System (ADS)

Knehans, Tim; Schüller, Andreas; Doan, Danny N.; Nacro, Kassoum; Hill, Jeffrey; Güntert, Peter; Madhusudhan, M. S.; Weil, Tanja; Vasudevan, Subhash G.

2011-03-01

An in silico fragment-based drug design approach was devised and applied towards the identification of small molecule inhibitors of the dengue virus (DENV) NS2B-NS3 protease. Currently, no DENV protease co-crystal structure with bound inhibitor and fully formed substrate binding site is available. Therefore a homology model of DENV NS2B-NS3 protease was generated employing a multiple template spatial restraints method and used for structure-based design. A library of molecular fragments was derived from the ZINC screening database with help of the retrosynthetic combinatorial analysis procedure (RECAP). 150,000 molecular fragments were docked to the DENV protease homology model and the docking poses were rescored using a target-specific scoring function. High scoring fragments were assembled to small molecule candidates by an implicit linking cascade. The cascade included substructure searching and structural filters focusing on interactions with the S1 and S2 pockets of the protease. The chemical space adjacent to the promising candidates was further explored by neighborhood searching. A total of 23 compounds were tested experimentally and two compounds were discovered to inhibit dengue protease (IC50 = 7.7 μM and 37.9 μM, respectively) and the related West Nile virus protease (IC50 = 6.3 μM and 39.0 μM, respectively). This study demonstrates the successful application of a structure-guided fragment-based in silico drug design approach for dengue protease inhibitors providing straightforward hit generation using a combination of homology modeling, fragment docking, chemical similarity and structural filters.

Experimental study of ejecta from shock melted lead

NASA Astrophysics Data System (ADS)

Chen, Yongtao; Hu, Haibo; Tang, Tiegang; Ren, Guowu; Li, Qingzhong; Wang, Rongbo; Buttler, William T.

2012-03-01

This effort investigates the dynamic properties of ejecta from explosively shocked, melted Pb targets. The study shows that the ejecta cloud that expands beyond the shocked surface is characterized by a high density and low velocity fragment layer between the free-surface and the high velocity micro-jetting particle cloud. This slow, dense ejecta layer is liquid micro-spall. The properties of micro-spall layer, such as the mass, density and velocity, were diagnosed in a novel application of an Asay window, while micro-jetting particles by lithium niobate piezoelectric pins and high speed photography. The total mass-velocity distribution of ejecta, including micro-spall fragments and micro-jetting particles, is presented. Furthermore, the sensitivity of ejecta production to slight variations in the shockwave drive using the Asay foil is studied.

Infalling clouds on to supermassive black hole binaries - II. Binary evolution and the final parsec problem

NASA Astrophysics Data System (ADS)

Goicovic, Felipe G.; Sesana, Alberto; Cuadra, Jorge; Stasyszyn, Federico

2017-11-01

The formation of massive black hole binaries (MBHBs) is an unavoidable outcome of galaxy evolution via successive mergers. However, the mechanism that drives their orbital evolution from parsec separations down to the gravitational wave dominated regime is poorly understood, and their final fate is still unclear. If such binaries are embedded in gas-rich and turbulent environments, as observed in remnants of galaxy mergers, the interaction with gas clumps (such as molecular clouds) may efficiently drive their orbital evolution. Using numerical simulations, we test this hypothesis by studying the dynamical evolution of an equal mass, circular MBHB accreting infalling molecular clouds. We investigate different orbital configurations, modelling a total of 13 systems to explore different possible impact parameters and relative inclinations of the cloud-binary encounter. We focus our study on the prompt, transient phase during the first few orbits when the dynamical evolution of the binary is fastest, finding that this evolution is dominated by the exchange of angular momentum through gas capture by the individual black holes and accretion. Building on these results, we construct a simple model for evolving an MBHB interacting with a sequence of clouds, which are randomly drawn from reasonable populations with different levels of anisotropy in their angular momenta distributions. We show that the binary efficiently evolves down to the gravitational wave emission regime within a few hundred million years, overcoming the 'final parsec' problem regardless of the stellar distribution.

A fragmentation and reassembly method for ab initio phasing.

PubMed

Shrestha, Rojan; Zhang, Kam Y J

2015-02-01

Ab initio phasing with de novo models has become a viable approach for structural solution from protein crystallographic diffraction data. This approach takes advantage of the known protein sequence information, predicts de novo models and uses them for structure determination by molecular replacement. However, even the current state-of-the-art de novo modelling method has a limit as to the accuracy of the model predicted, which is sometimes insufficient to be used as a template for successful molecular replacement. A fragment-assembly phasing method has been developed that starts from an ensemble of low-accuracy de novo models, disassembles them into fragments, places them independently in the crystallographic unit cell by molecular replacement and then reassembles them into a whole structure that can provide sufficient phase information to enable complete structure determination by automated model building. Tests on ten protein targets showed that the method could solve structures for eight of these targets, although the predicted de novo models cannot be used as templates for successful molecular replacement since the best model for each target is on average more than 4.0 Å away from the native structure. The method has extended the applicability of the ab initio phasing by de novo models approach. The method can be used to solve structures when the best de novo models are still of low accuracy.

Benchmark fragment-based 1H, 13C, 15N and 17O chemical shift predictions in molecular crystals†

PubMed Central

Hartman, Joshua D.; Kudla, Ryan A.; Day, Graeme M.; Mueller, Leonard J.; Beran, Gregory J. O.

2016-01-01

The performance of fragment-based ab initio 1H, 13C, 15N and 17O chemical shift predictions is assessed against experimental NMR chemical shift data in four benchmark sets of molecular crystals. Employing a variety of commonly used density functionals (PBE0, B3LYP, TPSSh, OPBE, PBE, TPSS), we explore the relative performance of cluster, two-body fragment, and combined cluster/fragment models. The hybrid density functionals (PBE0, B3LYP and TPSSh) generally out-perform their generalized gradient approximation (GGA)-based counterparts. 1H, 13C, 15N, and 17O isotropic chemical shifts can be predicted with root-mean-square errors of 0.3, 1.5, 4.2, and 9.8 ppm, respectively, using a computationally inexpensive electrostatically embedded two-body PBE0 fragment model. Oxygen chemical shieldings prove particularly sensitive to local many-body effects, and using a combined cluster/fragment model instead of the simple two-body fragment model decreases the root-mean-square errors to 7.6 ppm. These fragment-based model errors compare favorably with GIPAW PBE ones of 0.4, 2.2, 5.4, and 7.2 ppm for the same 1H, 13C, 15N, and 17O test sets. Using these benchmark calculations, a set of recommended linear regression parameters for mapping between calculated chemical shieldings and observed chemical shifts are provided and their robustness assessed using statistical cross-validation. We demonstrate the utility of these approaches and the reported scaling parameters on applications to 9-tertbutyl anthracene, several histidine co-crystals, benzoic acid and the C-nitrosoarene SnCl2(CH3)2(NODMA)2. PMID:27431490

Benchmark fragment-based (1)H, (13)C, (15)N and (17)O chemical shift predictions in molecular crystals.

PubMed

Hartman, Joshua D; Kudla, Ryan A; Day, Graeme M; Mueller, Leonard J; Beran, Gregory J O

2016-08-21

The performance of fragment-based ab initio(1)H, (13)C, (15)N and (17)O chemical shift predictions is assessed against experimental NMR chemical shift data in four benchmark sets of molecular crystals. Employing a variety of commonly used density functionals (PBE0, B3LYP, TPSSh, OPBE, PBE, TPSS), we explore the relative performance of cluster, two-body fragment, and combined cluster/fragment models. The hybrid density functionals (PBE0, B3LYP and TPSSh) generally out-perform their generalized gradient approximation (GGA)-based counterparts. (1)H, (13)C, (15)N, and (17)O isotropic chemical shifts can be predicted with root-mean-square errors of 0.3, 1.5, 4.2, and 9.8 ppm, respectively, using a computationally inexpensive electrostatically embedded two-body PBE0 fragment model. Oxygen chemical shieldings prove particularly sensitive to local many-body effects, and using a combined cluster/fragment model instead of the simple two-body fragment model decreases the root-mean-square errors to 7.6 ppm. These fragment-based model errors compare favorably with GIPAW PBE ones of 0.4, 2.2, 5.4, and 7.2 ppm for the same (1)H, (13)C, (15)N, and (17)O test sets. Using these benchmark calculations, a set of recommended linear regression parameters for mapping between calculated chemical shieldings and observed chemical shifts are provided and their robustness assessed using statistical cross-validation. We demonstrate the utility of these approaches and the reported scaling parameters on applications to 9-tert-butyl anthracene, several histidine co-crystals, benzoic acid and the C-nitrosoarene SnCl2(CH3)2(NODMA)2.

Secondary ion emission from phosphatidic acid sandwich films under atomic and molecular primary ion bombardment

NASA Astrophysics Data System (ADS)

Stapel, D.; Benninghoven, A.

2001-11-01

Secondary ion yields increase considerably when changing from atomic to molecular primary ions. Since secondary ion emission from deeper layers could result in a pronounced yield increase, the secondary ion emission depth of molecular fragments was investigated. A phosphatidic acid Langmuir-Blodgett (LB) sandwich system was applied. The well-defined layer structure of the applied sample allows the assignment of different depths of origin to the selected fragment ions. At least 93% of the detected characteristic molecular fragment ions originate from the first and second layers. This holds true for all applied atomic and molecular primary ions.

Fragmentation of molecular ions in differential mobility spectrometry as a method for identification of chemical warfare agents.

PubMed

Maziejuk, M; Puton, J; Szyposzyńska, M; Witkiewicz, Z

2015-11-01

The subject of the work is the use of differential mobility spectrometry (DMS) for the detection of chemical warfare agents (CWA). Studies were performed for mustard gas, i.e., bis(2-chloroethyl)sulfide (HD), sarin, i.e., O-isopropyl methylphosphonofluoridate (GB) and methyl salicylate (MS) used as test compounds. Measurements were conducted with two ceramic DMS analyzers of different constructions allowing the generation of an electric field with an intensity of more than 120 Td. Detector signals were measured for positive and negative modes of operation in a temperature range from 0 to 80 °C. Fragmentations of ions containing analyte molecules were observed for all tested compounds. The effective temperatures of fragmentation estimated on the basis of dispersion plots were equal from about 148 °C for GB to 178 °C for MS. It was found that values of separation voltage (SV) and compensation voltage (CV) at which the fragmentation of sample ions is observed may be the parameters improving the certainty of detection for different analytes. The DMS analyzers enabling the observation of ion fragmentation can be successfully used for effective CWA detection. Copyright © 2015. Published by Elsevier B.V.

Light-element nucleosynthesis in a molecular cloud interacting with a supernova remnant and the origin of beryllium-10 in the protosolar nebula

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tatischeff, Vincent; Duprat, Jean; De Séréville, Nicolas, E-mail: Vincent.Tatischeff@csnsm.in2p3.fr

The presence of short-lived radionuclides (t {sub 1/2} < 10 Myr) in the early solar system provides important information about the astrophysical environment in which the solar system formed. The discovery of now extinct {sup 10}Be (t {sub 1/2} = 1.4 Myr) in calcium-aluminum-rich inclusions (CAIs) with Fractionation and Unidentified Nuclear isotope anomalies (FUN-CAIs) suggests that a baseline concentration of {sup 10}Be in the early solar system was inherited from the protosolar molecular cloud. In this paper, we investigate various astrophysical contexts for the nonthermal nucleosynthesis of {sup 10}Be by cosmic-ray-induced reactions. We first show that the {sup 10}Be recordedmore » in FUN-CAIs cannot have been produced in situ by irradiation of the FUN-CAIs themselves. We then show that trapping of Galactic cosmic rays (GCRs) in the collapsing presolar cloud core induced a negligible {sup 10}Be contamination of the protosolar nebula, the inferred {sup 10}Be/{sup 9}Be ratio being at least 40 times lower than that recorded in FUN-CAIs ({sup 10}Be/{sup 9}Be ∼ 3 × 10{sup –4}). Irradiation of the presolar molecular cloud by background GCRs produced a steady-state {sup 10}Be/{sup 9}Be ratio ≲ 1.3 × 10{sup –4} at the time of the solar system formation, which suggests that the presolar cloud was irradiated by an additional source of CRs. Considering a detailed model for CR acceleration in a supernova remnant (SNR), we find that the {sup 10}Be abundance recorded in FUN-CAIs can be explained within two alternative scenarios: (1) the irradiation of a giant molecular cloud by CRs produced by ≳ 50 supernovae exploding in a superbubble of hot gas generated by a large star cluster of at least 20,000 members, and (2) the irradiation of the presolar molecular cloud by freshly accelerated CRs escaped from an isolated SNR at the end of the Sedov-Taylor phase. In the second picture, the SNR resulted from the explosion of a massive star that ran away from its parent OB association, expanded during most of its adiabatic phase in an intercloud medium of density of about 1 H-atom cm{sup –3}, and eventually interacted with the presolar molecular cloud only during the radiative stage. This model naturally provides an explanation for the injection of other short-lived radionuclides of stellar origin into the cold presolar molecular cloud ({sup 26}Al, {sup 41}Ca, and {sup 36}Cl) and is in agreement with the solar system originating from the collapse of a molecular cloud shocked by a supernova blast wave.« less

Fragment-Based Electronic Structure Approach for Computing Nuclear Magnetic Resonance Chemical Shifts in Molecular Crystals.

PubMed

Hartman, Joshua D; Beran, Gregory J O

2014-11-11

First-principles chemical shielding tensor predictions play a critical role in studying molecular crystal structures using nuclear magnetic resonance. Fragment-based electronic structure methods have dramatically improved the ability to model molecular crystal structures and energetics using high-level electronic structure methods. Here, a many-body expansion fragment approach is applied to the calculation of chemical shielding tensors in molecular crystals. First, the impact of truncating the many-body expansion at different orders and the role of electrostatic embedding are examined on a series of molecular clusters extracted from molecular crystals. Second, the ability of these techniques to assign three polymorphic forms of the drug sulfanilamide to the corresponding experimental (13)C spectra is assessed. This challenging example requires discriminating among spectra whose (13)C chemical shifts differ by only a few parts per million (ppm) across the different polymorphs. Fragment-based PBE0/6-311+G(2d,p) level chemical shielding predictions correctly assign these three polymorphs and reproduce the sulfanilamide experimental (13)C chemical shifts with 1 ppm accuracy. The results demonstrate that fragment approaches are competitive with the widely used gauge-invariant projector augmented wave (GIPAW) periodic density functional theory calculations.

Informatics for RNA Sequencing: A Web Resource for Analysis on the Cloud

PubMed Central

Griffith, Malachi; Walker, Jason R.; Spies, Nicholas C.; Ainscough, Benjamin J.; Griffith, Obi L.

2015-01-01

Massively parallel RNA sequencing (RNA-seq) has rapidly become the assay of choice for interrogating RNA transcript abundance and diversity. This article provides a detailed introduction to fundamental RNA-seq molecular biology and informatics concepts. We make available open-access RNA-seq tutorials that cover cloud computing, tool installation, relevant file formats, reference genomes, transcriptome annotations, quality-control strategies, expression, differential expression, and alternative splicing analysis methods. These tutorials and additional training resources are accompanied by complete analysis pipelines and test datasets made available without encumbrance at www.rnaseq.wiki. PMID:26248053

The Spitzer Survey of Interstellar Clouds in the Gould Belt. VI. The Auriga-California Molecular Cloud Observed with IRAC and MIPS

NASA Technical Reports Server (NTRS)

Broekhoven-Fiene, Hannah; Matthews, Brenda C.; Harvey, Paul M.; Gutermuth, Robert A.; Huard, Tracy L.; Tothill, Nicholas F. H.; Nutter, David; Bourke, Tyler L.; DiFrancesco, James; Jorgensen, Jes K.;

ALMA Observations of Molecular Clouds in Three Group-centered Elliptical Galaxies: NGC 5846, NGC 4636, and NGC 5044

NASA Astrophysics Data System (ADS)

Temi, Pasquale; Amblard, Alexandre; Gitti, Myriam; Brighenti, Fabrizio; Gaspari, Massimo; Mathews, William G.; David, Laurence

2018-05-01

We present new ALMA CO(2–1) observations of two well-studied group-centered elliptical galaxies: NGC 4636 and NGC 5846. In addition, we include a revised analysis of Cycle 0 ALMA observations of the central galaxy in the NGC 5044 group. We find evidence that molecular gas is a common presence in bright group-centered galaxies (BGG). CO line widths are broader than Galactic molecular clouds, and using the reference Milky Way X CO, the total molecular mass ranges from 2.6 × 105 M ⊙ in NGC 4636 to 6.1 × 107 M ⊙ in NGC 5044. Complementary observations using the ALMA Compact Array do not exhibit any detection of a CO diffuse component at the sensitivity level achieved by current exposures. The origin of the detected molecular features is still uncertain, but these ALMA observations suggest that they are the end product of the hot gas cooling process and not the result of merger events. Some of the molecular clouds are associated with dust features as revealed by HST dust extinction maps, suggesting that these clouds formed from dust-enhanced cooling. The global nonlinear condensation may be triggered via the chaotic turbulent field or buoyant uplift. The large virial parameter of the molecular structures and correlation with the warm ({10}3{--}{10}5 {{K}})/hot (≥106) phase velocity dispersion provide evidence that they are unbound giant molecular associations drifting in the turbulent field, consistent with numerical predictions of the chaotic cold accretion process. Alternatively, the observed large CO line widths may be generated by molecular gas flowing out from cloud surfaces due to heating by the local hot gas atmosphere.

Millimeter-wave Molecular Line Observations of the Tornado Nebula

NASA Astrophysics Data System (ADS)

Sakai, D.; Oka, T.; Tanaka, K.; Matsumura, S.; Miura, K.; Takekawa, S.

2014-08-01

We report the results of millimeter-wave molecular line observations of the Tornado Nebula (G357.7-0.1), which is a bright radio source behind the Galactic center region. A 15' × 15' area was mapped in the J = 1-0 lines of CO, 13CO, and HCO+ with the Nobeyama Radio Observatory 45 m telescope. The Very Large Array archival data of OH at 1720 MHz were also reanalyzed. We found two molecular clouds with separate velocities, V LSR = -14 km s-1 and +5 km s-1. These clouds show rough spatial anti-correlation. Both clouds are associated with OH 1720 MHz emissions in the area overlapping with the Tornado Nebula. The spatial and velocity coincidence indicates violent interaction between the clouds and the Tornado Nebula. Modestly excited gas prefers the position of the Tornado "head" in the -14 km s-1 cloud, also suggesting the interaction. Virial analysis shows that the +5 km s-1 cloud is more tightly bound by self-gravity than the -14 km s-1 cloud. We propose a formation scenario for the Tornado Nebula; the +5 km s-1 cloud collided into the -14 km s-1 cloud, generating a high-density layer behind the shock front, which activates a putative compact object by Bondi-Hoyle-Lyttleton accretion to eject a pair of bipolar jets.

ALMA Detects CO(3-2) within a Super Star Cluster in NGC 5253

NASA Astrophysics Data System (ADS)

Turner, Jean L.; Consiglio, S. Michelle; Beck, Sara C.; Goss, W. M.; Ho, Paul. T. P.; Meier, David S.; Silich, Sergiy; Zhao, Jun-Hui

2017-09-01

We present observations of CO(3-2) and 13CO(3-2) emission near the supernebula in the dwarf galaxy NGC 5253, which contains one of the best examples of a potential globular cluster in formation. The 0.″3 resolution images reveal an unusual molecular cloud, “Cloud D1,” that is coincident with the radio-infrared supernebula. The ˜6 pc diameter cloud has a linewidth, Δ v = 21.7 {km} {{{s}}}-1, that reflects only the gravitational potential of the star cluster residing within it. The corresponding virial mass is 2.5 × 105 {M}⊙ . The cluster appears to have a top-heavy initial mass function, with M * ≳ 1-2 {M}⊙ . Cloud D1 is optically thin in CO(3-2), probably because the gas is hot. Molecular gas mass is very uncertain but constitutes <35% of the dynamical mass within the cloud boundaries. In spite of the presence of an estimated ˜1500-2000 O stars within the small cloud, the CO appears relatively undisturbed. We propose that Cloud D1 consists of molecular clumps or cores, possibly star-forming, orbiting with more evolved stars in the core of the giant cluster.

Ambiguities in the identification of giant molecular cloud complexes from longitude-velocity diagrams

NASA Technical Reports Server (NTRS)

Adler, David S.; Roberts, William W., Jr.

1992-01-01

Techniques which use longitude-velocity diagrams to identify molecular cloud complexes in the disk of the Galaxy are investigated by means of model Galactic disks generated from N-body cloud-particle simulations. A procedure similar to the method used to reduce the low-level emission in Galactic l-v diagrams is employed to isolate complexes of emission in the model l-v diagram (LVCs) from the 'background'clouds. The LVCs produced in this manner yield a size-line-width relationship with a slope of 0.58 and a mass spectrum with a slope of 1.55, consistent with Galactic observations. It is demonstrated that associations identified as LVCs are often chance superpositions of clouds spread out along the line of sight in the disk of the model system. This indicates that the l-v diagram cannot be used to unambiguously determine the location of molecular cloud complexes in the model Galactic disk. The modeling results also indicate that the existence of a size-line-width relationship is not a reliable indicator of the physical nature of cloud complexes, in particular, whether the complexes are gravitationally bound objects.

Low-Frequency Carbon Recombination Lines in the Orion Molecular Cloud Complex

NASA Astrophysics Data System (ADS)

Tremblay, Chenoa D.; Jordan, Christopher H.; Cunningham, Maria; Jones, Paul A.; Hurley-Walker, Natasha

2018-05-01

We detail tentative detections of low-frequency carbon radio recombination lines from within the Orion molecular cloud complex observed at 99-129 MHz. These tentative detections include one alpha transition and one beta transition over three locations and are located within the diffuse regions of dust observed in the infrared at 100 μm, the Hα emission detected in the optical, and the synchrotron radiation observed in the radio. With these observations, we are able to study the radiation mechanism transition from collisionally pumped to radiatively pumped within the H ii regions within the Orion molecular cloud complex.

Embedded Clusters

NASA Astrophysics Data System (ADS)

Ascenso, Joana

The past decade has seen an increase of star formation studies made at the molecular cloud scale, motivated mostly by the deployment of a wealth of sensitive infrared telescopes and instruments. Embedded clusters, long recognised as the basic units of coherent star formation in molecular clouds, are now seen to inhabit preferentially cluster complexes tens of parsecs across. This chapter gives an overview of some important properties of the embedded clusters in these complexes and of the complexes themselves, along with the implications of viewing star formation as a molecular-cloud scale process rather than an isolated process at the scale of clusters.

VARIATIONS BETWEEN DUST AND GAS IN THE DIFFUSE INTERSTELLAR MEDIUM. II. SEARCH FOR COLD GAS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Reach, William T.; Heiles, Carl; Bernard, Jean-Philippe, E-mail: wreach@sofia.usra.edu

2017-01-01

The content of interstellar clouds, in particular the inventory of diffuse molecular gas, remains uncertain. We identified a sample of isolated clouds, approximately 100 M {sub ⊙} in size, and used the dust content to estimate the total amount of gas. In Paper I, the total inferred gas content was found significantly larger than that seen in 21 cm emission measurements of H i. In this paper we test the hypothesis that the apparent excess “dark” gas is cold H i, which would be evident in absorption but not in emission due to line saturation. The results show that theremore » is not enough 21 cm absorption toward the clouds to explain the total amount of “dark” gas.« less

Venus: Halide cloud condensation and volatile element inventories

NASA Technical Reports Server (NTRS)

Lewis, J. S.; Fegley, B., Jr.

1982-01-01

Several Venus cloud condensates, including A12C16 as well as halides, oxides and sulfides of arsenic and antimony, are assessed for their thermodynamic and geochemical plausibility. Aluminum chloride can confidently be ruled out, and condensation of arsenic sulfides on the surface will cause arsenic compounds to be too rare to produce the observed clouds. Antimony may conceivably be sufficiently volatile, but the expected molecular form is gaseous SbS, not the chloride. Arsenic and antimony compounds in the atmosphere will be regulated at very low levels by sulfide precipitation, irrespective of the planetary inventory of As and Sb. Thus the arguments for a volatile-deficient origin for Venus based on the depletion of water and mercury (relative to Earth) cannot be tested by a search for atmospheric arsenic or antimony.

Wide-field 12CO (J=2-1) and 13CO (J=2-1) Observations toward the Aquila Rift and Serpens Molecular Cloud Complexes. I. Molecular Clouds and Their Physical Properties

NASA Astrophysics Data System (ADS)

Nakamura, Fumitaka; Dobashi, Kazuhito; Shimoikura, Tomomi; Tanaka, Tomohiro; Onishi, Toshikazu

2017-03-01

We present the results of wide-field 12CO (J=2{--}1) and 13CO (J=2{--}1) observations toward the Aquila Rift and Serpens molecular cloud complexes (25^\\circ < l< 33^\\circ and 1^\\circ < b< 6^\\circ ) at an angular resolution of 3.‧4 (≈ 0.25 pc) and at a velocity resolution of 0.079 km s-1 with velocity coverage of -5 {km} {{{s}}}-1< {V}{LSR}< 35 {km} {{{s}}}-1. We found that the 13CO emission better traces the structures seen in the extinction map, and derived the {X}{13{CO}}-factor of this region. Applying SCIMES to the 13CO data cube, we identified 61 clouds and derived their mass, radii, and line widths. The line width-radius relation of the identified clouds basically follows those of nearby molecular clouds. The majority of the identified clouds are close to virial equilibrium, although the dispersion is large. By inspecting the 12CO channel maps by eye, we found several arcs that are spatially extended to 0.°2-3° in length. In the longitude-velocity diagrams of 12CO, we also found two spatially extended components that appear to converge toward Serpens South and the W40 region. The existence of two components with different velocities and arcs suggests that large-scale expanding bubbles and/or flows play a role in the formation and evolution of the Serpens South and W40 cloud.

Fragment screening by SPR and advanced application to GPCRs.

PubMed

Shepherd, Claire A; Hopkins, Andrew L; Navratilova, Iva

2014-01-01

Surface plasmon resonance (SPR) is one of the primary biophysical methods for the screening of low molecular weight 'fragment' libraries, due to its low protein consumption and 'label-free' methodology. SPR biosensor interaction analysis is employed to both screen and confirm the binding of compounds in fragment screening experiments, as it provides accurate information on the affinity and kinetics of molecular interactions. The most advanced application of the use of SPR for fragment screening is against membrane protein drug targets, such G-protein coupled receptors (GPCRs). Biophysical GPCR assays using SPR have been validated with pharmacological measurements approximate to cell-based methods, yet provide the advantage of biophysical methods in their ability to measure the weak affinities of low molecular weight fragments. A number of SPR fragment screens against GPCRs have now been disclosed in the literature. SPR fragment screening is proving versatile to screen both thermostabilised GPCRs and solubilised wild type receptors. In this chapter, we discuss the state-of-the-art in GPCR fragment screening by SPR and the technical considerations in performing such experiments. Copyright © 2014 The Authors. Published by Elsevier Ltd.. All rights reserved.

A ram-pressure threshold for star formation

NASA Astrophysics Data System (ADS)

Whitworth, A. P.

2016-05-01

In turbulent fragmentation, star formation occurs in condensations created by converging flows. The condensations must be sufficiently massive, dense and cool to be gravitationally unstable, so that they start to contract; and they must then radiate away thermal energy fast enough for self-gravity to remain dominant, so that they continue to contract. For the metallicities and temperatures in local star-forming clouds, this second requirement is only met robustly when the gas couples thermally to the dust, because this delivers the capacity to radiate across the full bandwidth of the continuum, rather than just in a few discrete spectral lines. This translates into a threshold for vigorous star formation, which can be written as a minimum ram pressure PCRIT ˜ 4 × 10-11 dyne. PCRIT is independent of temperature, and corresponds to flows with molecular hydrogen number density n_{{H_2.FLOW}} and velocity vFLOW satisfying n_{{H_2.FLOW}} v_{FLOW}^2≳ 800 cm^{-3} (km s^{-1})^2. This in turn corresponds to a minimum molecular hydrogen column density for vigorous star formation, N_{{H_2.CRIT}} ˜ 4 × 10^{21} cm^{-2} (ΣCRIT ˜ 100 M⊙ pc-2), and a minimum visual extinction AV, CRIT ˜ 9 mag. The characteristic diameter and line density for a star-forming filament when this threshold is just exceeded - a sweet spot for local star formation regions - are 2RFIL ˜ 0.1 pc and μFIL ˜ 13 M⊙ pc-2. The characteristic diameter and mass for a prestellar core condensing out of such a filament are 2RCORE ˜ 0.1 pc and MCORE ˜ 1 M⊙. We also show that fragmentation of a shock-compressed layer is likely to commence while the convergent flows creating the layer are still ongoing, and we stress that, under this circumstance, the phenomenology and characteristic scales for fragmentation of the layer are fundamentally different from those derived traditionally for pre-existing layers.

Tidal disruption of open clusters in their parent molecular clouds

NASA Technical Reports Server (NTRS)

Long, Kevin

1989-01-01

A simple model of tidal encounters has been applied to the problem of an open cluster in a clumpy molecular cloud. The parameters of the clumps are taken from the Blitz, Stark, and Long (1988) catalog of clumps in the Rosette molecular cloud. Encounters are modeled as impulsive, rectilinear collisions between Plummer spheres, but the tidal approximation is not invoked. Mass and binding energy changes during an encounter are computed by considering the velocity impulses given to individual stars in a random realization of a Plummer sphere. Mean rates of mass and binding energy loss are then computed by integrating over many encounters. Self-similar evolutionary calculations using these rates indicate that the disruption process is most sensitive to the cluster radius and relatively insensitive to cluster mass. The calculations indicate that clusters which are born in a cloud similar to the Rosette with a cluster radius greater than about 2.5 pc will not survive long enough to leave the cloud. The majority of clusters, however, have smaller radii and will survive the passage through their parent cloud.

Rupturing of Biological Spores As a Source of Secondary Particles in Amazonia

DOE Office of Scientific and Technical Information (OSTI.GOV)

China, Swarup; Wang, Bingbing; Weis, Johannes

Airborne biological particles, such as fungal spores and pollen, are ubiquitous in the Earth’s atmosphere and play an important role in the atmospheric environment and climate, impacting air quality, cloud formation, and the Earth’s radiation budget. The atmospheric transformations of airborne biological spores at elevated relative humidity remain poorly understood and their climatic role is uncertain. Using an environmental scanning electron microscope (ESEM), we observed rupturing of Amazonian fungal spores and subsequent release of nanometer to submicron size fragments after exposure to high humidity. We find that fungal fragments contain elements of inorganic salts (e.g., Na and Cl). They aremore » hygroscopic in nature with a growth factor up to 2.3 at 96% relative humidity, thus they may potentially influence cloud formation. Due to their hygroscopic growth, light scattering cross sections of the fragments are enhanced by up to a factor of 10. Furthermore, rupturing of fungal spores at high humidity may explain the bursting events of nanoparticles and may provide insight into new particle formation in Amazonia.« less

The Chemistry and Excitation of Water in Molecular Clouds

NASA Technical Reports Server (NTRS)

Hollenbach, David

2003-01-01

We model the chemistry and thermal balance of opaque molecular clouds exposed to an external flux of ultraviolet photons. We include the processes of gas phase and grain surface chemical reactions; in particular we examine closely the freezing of atoms and molecules onto grain surfaces and the desorption of molecules from grain surfaces as a function of depth into a molecular cloud. We find that on the surface of a molecular cloud the gas phase water abundances are low because of photodissociation, and the grain phase water (ice) abundance is low because of photodesorption of water from the grain surfaces. Deeper into the cloud, at A(sub v) less than or approximately 2-8 depending on the strength of the external ultraviolet flux, the gas phase water abundance increases with depth as the photodissociation rates decline due to dust attenuation of the ultraviolet field. However, beyond A(sub v) less than or approximately 2-8 the gas phase water abundance declines because the water freezes as water ice on the grains, and photodesorption is no longer effective in clearing the ice. A peak water abundance of about 10(exp -6) to 10(exp -7) occurs at about A(sub v) approximately 2-8, relatively independent of the gas density and the ultraviolet field. We show that such a model matches very closely the observations of the Submillimeter Wave Astronomical Satellite (SWAS), a NASA Small Explorer Mission. The model elucidates several mechanisms that have been recently invoked to understand gas phase chemistry in clouds, including-the freeze-out of molecules onto grain surface, the desorption of these molecules from the surfaces, and the abundance gradients of molecules as functions of depth into molecular clouds.

The bird: A pressure-confined explosion in the interstellar medium

NASA Technical Reports Server (NTRS)

Lane, A. P.; Stark, A. A.; Helfand, D. J.

1986-01-01

The non-thermal radio continuum source G5.3-1.0, mapped at 20 cm with the Very Large Array (VLA) by Becker and Helfand, has an unusual bird-like shape. In order to determine possible interaction of this source with adjacent cold gas, we have mapped this region in the J=1-0 line of CO using the AT and T Bell Laboratories 7m antenna and the FCRAO 14m antenna. The map shown contains 1859 spectra sampled on a 1.5 arcminute grid; each spectrum has an rms noise of 0.2 K in 1 MHz channels. There are several molecular clouds at different velocities along the line of sight. The outer regions of a previously unknown Giant Molecular Cloud (GMC) at l=4.7 deg., b=-0.85 deg., v=200 km s(-1) appears to be interacting with G5.3-10: the molecular cloud has a bird-shaped hole at the position of the continuum source, except that the brightest continuum point (the bird's head) appears to be embedded in the cloud. The velocity of this GMC indicates it is within 2 kpc of the galactic center. The morphology suggests that a supernova or other explosive event occurred near the outside of the GMC, in a region where (n) is approximately 300 cm(-3), and expanded into a region of lower density and pressure. The pressures, densities, and velocity gradients of molecular clouds near the galactic center are on average higher than those of clouds near the Sun. We therefore expect that Type II supernovae near the galactic center would be distorted by their interactions with their parent molecular clouds.

Infrared Polarization of the Molecular Cloud Associated to IRAS 18236-1205

NASA Astrophysics Data System (ADS)

Luna, A.; Retes, R.; Devaraj, R.; Maya, Y. D.; Carrasco, L.

2017-07-01

We present the near-infrared polarization observations towards the star forming molecular cloud associated with the IRAS source 18236-1205, obtained with the near-infrared (NIR) imaging polarimeter POLICAN at the Guillermo Haro Astrophysical Observatory in Cananea, Sonora, México.

The Importance of Three-Body Interactions in Molecular Dynamics Simulations of Water with the Fragment Molecular Orbital Method

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pruitt, Spencer R.; Nakata, Hiroya; Nagata, Takeshi

2016-04-12

The analytic first derivative with respect to nuclear coordinates is formulated and implemented in the framework of the three-body fragment molecular orbital (FMO) method. The gradient has been derived and implemented for restricted Hartree-Fock, second-order Møller-Plesset perturbation, and density functional theories. The importance of the three-body fully analytic gradient is illustrated through the failure of the two-body FMO method during molecular dynamics simulations of a small water cluster. The parallel implementation of the fragment molecular orbital method, its parallel efficiency, and its scalability on the Blue Gene/Q architecture up to 262,144 CPU cores, are also discussed.

Influence of galactic arm scale dynamics on the molecular composition of the cold and dense ISM. I. Observed abundance gradients in dense clouds

NASA Astrophysics Data System (ADS)

Ruaud, M.; Wakelam, V.; Gratier, P.; Bonnell, I. A.

2018-04-01

Aim. We study the effect of large scale dynamics on the molecular composition of the dense interstellar medium during the transition between diffuse to dense clouds. Methods: We followed the formation of dense clouds (on sub-parsec scales) through the dynamics of the interstellar medium at galactic scales. We used results from smoothed particle hydrodynamics (SPH) simulations from which we extracted physical parameters that are used as inputs for our full gas-grain chemical model. In these simulations, the evolution of the interstellar matter is followed for 50 Myr. The warm low-density interstellar medium gas flows into spiral arms where orbit crowding produces the shock formation of dense clouds, which are held together temporarily by the external pressure. Results: We show that depending on the physical history of each SPH particle, the molecular composition of the modeled dense clouds presents a high dispersion in the computed abundances even if the local physical properties are similar. We find that carbon chains are the most affected species and show that these differences are directly connected to differences in (1) the electronic fraction, (2) the C/O ratio, and (3) the local physical conditions. We argue that differences in the dynamical evolution of the gas that formed dense clouds could account for the molecular diversity observed between and within these clouds. Conclusions: This study shows the importance of past physical conditions in establishing the chemical composition of the dense medium.

Parameterizing Size Distribution in Ice Clouds

DOE Office of Scientific and Technical Information (OSTI.GOV)

DeSlover, Daniel; Mitchell, David L.

2009-09-25

PARAMETERIZING SIZE DISTRIBUTIONS IN ICE CLOUDS David L. Mitchell and Daniel H. DeSlover ABSTRACT An outstanding problem that contributes considerable uncertainty to Global Climate Model (GCM) predictions of future climate is the characterization of ice particle sizes in cirrus clouds. Recent parameterizations of ice cloud effective diameter differ by a factor of three, which, for overcast conditions, often translate to changes in outgoing longwave radiation (OLR) of 55 W m-2 or more. Much of this uncertainty in cirrus particle sizes is related to the problem of ice particle shattering during in situ sampling of the ice particle size distribution (PSD).more » Ice particles often shatter into many smaller ice fragments upon collision with the rim of the probe inlet tube. These small ice artifacts are counted as real ice crystals, resulting in anomalously high concentrations of small ice crystals (D < 100 µm) and underestimates of the mean and effective size of the PSD. Half of the cirrus cloud optical depth calculated from these in situ measurements can be due to this shattering phenomenon. Another challenge is the determination of ice and liquid water amounts in mixed phase clouds. Mixed phase clouds in the Arctic contain mostly liquid water, and the presence of ice is important for determining their lifecycle. Colder high clouds between -20 and -36 oC may also be mixed phase but in this case their condensate is mostly ice with low levels of liquid water. Rather than affecting their lifecycle, the presence of liquid dramatically affects the cloud optical properties, which affects cloud-climate feedback processes in GCMs. This project has made advancements in solving both of these problems. Regarding the first problem, PSD in ice clouds are uncertain due to the inability to reliably measure the concentrations of the smallest crystals (D < 100 µm), known as the “small mode”. Rather than using in situ probe measurements aboard aircraft, we employed a treatment of ice cloud optical properties formulated in terms of PSD parameters in combination with remote measurements of thermal radiances to characterize the small mode. This is possible since the absorption efficiency (Qabs) of small mode crystals is larger at 12 µm wavelength relative to 11 µm wavelength due to the process of wave resonance or photon tunneling more active at 12 µm. This makes the 12/11 µm absorption optical depth ratio (or equivalently the 12/11 µm Qabs ratio) a means for detecting the relative concentration of small ice particles in cirrus. Using this principle, this project tested and developed PSD schemes that can help characterize cirrus clouds at each of the three ARM sites: SGP, NSA and TWP. This was the main effort of this project. These PSD schemes and ice sedimentation velocities predicted from them have been used to test the new cirrus microphysics parameterization in the GCM known as the Community Climate Systems Model (CCSM) as part of an ongoing collaboration with NCAR. Regarding the second problem, we developed and did preliminary testing on a passive thermal method for retrieving the total water path (TWP) of Arctic mixed phase clouds where TWPs are often in the range of 20 to 130 g m-2 (difficult for microwave radiometers to accurately measure). We also developed a new radar method for retrieving the cloud ice water content (IWC), which can be vertically integrated to yield the ice water path (IWP). These techniques were combined to determine the IWP and liquid water path (LWP) in Arctic clouds, and hence the fraction of ice and liquid water. We have tested this approach using a case study from the ARM field campaign called M-PACE (Mixed-Phase Arctic Cloud Experiment). This research led to a new satellite remote sensing method that appears promising for detecting low levels of liquid water in high clouds typically between -20 and -36 oC. We hope to develop this method in future research.« less

A PORTRAIT OF COLD GAS IN GALAXIES AT 60 pc RESOLUTION AND A SIMPLE METHOD TO TEST HYPOTHESES THAT LINK SMALL-SCALE ISM STRUCTURE TO GALAXY-SCALE PROCESSES

DOE Office of Scientific and Technical Information (OSTI.GOV)

Leroy, Adam K.; Hughes, Annie; Schruba, Andreas

2016-11-01

The cloud-scale density, velocity dispersion, and gravitational boundedness of the interstellar medium (ISM) vary within and among galaxies. In turbulent models, these properties play key roles in the ability of gas to form stars. New high-fidelity, high-resolution surveys offer the prospect to measure these quantities across galaxies. We present a simple approach to make such measurements and to test hypotheses that link small-scale gas structure to star formation and galactic environment. Our calculations capture the key physics of the Larson scaling relations, and we show good correspondence between our approach and a traditional “cloud properties” treatment. However, we argue thatmore » our method is preferable in many cases because of its simple, reproducible characterization of all emission. Using, low- J {sup 12}CO data from recent surveys, we characterize the molecular ISM at 60 pc resolution in the Antennae, the Large Magellanic Cloud (LMC), M31, M33, M51, and M74. We report the distributions of surface density, velocity dispersion, and gravitational boundedness at 60 pc scales and show galaxy-to-galaxy and intragalaxy variations in each. The distribution of flux as a function of surface density appears roughly lognormal with a 1 σ width of ∼0.3 dex, though the center of this distribution varies from galaxy to galaxy. The 60 pc resolution line width and molecular gas surface density correlate well, which is a fundamental behavior expected for virialized or free-falling gas. Varying the measurement scale for the LMC and M31, we show that the molecular ISM has higher surface densities, lower line widths, and more self-gravity at smaller scales.« less

Protostellar hydrodynamics: Constructing and testing a spacially and temporally second-order accurate method. 2: Cartesian coordinates

NASA Technical Reports Server (NTRS)

Myhill, Elizabeth A.; Boss, Alan P.

1993-01-01

In Boss & Myhill (1992) we described the derivation and testing of a spherical coordinate-based scheme for solving the hydrodynamic equations governing the gravitational collapse of nonisothermal, nonmagnetic, inviscid, radiative, three-dimensional protostellar clouds. Here we discuss a Cartesian coordinate-based scheme based on the same set of hydrodynamic equations. As with the spherical coorrdinate-based code, the Cartesian coordinate-based scheme employs explicit Eulerian methods which are both spatially and temporally second-order accurate. We begin by describing the hydrodynamic equations in Cartesian coordinates and the numerical methods used in this particular code. Following Finn & Hawley (1989), we pay special attention to the proper implementations of high-order accuracy, finite difference methods. We evaluate the ability of the Cartesian scheme to handle shock propagation problems, and through convergence testing, we show that the code is indeed second-order accurate. To compare the Cartesian scheme discussed here with the spherical coordinate-based scheme discussed in Boss & Myhill (1992), the two codes are used to calculate the standard isothermal collapse test case described by Bodenheimer & Boss (1981). We find that with the improved codes, the intermediate bar-configuration found previously disappears, and the cloud fragments directly into a binary protostellar system. Finally, we present the results from both codes of a new test for nonisothermal protostellar collapse.

The Green Bank Ammonia Survey of the Gould Belt

NASA Astrophysics Data System (ADS)

Friesen, Rachel; Pineda, Jaime; GAS Team

2018-01-01

The past several years have seen a tremendous advancement in our ability to characterize the structure of nearby molecular clouds traced by large-scale continuum surveys. Critical, comparable data on the dense gas kinematics and temperatures are needed to understand the history and future fate of star-forming material. Filling this gap is the Green Bank Ammonia Survey (GAS), an ambitious legacy survey for the Green Bank Telescope to observe key molecular tracers of dense gas within all Gould Belt clouds visible from the northern hemisphere. I will present the latest science from GAS, whose goals are to 1) evaluate the stability of dense gas structures as a function of scale, 2) track the dissipation of turbulence and evolution of angular momentum in filaments and cores, and 3) quantitatively test predictions of models of core and filament formation via mass flows and accretion.

Read clouds uncover variation in complex regions of the human genome

PubMed Central

Bishara, Alex; Liu, Yuling; Weng, Ziming; Kashef-Haghighi, Dorna; Newburger, Daniel E.; West, Robert; Sidow, Arend; Batzoglou, Serafim

2015-01-01

Although an increasing amount of human genetic variation is being identified and recorded, determining variants within repeated sequences of the human genome remains a challenge. Most population and genome-wide association studies have therefore been unable to consider variation in these regions. Core to the problem is the lack of a sequencing technology that produces reads with sufficient length and accuracy to enable unique mapping. Here, we present a novel methodology of using read clouds, obtained by accurate short-read sequencing of DNA derived from long fragment libraries, to confidently align short reads within repeat regions and enable accurate variant discovery. Our novel algorithm, Random Field Aligner (RFA), captures the relationships among the short reads governed by the long read process via a Markov Random Field. We utilized a modified version of the Illumina TruSeq synthetic long-read protocol, which yielded shallow-sequenced read clouds. We test RFA through extensive simulations and apply it to discover variants on the NA12878 human sample, for which shallow TruSeq read cloud sequencing data are available, and on an invasive breast carcinoma genome that we sequenced using the same method. We demonstrate that RFA facilitates accurate recovery of variation in 155 Mb of the human genome, including 94% of 67 Mb of segmental duplication sequence and 96% of 11 Mb of transcribed sequence, that are currently hidden from short-read technologies. PMID:26286554

Molecular analysis of Leptospira spp. isolated from humans by restriction fragment length polymorphism, real-time PCR and pulsed-field gel electrophoresis.

PubMed

Turk, Nenad; Milas, Zoran; Mojcec, Vesna; Ruzic-Sabljic, Eva; Staresina, Vilim; Stritof, Zrinka; Habus, Josipa; Postic, Daniele

2009-11-01

A total of 17 Leptospira clinical strains isolated from humans in Croatia were serologically and genetically analysed. For serovar identification, the microscopic agglutination test (MAT) and pulsed-field gel electrophoresis (PFGE) were used. To identify isolates on genomic species level, PCR-based restriction fragment length polymorphism (RFLP) and real-time PCR were performed. MAT revealed the following serogroup affinities: Grippotyphosa (seven isolates), Icterohaemorrhagiae (eight isolates) and Javanica (two isolates). RFLP of PCR products from a 331-bp-long fragment of rrs (16S rRNA gene) digested with endonucleases MnlI and DdeI and real-time PCR revealed three Leptospira genomic species. Grippotyphosa isolates belonged to Leptospira kirschneri, Icterohaemorrhagiae isolates to Leptospira interrogans and Javanica isolates to Leptospira borgpetersenii. Genomic DNA from 17 leptospiral isolates was digested with NotI and SgrAI restriction enzymes and analysed by PFGE. Results showed that seven isolates have the same binding pattern to serovar Grippotyphosa, eight isolates to serovar Icterohaemorrhagiae and two isolates to serovar Poi. Results demonstrate the diversity of leptospires circulating in Croatia. We point out the usefulness of a combination of PFGE, RFLP and real-time PCR as appropriate molecular methods in molecular analysis of leptospires.

Microbial production of ice crystals in clouds as a novel atmospheric biosignature

NASA Astrophysics Data System (ADS)

Santl-Temkiv, T.; Sahyoun, M.; Kjeldsen, H.; Ling, M.; Boesen, T.; Karlson, U. G.; Finster, K.

2014-03-01

A diverse assembly of exoplanets has been discovered during recent decades (Howard 2013), their atmospheres providing some of the most accessible evidence for the presence of biological activity on these planets. Metabolic gases have been commonly proposed as atmospheric biosignatures (Seager et al 2012). However, airborne microbes are also involved in cloud- and precipitation formation on Earth. Thus, meteorological phenomena may serve as alternative atmospheric biosignatures, for which appropriate observational techniques have yet to be developed. The atmospheric part of the Earth's water cycle heavily relies on the presence of nucleating particles, which promote the condensation and freezing of atmospheric water, both potentially leading to precipitation. While cloud condensation nuclei are diverse and relatively common, ice nuclei are poorly understood and comparably rare airborne particles. According to current knowledge, most ice nucleation below ñ15∞C is driven by the presence of inorganic dust particles, which are considered inactive at higher temperatures. Biogenic IN are the only reported particles that promote ice formation above ñ10∞C. Some bacteria, e.g. Pseudomonas syringae, produce Ice Nucleation Active (INA) proteins that are most efficient ice nuclei currently known. These INA bacteria are common in the atmosphere, and may thus be involved in precipitation processes of mixed phase clouds (Möhler et al 2007). We investigate the relevance of bacterial INA proteins for atmospheric processes using three approaches: (i) study of the presence of INA bacteria and their INA proteins in the atmosphere, (ii) a detailed molecular and physical study of isolated INA proteins, and finally (iii) a modeling study of the importance of INA proteins for ice-path in clouds as well as their importance for precipitation. During 14 precipitation events, we observed that 12% of isolated bacteria carried INA genes. INA bacteria had likely been emitted to the atmosphere from terrestrial surfaces, e.g. by convective transport. Additionally, we found INA biological fragments <220 nm in two precipitation samples (199, 482 INA per L), which indicates that in addition to intact cells, bacterial fragments that are more abundant than cells could also impact atmospheric processes. In order to study isolated INA proteins, we sequenced the INA gene from one of the isolated bacteria, Pseudomonas sp. R10.79. The INA gene will be expressed, purified and introduced into nano-discs. These INA nano-discs will facilitate a detailed molecular and physical study of INA proteins and its ice active properties. Most of modeling approaches rely on parameterizations based on classical nucleation theory, e.g. CH08 (Chen et al 2008), when introducing INA bacteria into climate models. Instead, we used an experimentally derived parameterization HAR13 (Hartmann et al 2013), when introducing bacteria into a 1-d operational weather forecast model HIRLAM (Unden et al 2002). By comparison HAR13 yields more ice and is more sensitive to the change of bacterial densities than CH08. While CH08 is a function of the size of the ice nuclei, HAR13 is a function of the number of INA protein complexes. INA protein complexes are the locations where the nucleation occurs and their number appears to be a more important parameter than cell size. We suggest that the study of individual INA proteins complexes both alone and on cell surfaces will lead to a better understanding of ice nucleation by INA bacteria.

A Low-metallicity Molecular Cloud in the Lower Galactic Halo

NASA Astrophysics Data System (ADS)

Hernandez, Audra K.; Wakker, Bart P.; Benjamin, Robert A.; French, David; Kerp, Juergen; Lockman, Felix J.; O'Toole, Simon; Winkel, Benjamin

2013-11-01

We find evidence for the impact of infalling, low-metallicity gas on the Galactic disk. This is based on FUV absorption line spectra, 21 cm emission line spectra, and far-infrared (FIR) mapping to estimate the abundance and physical properties of IV21 (IVC135+54-45), a galactic intermediate-velocity molecular cloud that lies ~300 pc above the disk. The metallicity of IV21 was estimated using observations toward the subdwarf B star PG1144+615, located at a projected distance of 16 pc from the cloud's densest core, by measuring ion and H I column densities for comparison with known solar abundances. Despite the cloud's bright FIR emission and large column densities of molecular gas as traced by CO, we find that it has a sub-solar metallicity of log (Z/Z ⊙) = -0.43 ± 0.12 dex. IV21 is thus the first known sub-solar metallicity cloud in the solar neighborhood. In contrast, most intermediate-velocity clouds (IVC) have near-solar metallicities and are believed to originate in the Galactic Fountain. The cloud's low metallicity is also atypical for Galactic molecular clouds, especially in light of the bright FIR emission which suggest a substantial dust content. The measured I 100 μm/N(H I) ratio is a factor of three below the average found in high latitude H I clouds within the solar neighborhood. We argue that IV21 represents the impact of an infalling, low-metallicity high-velocity cloud that is mixing with disk gas in the lower Galactic halo. Based on observations made with the NASA/ESA Hubble Space Telescope, obtained from MAST at the Space Telescope Science Institute, which is operated by the Association of Universities for Research in Astronomy, Inc., under NASA contract NAS 5-26555. These observations are associated with program No. 12275. The Green Bank Telescope is part of the National Radio Astronomy Observatory which is a Facility of the National Science Foundation, operated by Associated Universities, Inc.

A suite of molecular markers for identifying species, detecting introgression and describing population structure in spadefoot toads (Spea spp.).

PubMed

Pfennig, Karin S; Allenby, Ashley; Martin, Ryan A; Monroy, Anaïs; Jones, Corbin D

2012-09-01

Two congeneric species of spadefoot toad, Spea multiplicata and Spea bombifrons, have been the focus of hybridization studies since the 1970s. Because complex hybrids are not readily distinguished phenotypically, genetic markers are needed to identify introgressed individuals. We therefore developed a set of molecular markers (amplified fragment length polymorphism, polymerase chain reaction-restriction fragment length polymorphism and single nucleotide polymorphism) for identifying pure-species, F1 hybrids and more complex introgressed types. To do so, we tested a series of markers across both species and known hybrids using populations in both allopatry and sympatry. We retained those markers that differentiated the two pure-species and also consistently identified known species hybrids. These markers are well suited for identifying hybrids between these species. Moreover, those markers that show variation within each species can be used in conjunction with existing molecular markers in studies of population structure and gene flow. © 2012 Blackwell Publishing Ltd.

Selection of optical model of stereophotography experiment for determination the cloud base height as a problem of testing of statistical hypotheses

NASA Astrophysics Data System (ADS)

Chulichkov, Alexey I.; Nikitin, Stanislav V.; Emilenko, Alexander S.; Medvedev, Andrey P.; Postylyakov, Oleg V.

2017-10-01

Earlier, we developed a method for estimating the height and speed of clouds from cloud images obtained by a pair of digital cameras. The shift of a fragment of the cloud in the right frame relative to its position in the left frame is used to estimate the height of the cloud and its velocity. This shift is estimated by the method of the morphological analysis of images. However, this method requires that the axes of the cameras are parallel. Instead of real adjustment of the axes, we use virtual camera adjustment, namely, a transformation of a real frame, the result of which could be obtained if all the axes were perfectly adjusted. For such adjustment, images of stars as infinitely distant objects were used: on perfectly aligned cameras, images on both the right and left frames should be identical. In this paper, we investigate in more detail possible mathematical models of cloud image deformations caused by the misalignment of the axes of two cameras, as well as their lens aberration. The simplest model follows the paraxial approximation of lens (without lens aberrations) and reduces to an affine transformation of the coordinates of one of the frames. The other two models take into account the lens distortion of the 3rd and 3rd and 5th orders respectively. It is shown that the models differ significantly when converting coordinates near the edges of the frame. Strict statistical criteria allow choosing the most reliable model, which is as much as possible consistent with the measurement data. Further, each of these three models was used to determine parameters of the image deformations. These parameters are used to provide cloud images to mean what they would have when measured using an ideal setup, and then the distance to cloud is calculated. The results were compared with data of a laser range finder.

Method for the elucidation of the elemental composition of low molecular mass chemicals using exact masses of product ions and neutral losses: application to environmental chemicals measured by liquid chromatography with hybrid quadrupole/time-of-flight mass spectrometry.

PubMed

Suzuki, Shigeru; Ishii, Tetsuko; Yasuhara, Akio; Sakai, Shinichi

2005-01-01

A method for elucidating the elemental compositions of low molecular weight chemicals, based primarily on mass measurements made using liquid chromatography (LC) with time-of-flight mass spectrometry (TOFMS) and quadrupole/time-of-flight mass spectrometry (LC/QTOFMS), was developed and tested for 113 chemicals of environmental interest with molecular masses up to approximately 400 Da. As the algorithm incorporating the method is not affected by differences in the instrument used, or by the ionization method and other ionization conditions, the method is useful not only for LC/TOFMS, but also for all kinds of mass spectra measured with higher accuracy and precision (uncertainties of a few mDa) employing all ionization methods and on-line separation techniques. The method involves calculating candidate compositions for intact ionized molecules (ionized forms of the sample molecule that have lost or gained no more than a proton, i.e., [M+H](+) or [M-H](-)) as well as for fragment ions and corresponding neutral losses, and eliminating those atomic compositions for the molecules that are inconsistent with the corresponding candidate compositions of fragment ions and neutral losses. Candidate compositions were calculated for the measured masses of the intact ionized molecules and of the fragment ions and corresponding neutral losses, using mass uncertainties of 2 and 5 mDa, respectively. Compositions proposed for the ionized molecule that did not correspond to the sum of the compositions of a candidate fragment ion and its corresponding neutral loss were discarded. One, 2-5, 6-10, 11-20, and >20 candidate compositions were found for 65%, 39%, 1%, 1%, and 0%, respectively, for the 124 ionized molecules formed from the 113 chemicals tested (both positive and negative ions were obtained from 11 of the chemicals). However, no candidate composition was found for 2% of the test cases (i.e., 3 chemicals), for each of which the measured mass of one of the product ions was in error by 5-6.7 mDa.

Molecular Cloud Structures and Massive Star Formation in N159

NASA Astrophysics Data System (ADS)

Nayak, O.; Meixner, M.; Fukui, Y.; Tachihara, K.; Onishi, T.; Saigo, K.; Tokuda, K.; Harada, R.

2018-02-01

The N159 star-forming region is one of the most massive giant molecular clouds (GMCs) in the Large Magellanic Cloud (LMC). We show the 12CO, 13CO, CS molecular gas lines observed with ALMA in N159 west (N159W) and N159 east (N159E). We relate the structure of the gas clumps to the properties of 24 massive young stellar objects (YSOs) that include 10 newly identified YSOs based on our search. We use dendrogram analysis to identify properties of the molecular clumps, such as flux, mass, linewidth, size, and virial parameter. We relate the YSO properties to the molecular gas properties. We find that the CS gas clumps have a steeper size–linewidth relation than the 12CO or 13CO gas clumps. This larger slope could potentially occur if the CS gas is tracing shocks. The virial parameters of the 13CO gas clumps in N159W and N159E are low (<1). The threshold for massive star formation in N159W is 501 M ⊙ pc‑2, and the threshold for massive star formation in N159E is 794 M ⊙ pc‑2. We find that 13CO is more photodissociated in N159E than N159W. The most massive YSO in N159E has cleared out a molecular gas hole in its vicinity. All the massive YSO candidates in N159E have a more evolved spectral energy distribution type in comparison to the YSO candidates in N159W. These differences lead us to conclude that the giant molecular cloud complex in N159E is more evolved than the giant molecular cloud complex in N159W.

On the theory of group generation of stars

NASA Technical Reports Server (NTRS)

Zhilyayev, B. Y.; Porfiryev, V. V.; Shulman, L. M.

1973-01-01

The hypothesis proposed is that topology of a rotating gaseous cloud can be variable in the contraction process. Due to rotation an originally spherical cloud is transformed into a toroidal body. The contraction of a thin torus is considered with different suppositions on cooling the gas. In the determined time the torus will become gravitationally unstable. The excitation of Jeans' waves is shown to result in the disintegration of the torus into fragments. The number of the fragments and their mass distributions are calculated. The proposed hypothesis on toroidal stages in stellar evolution can remove some difficulties in the theory of structure and evolution of stars, such as absence of limitary stars, distribution of rotation velocities of early-type stars, origin of poloidal magnetic fields and decline rotators with the magnetic axis orthogonal to the axis of rotation.

Probing Massive Star Cluster Formation with ALMA

NASA Astrophysics Data System (ADS)

Johnson, Kelsey

2015-08-01

Observationally constraining the physical conditions that give rise to massive star clusters has been a long-standing challenge. Now with the ALMA Observatory coming on-line, we can finally begin to probe the birth environments of massive clusters in a variety of galaxies with sufficient angular resolution. In this talk I will give an overview of ALMA observations of galaxies in which candidate proto-super star cluster molecular clouds have been identified. These new data probe the physical conditions that give rise to super star clusters, providing information on their densities, pressures, and temperatures. In particular, the observations indicate that these clouds may be subject to external pressures of P/k > 108 K cm-3, which is consistent with the prevalence of optically observed adolescent super star clusters in interacting galaxy systems and other high pressure environments. ALMA observations also enable an assessement of the molecular cloud chemical abundances in the regions surrounding super star clusters. Molecular clouds associated with existing super star clusters are strongly correlated with HCO+ emission, but appear to have relatively low ratio of CO/HCO+ emission compared to other clouds, indicating that the super star clusters are impacting the molecular abundances in their vicinity.

Physical properties and scaling relations of molecular clouds: the effect of stellar feedback

NASA Astrophysics Data System (ADS)

Grisdale, Kearn; Agertz, Oscar; Renaud, Florent; Romeo, Alessandro B.

2018-06-01

Using hydrodynamical simulations of entire galactic discs similar to the Milky Way, reaching 4.6{ pc} resolution, we study the origins of observed physical properties of giant molecular clouds (GMCs). We find that efficient stellar feedback is a necessary ingredient in order to develop a realistic interstellar medium (ISM), leading to molecular cloud masses, sizes, velocity dispersions and virial parameters in excellent agreement with Milky Way observations. GMC scaling relations observed in the Milky Way, such as the mass-size (M-R), velocity dispersion-size (σ-R), and the σ-RΣ relations, are reproduced in a feedback driven ISM when observed in projection, with M∝R2.3 and σ∝R0.56. When analysed in 3D, GMC scaling relations steepen significantly, indicating potential limitations of our understanding of molecular cloud 3D structure from observations. Furthermore, we demonstrate how a GMC population's underlying distribution of virial parameters can strongly influence the scatter in derived scaling relations. Finally, we show that GMCs with nearly identical global properties exist in different evolutionary stages, where a majority of clouds being either gravitationally bound or expanding, but with a significant fraction being compressed by external ISM pressure, at all times.

Improved sliced velocity map imaging apparatus optimized for H photofragments.

PubMed

Ryazanov, Mikhail; Reisler, Hanna

2013-04-14

Time-sliced velocity map imaging (SVMI), a high-resolution method for measuring kinetic energy distributions of products in scattering and photodissociation reactions, is challenging to implement for atomic hydrogen products. We describe an ion optics design aimed at achieving SVMI of H fragments in a broad range of kinetic energies (KE), from a fraction of an electronvolt to a few electronvolts. In order to enable consistently thin slicing for any imaged KE range, an additional electrostatic lens is introduced in the drift region for radial magnification control without affecting temporal stretching of the ion cloud. Time slices of ∼5 ns out of a cloud stretched to ⩾50 ns are used. An accelerator region with variable dimensions (using multiple electrodes) is employed for better optimization of radial and temporal space focusing characteristics at each magnification level. The implemented system was successfully tested by recording images of H fragments from the photodissociation of HBr, H2S, and the CH2OH radical, with kinetic energies ranging from <0.4 eV to >3 eV. It demonstrated KE resolution ≲1%-2%, similar to that obtained in traditional velocity map imaging followed by reconstruction, and to KE resolution achieved previously in SVMI of heavier products. We expect it to perform just as well up to at least 6 eV of kinetic energy. The tests showed that numerical simulations of the electric fields and ion trajectories in the system, used for optimization of the design and operating parameters, provide an accurate and reliable description of all aspects of system performance. This offers the advantage of selecting the best operating conditions in each measurement without the need for additional calibration experiments.

Cold Water Vapor in the Barnard 5 Molecular Cloud

NASA Technical Reports Server (NTRS)

Wirstrom, E. S.; Charnley, S. B.; Persson, C. M.; Buckle, J. V.; Cordiner, M. A.; Takakuwa, S.

2014-01-01

After more than 30 yr of investigations, the nature of gas-grain interactions at low temperatures remains an unresolved issue in astrochemistry. Water ice is the dominant ice found in cold molecular clouds; however, there is only one region where cold ((is) approximately 10 K) water vapor has been detected-L1544. This study aims to shed light on ice desorption mechanisms under cold cloud conditions by expanding the sample. The clumpy distribution of methanol in dark clouds testifies to transient desorption processes at work-likely to also disrupt water ice mantles. Therefore, the Herschel HIFI instrument was used to search for cold water in a small sample of prominent methanol emission peaks. We report detections of the ground-state transition of o-H2O (J = 110-101) at 556.9360 GHz toward two positions in the cold molecular cloud, Barnard 5. The relative abundances of methanol and water gas support a desorption mechanism which disrupts the outer ice mantle layers, rather than causing complete mantle removal.

Triggering collapse of the presolar dense cloud core and injecting short-lived radioisotopes with a shock wave. III. Rotating three-dimensional cloud cores

DOE Office of Scientific and Technical Information (OSTI.GOV)

Boss, Alan P.; Keiser, Sandra A., E-mail: boss@dtm.ciw.edu

2014-06-10

A key test of the supernova triggering and injection hypothesis for the origin of the solar system's short-lived radioisotopes is to reproduce the inferred initial abundances of these isotopes. We present here the most detailed models to date of the shock wave triggering and injection process, where shock waves with varied properties strike fully three-dimensional, rotating, dense cloud cores. The models are calculated with the FLASH adaptive mesh hydrodynamics code. Three different outcomes can result: triggered collapse leading to fragmentation into a multiple protostar system; triggered collapse leading to a single protostar embedded in a protostellar disk; or failure tomore » undergo dynamic collapse. Shock wave material is injected into the collapsing clouds through Rayleigh-Taylor fingers, resulting in initially inhomogeneous distributions in the protostars and protostellar disks. Cloud rotation about an axis aligned with the shock propagation direction does not increase the injection efficiency appreciably, as the shock parameters were chosen to be optimal for injection even in the absence of rotation. For a shock wave from a core-collapse supernova, the dilution factors for supernova material are in the range of ∼10{sup –4} to ∼3 × 10{sup –4}, in agreement with recent laboratory estimates of the required amount of dilution for {sup 60}Fe and {sup 26}Al. We conclude that a type II supernova remains as a promising candidate for synthesizing the solar system's short-lived radioisotopes shortly before their injection into the presolar cloud core by the supernova's remnant shock wave.« less

Giant Molecular Clouds with High Abundance of Atomic Carbon and Cyano Radical in the Milky Way's Central Molecular Zone

NASA Astrophysics Data System (ADS)

Tanaka, Kunihiko; Oka, Tomoharu; Nagai, Makoto; Kamegai, Kazuhisa

2015-08-01

The central 400 pc region of the Milky Way Galaxy is the closest galactic central region to us, providing a unique opportunity to detailedly investigate gas dynamics, star formation activity, and chemistry under the extreme environment of galactic centers, where the presence of bar, intense UV/cosmic-ray fluxes, high degree of turbulence may significantly affect those processes. We report the results of molecular line surveys toward the Milky Way's central molecular zone (CMZ) performed with the ASTE 10m telescope, the Mopra 22m telescope, and the Nobeyama 45 m telescope. With the observations of the 500 GHz [CI] fine structure line of atomic carbon (C0), we have found a molecular cloud structure with remarkably bright [CI] emission in the Sgr A comlex in the innermost 20 pc region. The [CI] cloud is more extended than the GMCs in the region, and appears to connect the northern part of the 50 kms-1 (M-0.02-0.07) and the circumnuclear disk (CND), though no corresponding structures are visible in other molecular lines. The [C0]/[CO] abundance ratio is measured to be 0.5-2, which is 2-10 times those measured to the clouds at larger Galactic radii. This high ratio is close to the values measured toward centers of galaxies with starburst and AGN, suggesting that the chemical state of the cloud is similar to that in those active galaxies. We have also found a large scale gradient of the cyano radical (CN) abundance toward the Galactic center in the innermost 100 pc radius, showing near the Sgr A complex. We suggest that the cloud with high C0 and CN abundance is a feature formed as a result of inward transfer of diffuse molecular gas by the bar potential in the inner Galaxy, in which PDR-like chemical composition remains preserved, and that thus the [CI] cloud could be deeply related to formation of the GMCs and star formation in the CMZ. We also discuss other possible mechanisms to enhance C0 and CN abundances, including the enhanced cosmic-ray dissociation ratio.

Time evolution of giant molecular cloud mass functions with cloud-cloud collisions and gas resurrection in various environments

NASA Astrophysics Data System (ADS)

Kobayashi, M. I. N.; Inutsuka, S.; Kobayashi, H.; Hasegawa, K.

We formulate the evolution equation for the giant molecular cloud (GMC) mass functions including self-growth of GMCs through the thermal instability, self-dispersal due to massive stars born in GMCs, cloud-cloud collisions (CCCs), and gas resurrection that replenishes the minimum-mass GMC population. The computed time evolutions obtained from this formulation suggest that the slope of GMC mass function in the mass range <105.5 Mȯ is governed by the ratio of GMC formation timescale to its dispersal timescale, and that the CCC process modifies only the massive end of the mass function. Our results also suggest that most of the dispersed gas contributes to the mass growth of pre-existing GMCs in arm regions whereas less than 60 per cent contributes in inter-arm regions.

Millimeter-wave molecular line observations of the Tornado nebula

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sakai, D.; Oka, T.; Tanaka, K.

We report the results of millimeter-wave molecular line observations of the Tornado Nebula (G357.7-0.1), which is a bright radio source behind the Galactic center region. A 15' × 15' area was mapped in the J = 1-0 lines of CO, {sup 13}CO, and HCO{sup +} with the Nobeyama Radio Observatory 45 m telescope. The Very Large Array archival data of OH at 1720 MHz were also reanalyzed. We found two molecular clouds with separate velocities, V{sub LSR} = –14 km s{sup –1} and +5 km s{sup –1}. These clouds show rough spatial anti-correlation. Both clouds are associated with OH 1720more » MHz emissions in the area overlapping with the Tornado Nebula. The spatial and velocity coincidence indicates violent interaction between the clouds and the Tornado Nebula. Modestly excited gas prefers the position of the Tornado 'head' in the –14 km s{sup –1} cloud, also suggesting the interaction. Virial analysis shows that the +5 km s{sup –1} cloud is more tightly bound by self-gravity than the –14 km s{sup –1} cloud. We propose a formation scenario for the Tornado Nebula; the +5 km s{sup –1} cloud collided into the –14 km s{sup –1} cloud, generating a high-density layer behind the shock front, which activates a putative compact object by Bondi-Hoyle-Lyttleton accretion to eject a pair of bipolar jets.« less

A Monte Carlo Approach to Modeling the Breakup of the Space Launch System EM-1 Core Stage with an Integrated Blast and Fragment Catalogue

NASA Technical Reports Server (NTRS)

Richardson, Erin; Hays, M. J.; Blackwood, J. M.; Skinner, T.

2014-01-01

The Liquid Propellant Fragment Overpressure Acceleration Model (L-FOAM) is a tool developed by Bangham Engineering Incorporated (BEi) that produces a representative debris cloud from an exploding liquid-propellant launch vehicle. Here it is applied to the Core Stage (CS) of the National Aeronautics and Space Administration (NASA) Space Launch System (SLS launch vehicle). A combination of Probability Density Functions (PDF) based on empirical data from rocket accidents and applicable tests, as well as SLS specific geometry are combined in a MATLAB script to create unique fragment catalogues each time L-FOAM is run-tailored for a Monte Carlo approach for risk analysis. By accelerating the debris catalogue with the BEi blast model for liquid hydrogen / liquid oxygen explosions, the result is a fully integrated code that models the destruction of the CS at a given point in its trajectory and generates hundreds of individual fragment catalogues with initial imparted velocities. The BEi blast model provides the blast size (radius) and strength (overpressure) as probabilities based on empirical data and anchored with analytical work. The coupling of the L-FOAM catalogue with the BEi blast model is validated with a simulation of the Project PYRO S-IV destruct test. When running a Monte Carlo simulation, L-FOAM can accelerate all catalogues with the same blast (mean blast, 2 s blast, etc.), or vary the blast size and strength based on their respective probabilities. L-FOAM then propagates these fragments until impact with the earth. Results from L-FOAM include a description of each fragment (dimensions, weight, ballistic coefficient, type and initial location on the rocket), imparted velocity from the blast, and impact data depending on user desired application. LFOAM application is for both near-field (fragment impact to escaping crew capsule) and far-field (fragment ground impact footprint) safety considerations. The user is thus able to use statistics from a Monte Carlo set of L-FOAM catalogues to quantify risk for a multitude of potential CS destruct scenarios. Examples include the effect of warning time on the survivability of an escaping crew capsule or the maximum fragment velocities generated by the ignition of leaking propellants in internal cavities.

Collisional excitation of molecules in dense interstellar clouds

NASA Technical Reports Server (NTRS)

Green, S.

1985-01-01

State transitions which permit the identification of the molecular species in dense interstellar clouds are reviewed, along with the techniques used to calculate the transition energies, the database on known molecular transitions and the accuracy of the values. The transition energies cannot be measured directly and therefore must be modeled analytically. Scattering theory is used to determine the intermolecular forces on the basis of quantum mechanics. The nuclear motions can also be modeled with classical mechanics. Sample rate constants are provided for molecular systems known to inhabit dense interstellar clouds. The values serve as a database for interpreting microwave and RF astrophysical data on the transitions undergone by interstellar molecules.

Global Studies of Molecular Clouds in the Galaxy, the Magellanic Cloud and M31

NASA Technical Reports Server (NTRS)

Thaddeus, Patrick

1998-01-01

Over the past five years we have used our extensive CO surveys of the Galaxy and M31 in conjunction with spacecraft observations to address central problems in galactic structure and the astrophysics of molecular clouds. These problems included the nature of the molecular ring and its relation to the spiral arms and central bar, the cosmic ray distribution, the origin of the diffuse X-ray background, the distribution and properties of x-ray sources and supernova remnants, and the Galactic stellar mass distribution. For many of these problems, the nearby spiral M31 provided an important complementary perspective.

A Herschel-SPIRE Survey of the MonR2 Giant Molecular Cloud

NASA Astrophysics Data System (ADS)

Pokhrel, Riwaj; Gutermuth, Robert; Ali, Babar; Megeath, Thomas; Pipher, Judith; Myers, Philip; Fischer, William; Henning, Thomas; Wolk, Scott; Allen, Lori; Tobin, John

2015-08-01

We present a new survey of the MonR2 giant molecular cloud with SPIRE on the Herschel Space Observatory. We cross-calibrated SPIRE data with Planck-HFI and accounted for its absolute offset and zero point correction. We fixed emissivity with the help of flux-error and flux ratio plots. As the best representation of cold dusty molecular clouds, we did greybody fits of the SEDs. We studied the nature of distribution of column densities above and below certain critical limit, followed by the mass and temperature distributions for different regions. We used dendrograms as a technique to study the hierarchical structures in the GMC.

FOREST Unbiased Galactic plane Imaging survey with the Nobeyama 45 m telescope (FUGIN): Molecular clouds toward W ; possible evidence for a cloud-cloud collision triggering O star formation

NASA Astrophysics Data System (ADS)

Kohno, Mikito; Torii, Kazufumi; Tachihara, Kengo; Umemoto, Tomofumi; Minamidani, Tetsuhiro; Nishimura, Atsushi; Fujita, Shinji; Matsuo, Mitsuhiro; Yamagishi, Mitsuyoshi; Tsuda, Yuya; Kuriki, Mika; Kuno, Nario; Ohama, Akio; Hattori, Yusuke; Sano, Hidetoshi; Yamamoto, Hiroaki; Fukui, Yasuo

2018-05-01

We observed molecular clouds in the W 33 high-mass star-forming region associated with compact and extended H II regions using the NANTEN2 telescope as well as the Nobeyama 45 m telescope in the J = 1-0 transitions of 12CO, 13CO, and C18O as part of the FOREST Unbiased Galactic plane Imaging survey with the Nobeyama 45 m telescope (FUGIN) legacy survey. We detected three velocity components at 35 km s-1, 45 km s-1, and 58 km s-1. The 35 km s-1 and 58 km s-1 clouds are likely to be physically associated with W 33 because of the enhanced 12CO J = 3-2 to J = 1-0 intensity ratio as R_3-2/1-0 > 1.0 due to the ultraviolet irradiation by OB stars, and morphological correspondence between the distributions of molecular gas and the infrared and radio continuum emissions excited by high-mass stars. The two clouds show complementary distributions around W 33. The velocity separation is too large to be gravitationally bound, and yet not explained by expanding motion by stellar feedback. Therefore, we discuss whether a cloud-cloud collision scenario likely explains the high-mass star formation in W 33.

FOREST Unbiased Galactic plane Imaging survey with the Nobeyama 45 m telescope (FUGIN): Molecular clouds toward W 33; possible evidence for a cloud-cloud collision triggering O star formation

NASA Astrophysics Data System (ADS)

Kohno, Mikito; Torii, Kazufumi; Tachihara, Kengo; Umemoto, Tomofumi; Minamidani, Tetsuhiro; Nishimura, Atsushi; Fujita, Shinji; Matsuo, Mitsuhiro; Yamagishi, Mitsuyoshi; Tsuda, Yuya; Kuriki, Mika; Kuno, Nario; Ohama, Akio; Hattori, Yusuke; Sano, Hidetoshi; Yamamoto, Hiroaki; Fukui, Yasuo

2018-01-01

We observed molecular clouds in the W 33 high-mass star-forming region associated with compact and extended H II regions using the NANTEN2 telescope as well as the Nobeyama 45 m telescope in the J = 1-0 transitions of 12CO, 13CO, and C18O as part of the FOREST Unbiased Galactic plane Imaging survey with the Nobeyama 45 m telescope (FUGIN) legacy survey. We detected three velocity components at 35 km s-1, 45 km s-1, and 58 km s-1. The 35 km s-1 and 58 km s-1 clouds are likely to be physically associated with W 33 because of the enhanced 12CO J = 3-2 to J = 1-0 intensity ratio as R3-2/1-0 > 1.0 due to the ultraviolet irradiation by OB stars, and morphological correspondence between the distributions of molecular gas and the infrared and radio continuum emissions excited by high-mass stars. The two clouds show complementary distributions around W 33. The velocity separation is too large to be gravitationally bound, and yet not explained by expanding motion by stellar feedback. Therefore, we discuss whether a cloud-cloud collision scenario likely explains the high-mass star formation in W 33.

FOREST Unbiased Galactic plane Imaging survey with the Nobeyama 45 m telescope (FUGIN): Molecular clouds toward W 33; possible evidence for a cloud-cloud collision triggering O star formation

NASA Astrophysics Data System (ADS)

Kohno, Mikito; Torii, Kazufumi; Tachihara, Kengo; Umemoto, Tomofumi; Minamidani, Tetsuhiro; Nishimura, Atsushi; Fujita, Shinji; Matsuo, Mitsuhiro; Yamagishi, Mitsuyoshi; Tsuda, Yuya; Kuriki, Mika; Kuno, Nario; Ohama, Akio; Hattori, Yusuke; Sano, Hidetoshi; Yamamoto, Hiroaki; Fukui, Yasuo

2018-05-01

We observed molecular clouds in the W 33 high-mass star-forming region associated with compact and extended H II regions using the NANTEN2 telescope as well as the Nobeyama 45 m telescope in the J = 1-0 transitions of 12CO, 13CO, and C18O as part of the FOREST Unbiased Galactic plane Imaging survey with the Nobeyama 45 m telescope (FUGIN) legacy survey. We detected three velocity components at 35 km s-1, 45 km s-1, and 58 km s-1. The 35 km s-1 and 58 km s-1 clouds are likely to be physically associated with W 33 because of the enhanced 12CO J = 3-2 to J = 1-0 intensity ratio as R_3-2/1-0} > 1.0 due to the ultraviolet irradiation by OB stars, and morphological correspondence between the distributions of molecular gas and the infrared and radio continuum emissions excited by high-mass stars. The two clouds show complementary distributions around W 33. The velocity separation is too large to be gravitationally bound, and yet not explained by expanding motion by stellar feedback. Therefore, we discuss whether a cloud-cloud collision scenario likely explains the high-mass star formation in W 33.

Cold Atomic Hydrogen, Narrow Self-Absorption, and the Age of Molecular Clouds

NASA Technical Reports Server (NTRS)

Goldsmith, Paul F.

2006-01-01

This viewgraph presentation reviews the history, and current work on HI and its importance in star formation. Through many observations of HI Narrow Self Absorption (HINSA) the conclusions are drawn and presented. Local molecular clouds have HI well-mixed with molecular constituents This HI is cold, quiescent, and must be well-shielded from the UV radiation field The density and fractional abundance (wrt H2) of the cold HI are close to steady state values The time required to convert these starless clouds from purely HI initial state to observed present composition is a few to ten million years This timescale is a lower limit - if dense clouds being swept up from lower density regions by shocks, the time to accumulate material to get A(sub v) is approximately 1 and provide required shielding may be comparable or longer

Molecular clouds in the NGC 6334 and NGC 6357 region: Evidence for a 100 pc-scale cloud-cloud collision triggering the Galactic mini-starbursts

NASA Astrophysics Data System (ADS)

Fukui, Yasuo; Kohno, Mikito; Yokoyama, Keiko; Torii, Kazufumi; Hattori, Yusuke; Sano, Hidetoshi; Nishimura, Atsushi; Ohama, Akio; Yamamoto, Hiroaki; Tachihara, Kengo

2018-03-01

We carried out new CO (J = 1-0, 2-1, and 3-2) observations with NANTEN2 and ASTE in the region of the twin Galactic mini-starbursts NGC 6334 and NGC 6357. We detected two velocity molecular components of 12 km s-1 velocity separation, which is continuous over 3° along the plane. In NGC 6334 the two components show similar two-peaked intensity distributions toward the young H II regions and are linked by a bridge feature. In NGC 6357 we found spatially complementary distribution between the two velocity components as well as a bridge feature in velocity. Based on these results we hypothesize that the two clouds in the two regions collided with each other in the past few Myr and triggered the formation of the starbursts over ˜ 100 pc. We suggest that the formation of the starbursts happened toward the collisional region of extent ˜ 10 pc with initial high molecular column densities. For NGC 6334 we present a scenario which includes spatial variation of the colliding epoch due to non-uniform cloud separation. The scenario possibly explains the apparent age differences among the young O stars in NGC 6334, which range from 104 yr to 106 yr; the latest collision happened within 105 yr toward the youngest stars in NGC 6334 I(N) and I which exhibit molecular outflows without H II regions. For NGC 6357 the O stars were formed a few Myr ago, and the cloud dispersal by the O stars is significant. We conclude that cloud-cloud collision offers a possible explanation of the mini-starburst over a 100 pc scale.

Molecular clouds in the NGC 6334 and NGC 6357 region; Evidence for a 100-pc-scale cloud-cloud collision triggering the Galactic mini-starbursts

NASA Astrophysics Data System (ADS)

Fukui, Yasuo; Kohno, Mikito; Yokoyama, Keiko; Torii, Kazufumi; Hattori, Yusuke; Sano, Hidetoshi; Nishimura, Atsushi; Ohama, Akio; Yamamoto, Hiroaki; Tachihara, Kengo

2018-03-01

We carried out new CO (J = 1-0, 2-1, and 3-2) observations with NANTEN2 and ASTE in the region of the twin Galactic mini-starbursts NGC 6334 and NGC 6357. We detected two velocity molecular components of 12 km s-1 velocity separation, which is continuous over 3° along the plane. In NGC 6334 the two components show similar two-peaked intensity distributions toward the young H II regions and are linked by a bridge feature. In NGC 6357 we found spatially complementary distribution between the two velocity components as well as a bridge feature in velocity. Based on these results we hypothesize that the two clouds in the two regions collided with each other in the past few Myr and triggered the formation of the starbursts over ˜ 100 pc. We suggest that the formation of the starbursts happened toward the collisional region of extent ˜ 10 pc with initial high molecular column densities. For NGC 6334 we present a scenario which includes spatial variation of the colliding epoch due to non-uniform cloud separation. The scenario possibly explains the apparent age differences among the young O stars in NGC 6334, which range from 104 yr to 106 yr; the latest collision happened within 105 yr toward the youngest stars in NGC 6334 I(N) and I which exhibit molecular outflows without H II regions. For NGC 6357 the O stars were formed a few Myr ago, and the cloud dispersal by the O stars is significant. We conclude that cloud-cloud collision offers a possible explanation of the mini-starburst over a 100-pc scale.

Molecular clouds in the NGC 6334 and NGC 6357 region: Evidence for a 100 pc-scale cloud-cloud collision triggering the Galactic mini-starbursts

NASA Astrophysics Data System (ADS)

Fukui, Yasuo; Kohno, Mikito; Yokoyama, Keiko; Torii, Kazufumi; Hattori, Yusuke; Sano, Hidetoshi; Nishimura, Atsushi; Ohama, Akio; Yamamoto, Hiroaki; Tachihara, Kengo

2018-05-01

We carried out new CO (J = 1-0, 2-1, and 3-2) observations with NANTEN2 and ASTE in the region of the twin Galactic mini-starbursts NGC 6334 and NGC 6357. We detected two velocity molecular components of 12 km s-1 velocity separation, which is continuous over 3° along the plane. In NGC 6334 the two components show similar two-peaked intensity distributions toward the young H II regions and are linked by a bridge feature. In NGC 6357 we found spatially complementary distribution between the two velocity components as well as a bridge feature in velocity. Based on these results we hypothesize that the two clouds in the two regions collided with each other in the past few Myr and triggered the formation of the starbursts over ˜ 100 pc. We suggest that the formation of the starbursts happened toward the collisional region of extent ˜ 10 pc with initial high molecular column densities. For NGC 6334 we present a scenario which includes spatial variation of the colliding epoch due to non-uniform cloud separation. The scenario possibly explains the apparent age differences among the young O stars in NGC 6334, which range from 104 yr to 106 yr; the latest collision happened within 105 yr toward the youngest stars in NGC 6334 I(N) and I which exhibit molecular outflows without H II regions. For NGC 6357 the O stars were formed a few Myr ago, and the cloud dispersal by the O stars is significant. We conclude that cloud-cloud collision offers a possible explanation of the mini-starburst over a 100 pc scale.

Hydrodynamic simulations of mechanical stellar feedback in a molecular cloud formed by thermal instability

NASA Astrophysics Data System (ADS)

Wareing, C. J.; Pittard, J. M.; Falle, S. A. E. G.

2017-09-01

We have used the AMR hydrodynamic code, mg, to perform 3D hydrodynamic simulations with self-gravity of stellar feedback in a spherical clumpy molecular cloud formed through the action of thermal instability. We simulate the interaction of the mechanical energy input from 15, 40, 60 and 120 M⊙ stars into a 100 pc diameter 16 500 M⊙ cloud with a roughly spherical morphology with randomly distributed high-density condensations. The stellar winds are introduced using appropriate non-rotating Geneva stellar evolution models. In the 15 M⊙ star case, the wind has very little effect, spreading around a few neighbouring clumps before becoming overwhelmed by the cloud collapse. In contrast, in the 40, 60 and 120 M⊙ star cases, the more powerful stellar winds create large cavities and carve channels through the cloud, breaking out into the surrounding tenuous medium during the wind phase and considerably altering the cloud structure. After 4.97, 3.97 and 3.01 Myr, respectively, the massive stars explode as supernovae (SNe). The wind-sculpted surroundings considerably affect the evolution of these SN events as they both escape the cloud along wind-carved channels and sweep up remaining clumps of cloud/wind material. The 'cloud' as a coherent structure does not survive the SN from any of these stars, but only in the 120 M⊙ case is the cold molecular material completely destabilized and returned to the unstable thermal phase. In the 40 and 60 M⊙ cases, coherent clumps of cold material are ejected from the cloud by the SN, potentially capable of further star formation.

Widespread deuteration across the IRDC G035.39-00.33

NASA Astrophysics Data System (ADS)

Barnes, A. T.; Kong, S.; Tan, J. C.; Henshaw, J. D.; Caselli, P.; Jiménez-Serra, I.; Fontani, F.

2016-05-01

Infrared Dark Clouds (IRDCs) are cold, dense regions that are usually found within Giant Molecular Clouds. Ongoing star formation within IRDCs is typically still deeply embedded within the surrounding molecular gas. Characterizing the properties of relatively quiescent IRDCs may therefore help us to understand the earliest phases of the star formation process. Studies of local molecular clouds have revealed that deuterated species are enhanced in the earliest phases of star formation. In this paper, we test this towards IRDC G035.39-00.33. We present an 80 arcsec by 140 arcsec map of the J = 2 → 1 transition of N2D+, obtained with the Institut de Radioastronomie Millimétrique 30 m telescope telescope. We find that N2D+ is widespread throughout G035.39-00.33. Complementary observations of N2H+ (1 - 0) are used to estimate the deuterium fraction, D_frac^N_2H^+ ≡ N(N2D+)/N(N2H+). We report a mean D_frac^N_2H^+ = 0.04 ± 0.01, with a maximum of D_frac^N_2H^+ = 0.09 ± 0.02. The mean deuterium fraction is ˜3 orders of magnitude greater than the interstellar [D]/[H] ratio. High angular resolution observations are required to exclude beam dilution effects of compact deuterated cores. Using chemical modelling, we find that the average observed values of D_frac^N_2H^+are in agreement with an equilibrium deuterium fraction, given the general properties of the cloud. This implies that the IRDC is at least ˜3 Myr old, which is ˜8 times longer than the mean free-fall time of the observed deuterated region.

Coupling Matched Molecular Pairs with Machine Learning for Virtual Compound Optimization.

PubMed

Turk, Samo; Merget, Benjamin; Rippmann, Friedrich; Fulle, Simone

2017-12-26

Matched molecular pair (MMP) analyses are widely used in compound optimization projects to gain insights into structure-activity relationships (SAR). The analysis is traditionally done via statistical methods but can also be employed together with machine learning (ML) approaches to extrapolate to novel compounds. The here introduced MMP/ML method combines a fragment-based MMP implementation with different machine learning methods to obtain automated SAR decomposition and prediction. To test the prediction capabilities and model transferability, two different compound optimization scenarios were designed: (1) "new fragments" which occurs when exploring new fragments for a defined compound series and (2) "new static core and transformations" which resembles for instance the identification of a new compound series. Very good results were achieved by all employed machine learning methods especially for the new fragments case, but overall deep neural network models performed best, allowing reliable predictions also for the new static core and transformations scenario, where comprehensive SAR knowledge of the compound series is missing. Furthermore, we show that models trained on all available data have a higher generalizability compared to models trained on focused series and can extend beyond chemical space covered in the training data. Thus, coupling MMP with deep neural networks provides a promising approach to make high quality predictions on various data sets and in different compound optimization scenarios.

Mapping of the extinction in giant molecular clouds using optical star counts

NASA Astrophysics Data System (ADS)

Cambrésy, L.

1999-05-01

This paper presents large scale extinction maps of most nearby Giant Molecular Clouds of the Galaxy (Lupus, rho Ophiuchus, Scorpius, Coalsack, Taurus, Chamaeleon, Musca, Corona Australis, Serpens, IC 5146, Vela, Orion, Monoceros R1 and R2, Rosette, Carina) derived from a star count method using an adaptive grid and a wavelet decomposition applied to the optical data provided by the USNO-Precision Measuring Machine. The distribution of the extinction in the clouds leads to estimate their total individual masses M and their maximum of extinction. I show that the relation between the mass contained within an iso-extinction contour and the extinction is similar from cloud to cloud and allows the extrapolation of the maximum of extinction in the range 5.7 to 25.5 magnitudes. I found that about half of the mass is contained in regions where the visual extinction is smaller than 1 magnitude. The star count method used on large scale ( ~ 250 square degrees) is a powerful and relatively straightforward method to estimate the mass of molecular complexes. A systematic study of the all sky would lead to discover new clouds as I did in the Lupus complex for which I found a sixth cloud of about 10(4) M_⊙.

H2 emission as a tracer of molecular hydrogen: Large-scale observations of Orion

NASA Technical Reports Server (NTRS)

Luhman, M. L.; Jaffe, D. T.; Keller, L. D.; Pak, Soojong

1994-01-01

We have detected extremely extended (greater than 1.5 deg, or 12 pc) near-infrared H2 line emission from the Orion A molecular cloud. We have mapped emission in the 1.601 micrometer(s) upsilon = 6 - 4 Q(1) and 2.121 micrometer(s) upsilon = 1 - 0 S(1) lines of H2 along a approx. 2 deg R.A. cut and from a 6' x 6' region near theta(sup 1) Ori C. The surface brightness of the extended H2 line emission is 10(exp -6) to 10(exp -5) ergs/s/sq. cm/sr. Based on the distribution and relative strengths of the H2 lines, we conclude that UV fluorescene is most likely the dominant H2 emission mechanism in the outer parts of the Orion cloud. Shock-heated gas does not make a major contribution to the H2 emission in this region. The fluorescent component of the total H2 upsilon = 1 - 0 S(1) luminosity from Orion is 30-40 solar luminosity. Molecular hydrogen excited by UV radiation from nearby OB stars contributes 98%-99% of the global H2 line emission from the Orion molecular cloud, even though this cloud has a powerful shock-excited H2 source in its core. The ability to detect large-scale H2 directly opens up new possibilities for the study of molecular clouds.

The Development of Novel Chemical Fragment-Based Descriptors Using Frequent Common Subgraph Mining Approach and Their Application in QSAR Modeling.

PubMed

Khashan, Raed; Zheng, Weifan; Tropsha, Alexander

2014-03-01

We present a novel approach to generating fragment-based molecular descriptors. The molecules are represented by labeled undirected chemical graph. Fast Frequent Subgraph Mining (FFSM) is used to find chemical-fragments (subgraphs) that occur in at least a subset of all molecules in a dataset. The collection of frequent subgraphs (FSG) forms a dataset-specific descriptors whose values for each molecule are defined by the number of times each frequent fragment occurs in this molecule. We have employed the FSG descriptors to develop variable selection k Nearest Neighbor (kNN) QSAR models of several datasets with binary target property including Maximum Recommended Therapeutic Dose (MRTD), Salmonella Mutagenicity (Ames Genotoxicity), and P-Glycoprotein (PGP) data. Each dataset was divided into training, test, and validation sets to establish the statistical figures of merit reflecting the model validated predictive power. The classification accuracies of models for both training and test sets for all datasets exceeded 75 %, and the accuracy for the external validation sets exceeded 72 %. The model accuracies were comparable or better than those reported earlier in the literature for the same datasets. Furthermore, the use of fragment-based descriptors affords mechanistic interpretation of validated QSAR models in terms of essential chemical fragments responsible for the compounds' target property. © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Atmospheric Energy Deposition Modeling and Inference for Varied Meteoroid Structures

NASA Technical Reports Server (NTRS)

Wheeler, Lorien; Mathias, Donovan; Stokan, Edward; Brown, Peter

2018-01-01

Asteroids populations are highly diverse, ranging from coherent monoliths to loosely-bound rubble piles with a broad range of material and compositional properties. These different structures and properties could significantly affect how an asteroid breaks up and deposits energy in the atmosphere, and how much ground damage may occur from resulting blast waves. We have previously developed a fragment-cloud model (FCM) for assessing the atmospheric breakup and energy deposition of asteroids striking Earth. The approach represents ranges of breakup characteristics by combining progressive fragmentation with releases of variable fractions of debris and larger discrete fragments. In this work, we have extended the FCM to also represent asteroids with varied initial structures, such as rubble piles or fractured bodies. We have used the extended FCM to model the Chelyabinsk, Benesov, Kosice, and Tagish Lake meteors, and have obtained excellent matches to energy deposition profiles derived from their light curves. These matches provide validation for the FCM approach, help guide further model refinements, and enable inferences about pre-entry structure and breakup behavior. Results highlight differences in the amount of small debris vs. discrete fragments in matching the various flare characteristics of each meteor. The Chelyabinsk flares were best represented using relatively high debris fractions, while Kosice and Benesov cases were more notably driven by their discrete fragmentation characteristics, perhaps indicating more cohesive initial structures. Tagish Lake exhibited a combination of these characteristics, with lower-debris fragmentation at high altitudes followed by sudden disintegration into small debris in the lower flares. Results from all cases also suggest that lower ablation coefficients and debris spread rates may be more appropriate for the way in which debris clouds are represented in FCM, offering an avenue for future model refinement.

Reconciling the Census of Forming Stars in Gould's Belt

NASA Astrophysics Data System (ADS)

Gutermath, Robert

We seek funding to construct a set of new, publicly available, value-enhanced data products for the 37 deg2 of archival Spitzer IRAC 3-8 micron and MIPS 24 micron imaging from the Spitzer Legacy surveys From Molecular Cores to Planet-forming Disks (PI Evans) and the subsequent Gould's Belt: Star Formation in the Solar Neighborhood (PI Allen; c2d/GB hereafter). These surveys comprise our canonical view of low-mass star formation, encompassing most of the nearest (<400pc) molecular clouds other than Taurus. From the proposed c2d/GB reprocessing, we will produce and deliver the following products to the Infrared Science Archive (IRSA) at IPAC for community access: - Artifact-mitigated, astrometrically-refined Spitzer mosaics at 3.6, 4.5, 5.8, 8.0, and 24 microns for all 18 clouds in c2d/GB; - Complete, band-merged, point source catalogs in all five Spitzer bands considered, combined with 2MASS and WISE photometry where available, and a census of young stellar objects (YSOs) with excess infrared emission that are selected via the Gutermuth et al. (2009; G09) YSO identification and classification techniques from the full catalogs; - Point source completeness decay data cubes at 30'' resolution for all Spitzer mosaics, and midIR luminosity completeness images built from the five-band completeness cubes for a wide range of mid-IR spectral energy distribution (SED) shapes. Our overarching goal is to provide a precise observational product that contains the means to test ever more detailed simulations of star formation and guide and supplement future observations of nearby star-forming regions and clouds at all wavelengths. A complete, internally consistent census of all YSOs exhibiting excess infrared emission and a detailed mapping of the limits of non-detections by YSO evolutionary stage for all molecular clouds and star-forming complexes observed by Spitzer within 2 kpc will have incredible value for both goals. With a full YSO census and a clearer understanding of how to interpret any lack of YSOs spatially within a wide range of clouds, we will address three fundamental lines of inquiry across a wide range of local star-forming environments: - What is the protostellar phase lifetime? How does it correlate with the star formation efficiency of molecular gas? - What is the shape of the protostellar luminosity function? Does it vary with molecular gas properties? - Which dense pre-stellar gas cores are starless ? More specifically, what YSO luminosity limits can we exclude in starless cores with the Spitzer surveys? Most of the c2d/GB cloud surveys have been analyzed and published by the original teams, and they have now largely dispersed (two of this proposal's investigators were members of one or both surveys). In parallel, the G09 techniques that were developed for a survey of 36 nearby starforming clusters and groups were adopted for a wide array of YSO surveys of more distant starforming molecular clouds (400-2000pc). These are observed similarly to the c2d/GB surveys, and thus the G09 techniques are readily applicable to the nearest clouds. Indeed, the c2d/GB YSO census overlaps with several clusters in the original G09 clusters survey, and substantial inconsistencies have been found between the corresponding YSO catalogs. Attempts to conduct broad comparisons and interpretation among c2d/GB and G09-family catalogs have been clearly limited by method-dependent differences. Reconciliation of these discrepancies is essential to establish a consistent census of YSOs and enable further scientific progress on these topics.

Completing the Mapping of the W3 Giant Molecular Cloud; Testing Models and the Importance of Triggered Star Formation

NASA Astrophysics Data System (ADS)

Moore, Toby; Allsopp, James; Jones, Huw

2006-05-01

It is proposed to complete the R. Gehrz's mapping of W3 at both IRAC and MIPS 24um wavelengths. W3 is an outer galaxy Giant Molecular Cloud comprising of two regions; a quiescent, spontaneously star forming region and a region compressed by the W4 OB association containing the majority of star formation and all of the high mass star formation. Currently only the high-density region, Lada( put date) is mapped, but for a scientifically-valid comparision between the triggered and spontaneous modes we require the remainder of the cloud to be mapped. Triggered star formation is vitally important as it provides a mechanism for understanding the massive disparity between the low star formation efficiencies of galaxies such as our own andmore violent events such as galaxy mergers. Currently we have mapped the majority of the cloud at 850 um using SCUBA and the whole cloud using the CO(J=1-0) with the 12CO, 13CO and C18O isotomers. From these studies we have identified and measured the masses of 230 clumps. Without Spitzer data we have no way of determining which of these clumps have formed stars. This project forms the final crucial piece which when added to our current observations of the mass in the cloud will quantify the local star formation efficiency for each region. This is the first part of an ongoing much larger study into triggered star formation. We used Aztec (1.1mm continuum) on the JCMT in January 2006 to map two more clouds and Spitzer data on these from other observers has either been recently released or is about to be. In 2007, we will expand on the knowledge gained from this with the SCUBA2 JCMT Galactic Plane Survey (JPS) in which we are collaborators.

Kinematics of the Ultra-High-Velocity Gas in the Expanding Molecular Shell Adjacent to the W44 Supernova Remnant

NASA Astrophysics Data System (ADS)

Yamada, Masaya; Oka, Tomoharu; Tanaka, Kunihiko; Nomura, Mariko; Takekawa, Shunya; Iwata, Yuhei; Tokuyama, Sekito; Tanabe, Keisuke; Tsujimoto, Shiho; Furusawa, Maiko

2017-01-01

High-velocity compact cloud (HVCC) is a peculiar category of molecular clouds detected in the central molecular zone of our Galaxy (Oka et al. 1998, 2007, and 2012). They are characterized by compact appearances (d < 5 pc) and very large velocity widths (Δ V > 50 km s-1). Some of them show high CO J=3-2/J=1-0 intensity ratios (>= 1.5), indicating that they consist of dense and warm molecular gas. Dispite a number of efforts, we have not reached a comprehensive interpretation of HVCCs. Recently, we detected an extraordinaly broad velocity width feature, the `Bullet', in the molecular cloud interacting with the W44 supernova remnant. The Bullet shares essential properties with HVCCs. Because of its proximity, a close inspection of the Bullet must contribute to the understanding of HVCCs.

The response of filamentary and spherical clouds to the turbulence and magnetic field

NASA Astrophysics Data System (ADS)

Gholipour, Mahmoud

2018-05-01

Recent observations have revealed that there is a power-law relation between magnetic field and density in molecular clouds. Furthermore, turbulence has been observed in some regions of molecular clouds and the velocity dispersion resulting from the turbulence is found to correlate with to the cloud density. Relating to these observations, in this study, we model filamentary and spherical clouds in magnetohydrostatic equilibrium in two quiescent and turbulent regions. The proposed equations are expected to represent the impact of magnetic field and turbulence on the cloud structure and the relation of cloud mass with shape. The Virial theorem is applied to consider the cloud evolution leading to important conditions for equilibrium of the cloud over its lifetime. The obtained results indicate that under the same conditions of the magnetic field and turbulence, each shape presents different responses. The possible ways for the formation of massive cores or coreless clouds in some regions as well as the formation of massive stars or low-mass stars can be discussed based on the results of this study. It should be mentioned that the shape of the clouds plays an important role in the formation of the protostellar clouds as well as their structure and evolution. This role is due to the effects of magnetic fields and turbulence.

The physics of interstellar shock waves

NASA Technical Reports Server (NTRS)

Shull, J. Michael; Draine, Bruce T.

1987-01-01

This review discusses the observations and theoretical models of interstellar shock waves, in both diffuse cloud and molecular cloud environments. It summarizes the relevant gas dynamics, atomic, molecular and grain processes, radiative transfer, and physics of radiative and magnetic precursors in shock models. It then describes the importance of shocks for observations, diagnostics, and global interstellar dynamics. It concludes with current research problems and data needs for atomic, molecular and grain physics.

The violent interstellar medium in Milky-Way like disk galaxies

NASA Astrophysics Data System (ADS)

Karoline Walch, Stefanie

2015-08-01

Molecular clouds are cold, dense, and turbulent filamentary structures that condense out of the multi-phase interstellar medium. They are also the sites of star formation. The minority of new-born stars is massive, but these stars are particularly important for the fate of their parental molecular clouds as their feedback drives turbulence and regulates star formation.I will present results from the SILCC project (SImulating the Life Cycle of molecular Clouds), in which we study the formation and dispersal of molecular clouds within the multi-phase ISM using high-performance, three-dimensional simulations of representative pieces of disk galaxies. Apart from stellar feedback, self-gravity, an external stellar potential, and magnetic fields, we employ an accurate description of gas heating and cooling as well as a small chemical network including molecule formation and (self-)shielding from the interstellar radiation field. We study the impact of the supernova rate and the positioning of the supernova explosions with respect to the molecular gas in a well defined set of simulations. This allows us to draw conclusions on structure of the multi-phase ISM, the amount of molecular gas formed, and the onset of galactic outflows. Furthermore, we show how important stellar wind feedback is for regulating star formation in these disks.

Cool neutral hydrogen in the direction of an anonymous OB association

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bania, T.M.

1983-08-01

H I self-absorption is seen in the direction l = 55./sup 0/6 probably physically associated with an anonymous OB association which has the Cepheid GY Sagittae as a member. The cool H I is in two clouds at least 15 pc in diameter located 3.25 kpc from the Sun. If their temperature is approx. =50 K, the cloud masses are approx. =10/sup 3/ M/sub sun/. The neutral atomic hydrogen clouds are probably warm envelopes surrounding cold molecular cloud cores because CO observations in this region show two molecular clouds nearly coincident with the absorbing H i gas. Since the OBmore » association is only approx. =10/sup 7/ years old, these clouds are likely to be part of the original cloud complex from which the stellar cluster formed. The H i clouds are part of the larger Arecibo survey of self-absorption which suggests that many of the Arecibo clouds are associated with heretofore unidentified star clusters. Even if this is generally not the case, the Arecibo objects have accurate kinematic distances and thus provide a new sample of cool H I clouds whose thermodynamic properties can be studied.« less

A comparison of in-cloud HCl concentrations from the NASA/MSFC MDM to measurements for the space shuttle launch

NASA Technical Reports Server (NTRS)

Glasser, M. E.

1981-01-01

The Multilevel Diffusion Model (MDM) Version 5 was modified to include features of more recent versions. The MDM was used to predict in-cloud HCl concentrations for the April 12 launch of the space Shuttle (STS-1). The maximum centerline predictions were compared with measurements of maximum gaseous HCl obtained from aircraft passes through two segments of the fragmented shuttle ground cloud. The model over-predicted the maximum values for gaseous HCl in the lower cloud segment and portrayed the same rate of decay with time as the observed values. However, the decay with time of HCl maximum predicted by the MDM was more rapid than the observed decay for the higher cloud segment, causing the model to under-predict concentrations which were measured late in the life of the cloud. The causes of the tendency for the MDM to be conservative in over-estimating the HCl concentrations in the one case while tending to under-predict concentrations in the other case are discussed.

Infrared Extinction and the Initial Conditions For Star and Planet Formation

NASA Technical Reports Server (NTRS)

Lada, Charles J.

2003-01-01

This grant funds a research program to use infrared extinction measurements to probe the detailed structure of dark molecular clouds and investigate the physical conditions which give rise to star and planet formation. The goals of the this program are to: 1) acquire deep infrared and molecular-line observations of a carefully selected sample of nearby dark clouds, 2) reduce and analyze the data obtained in order to produce detailed extinction maps of the clouds, 3) prepare results, where appropriate, for publication.

Infrared Extinction and the Initial Conditions for Star and Planet Formation

NASA Technical Reports Server (NTRS)

Lada, Charles J.

2002-01-01

This grant funds a research program to use infrared extinction measurements to probe the detailed structure of dark molecular clouds and investigate the physical conditions which give rise to star and planet formation. The goals of the this program are to: (1) acquire deep infrared and molecular-line observations of a carefully selected sample of nearby dark clouds; (2) reduce and analyze the data obtained in order to produce detailed extinction maps of the clouds; and (3) prepare results, where appropriate, for publication.

The Encounter of P/Shoemaker-Levy 9 with the Jovian Plasma and Extended Sodium Cloud

NASA Technical Reports Server (NTRS)

Niciejewski, R. J.

1997-01-01

The encounter of comet P/Shoemaker-Levy 9 with Jupiter during July, 1994, provided an unprecedented opportunity to observe any potential perturbations in the Jovian plasma torus and extended sodium cloud as the comet entered the planet's atmosphere. Though the most obvious affect of the encounter was the distinctive response of the visible disk to the impact of the cometary fragments, the potential disruptions to the extended Jovian atmosphere and the restoration of the system to equilibrium also provided a test for the current interpretation of the Jovian plasma torus and sodium magneto-nebula. The observations that were performed for this grant were made by a complementary group of researchers and could not have been made if the individuals worked singly. In a sense, the exciting opportunity provided by this astronomical event also provided a mechanism to test the potential of pooling limited resources from several sources to construct a state-of-the-art spectrally resolving instrument, to acquire the necessary time and resources from institutions that maintain world-class optical telescopes, to perform the observations with the assistance of students, and to analyze the data sets.

Labeled drawing of Jupiter showing its core and composition

NASA Technical Reports Server (NTRS)

1989-01-01

Labeled drawing of Jupiter identifies fluid molecular hydrogen, transition zone, fluid metallic hydrogen, and possible core and the composition of its atmosphere - cloud tops - aerosols, ammonia crystals, ammonium hydrosulfide clouds, ice crystal clouds, and water droplets.

Clustering the Orion B giant molecular cloud based on its molecular emission.

PubMed

Bron, Emeric; Daudon, Chloé; Pety, Jérôme; Levrier, François; Gerin, Maryvonne; Gratier, Pierre; Orkisz, Jan H; Guzman, Viviana; Bardeau, Sébastien; Goicoechea, Javier R; Liszt, Harvey; Öberg, Karin; Peretto, Nicolas; Sievers, Albrecht; Tremblin, Pascal

2018-02-01

Previous attempts at segmenting molecular line maps of molecular clouds have focused on using position-position-velocity data cubes of a single molecular line to separate the spatial components of the cloud. In contrast, wide field spectral imaging over a large spectral bandwidth in the (sub)mm domain now allows one to combine multiple molecular tracers to understand the different physical and chemical phases that constitute giant molecular clouds (GMCs). We aim at using multiple tracers (sensitive to different physical processes and conditions) to segment a molecular cloud into physically/chemically similar regions (rather than spatially connected components), thus disentangling the different physical/chemical phases present in the cloud. We use a machine learning clustering method, namely the Meanshift algorithm, to cluster pixels with similar molecular emission, ignoring spatial information. Clusters are defined around each maximum of the multidimensional Probability Density Function (PDF) of the line integrated intensities. Simple radiative transfer models were used to interpret the astrophysical information uncovered by the clustering analysis. A clustering analysis based only on the J = 1 - 0 lines of three isotopologues of CO proves suffcient to reveal distinct density/column density regimes ( n H ~ 100 cm -3 , ~ 500 cm -3 , and > 1000 cm -3 ), closely related to the usual definitions of diffuse, translucent and high-column-density regions. Adding two UV-sensitive tracers, the J = 1 - 0 line of HCO + and the N = 1 - 0 line of CN, allows us to distinguish two clearly distinct chemical regimes, characteristic of UV-illuminated and UV-shielded gas. The UV-illuminated regime shows overbright HCO + and CN emission, which we relate to a photochemical enrichment effect. We also find a tail of high CN/HCO + intensity ratio in UV-illuminated regions. Finer distinctions in density classes ( n H ~ 7 × 10 3 cm -3 ~ 4 × 10 4 cm -3 ) for the densest regions are also identified, likely related to the higher critical density of the CN and HCO + (1 - 0) lines. These distinctions are only possible because the high-density regions are spatially resolved. Molecules are versatile tracers of GMCs because their line intensities bear the signature of the physics and chemistry at play in the gas. The association of simultaneous multi-line, wide-field mapping and powerful machine learning methods such as the Meanshift clustering algorithm reveals how to decode the complex information available in these molecular tracers.

The observed distribution of spectroscopic binaries from the Anglo-Australian Planet Search

NASA Astrophysics Data System (ADS)

Jenkins, J. S.; Díaz, M.; Jones, H. R. A.; Butler, R. P.; Tinney, C. G.; O'Toole, S. J.; Carter, B. D.; Wittenmyer, R. A.; Pinfield, D. J.

2015-10-01

We report the detection of sixteen binary systems from the Anglo-Australian Planet Search. Solutions to the radial velocity data indicate that the stars have companions orbiting with a wide range of masses, eccentricities and periods. Three of the systems potentially contain brown-dwarf companions while another two have eccentricities that place them in the extreme upper tail of the eccentricity distribution for binaries with periods less than 1000 d. For periods up to 12 years, the distribution of our stellar companion masses is fairly flat, mirroring that seen in other radial velocity surveys, and contrasts sharply with the current distribution of candidate planetary masses, which rises strongly below 10 MJ. When looking at a larger sample of binaries that have FGK star primaries as a function of the primary star metallicity, we find that the distribution maintains a binary fraction of ˜43 ± 4 per cent between -1.0 and +0.6 dex in metallicity. This is in stark contrast to the giant exoplanet distribution. This result is in good agreement with binary formation models that invoke fragmentation of a collapsing giant molecular cloud, suggesting that this is the dominant formation mechanism for close binaries and not fragmentation of the primary star's remnant protoplanetary disc.

Cancerous 'floater': a lesson learned about tissue identity testing, endometrial cancer and microsatellite instability.

PubMed

Bossuyt, Veerle; Buza, Natalia; Ngo, Nhu T; Much, Melissa A; Asis, Maria C; Schwartz, Peter E; Hui, Pei

2013-09-01

A 46-year-old woman presented with endometrial cells on a pap smear and underwent endometrial curettage. The specimen revealed secretory endometrium and a possible endometrial polyp. In addition, a single 4 mm fragment of well-differentiated adenocarcinoma was found. Tissue identity DNA genotyping was performed and the adenocarcinoma tissue fragment showed a drastically different allelic pattern from that of the background endometrium. To confirm tissue contamination, genotyping of three other tumor specimens-probable sources for a contaminant-was performed but failed to identify a match. Without confirmation of contamination, a second endometrial curettage was obtained from the patient, in which similar adenocarcinoma tissue was once again found. Further workup demonstrated that the patient had a microsatellite unstable (MSI) endometrial adenocarcinoma by immunohistochemistry and molecular testing. The patient subsequently underwent staging surgery, which revealed an early-stage, well-differentiated endometrioid adenocarcinoma. This case study illustrates an uncommon, yet important caveat of tissue identity testing by DNA genotyping, where MSI instability can significantly alter the allelic pattern of DNA polymorphisms in the tumor genome, leading to erroneous conclusion regarding the tissue identity. Awareness of this phenomenon is crucial for a molecular pathologist to avoid interpretation errors of tissue identity testing in a cancer diagnostic workup.

Radio observations of globulettes in the Carina nebula

NASA Astrophysics Data System (ADS)

Haikala, L. K.; Gahm, G. F.; Grenman, T.; Mäkelä, M. M.; Persson, C. M.

2017-06-01

Context. The Carina nebula hosts a large number of globulettes. An optical study of these tiny molecular clouds shows that the majority are of planetary mass, but there are also those with masses of several tens up to a few hundred Jupiter masses. Aims: We seek to search for, and hopefully detect, molecular line emission from some of the more massive objects; in case of successful detection we aim to map their motion in the Carina nebula complex and derive certain physical properties. Methods: We carried out radio observations of molecular line emission in 12CO and 13CO (2-1) and (3-2) of 12 globulettes in addition to positions in adjacent shell structures using APEX. Results: All selected objects were detected with radial velocities shifted relative to the emission from related shell structures and background molecular clouds. Globulettes along the western part of an extended dust shell show a small spread in velocity with small velocity shifts relative to the shell. This system of globulettes and shell structures in the foreground of the bright nebulosity surrounding the cluster Trumpler 14 is expanding with a few km s-1 relative to the cluster. A couple of isolated globulettes in the area move at similar speed. Compared to similar studies of the molecular line emission from globulettes in the Rosette nebula, we find that the integrated line intensity ratios and line widths are very different. The results show that the Carina objects have a different density/temperature structure than those in the Rosette nebula. In comparison the apparent size of the Carina globulettes is smaller, owing to the larger distance, and the corresponding beam filling factors are small. For this reason we were unable to carry out a more detailed modelling of the structure of the Carina objects in the way as performed for the Rosette objects. Conclusions: The Carina globulettes observed are compact and denser than objects of similar mass in the Rosette nebula. The distribution and velocities of these globulettes suggest that they have originated from eroding shells and elephant trunks. Some globulettes in the Trumpler 14 region are quite isolated and located far from any shell structures. These objects move at a similar speed as the globulettes along the shell, suggesting that they once formed from cloud fragments related to the same foreground shell. Based on observations collected with the Atacama Pathfinder Experiment (APEX), Llano Chajnantor, Chile (O-091.F-9316A and O-094.F-9312A).The final reduced radio data (FITS format) are available at the CDS via anonymous ftp to http://cdsarc.u-strasbg.fr (http://130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/602/A61

Cyanide and isocyanide abundances in the cold, dark cloud TMC-1

NASA Technical Reports Server (NTRS)

Irvine, W. M.; Schloerb, F. P.

1984-01-01

Cold, dark molecular clouds are particularly useful for the study of interstellar chemistry because their physical parameters are better understood than those of heterogeneous, complex giant molecular clouds. Another advantage is their relatively small distance from the solar system. The present investigaation has the objective to provide accurate abundance ratios for several cyanides and isocyanides in order to constrain models of dark cloud chemistry. The relative abundances of such related species can be particularly useful for the study of chemical processes. The cloud TMC-1 considered in the current study has a remarkably high abundance of acetylene and polyacetylene derivatives. Data at 3 mm, corresponding to the J = 1 to 0 transitions of HCN, H(C-13)N, HN(C-13), HC(N-15), and H(N-15)C were obtained.

Studying the Formation and Development of Molecular Clouds: With the CCAT Heterodyne Array Instrument (CHAI)

NASA Technical Reports Server (NTRS)

Goldsmith, Paul F.

2012-01-01

Surveys of all different types provide basic data using different tracers. Molecular clouds have structure over a very wide range of scales. Thus, "high resolution" surveys and studies of selected nearby clouds add critical information. The combination of large-area and high resolution allows Increased spatial dynamic range, which in turn enables detection of new and perhaps critical morphology (e.g. filaments). Theoretical modeling has made major progress, and suggests that multiple forces are at work. Galactic-scale modeling also progressing - indicates that stellar feedback is required. Models must strive to reproduce observed cloud structure at all scales. Astrochemical observations are not unrelated to questions of cloud evolution and star formation but we are still learning how to use this capability.

Analytic second derivative of the energy for density-functional tight-binding combined with the fragment molecular orbital method

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nakata, Hiroya, E-mail: hiroya.nakata.gt@kyocera.jp; Nishimoto, Yoshio; Fedorov, Dmitri G.

2016-07-28

The analytic second derivative of the energy is developed for the fragment molecular orbital (FMO) method combined with density-functional tight-binding (DFTB), enabling simulations of infrared and Raman spectra of large molecular systems. The accuracy of the method is established in comparison to full DFTB without fragmentation for a set of representative systems. The performance of the FMO-DFTB Hessian is discussed for molecular systems containing up to 10 041 atoms. The method is applied to the study of the binding of α-cyclodextrin to polyethylene glycol, and the calculated IR spectrum of an epoxy amine oligomer reproduces experiment reasonably well.

Gyre and gimble: a maximum-likelihood replacement for Patterson correlation refinement.

PubMed

McCoy, Airlie J; Oeffner, Robert D; Millán, Claudia; Sammito, Massimo; Usón, Isabel; Read, Randy J

2018-04-01

Descriptions are given of the maximum-likelihood gyre method implemented in Phaser for optimizing the orientation and relative position of rigid-body fragments of a model after the orientation of the model has been identified, but before the model has been positioned in the unit cell, and also the related gimble method for the refinement of rigid-body fragments of the model after positioning. Gyre refinement helps to lower the root-mean-square atomic displacements between model and target molecular-replacement solutions for the test case of antibody Fab(26-10) and improves structure solution with ARCIMBOLDO_SHREDDER.

The aggregational status of cholera enterotoxin fragment A following biochemical fractionation.

PubMed

Knoop, F C

1978-01-01

Aggregates of frabment A of Vibrio cholerae enterotoxin were revealed following isoelectric focusing in 8 M urea of molecular sieve chromatography in 4% (v/v) formic acid. These aggregates consisted of dimers which required the presence of 10 M urea, 1% sodium dodecyl sulfate (SDS), 2 mM ethylenediaminetetracetic acid (EDTA) and heat (60 degrees C for 1 h) for complete dissociation. All aggregates were homogeneous when tested by standard analytical and SDS polyacrylamide gel electrophoresis or immunodiffusion analysis. Aggregates of fragment A were biologically active in the mouse Y1 adrenal cell assay.

Interstellar molecules and dense clouds.

NASA Technical Reports Server (NTRS)

Rank, D. M.; Townes, C. H.; Welch, W. J.

1971-01-01

Current knowledge of the interstellar medium is discussed on the basis of recent published studies. The subjects considered include optical identification of interstellar molecules, radio molecular lines, interstellar clouds, isotopic abundances, formation and disappearance of interstellar molecules, and interstellar probing techniques. Diagrams are plotted for the distribution of galactic sources exhibiting molecular lines, for hydrogen molecule, hydrogen atom and electron abundances due to ionization, for the densities, velocities and temperature of NH3 in the direction of Sagitarius B2, for the lower rotational energy levels of H2CO, and for temporal spectral variations in masing H2O clouds of the radio source W49. Future applications of the maser and of molecular microscopy in this field are visualized.

Star formation induced by cloud-cloud collisions and galactic giant molecular cloud evolution

NASA Astrophysics Data System (ADS)

Kobayashi, Masato I. N.; Kobayashi, Hiroshi; Inutsuka, Shu-ichiro; Fukui, Yasuo

2018-05-01

Recent millimeter/submillimeter observations towards nearby galaxies have started to map the whole disk and to identify giant molecular clouds (GMCs) even in the regions between galactic spiral structures. Observed variations of GMC mass functions in different galactic environments indicates that massive GMCs preferentially reside along galactic spiral structures whereas inter-arm regions have many small GMCs. Based on the phase transition dynamics from magnetized warm neutral medium to molecular clouds, Kobayashi et al. (2017, ApJ, 836, 175) proposes a semi-analytical evolutionary description for GMC mass functions including a cloud-cloud collision (CCC) process. Their results show that CCC is less dominant in shaping the mass function of GMCs than the accretion of dense H I gas driven by the propagation of supersonic shock waves. However, their formulation does not take into account the possible enhancement of star formation by CCC. Millimeter/submillimeter observations within the Milky Way indicate the importance of CCC in the formation of star clusters and massive stars. In this article, we reformulate the time-evolution equation largely modified from Kobayashi et al. (2017, ApJ, 836, 175) so that we additionally compute star formation subsequently taking place in CCC clouds. Our results suggest that, although CCC events between smaller clouds are more frequent than the ones between massive GMCs, CCC-driven star formation is mostly driven by massive GMCs ≳ 10^{5.5} M_{⊙} (where M⊙ is the solar mass). The resultant cumulative CCC-driven star formation may amount to a few 10 percent of the total star formation in the Milky Way and nearby galaxies.

C3H2 observations as a diagnostic probe for molecular clouds

NASA Technical Reports Server (NTRS)

Avery, L. W.

1986-01-01

Recently the three-membered ring molecule, cyclopropenylidene, C3H2, has been identified in the laboratory and detected in molecular clouds by Thaddeus, Vrtilek and Gottlieb (1985). This molecule is wide-spread throughout the Galaxy and has been detected in 25 separate sources including cold dust clouds, circumstellar envelopes, HII regions, and the spiral arms observed against the Cas supernova remnant. In order to evaluate the potential of C3H2 as a diagnostic probe for molecular clouds, and to attempt to identify the most useful transitions, statistical equilibrium calculations were carried out for the lowest 24 levels of the ortho species and the lowest 10 levels of the para species. Many of the sources observed by Matthews and Irvine (1985) show evidence of being optically thick in the 1(10)-1(01) line. Consequently, the effects of radiative trapping should be incorporated into the equilibrium calculations. This was done using the Large Velocity Gradient approximation for a spherical cloud of uniform density. Some results of the calculations for T(K)=10K are given. Figures are presented which show contours of the logarithm of the ratio of peak line brightness temperatures for ortho-para pairs of lines at similar frequencies. It appears that the widespread nature of C3H2, the relatively large strength of its spectral lines, and their sensitivity to density and molecular abundance combine to make this a useful molecule for probing physical conditions in molecular clouds. The 1(10)-1(01) and 2(20)-2(11) K-band lines may be especially useful in this regard because of the ease with which they are observed and their unusual density-dependent emission/absorption properties.

Observational Approach to Molecular Cloud Evolutation with the Submillimeter-Wave CI Lines

NASA Astrophysics Data System (ADS)

Oka, T.; Yamamoto, S.

Neutral carbon atoms (CI) play important roles both in chemistry and cooling processes of interstellar molecular clouds. It is thus crucial to explore its large area distribution to obtain information on formation processes and thermal balance of molecular clouds. However, observations of the submillimeter-wave CI lines have been limited to small areas around some representative objects. We have constructed a 1.2 m submillimeter-wave telescope at the summit of Mt.Fuji. The telescope was designed for the exclusive use of surveying molecular clouds in two submillimeter-wave CI lines, 3 P1 -3 P0 (492GHz) and 3 P2 -3 P1 (809 GHz), of atomic carbon. A superconductor-insulator-superconductor (SIS) mixer receiver was equipped on the Nasmyth focus of the telescope. The receiver noise temperatures [Trx(DSB)] are 300 K and 1000 K for the 492 GHz and the 809 GHz mixers, respectively. The intermediate frequency is centered at 2 GHz, having a 700 MHz bandwidth. An acousto-optical spectrometer (AOS) with 1024 channel outputs is used as a receiver backend. The telescope was installed at Nishi-yasugawara (alt. 3725 m), which is 200 m north of the highest peak, Kengamine (3776 m), in July 1998. It has b en operatede successfully during 4 observing seasons in a remote way from the Hongo campus of the University of Tokyo. We have already observed more than 40 square degrees of the sky with the CI 492 GHz line. The distribution of CI emission is found to be different from those of the 13 CO or C1 8 O emission in some clouds. These differences are discussed in relation to formation processes of molecular clouds.

Planck intermediate results: XXXV. Probing the role of the magnetic field in the formation of structure in molecular clouds

DOE PAGES

Ade, P. A. R.; Aghanim, N.; Alves, M. I. R.; ...

2016-02-09

Within ten nearby (d < 450 pc) Gould belt molecular clouds we evaluate in this paper statistically the relative orientation between the magnetic field projected on the plane of sky, inferred from the polarized thermal emission of Galactic dust observed by Planck at 353 GHz, and the gas column density structures, quantified by the gradient of the column density, N H. The selected regions, covering several degrees in size, are analysed at an effective angular resolution of 10' FWHM, thus sampling physical scales from 0.4 to 40 pc in the nearest cloud. The column densities in the selected regions rangemore » from N H≈ 10 21 to10 23 cm -2, and hence they correspond to the bulk of the molecular clouds. The relative orientation is evaluated pixel by pixel and analysed in bins of column density using the novel statistical tool called “histogram of relative orientations”. Throughout this study, we assume that the polarized emission observed by Planck at 353 GHz is representative of the projected morphology of the magnetic field in each region, i.e., we assume a constant dust grain alignment efficiency, independent of the local environment. Within most clouds we find that the relative orientation changes progressively with increasing N H, from mostly parallel or having no preferred orientation to mostly perpendicular. In simulations of magnetohydrodynamic turbulence in molecular clouds this trend in relative orientation is a signature of Alfvénic or sub-Alfvénic turbulence, implying that the magnetic field is significant for the gas dynamics at the scales probed by Planck. Finally, we compare the deduced magnetic field strength with estimates we obtain from other methods and discuss the implications of the Planck observations for the general picture of molecular cloud formation and evolution.« less

Modelling dust polarization observations of molecular clouds through MHD simulations

NASA Astrophysics Data System (ADS)

King, Patrick K.; Fissel, Laura M.; Chen, Che-Yu; Li, Zhi-Yun

2018-03-01

The BLASTPol observations of Vela C have provided the most detailed characterization of the polarization fraction p and dispersion in polarization angles S for a molecular cloud. We compare the observed distributions of p and S with those obtained in synthetic observations of simulations of molecular clouds, assuming homogeneous grain alignment. We find that the orientation of the mean magnetic field relative to the observer has a significant effect on the p and S distributions. These distributions for Vela C are most consistent with synthetic observations where the mean magnetic field is close to the line of sight. Our results point to apparent magnetic disorder in the Vela C molecular cloud, although it can be due to either an inclination effect (i.e. observing close to the mean field direction) or significant field tangling from strong turbulence/low magnetization. The joint correlations of p with column density and of S with column density for the synthetic observations generally agree poorly with the Vela C joint correlations, suggesting that understanding these correlations requires a more sophisticated treatment of grain alignment physics.

The formation of massive molecular filaments and massive stars triggered by a magnetohydrodynamic shock wave

NASA Astrophysics Data System (ADS)

Inoue, Tsuyoshi; Hennebelle, Patrick; Fukui, Yasuo; Matsumoto, Tomoaki; Iwasaki, Kazunari; Inutsuka, Shu-ichiro

2018-05-01

Recent observations suggest an that intensive molecular cloud collision can trigger massive star/cluster formation. The most important physical process caused by the collision is a shock compression. In this paper, the influence of a shock wave on the evolution of a molecular cloud is studied numerically by using isothermal magnetohydrodynamics simulations with the effect of self-gravity. Adaptive mesh refinement and sink particle techniques are used to follow the long-time evolution of the shocked cloud. We find that the shock compression of a turbulent inhomogeneous molecular cloud creates massive filaments, which lie perpendicularly to the background magnetic field, as we have pointed out in a previous paper. The massive filament shows global collapse along the filament, which feeds a sink particle located at the collapse center. We observe a high accretion rate \\dot{M}_acc> 10^{-4} M_{⊙}yr-1 that is high enough to allow the formation of even O-type stars. The most massive sink particle achieves M > 50 M_{⊙} in a few times 105 yr after the onset of the filament collapse.

Chemistry and Evolution of Interstellar Clouds

NASA Technical Reports Server (NTRS)

Wooden, D. H.; Charnley, S. B.; Ehrenfreund, P.

2003-01-01

In this chapter we describe how elements have been and are still being formed in the galaxy and how they are transformed into the reservoir of materials present at the time of formation of our protosolar nebula. We discuss the global cycle of matter, beginning at its formation site in stars, where it is ejected through winds and explosions into the diffuse interstellar medium. In the next stage of the global cycle occurs in cold, dense molecular clouds, where the complexity of molecules and ices increases relative to the diffuse ISM.. When a protostar forms in a dense core within a molecular cloud, it heats the surrounding infalling matter warms and releases molecules from the solid phase into the gas phase in a warm, dense core, sponsoring a rich gas-phase chemistry. Some material from the cold and warm regions within molecular clouds probably survives as interstellar matter in the protostellar disk. For the diffuse ISM, for cold, dense clouds, and for dense-warm cores, the physio-chemical processes that occur within the gas and solid phases are discussed in detail.

Synthetic observations of molecular clouds in a galactic centre environment - I. Studying maps of column density and integrated intensity

NASA Astrophysics Data System (ADS)

Bertram, Erik; Glover, Simon C. O.; Clark, Paul C.; Ragan, Sarah E.; Klessen, Ralf S.

2016-02-01

We run numerical simulations of molecular clouds, adopting properties similar to those found in the central molecular zone (CMZ) of the Milky Way. For this, we employ the moving mesh code AREPO and perform simulations which account for a simplified treatment of time-dependent chemistry and the non-isothermal nature of gas and dust. We perform simulations using an initial density of n0 = 103 cm-3 and a mass of 1.3 × 105 M⊙. Furthermore, we vary the virial parameter, defined as the ratio of kinetic and potential energy, α = Ekin/|Epot|, by adjusting the velocity dispersion. We set it to α = 0.5, 2.0 and 8.0, in order to analyse the impact of the kinetic energy on our results. We account for the extreme conditions in the CMZ and increase both the interstellar radiation field (ISRF) and the cosmic ray flux (CRF) by a factor of 1000 compared to the values found in the solar neighbourhood. We use the radiative transfer code RADMC-3D to compute synthetic images in various diagnostic lines. These are [C II] at 158 μm, [O I] (145 μm), [O I] (63 μm), 12CO (J = 1 → 0) and 13CO (J = 1 → 0) at 2600 and 2720 μm, respectively. When α is large, the turbulence disperses much of the gas in the cloud, reducing its mean density and allowing the ISRF to penetrate more deeply into the cloud's interior. This significantly alters the chemical composition of the cloud, leading to the dissociation of a significant amount of the molecular gas. On the other hand, when α is small, the cloud remains compact, allowing more of the molecular gas to survive. We show that in each case the atomic tracers accurately reflect most of the physical properties of both the H2 and the total gas of the cloud and that they provide a useful alternative to molecular lines when studying the interstellar medium in the CMZ.

Capturing Nature's Diversity

PubMed Central

Pascolutti, Mauro; Campitelli, Marc; Nguyen, Bao; Pham, Ngoc; Gorse, Alain-Dominique; Quinn, Ronald J.

2015-01-01

Natural products are universally recognized to contribute valuable chemical diversity to the design of molecular screening libraries. The analysis undertaken in this work, provides a foundation for the generation of fragment screening libraries that capture the diverse range of molecular recognition building blocks embedded within natural products. Physicochemical properties were used to select fragment-sized natural products from a database of known natural products (Dictionary of Natural Products). PCA analysis was used to illustrate the positioning of the fragment subset within the property space of the non-fragment sized natural products in the dataset. Structural diversity was analysed by three distinct methods: atom function analysis, using pharmacophore fingerprints, atom type analysis, using radial fingerprints, and scaffold analysis. Small pharmacophore triplets, representing the range of chemical features present in natural products that are capable of engaging in molecular interactions with small, contiguous areas of protein binding surfaces, were analysed. We demonstrate that fragment-sized natural products capture more than half of the small pharmacophore triplet diversity observed in non fragment-sized natural product datasets. Atom type analysis using radial fingerprints was represented by a self-organizing map. We examined the structural diversity of non-flat fragment-sized natural product scaffolds, rich in sp3 configured centres. From these results we demonstrate that 2-ring fragment-sized natural products effectively balance the opposing characteristics of minimal complexity and broad structural diversity when compared to the larger, more complex fragment-like natural products. These naturally-derived fragments could be used as the starting point for the generation of a highly diverse library with the scope for further medicinal chemistry elaboration due to their minimal structural complexity. This study highlights the possibility to capture a high proportion of the individual molecular interaction motifs embedded within natural products using a fragment screening library spanning 422 structural clusters and comprised of approximately 2800 natural products. PMID:25902039

Sequential Star Formation in RCW 34: A Spectroscopic Census of the Stellar Content of High-Mass Star-Forming Regions

NASA Astrophysics Data System (ADS)

Bik, A.; Puga, E.; Waters, L. B. F. M.; Horrobin, M.; Henning, Th.; Vasyunina, T.; Beuther, H.; Linz, H.; Kaper, L.; van den Ancker, M.; Lenorzer, A.; Churchwell, E.; Kurtz, S.; Kouwenhoven, M. B. N.; Stolte, A.; de Koter, A.; Thi, W. F.; Comerón, F.; Waelkens, Ch.

2010-04-01

In this paper, we present VLT/SINFONI integral field spectroscopy of RCW 34 along with Spitzer/IRAC photometry of the surroundings. RCW 34 consists of three different regions. A large bubble has been detected in the IRAC images in which a cluster of intermediate- and low-mass class II objects is found. At the northern edge of this bubble, an H II region is located, ionized by 3 OB stars, of which the most massive star has spectral type O8.5V. Intermediate-mass stars (2-3 M sun) are detected of G- and K-spectral type. These stars are still in the pre-main-sequence (PMS) phase. North of the H II region, a photon-dominated region is present, marking the edge of a dense molecular cloud traced by H2 emission. Several class 0/I objects are associated with this cloud, indicating that star formation is still taking place. The distance to RCW 34 is revised to 2.5 ± 0.2 kpc and an age estimate of 2 ± 1 Myr is derived from the properties of the PMS stars inside the H II region. Between the class II sources in the bubble and the PMS stars in the H II region, no age difference could be detected with the present data. The presence of the class 0/I sources in the molecular cloud, however, suggests that the objects inside the molecular cloud are significantly younger. The most likely scenario for the formation of the three regions is that star formation propagated from south to north. First the bubble is formed, produced by intermediate- and low-mass stars only, after that, the H II region is formed from a dense core at the edge of the molecular cloud, resulting in the expansion similar to a champagne flow. More recently, star formation occurred in the rest of the molecular cloud. Two different formation scenarios are possible. (1) The bubble with the cluster of low- and intermediate-mass stars triggered the formation of the O star at the edge of the molecular cloud, which in its turn induces the current star formation in the molecular cloud. (2) An external triggering is responsible for the star formation propagating from south to north. Based on observations collected at the European Southern Observatory at Paranal, Chile (ESO program 078.C-0780).

Relationship between the column density distribution and evolutionary class of molecular clouds as viewed by ATLASGAL

NASA Astrophysics Data System (ADS)

Abreu-Vicente, J.; Kainulainen, J.; Stutz, A.; Henning, Th.; Beuther, H.

2015-09-01

We present the first study of the relationship between the column density distribution of molecular clouds within nearby Galactic spiral arms and their evolutionary status as measured from their stellar content. We analyze a sample of 195 molecular clouds located at distances below 5.5 kpc, identified from the ATLASGAL 870 μm data. We define three evolutionary classes within this sample: starless clumps, star-forming clouds with associated young stellar objects, and clouds associated with H ii regions. We find that the N(H2) probability density functions (N-PDFs) of these three classes of objects are clearly different: the N-PDFs of starless clumps are narrowest and close to log-normal in shape, while star-forming clouds and H ii regions exhibit a power-law shape over a wide range of column densities and log-normal-like components only at low column densities. We use the N-PDFs to estimate the evolutionary time-scales of the three classes of objects based on a simple analytic model from literature. Finally, we show that the integral of the N-PDFs, the dense gas mass fraction, depends on the total mass of the regions as measured by ATLASGAL: more massive clouds contain greater relative amounts of dense gas across all evolutionary classes. Appendices are available in electronic form at http://www.aanda.org

RxnFinder: biochemical reaction search engines using molecular structures, molecular fragments and reaction similarity.

PubMed

Hu, Qian-Nan; Deng, Zhe; Hu, Huanan; Cao, Dong-Sheng; Liang, Yi-Zeng

2011-09-01

Biochemical reactions play a key role to help sustain life and allow cells to grow. RxnFinder was developed to search biochemical reactions from KEGG reaction database using three search criteria: molecular structures, molecular fragments and reaction similarity. RxnFinder is helpful to get reference reactions for biosynthesis and xenobiotics metabolism. RxnFinder is freely available via: http://sdd.whu.edu.cn/rxnfinder. qnhu@whu.edu.cn.

Nonunique and nonuniform mapping in few-body Coulomb-explosion imaging

NASA Astrophysics Data System (ADS)

Sayler, A. M.; Eckner, E.; McKenna, J.; Esry, B. D.; Carnes, K. D.; Ben-Itzhak, I.; Paulus, G. G.

2018-03-01

Much of our knowledge of molecular geometry and interaction dynamics comes from indirect measurements of the molecular fragments following breakup. This technique—Coulomb-explosion imaging (CEI), i.e., determining the initial molecular configuration of a system from the momenta of the resulting fragments using knowledge of the particle interactions—is one of the fundamental tools of molecular physics. Moreover, CEI has been a staple of molecular studies for decades. Here we show that one often cannot assign a unique initial configuration to the few-body breakup of a polyatomic molecule given the measurement of the resulting fragments' momenta. Specifically, multiple initial configurations can result in identical momenta for a molecule breaking into three or more parts. Further, the nonunique and nonuniform mapping from the initial configuration to the measured momenta also significantly complicates the determination of molecular alignment at the time of breakup.

Extracellular matrix fragmentation in young, healthy cartilaginous tissues.

PubMed

Craddock, R J; Hodson, N W; Ozols, M; Shearer, T; Hoyland, J A; Sherratt, M J

2018-02-09

Although the composition and structure of cartilaginous tissues is complex, collagen II fibrils and aggrecan are the most abundant assemblies in both articular cartilage (AC) and the nucleus pulposus (NP) of the intervertebral disc (IVD). Whilst structural heterogeneity of intact aggrecan ( containing three globular domains) is well characterised, the extent of aggrecan fragmentation in healthy tissues is poorly defined. Using young, yet skeletally mature (18-30 months), bovine AC and NP tissues, it was shown that, whilst the ultrastructure of intact aggrecan was tissue-dependent, most molecules (AC: 95 %; NP: 99.5 %) were fragmented (lacking one or more globular domains). Fragments were significantly smaller and more structurally heterogeneous in the NP compared with the AC (molecular area; AC: 8543 nm2; NP: 4625 nm2; p < 0.0001). In contrast, fibrillar collagen appeared structurally intact and tissue-invariant. Molecular fragmentation is considered indicative of a pathology; however, these young, skeletally mature tissues were histologically and mechanically (reduced modulus: AC: ≈ 500 kPa; NP: ≈ 80 kPa) comparable to healthy tissues and devoid of notable gelatinase activity (compared with rat dermis). As aggrecan fragmentation was prevalent in neonatal bovine AC (99.5 % fragmented, molecular area: 5137 nm2) as compared with mature AC (95.0 % fragmented, molecular area: 8667 nm2), it was hypothesised that targeted proteolysis might be an adaptive process that modified aggrecan packing (as simulated computationally) and, hence, tissue charge density, mechanical properties and porosity. These observations provided a baseline against which pathological and/or age-related fragmentation of aggrecan could be assessed and suggested that new strategies might be required to engineer constructs that mimic the mechanical properties of native cartilaginous tissues.

Quantum control of molecular fragmentation in strong laser fields

NASA Astrophysics Data System (ADS)

Zohrabi, Mohammad

Present advances in laser technology allow the production of ultrashort (<˜5 fs, approaching single cycle at 800 nm), intense tabletop laser pulses. At these high intensities laser-matter interactions cannot be described with perturbation theory since multiphoton processes are involved. This is in contrast to photodissociation by the absorption of a single photon, which is well described by perturbation theory. For example, at high intensities (<˜5x1013 W/cm2) the fragmentation of molecular hydrogen ions has been observed via the absorption of three or more photons. In another example, an intriguing dissociation mechanism has been observed where molecular hydrogen ions seem to fragment by apparently absorbing no photons. This is actually a two photon process, photoabsorption followed by stimulated emission, resulting in low energy fragments. We are interested in exploring these kinds of multiphoton processes. Our research group has studied the dynamics and control of fragmentation induced by strong laser fields in a variety of molecular targets. The main goal is to provide a basic understanding of fragmentation mechanisms and possible control schemes of benchmark systems such as H2+. This knowledge is further extended to more complex systems like the benchmark H3+ polyatomic and other molecules. In this dissertation, we report research based on two types of experiments. In the first part, we describe laser-induced fragmentation of molecular ion-beam targets. In the latter part, we discuss the formation of highly-excited neutral fragments from hydrogen molecules using ultrashort laser pulses. In carrying out these experiments, we have also extended experimental techniques beyond their previous capabilities. We have performed a few experiments to advance our understanding of laser-induced fragmentation of molecular-ion beams. For instance, we explored vibrationally resolved spectra of O2+ dissociation using various wavelengths. We observed a vibrational suppression effect in the dissociation spectra due to the small magnitude of the dipole transition moment, which depends on the photon energy --- a phenomenon known as Cooper minima. By changing the laser wavelength, the Cooper minima shift, a fact that was used to identify the dissociation pathways. In another project, we studied the carrier-envelope phase (CEP) dependences of highly-excited fragments from hydrogen molecules. General CEP theory predicts a CEP dependence in the total dissociation yield due to the interference of dissociation pathways differing by an even net number of photons, and our measurements are consistent with this prediction. Moreover, we were able to extract the difference in the net number of photons involved in the interfering pathways by using a Fourier analysis. In terms of our experimental method, we have implemented a pump-probe style technique on a thin molecular ion-beam target and explored the feasibility of such experiments. The results presented in this work should lead to a better understanding of the dynamics and control in molecular fragmentation induced by intense laser fields.

Polysaccharides and their depolymerized fragments from Costaria costata: Molecular weight and sulfation-dependent anticoagulant and FGF/FGFR signal activating activities.

PubMed

Hou, Ningning; Zhang, Meng; Xu, Yingjie; Sun, Zhongmin; Wang, Jing; Zhang, Lijuan; Zhang, Quanbin

2017-12-01

Crude polysaccharides from Costaria costata were extracted by hot water and further fractionated by anion exchange chromatography into three polysaccharide fractions. Three low molecular weight fragments were then prepared by degradation of the polysaccharides with hydrogen peroxide and ascorbic acid. The structural features of the polysaccharides and their low molecular weight fragments were elucidated for the first time based on the HGPC, FT-IR, NMR, MS, monosaccharide composition, and other chemical analyses. Their anticoagulant and FGF-1, -2, -7, -8, -9, -10/FGFR1c signaling activation activities in BaF3 cells were also examined. Our studies showed that the polysaccharides were sulfated at different positions of galactose and fucose residues. The APTT-, PT- and TT-based anticoagulant assay results indicated that a high molecular weight and a higher degree of sulfation were essential for their anticoagulant activities. In contrast, not only the polysaccharides but also the depolymerized fragments showed significant FGF/FGFR signal activating activities in a FGF-, molecular weight-, and sulfation-dependent manner. The results presented in current study demonstrated the potential use of the polysaccharides and their fragments as anticoagulants and FGF signal regulators. Copyright © 2017 Elsevier B.V. All rights reserved.

Organic Volatiles in Comet 73P-B/Schwassmann-Wachmann 3 Observed during Its Outburst: A Clue to the Formation Region of the Jupiter-Family Comets

NASA Astrophysics Data System (ADS)

Kobayashi, Hitomi; Kawakita, Hideyo; Mumma, Michael J.; Bonev, Boncho P.; Watanabe, Jun-ichi; Fuse, Tetsuharu

2007-10-01

We report the chemical composition of organic molecules in fragment B of comet 73P/Schwassmann-Wachmann 3 (SW3). Comet SW3 is a Jupiter-family comet that split into three fragments during its 1995 apparition and later into additional components. It was expected that fresh ices from deep within the presplit nucleus were exposed on the surface of each fragment. We observed SW3 with the Subaru telescope in 2006 early May when component B was disintegrating rapidly. If this exposed fresh ices from deeper layers of the original nucleus, mixing ratios obtained from our observations may reflect the pristine nature of the comet. Based on our results, comet SW3-B was depleted in C2H6 and C2H 2 with respect to most comets from the Oort Cloud reservoir, suggesting its formation region might have differed from that of the dominant Oort Cloud comets. Furthermore, the chemical composition of SW3-B was similar to that of SW3-C, suggesting that the presplit nucleus was almost homogeneous in volatile composition. The combined results demonstrate that depleted-organics comets from a common formation zone entered both reservoirs, of Jupiter-family comets and and Oort Cloud comets, but likely in different fractions. This Letter is based on data collected at Subaru Telescope, which is operated by the National Astronomical Observatory of Japan. This work was financially supported by the Ministry of Education, Science, and Culture, Grant-in-Aid for Young Scientists 19740107 (H. K.).

The multiple roles of computational chemistry in fragment-based drug design

NASA Astrophysics Data System (ADS)

Law, Richard; Barker, Oliver; Barker, John J.; Hesterkamp, Thomas; Godemann, Robert; Andersen, Ole; Fryatt, Tara; Courtney, Steve; Hallett, Dave; Whittaker, Mark

2009-08-01

Fragment-based drug discovery (FBDD) represents a change in strategy from the screening of molecules with higher molecular weights and physical properties more akin to fully drug-like compounds, to the screening of smaller, less complex molecules. This is because it has been recognised that fragment hit molecules can be efficiently grown and optimised into leads, particularly after the binding mode to the target protein has been first determined by 3D structural elucidation, e.g. by NMR or X-ray crystallography. Several studies have shown that medicinal chemistry optimisation of an already drug-like hit or lead compound can result in a final compound with too high molecular weight and lipophilicity. The evolution of a lower molecular weight fragment hit therefore represents an attractive alternative approach to optimisation as it allows better control of compound properties. Computational chemistry can play an important role both prior to a fragment screen, in producing a target focussed fragment library, and post-screening in the evolution of a drug-like molecule from a fragment hit, both with and without the available fragment-target co-complex structure. We will review many of the current developments in the area and illustrate with some recent examples from successful FBDD discovery projects that we have conducted.

Molecular methods for pathogen and microbial community detection and characterization: current and potential application in diagnostic microbiology.

PubMed

Sibley, Christopher D; Peirano, Gisele; Church, Deirdre L

2012-04-01

Clinical microbiology laboratories worldwide have historically relied on phenotypic methods (i.e., culture and biochemical tests) for detection, identification and characterization of virulence traits (e.g., antibiotic resistance genes, toxins) of human pathogens. However, limitations to implementation of molecular methods for human infectious diseases testing are being rapidly overcome allowing for the clinical evaluation and implementation of diverse technologies with expanding diagnostic capabilities. The advantages and limitation of molecular techniques including real-time polymerase chain reaction, partial or whole genome sequencing, molecular typing, microarrays, broad-range PCR and multiplexing will be discussed. Finally, terminal restriction fragment length polymorphism (T-RFLP) and deep sequencing are introduced as technologies at the clinical interface with the potential to dramatically enhance our ability to diagnose infectious diseases and better define the epidemiology and microbial ecology of a wide range of complex infections. Copyright © 2012 Elsevier B.V. All rights reserved.

PHOTOEVAPORATING PROPLYD-LIKE OBJECTS IN CYGNUS OB2

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wright, Nicholas J.; Drake, Jeremy J.; Guarcello, Mario G.

2012-02-20

We report the discovery of 10 proplyd-like objects in the vicinity of the massive OB association Cygnus OB2. They were discovered in IPHAS H{alpha} images and are clearly resolved in broadband Hubble Space Telescope/Advanced Camera for Surveys, near-IR, and Spitzer mid-IR images. All exhibit the familiar tadpole shape seen in photoevaporating objects such as the Orion proplyds, with a bright ionization front at the head facing the central cluster of massive stars and a tail stretching in the opposite direction. Many also show secondary ionization fronts, complex tail morphologies, or multiple heads. We consider the evidence that these are eithermore » proplyds or 'evaporating gaseous globules' (EGGs) left over from a fragmenting molecular cloud, but find that neither scenario fully explains the observations. Typical sizes are 50,000-100,000 AU, larger than the Orion proplyds, but in agreement with the theoretical scaling of proplyd size with distance from the ionizing source. These objects are located at projected separations of {approx}6-14 pc from the OB association, compared to {approx}0.1 pc for the Orion proplyds, but are clearly being photoionized by the {approx}65 O-type stars in Cyg OB2. Central star candidates are identified in near- and mid-IR images, supporting the proplyd scenario, though their large sizes and notable asymmetries are more consistent with the EGG scenario. A third possibility is therefore considered that these are a unique class of photoevaporating partially embedded young stellar objects that have survived the destruction of their natal molecular cloud. This has implications for the properties of stars that form in the vicinity of massive stars.« less

Highlights of Commission 37 Science Results

NASA Astrophysics Data System (ADS)

Carraro, Giovanni; de Grijs, Richard; Elmegreen, Bruce; Stetson, Peter; Anthony-Twarog, Barbara; Goodwin, Simon; Geisler, Douglas; Minniti, Dante

2016-04-01

It is widely accepted that stars do not form in isolation but result from the fragmentation of molecular clouds, which in turn leads to star cluster formation. Over time, clusters dissolve or are destroyed by interactions with molecular clouds or tidal stripping, and their members become part of the general field population. Star clusters are thus among the basic building blocks of galaxies. In turn, star cluster populations, from young associations and open clusters to old globulars, are powerful tracers of the formation, assembly, and evolutionary history of their parent galaxies. Although their importance (e.g., in mapping out the Milky Way) had been recognised for decades, major progress in this area has only become possible in recent years, both for Galactic and extragalactic cluster populations. Star clusters are the observational foundation for stellar astrophysics and evolution, provide essential tracers of galactic structure, and are unique stellar dynamical environments. Star formation, stellar structure, stellar evolution, and stellar nucleosynthesis continue to benefit and improve tremendously from the study of these systems. Additionally, fundamental quantities such as the initial mass function can be successfully derived from modelling either the Hertzsprung-Russell diagrams or the integrated velocity structures of, respectively, resolved and unresolved clusters and cluster populations. Star cluster studies thus span the fields of Galactic and extragalactic astrophysics, while heavily affecting our detailed understanding of the process of star formation in dense environments. This report highlights science results of the last decade in the major fields covered by IAU Commission 37: Star clusters and associations. Instead of focusing on the business meeting - the out-going president presentation can be found here: http://www.sc.eso.org/gcarraro/splinter2015.pdf - this legacy report contains highlights of the most important scientific achievements in the Commission science area, compiled by 5 well expert members.

STAR FORMATION IN TURBULENT MOLECULAR CLOUDS WITH COLLIDING FLOW

DOE Office of Scientific and Technical Information (OSTI.GOV)

Matsumoto, Tomoaki; Dobashi, Kazuhito; Shimoikura, Tomomi, E-mail: matsu@hosei.ac.jp

2015-03-10

Using self-gravitational hydrodynamical numerical simulations, we investigated the evolution of high-density turbulent molecular clouds swept by a colliding flow. The interaction of shock waves due to turbulence produces networks of thin filamentary clouds with a sub-parsec width. The colliding flow accumulates the filamentary clouds into a sheet cloud and promotes active star formation for initially high-density clouds. Clouds with a colliding flow exhibit a finer filamentary network than clouds without a colliding flow. The probability distribution functions (PDFs) for the density and column density can be fitted by lognormal functions for clouds without colliding flow. When the initial turbulence ismore » weak, the column density PDF has a power-law wing at high column densities. The colliding flow considerably deforms the PDF, such that the PDF exhibits a double peak. The stellar mass distributions reproduced here are consistent with the classical initial mass function with a power-law index of –1.35 when the initial clouds have a high density. The distribution of stellar velocities agrees with the gas velocity distribution, which can be fitted by Gaussian functions for clouds without colliding flow. For clouds with colliding flow, the velocity dispersion of gas tends to be larger than the stellar velocity dispersion. The signatures of colliding flows and turbulence appear in channel maps reconstructed from the simulation data. Clouds without colliding flow exhibit a cloud-scale velocity shear due to the turbulence. In contrast, clouds with colliding flow show a prominent anti-correlated distribution of thin filaments between the different velocity channels, suggesting collisions between the filamentary clouds.« less

Large scale IRAM 30 m CO-observations in the giant molecular cloud complex W43

NASA Astrophysics Data System (ADS)

Carlhoff, P.; Nguyen Luong, Q.; Schilke, P.; Motte, F.; Schneider, N.; Beuther, H.; Bontemps, S.; Heitsch, F.; Hill, T.; Kramer, C.; Ossenkopf, V.; Schuller, F.; Simon, R.; Wyrowski, F.

2013-12-01

We aim to fully describe the distribution and location of dense molecular clouds in the giant molecular cloud complex W43. It was previously identified as one of the most massive star-forming regions in our Galaxy. To trace the moderately dense molecular clouds in the W43 region, we initiated W43-HERO, a large program using the IRAM 30 m telescope, which covers a wide dynamic range of scales from 0.3 to 140 pc. We obtained on-the-fly-maps in 13CO (2-1) and C18O (2-1) with a high spectral resolution of 0.1 km s-1 and a spatial resolution of 12''. These maps cover an area of ~1.5 square degrees and include the two main clouds of W43 and the lower density gas surrounding them. A comparison to Galactic models and previous distance calculations confirms the location of W43 near the tangential point of the Scutum arm at approximately 6 kpc from the Sun. The resulting intensity cubes of the observed region are separated into subcubes, which are centered on single clouds and then analyzed in detail. The optical depth, excitation temperature, and H2 column density maps are derived out of the 13CO and C18O data. These results are then compared to those derived from Herschel dust maps. The mass of a typical cloud is several 104 M⊙ while the total mass in the dense molecular gas (>102 cm-3) in W43 is found to be ~1.9 × 106 M⊙. Probability distribution functions obtained from column density maps derived from molecular line data and Herschel imaging show a log-normal distribution for low column densities and a power-law tail for high densities. A flatter slope for the molecular line data probability distribution function may imply that those selectively show the gravitationally collapsing gas. Appendices are available in electronic form at http://www.aanda.orgThe final datacubes (13CO and C18O) for the entire survey are only available at the CDS via anonymous ftp to http://cdsarc.u-strasbg.fr (ftp://130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/560/A24

Molecular resolution and fragmentation of fulvic acid by electrospray ionization/multistage tandem mass spectrometry

USGS Publications Warehouse

Leenheer, J.A.; Rostad, C.E.; Gates, Paul M.; Furlong, E.T.; Ferrer, I.

2001-01-01

Molecular weight distributions of fulvic acid from the Suwannee River, Georgia, were investigated by electrospray ionization/quadrupole mass spectrometry (ESI/QMS), and fragmentation pathways of specific fulvic acid masses were investigated by electrospray ionization/ion trap multistage tandem mass spectrometry (ESI/MST/MS). ESI/QMS studies of the free acid form of low molecular weight poly(carboxylic acid) standards in 75% methanol/25% water mobile phase found that negative ion detection gave the optimum generation of parent ions that can be used for molecular weight determinations. However, experiments with poly(acrylic acid) mixtures and specific high molecular weight standards found multiply charged negative ions that gave a low bias to molecular mass distributions. The number of negative charges on a molecule is dependent on the distance between charges. ESI/MST/MS of model compounds found characteristic water loss from alcohol dehydration and anhydride formation, as well as CO2 loss from decarboxylation, and CO loss from ester structures. Application of these fragmentation pathways to specific masses of fulvic acid isolated and fragmented by ESI/MST/MS is indicative of specific structures that can serve as a basis for future structural confirmation after these hypothesized structures are synthesized.

Average Cross-Sectional Area of DebriSat Fragments Using Volumetrically Constructed 3D Representations

NASA Technical Reports Server (NTRS)

Scruggs, T.; Moraguez, M.; Patankar, K.; Fitz-Coy, N.; Liou, J.-C.; Sorge, M.; Huynh, T.

2016-01-01

Debris fragments from the hypervelocity impact testing of DebriSat are being collected and characterized for use in updating existing satellite breakup models. One of the key parameters utilized in these models is the ballistic coefficient of the fragment which is directly related to its area-to-mass ratio. However, since the attitude of fragments varies during their orbital lifetime, it is customary to use the average cross-sectional area in the calculation of the area-to-mass ratio. The average cross-sectional area is defined as the average of the projected surface areas perpendicular to the direction of motion and has been shown to be equal to one-fourth of the total surface area of a convex object. Unfortunately, numerous fragments obtained from the DebriSat experiment show significant concavity (i.e., shadowing) and thus we have explored alternate methods for computing the average cross-sectional area of the fragments. An imaging system based on the volumetric reconstruction of a 3D object from multiple 2D photographs of the object was developed for use in determining the size characteristic (i.e., characteristics length) of the DebriSat fragments. For each fragment, the imaging system generates N number of images from varied azimuth and elevation angles and processes them using a space-carving algorithm to construct a 3D point cloud of the fragment. This paper describes two approaches for calculating the average cross-sectional area of debris fragments based on the 3D imager. Approach A utilizes the constructed 3D object to generate equally distributed cross-sectional area projections and then averages them to determine the average cross-sectional area. Approach B utilizes a weighted average of the area of the 2D photographs to directly compute the average cross-sectional area. A comparison of the accuracy and computational needs of each approach is described as well as preliminary results of an analysis to determine the "optimal" number of images needed for the 3D imager to accurately measure the average cross sectional area of objects with known dimensions.

Discovery of a Molecular Collision Front in Interacting Galaxies NGC 4567/4568 with ALMA

NASA Astrophysics Data System (ADS)

Kaneko, Hiroyuki; Kuno, Nario; Saitoh, Takayuki R.

2018-06-01

We present results of 12CO(J = 1–0) imaging observations of NGC 4567/4568, a galaxy pair in a close encounter, with the Atacama Large Millimeter/Submillimeter Array (ALMA). For the first time, we find clear evidence of a molecular collision front with a velocity dispersion that is 16.8 ± 1.4 km s‑1 at the overlapping region, owing to high spatial and velocity resolution. By integrating over the velocity width that corresponds to the molecular collision front, we find a long filamentary structure with a size of 1800 pc × 350 pc at the collision front. This filamentary molecular structure spatially coincides with a dark lane seen in the R-band image. We find four molecular clouds in the filament, each with a radius of 30 pc and mass of 106 M ⊙ the radii matching a typical value for giant molecular clouds (GMCs) and the masses corresponding to those between GMCs and giant molecular associations (GMAs). All four clouds are gravitationally bound. The molecular filamentary structure and its physical conditions are similar to the structure expected via numerical simulation. The filament could be a progenitor of super star clusters.

Understanding star formation in molecular clouds. I. Effects of line-of-sight contamination on the column density structure

NASA Astrophysics Data System (ADS)

Schneider, N.; Ossenkopf, V.; Csengeri, T.; Klessen, R. S.; Federrath, C.; Tremblin, P.; Girichidis, P.; Bontemps, S.; André, Ph.

2015-03-01

Column-density maps of molecular clouds are one of the most important observables in the context of molecular cloud- and star-formation (SF) studies. With the Herschel satellite it is now possible to precisely determine the column density from dust emission, which is the best tracer of the bulk of material in molecular clouds. However, line-of-sight (LOS) contamination from fore- or background clouds can lead to overestimating the dust emission of molecular clouds, in particular for distant clouds. This implies values that are too high for column density and mass, which can potentially lead to an incorrect physical interpretation of the column density probability distribution function (PDF). In this paper, we use observations and simulations to demonstrate how LOS contamination affects the PDF. We apply a first-order approximation (removing a constant level) to the molecular clouds of Auriga and Maddalena (low-mass star-forming), and Carina and NGC 3603 (both high-mass SF regions). In perfect agreement with the simulations, we find that the PDFs become broader, the peak shifts to lower column densities, and the power-law tail of the PDF for higher column densities flattens after correction. All corrected PDFs have a lognormal part for low column densities with a peak at Av ~ 2 mag, a deviation point (DP) from the lognormal at Av(DP) ~ 4-5 mag, and a power-law tail for higher column densities. Assuming an equivalent spherical density distribution ρ ∝ r- α, the slopes of the power-law tails correspond to αPDF = 1.8, 1.75, and 2.5 for Auriga, Carina, and NGC 3603. These numbers agree within the uncertainties with the values of α ≈ 1.5,1.8, and 2.5 determined from the slope γ (with α = 1-γ) obtained from the radial column density profiles (N ∝ rγ). While α ~ 1.5-2 is consistent with a structure dominated by collapse (local free-fall collapse of individual cores and clumps and global collapse), the higher value of α > 2 for NGC 3603 requires a physical process that leads to additional compression (e.g., expanding ionization fronts). From the small sample of our study, we find that clouds forming only low-mass stars and those also forming high-mass stars have slightly different values for their average column density (1.8 × 1021 cm-2 vs. 3.0 × 1021 cm-2), and they display differences in the overall column density structure. Massive clouds assemble more gas in smaller cloud volumes than low-mass SF ones. However, for both cloud types, the transition of the PDF from lognormal shape into power-law tail is found at the same column density (at Av ~ 4-5 mag). Low-mass and high-mass SF clouds then have the same low column density distribution, most likely dominated by supersonic turbulence. At higher column densities, collapse and external pressure can form the power-law tail. The relative importance of the twoprocesses can vary between clouds and thus lead to the observed differences in PDF and column density structure. Appendices are available in electronic form at http://www.aanda.orgHerschel maps as FITS files are only available at the CDS via anonymous ftp to http://cdsarc.u-strasbg.fr (ftp://130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/575/A79

Physical properties of CO-dark molecular gas traced by C+

NASA Astrophysics Data System (ADS)

Tang, Ningyu; Li, Di; Heiles, Carl; Wang, Shen; Pan, Zhichen; Wang, Jun-Jie

2016-09-01

Context. Neither Hi nor CO emission can reveal a significant quantity of so-called dark gas in the interstellar medium (ISM). It is considered that CO-dark molecular gas (DMG), the molecular gas with no or weak CO emission, dominates dark gas. Determination of physical properties of DMG is critical for understanding ISM evolution. Previous studies of DMG in the Galactic plane are based on assumptions of excitation temperature and volume density. Independent measurements of temperature and volume density are necessary. Aims: We intend to characterize physical properties of DMG in the Galactic plane based on C+ data from the Herschel open time key program, namely Galactic Observations of Terahertz C+ (GOT C+) and Hi narrow self-absorption (HINSA) data from international Hi 21 cm Galactic plane surveys. Methods: We identified DMG clouds with HINSA features by comparing Hi, C+, and CO spectra. We derived the Hi excitation temperature and Hi column density through spectral analysis of HINSA features. The Hi volume density was determined by utilizing the on-the-sky dimension of the cold foreground Hi cloud under the assumption of axial symmetry. The column and volume density of H2 were derived through excitation analysis of C+ emission. The derived parameters were then compared with a chemical evolutionary model. Results: We identified 36 DMG clouds with HINSA features. Based on uncertainty analysis, optical depth of HiτHi of 1 is a reasonable value for most clouds. With the assumption of τHi = 1, these clouds were characterized by excitation temperatures in a range of 20 K to 92 K with a median value of 55 K and volume densities in the range of 6.2 × 101 cm-3 to 1.2 × 103 cm-3 with a median value of 2.3 × 102 cm-3. The fraction of DMG column density in the cloud (fDMG) decreases with increasing excitation temperature following an empirical relation fDMG =-2.1 × 10-3Tex,(τHi = 1) + 1.0. The relation between fDMG and total hydrogen column density NH is given by fDMG = 1.0-3.7 × 1020/NH. We divided the clouds into a high extinction group and low extinction group with the dividing threshold being total hydrogen column density NH of 5.0 × 1021 cm-2 (AV = 2.7 mag). The values of fDMG in the low extinction group (AV ≤ 2.7 mag) are consistent with the results of the time-dependent, chemical evolutionary model at the age of ~10 Myr. Our empirical relation cannot be explained by the chemical evolutionary model for clouds in the high extinction group (AV > 2.7 mag). Compared to clouds in the low extinction group (AV ≤ 2.7 mag), clouds in the high extinction group (AV > 2.7 mag) have comparable volume densities but excitation temperatures that are 1.5 times lower. Moreover, CO abundances in clouds of the high extinction group (AV > 2.7 mag) are 6.6 × 102 times smaller than the canonical value in the Milky Way. Conclusions: The molecular gas seems to be the dominate component in these clouds. The high percentage of DMG in clouds of the high extinction group (AV > 2.7 mag) may support the idea that molecular clouds are forming from pre-existing molecular gas, I.e., a cold gas with a high H2 content but that contains a little or no CO content.

Read clouds uncover variation in complex regions of the human genome.

PubMed

Bishara, Alex; Liu, Yuling; Weng, Ziming; Kashef-Haghighi, Dorna; Newburger, Daniel E; West, Robert; Sidow, Arend; Batzoglou, Serafim

2015-10-01

Although an increasing amount of human genetic variation is being identified and recorded, determining variants within repeated sequences of the human genome remains a challenge. Most population and genome-wide association studies have therefore been unable to consider variation in these regions. Core to the problem is the lack of a sequencing technology that produces reads with sufficient length and accuracy to enable unique mapping. Here, we present a novel methodology of using read clouds, obtained by accurate short-read sequencing of DNA derived from long fragment libraries, to confidently align short reads within repeat regions and enable accurate variant discovery. Our novel algorithm, Random Field Aligner (RFA), captures the relationships among the short reads governed by the long read process via a Markov Random Field. We utilized a modified version of the Illumina TruSeq synthetic long-read protocol, which yielded shallow-sequenced read clouds. We test RFA through extensive simulations and apply it to discover variants on the NA12878 human sample, for which shallow TruSeq read cloud sequencing data are available, and on an invasive breast carcinoma genome that we sequenced using the same method. We demonstrate that RFA facilitates accurate recovery of variation in 155 Mb of the human genome, including 94% of 67 Mb of segmental duplication sequence and 96% of 11 Mb of transcribed sequence, that are currently hidden from short-read technologies. © 2015 Bishara et al.; Published by Cold Spring Harbor Laboratory Press.

Molecular organization of various collagen fragments as revealed by atomic force microscopy and diffusion-ordered NMR spectroscopy.

PubMed

Stötzel, Sabine; Schurink, Marloes; Wienk, Hans; Siebler, Uschi; Burg-Roderfeld, Monika; Eckert, Thomas; Kulik, Bianca; Wechselberger, Rainer; Sewing, Judith; Steinmeyer, Jürgen; Oesser, Steffen; Boelens, Rolf; Siebert, Hans-Christian

2012-09-17

Heterogeneous mixtures of collagen fragments can be used as nutrition supplement or as key ingredients for ointments with therapeutic relevance in wound healing. Some mixtures of collagen fragments are referred to as collagen hydrolysates owing to the production process with hydrolytic enzymes. Since the precise composition of collagen hydrolysates is generally unknown, it is of interest to analyze samples containing various collagen fragments with appropriate biophysical methods. Any product optimization without a profound knowledge concerning the size and the molecular weight distribution of its components is nearly impossible. It turned out that a combination of AFM methods with NMR techniques is exceptionally suited to examine the size range and the aggregation behavior of the collagen fragments in the hydrolysates of fish, jellyfish, chicken, porcine and bovine collagen. Supported by molecular modeling calculations, the AFM and NMR experiments provide a detailed knowledge about the composition of collagen hydrolysates and collagen ointments. Furthermore, the data allow a correlation between the size of the fragments and their potential bioactivity. Copyright © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Infrared Extinction and the Initial Conditions for Star and Planet Formation

NASA Technical Reports Server (NTRS)

Lada, Charles J.

2004-01-01

This grant funds a research program to use infrared extinction measurements to probe the detailed structure of dark molecular clouds and investigate the physical conditions which give rise to star and planet formation. The goals of the this program are to: 1) acquire deep infrared and molecular-line observations of a carefully selected sample of nearby dark clouds, 2) reduce and analyze the data obtained in order to produce detailed extinction maps of the clouds, 3) prepare results, where appropriate, for publication. A description of how these goals were met are included.

A search for pre-main-sequence stars in high-latitude molecular clouds. 3: A survey of the Einstein database

NASA Technical Reports Server (NTRS)

Caillault, Jean-Pierre; Magnani, Loris; Fryer, Chris

1995-01-01

In order to discern whether the high-latitude molecular clouds are regions of ongoing star formation, we have used X-ray emission as a tracer of youthful stars. The entire Einstein database yields 18 images which overlap 10 of the clouds mapped partially or completely in the CO (1-0) transition, providing a total of approximately 6 deg squared of overlap. Five previously unidentified X-ray sources were detected: one has an optical counterpart which is a pre-main-sequence (PMS) star, and two have normal main-sequence stellar counterparts, while the other two are probably extragalactic sources. The PMS star is located in a high Galactic latitude Lynds dark cloud, so this result is not too suprising. The translucent clouds, though, have yet to reveal any evidence of star formation.

Factor analysis as a tool for spectral line component separation 21cm emission in the direction of L1780

NASA Technical Reports Server (NTRS)

Toth, L. V.; Mattila, K.; Haikala, L.; Balazs, L. G.

1992-01-01

The spectra of the 21cm HI radiation from the direction of L1780, a small high-galactic latitude dark/molecular cloud, were analyzed by multivariate methods. Factor analysis was performed on HI (21cm) spectra in order to separate the different components responsible for the spectral features. The rotated, orthogonal factors explain the spectra as a sum of radiation from the background (an extended HI emission layer), and from the L1780 dark cloud. The coefficients of the cloud-indicator factors were used to locate the HI 'halo' of the molecular cloud. Our statistically derived 'background' and 'cloud' spectral profiles, as well as the spatial distribution of the HI halo emission distribution were compared to the results of a previous study which used conventional methods analyzing nearly the same data set.

Searching molecular structure databases with tandem mass spectra using CSI:FingerID

PubMed Central

Dührkop, Kai; Shen, Huibin; Meusel, Marvin; Rousu, Juho; Böcker, Sebastian

2015-01-01

Metabolites provide a direct functional signature of cellular state. Untargeted metabolomics experiments usually rely on tandem MS to identify the thousands of compounds in a biological sample. Today, the vast majority of metabolites remain unknown. We present a method for searching molecular structure databases using tandem MS data of small molecules. Our method computes a fragmentation tree that best explains the fragmentation spectrum of an unknown molecule. We use the fragmentation tree to predict the molecular structure fingerprint of the unknown compound using machine learning. This fingerprint is then used to search a molecular structure database such as PubChem. Our method is shown to improve on the competing methods for computational metabolite identification by a considerable margin. PMID:26392543

Detailed CO(J = 1-0, 2-1, and 3-2) observations toward an H II region RCW 32 in the Vela Molecular Ridge

NASA Astrophysics Data System (ADS)

Enokiya, Rei; Sano, Hidetoshi; Hayashi, Katsuhiro; Tachihara, Kengo; Torii, Kazufumi; Yamamoto, Hiroaki; Hattori, Yusuke; Hasegawa, Yutaka; Ohama, Akio; Kimura, Kimihiro; Ogawa, Hideo; Fukui, Yasuo

2018-05-01

We performed CO(J = 1-0, 2-1, and 3-2) observations toward an H II region RCW 32 in the Vela Molecular Ridge. The CO gas distribution associated with the H II region was revealed for the first time at a high resolution of 22″. The results revealed three distinct velocity components which show correspondence with the optical dark lanes and/or Hα distribution. Two of the components show complementary spatial distribution which suggests collisional interaction between them at a relative velocity of ˜ 4 km s-1. Based on these results, we present a hypothesis that a cloud-cloud collision determined the cloud distribution and triggered formation of the exciting star ionizing RCW 32. The collision time scale is estimated from the cloud size and the velocity separation to be ˜2 Myr and the collision terminated ˜1 Myr ago, which is consistent with the age of the exciting star and the associated cluster. By combing the previous works on the H II regions in the Vela Molecular Ridge, we argue that the majority (at least four) of the H II regions in the Ridge were formed by triggering of cloud-cloud collision.

CO line ratios in molecular clouds: the impact of environment

NASA Astrophysics Data System (ADS)

Peñaloza, Camilo H.; Clark, Paul C.; Glover, Simon C. O.; Klessen, Ralf S.

2018-04-01

Line emission is strongly dependent on the local environmental conditions in which the emitting tracers reside. In this work, we focus on modelling the CO emission from simulated giant molecular clouds (GMCs), and study the variations in the resulting line ratios arising from the emission from the J = 1-0, J = 2-1, and J = 3-2 transitions. We perform a set of smoothed particle hydrodynamics simulations with time-dependent chemistry, in which environmental conditions - including total cloud mass, density, size, velocity dispersion, metallicity, interstellar radiation field (ISRF), and the cosmic ray ionization rate (CRIR) - were systematically varied. The simulations were then post-processed using radiative transfer to produce synthetic emission maps in the three transitions quoted above. We find that the cloud-averaged values of the line ratios can vary by up to ±0.3 dex, triggered by changes in the environmental conditions. Changes in the ISRF and/or in the CRIR have the largest impact on line ratios since they directly affect the abundance, temperature, and distribution of CO-rich gas within the clouds. We show that the standard methods used to convert CO emission to H2 column density can underestimate the total H2 molecular gas in GMCs by factors of 2 or 3, depending on the environmental conditions in the clouds.

Formaldehyde in the Diffuse Interstellar Cloud MBM40

NASA Astrophysics Data System (ADS)

Joy, Mackenzie; Magnani, Loris A.

2018-06-01

MBM40, a high-latitude molecular cloud, has been extensively studied using different molecular tracers. It appears that MBM40 is composed of a relatively dense, helical filament embedded in a more diffuse substrate of low density molecular gas. In order to study the transition between the two regimes, this project presents the first high-resolution mapping of MBM40 using the 110-111 hyperfine transition of formaldehyde (H2CO) at 4.83 GHz. We used H2CO spectra obtained with the Arecibo telescope more than a decade ago to construct this map. The results can be compared to previous maps made from the CO(1-0) transition to gain further understanding of the structure of the cloud. The intensity of the H2CO emission was compared to the CO emission. Although a correlation exists between the H2CO and CO emissivity, there seems to be a saturation of H2CO line strength for stronger CO emissivity. This is probably a radiative transfer effect of the CO emission. We have also found that the velocity dispersion of H2CO in the lower ridge of the cloud is significantly lower than in the rest of the cloud. This may indicate that this portion of the cloud is a coherent structure (analogous to an eddy) in a turbulent flow.

The role of glacial cycles in promoting genetic diversity in the Neotropics: the case of cloud forests during the Last Glacial Maximum

PubMed Central

Ramírez-Barahona, Santiago; Eguiarte, Luis E

2013-01-01

The increasing aridity during the Last Glacial Maximum (LGM) has been proposed as a major factor affecting Neotropical species. The character and intensity of this change, however, remains the subject of ongoing debate. This review proposes an approach to test contrasting paleoecological hypotheses by way of their expected demographic and genetic effects on Neotropical cloud forest species. We reviewed 48 paleoecological records encompassing the LGM in the Neotropics. The records show contrasting evidence regarding the changes in precipitation during this period. Some regions remained fairly moist and others had a significantly reduced precipitation. Many paleoecological records within the same region show apparently conflicting evidence on precipitation and forest stability. From these data, we propose and outline two demographic/genetic scenarios for cloud forests species based on opposite precipitation regimes: the dry refugia and the moist forests hypotheses. We searched for studies dealing with the population genetic structure of cloud forest and other montane taxa and compared their results with the proposed models. To date, the few available molecular studies show insufficient genetic evidence on the predominance of glacial aridity in the Neotropics. In order to disentangle the climatic history of the Neotropics, the present study calls for a general multi-disciplinary approach to conduct future phylogeographic studies. Given the contradictory paleoecological information, population genetic data on Neotropical cloud forest species should be used to explicitly test the genetic consequences of competing paleoecological models. PMID:23531632

Potential Energy Surfaces and Dynamics for Energetic Ionic Liquids

DTIC Science & Technology

2012-04-09

advantage of such architectures12. Very recently, we have implemented the FMO method on the BG/ P system at Argonne National Laboratory, demonstrating that...Molecular Orbital Method”, J. Comp. Theoret. Chem., 6, 1 (2010). 4. T. Nagata, D . Fedorov, K. Kitaura, and M.S. Gordon, “A Combined Effective Fragment...Chem., 3, 177 (2007). 6. T. Nagata, D . Fedorov, K. Kitaura, and M.S. Gordon, “A Combined Effective Fragment Potential - Fragment Molecular Orbital

Toward Measuring Galactic Dense Molecular Gas Properties and 3D Distribution with Hi-GAL

NASA Astrophysics Data System (ADS)

Zetterlund, Erika; Glenn, Jason; Maloney, Phil

2016-01-01

The Herschel Space Observatory's submillimeter dust continuum survey Hi-GAL provides a powerful new dataset for characterizing the structure of the dense interstellar medium of the Milky Way. Hi-GAL observed a 2° wide strip covering the entire 360° of the Galactic plane in broad bands centered at 70, 160, 250, 350, and 500 μm, with angular resolution ranging from 10 to 40 arcseconds. We are adapting a molecular cloud clump-finding algorithm and a distance probability density function distance-determination method developed for the Bolocam Galactic Plane Survey (BGPS) to the Hi-GAL data. Using these methods we expect to generate a database of 105 cloud clumps, derive distance information for roughly half the clumps, and derive precise distances for approximately 20% of them. With five-color photometry and distances, we will measure the cloud clump properties, such as luminosities, physical sizes, and masses, and construct a three-dimensional map of the Milky Way's dense molecular gas distribution.The cloud clump properties and the dense gas distribution will provide critical ground truths for comparison to theoretical models of molecular cloud structure formation and galaxy evolution models that seek to emulate spiral galaxies. For example, such models cannot resolve star formation and use prescriptive recipes, such as converting a fixed fraction of interstellar gas to stars at a specified interstellar medium density threshold. The models should be compared to observed dense molecular gas properties and galactic distributions.As a pilot survey to refine the clump-finding and distance measurement algorithms developed for BGPS, we have identified molecular cloud clumps in six 2° × 2° patches of the Galactic plane, including one in the inner Galaxy along the line of sight through the Molecular Ring and the termination of the Galactic bar and one toward the outer Galaxy. Distances have been derived for the inner Galaxy clumps and compared to Bolocam Galactic Plane Survey results. We present the pilot survey clump catalog, distances, clump properties, and a comparison to BGPS.

ALMA Reveals Molecular Cloud N55 in the Large Magellanic Cloud as a Site of Massive Star Formation

NASA Astrophysics Data System (ADS)

Naslim, N.; Tokuda, K.; Onishi, T.; Kemper, F.; Wong, T.; Morata, O.; Takada, S.; Harada, R.; Kawamura, A.; Saigo, K.; Indebetouw, R.; Madden, S. C.; Hony, S.; Meixner, M.

2018-02-01

We present the molecular cloud properties of N55 in the Large Magellanic Cloud using 12CO(1–0) and 13CO(1–0) observations obtained with Atacama Large Millimeter Array. We have done a detailed study of molecular gas properties, to understand how the cloud properties of N55 differ from Galactic clouds. Most CO emission appears clumpy in N55, and molecular cores that have young stellar objects (YSOs) show larger linewidths and masses. The massive clumps are associated with high and intermediate mass YSOs. The clump masses are determined by local thermodynamic equilibrium and virial analysis of the 12CO and 13CO emissions. These mass estimates lead to the conclusion that (a) the clumps are in self-gravitational virial equilibrium, and (b) the 12CO(1–0)-to-H2 conversion factor, {X}{CO}, is 6.5 × 1020 cm‑2 (K km s‑1)‑1. This CO-to-H2 conversion factor for N55 clumps is measured at a spatial scale of ∼0.67 pc, which is about two times higher than the {X}{CO} value of the Orion cloud at a similar spatial scale. The core mass function of N55 clearly show a turnover below 200 {M}ȯ , separating the low-mass end from the high-mass end. The low-mass end of the 12CO mass spectrum is fitted with a power law of index 0.5 ± 0.1, while for 13CO it is fitted with a power law index 0.6 ± 0.2. In the high-mass end, the core mass spectrum is fitted with a power index of 2.0 ± 0.3 for 12CO, and with 2.5 ± 0.4 for 13CO. This power law behavior of the core mass function in N55 is consistent with many Galactic clouds.

Protein-Templated Fragment Ligations-From Molecular Recognition to Drug Discovery.

PubMed

Jaegle, Mike; Wong, Ee Lin; Tauber, Carolin; Nawrotzky, Eric; Arkona, Christoph; Rademann, Jörg

2017-06-19

Protein-templated fragment ligation is a novel concept to support drug discovery and can help to improve the efficacy of protein ligands. Protein-templated fragment ligations are chemical reactions between small molecules ("fragments") utilizing a protein's surface as a reaction vessel to catalyze the formation of a protein ligand with increased binding affinity. The approach exploits the molecular recognition of reactive small-molecule fragments by proteins both for ligand assembly and for the identification of bioactive fragment combinations. In this way, chemical synthesis and bioassay are integrated in one single step. This Review discusses the biophysical basis of reversible and irreversible fragment ligations and gives an overview of the available methods to detect protein-templated ligation products. The chemical scope and recent applications as well as future potential of the concept in drug discovery are reviewed. © 2017 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

Infrared Extinction and the Initial Conditions for Star and Planet Formation

NASA Technical Reports Server (NTRS)

Lada, Charles J.

2005-01-01

This grant funded a research program to use infrared extinction measurements to probe the detailed structure of dark molecular clouds and investigate the physical conditions which give rise to star and planet formation. The goals of the this program were to: 1) acquire deep infrared and molecular-line observations of a carefully selected sample of nearby dark clouds, 2) reduce and analyze the data obtained in order to produce detailed extinction maps of the clouds, 3) use the results to measure and quantitatively describe the physical conditions of the dense gas and dust that produce stars and their accompanying planetary systems in molecular clouds. The goals of this project were met and exceeded as described below. 1) The infrared data for the project were obtained in a number of observing runs using the 3.5-meter NTT and 8-meter VLT telescopes of the European Southern Observatory in Chile and the 1.2-meter telescope of the Smithsonian Astrophysical Observatory in Arizona, the 1 0-meter Keck telescope in Hawaii, the 6.5-meter MMT of the Smithsonian Astrophysical Observatory in Arizona, and the NASA Hubble Space Telescope. The molecular-line data was obtained in three runs using the IRAM 30-meter telescope in Spain and one run with the ESO-15 meter millimeter-wave telescope in Chile. Millimeter-wave continuum measurements were obtained with the 15-meter JCMT in Hawaii. 2) Considerable effort was expended to reduce the infrared imaging observations including the development of custom software to produce high quality photometry and source astrometry. All the millimeter-line data was reduced using standard reduction routines. The highlights of the infrared analysis were the production of detailed extinction maps and the construction of profiles of the density structure of the B68, Coalsack, B335 and Lupus clouds. 3) The principal scientific accomplishments of this research program include the following: We were able to use our infrared observations to determine the density structure of the B68 cloud to an unprecedented level of precision. This lead to a major breakthrough in the study of molecular cloud structure. For the first time we have been able to characterize the structure of a dark cloud in a detail only exceeded by that known for a star. We determined that the cloud's structure is exquisitely well described by the equations of a Bonner-Ebert sphere (a pressure confined isothermal sphere). We were able to show that the cloud is very nearly in equilibrium with the internal thermal pressure of the cloud balancing gravity and the external pressure of the surrounding interstellar medium. We were able to determine for the first time the gas-to-dust ratio in a dense cloud core. We also demonstrated a new method to determine extremely precise distances to such clouds by combining knowledge of the properties of Bonner-Ebert Spheres with our infrared and millimeter-wave observations.

IPRT polarized radiative transfer model intercomparison project - Three-dimensional test cases (phase B)

NASA Astrophysics Data System (ADS)

Emde, Claudia; Barlakas, Vasileios; Cornet, Céline; Evans, Frank; Wang, Zhen; Labonotte, Laurent C.; Macke, Andreas; Mayer, Bernhard; Wendisch, Manfred

2018-04-01

Initially unpolarized solar radiation becomes polarized by scattering in the Earth's atmosphere. In particular molecular scattering (Rayleigh scattering) polarizes electromagnetic radiation, but also scattering of radiation at aerosols, cloud droplets (Mie scattering) and ice crystals polarizes. Each atmospheric constituent produces a characteristic polarization signal, thus spectro-polarimetric measurements are frequently employed for remote sensing of aerosol and cloud properties. Retrieval algorithms require efficient radiative transfer models. Usually, these apply the plane-parallel approximation (PPA), assuming that the atmosphere consists of horizontally homogeneous layers. This allows to solve the vector radiative transfer equation (VRTE) efficiently. For remote sensing applications, the radiance is considered constant over the instantaneous field-of-view of the instrument and each sensor element is treated independently in plane-parallel approximation, neglecting horizontal radiation transport between adjacent pixels (Independent Pixel Approximation, IPA). In order to estimate the errors due to the IPA approximation, three-dimensional (3D) vector radiative transfer models are required. So far, only a few such models exist. Therefore, the International Polarized Radiative Transfer (IPRT) working group of the International Radiation Commission (IRC) has initiated a model intercomparison project in order to provide benchmark results for polarized radiative transfer. The group has already performed an intercomparison for one-dimensional (1D) multi-layer test cases [phase A, 1]. This paper presents the continuation of the intercomparison project (phase B) for 2D and 3D test cases: a step cloud, a cubic cloud, and a more realistic scenario including a 3D cloud field generated by a Large Eddy Simulation (LES) model and typical background aerosols. The commonly established benchmark results for 3D polarized radiative transfer are available at the IPRT website (http://www.meteo.physik.uni-muenchen.de/ iprt).

Galactic kinematics of molecuar clouds

DOE Office of Scientific and Technical Information (OSTI.GOV)

Stark, A.A.

1979-01-01

The kinematics of molecular clouds in the galactic disk are studied to determine the magnitude of cloud-to-coud velocity dispersions and systematic streaming motions. Three observational programs are reported: (i) a strip map of 1 = 180/sup 0/ from b = -9/sup 0/ to +8/sup 0/ observed in CO J = 1 greater than or equal to 0 to an rms noise level of 0.1 K in 250 kHz filters; (ii) a 20-point map of the minor axis of M31, observed in CO J = 1 greater than or equal to 0 to an rms noise level of 20 mK inmore » 1 MHz filters; (iii) three maps in the molecular ring, centered at 1 = 34/sup 0/, 1 = 36/sup 0/ and 1 = 51/sup 0/, each about one degree square, sampled every 0.05/sup 0/ in /sup 13/CO J = 1 greater than or equal to 0 to an rms noise level of 0.1 K in 250 kHz filters. Molecular clouds typically have one dimensional cloud-to-cloud velocity dispersions of about 8 km s/sup -1/. This dispersion is independent of cloud mass over a range of 10/sup 2/M /sub solar/ < M/sub C < 10/sup 5/ /sup 5/M /sub solar/. Clouds more massive than about 10 /sup 5/ /sup 5/M /sub solar/ have a markedly smaller dispersion. These most massive clouds occur preferentially in spiral arms, and result in spiral arm CO emissivities several times that of interarm regions. Also associated with spiral arms are large-scale streaming motions, which amount to 100 km s/sup -1/ in one arm in M31.« less

PDV-based estimation of ejecta particles' mass-velocity function from shock-loaded tin experiment

NASA Astrophysics Data System (ADS)

Franzkowiak, J.-E.; Prudhomme, G.; Mercier, P.; Lauriot, S.; Dubreuil, E.; Berthe, L.

2018-03-01

A metallic tin plate with a given surface finish of wavelength λ ≃ 60 μm and amplitude h ≃ 8 μm is explosively driven by an electro-detonator with a shock-induced breakout pressure PSB = 28 GPa (unsupported). The resulting dynamic fragmentation process, the so-called "micro-jetting," is the creation of high-speed jets of matter moving faster than the bulk metallic surface. Hydrodynamic instabilities result in the fragmentation of these jets into micron-sized metallic particles constituting a self-expanding cloud of droplets, whose areal mass, velocity, and particle size distributions are unknown. Lithium-niobate-piezoelectric sensor measured areal mass and Photonic Doppler Velocimetry (PDV) was used to get a time-velocity spectrogram of the cloud. In this article, we present both experimental mass and velocity results and we relate the integrated areal mass of the cloud to the PDV power spectral density with the assumption of a power law particle size distribution. Two models of PDV spectrograms are described. The first one accounts for the speckle statistics of the spectrum and the second one describes an average spectrum for which speckle fluctuations are removed. Finally, the second model is used for a maximum likelihood estimation of the cloud's parameters from PDV data. The estimated integrated areal mass from PDV data is found to agree well with piezoelectric results. We highlight the relevance of analyzing PDV data and correlating different diagnostics to retrieve the physical properties of ejecta particles.

How Does Dense Molecular Gas Contribute to Star Formation in the Starburst Galaxy NGC 2146?

NASA Astrophysics Data System (ADS)

Wofford, Alia

2017-01-01

The starburst galaxy NGC 2146 is believed to have been formed approximately 800 Myr ago, when two galaxies collided with each other possibly leading to a burst of star formation. NGC 2146 is known as a starburst galaxy for the high frequency of star formation going on in its molecular clouds. These clouds serve as nurseries for star formation to occur. Hydrogen Cyanide (HCN) and Carbon monoxide (CO) are molecules found in molecular gas clouds. HCN molecules are tracers for high density star forming gas. Whereas, CO molecules are tracers for low density star forming gas. In this project, we are observing these two molecules and their proximity to where the stars are forming in the galaxy to determine if the star formation is occurring in the same area as the high and low density molecular gas areas in starburst galaxy NGC 2146.

Cosmic rays, gas and dust in nearby anticentre clouds. I. CO-to-H2 conversion factors and dust opacities

NASA Astrophysics Data System (ADS)

Remy, Q.; Grenier, I. A.; Marshall, D. J.; Casandjian, J. M.

2017-05-01

Aims: We aim to explore the capabilities of dust emission and γ rays for probing the properties of the interstellar medium in the nearby anti-centre region, using γ-ray observations with the Fermi Large Area Telescope (LAT), and the thermal dust optical depth inferred from Planck and IRAS observations. We also aim to study massive star-forming clouds including the well known Taurus, Auriga, Perseus, and California molecular clouds, as well as a more diffuse structure which we refer to as Cetus. In particular, we aim at quantifying potential variations in cosmic-ray density and dust properties per gas nucleon across the different gas phases and different clouds, and at measuring the CO-to-H2 conversion factor, XCO, in different environments. Methods: We have separated six nearby anti-centre clouds that are coherent in velocities and distances, from the Galactic-disc background in H I 21-cm and 12CO 2.6-mm line emission. We have jointly modelled the γ-ray intensity recorded between 0.4 and 100 GeV, and the dust optical depth τ353 at 353 GHz as a combination of H I-bright, CO-bright, and ionised gas components. The complementary information from dust emission and γ rays was used to reveal the gas not seen, or poorly traced, by H I, free-free, and 12CO emissions, namely (I) the opaque H iand diffuse H2 present in the Dark Neutral Medium at the atomic-molecular transition, and (II) the dense H2 to be added where 12CO lines saturate. Results: The measured interstellar γ-ray spectra support a uniform penetration of the cosmic rays with energies above a few GeV through the clouds, from the atomic envelopes to the 12CO-bright cores, and with a small ± 9% cloud-to-cloud dispersion in particle flux. We detect the ionised gas from the H iiregion NGC 1499 in the dust and γ-ray emissions and measure its mean electron density and temperature. We find a gradual increase in grain opacity as the gas (atomic or molecular) becomes more dense. The increase reaches a factor of four to six in the cold molecular regions that are well shielded from stellar radiation. Consequently, the XCO factor derived from dust is systematically larger by 30% to 130% than the γ-ray estimate. We also evaluate the average γ-ray XCO factor for each cloud, and find that XCO tends to decrease from diffuse to more compact molecular clouds, as expected from theory. We find XCO factors in the anti-centre clouds close to or below 1020 cm-2 K-1 km-1 s, in agreement with other estimates in the solar neighbourhood. Together, they confirm the long-standing unexplained discrepancy, by a factor of two, between the mean XCO values measured at parsec scales in nearby clouds and those obtained at kiloparsec scale in the Galaxy. Our results also highlight large quantitative discrepancies in 12CO intensities between simulations and observations at low molecular gas densities.

Augmented generation of protein fragments during wakefulness as the molecular cause of sleep: a hypothesis

PubMed Central

Varshavsky, Alexander

2012-01-01

Despite extensive understanding of sleep regulation, the molecular-level cause and function of sleep are unknown. I suggest that they originate in individual neurons and stem from increased production of protein fragments during wakefulness. These fragments are transient parts of protein complexes in which the fragments were generated. Neuronal Ca2+ fluxes are higher during wakefulness than during sleep. Subunits of transmembrane channels and other proteins are cleaved by Ca2+-activated calpains and by other nonprocessive proteases, including caspases and secretases. In the proposed concept, termed the fragment generation (FG) hypothesis, sleep is a state during which the production of fragments is decreased (owing to lower Ca2+ transients) while fragment-destroying pathways are upregulated. These changes facilitate the elimination of fragments and the remodeling of protein complexes in which the fragments resided. The FG hypothesis posits that a proteolytic cleavage, which produces two fragments, can have both deleterious effects and fitness-increasing functions. This (previously not considered) dichotomy can explain both the conservation of cleavage sites in proteins and the evolutionary persistence of sleep, because sleep would counteract deleterious aspects of protein fragments. The FG hypothesis leads to new explanations of sleep phenomena, including a longer sleep after sleep deprivation. Studies in the 1970s showed that ethanol-induced sleep in mice can be strikingly prolonged by intracerebroventricular injections of either Ca2+ alone or Ca2+ and its ionophore (Erickson et al., Science 1978;199:1219–1221; Harris, Pharmacol Biochem Behav 1979;10:527–534; Erickson et al., Pharmacol Biochem Behav 1980;12:651–656). These results, which were never interpreted in connection to protein fragments or the function of sleep, may be accounted for by the FG hypothesis about molecular causation of sleep. PMID:22930402

Molecular Diagnostics of the Internal Motions of Massive Cores

NASA Astrophysics Data System (ADS)

Pineda, Jorge; Velusamy, T.; Goldsmith, P.; Li, D.; Peng, R.; Langer, W.

2009-12-01

We present models of the internal kinematics of massive cores in the Orion molecular cloud. We use a sample of cores studied by Velusamy et al. (2008) that show red, blue, and no asymmetry in their HCO+ line profiles in equal proportion, and which therefore may represent a sample of cores in different kinematic states. We use the radiative transfer code RATRAN (Hogerheijde & van der Tak 2000) to model several transitions of HCO+ and H13CO+ as well as the dust continuum emission, of a spherical model cloud with radial density, temperature, and velocity gradients. We find that an excitation and velocity gradients are prerequisites to reproduce the observed line profiles. We use the dust continuum emission to constrain the density and temperature gradients. This allows us to narrow down the functional forms of the velocity gradient giving us the opportunity to test several theoretical predictions of velocity gradients produced by the effect of magnetic fields (e.g. Tassis et. al. 2007) and turbulence (e.g. Vasquez-Semanedi et al 2007).

Testing spatial uniformity of the CR spectrum in the local ISM with γ-ray observations

NASA Astrophysics Data System (ADS)

Prokhorov, D. A.; Colafrancesco, S.

2018-05-01

Gamma-ray observations of nearby radio-line-emitting gas structures in the interstellar medium allow us to probe the spectrum of cosmic rays (CRs). In this paper, we analysed Fermi Large Area Telescope (LAT) γ-ray observations of three such structures located near each other to check if their CR spectra are compatible with that of the CR background or might provide evidence for a population of "fresh" CRs. We found that the shape of the γ-ray spectrum in the Aquarius HI shell is consistent with the previously published stacked γ-ray spectrum of the Gould Belt molecular clouds. We also found that assumptions on the diffuse Galactic γ-ray background affect the spectral shapes of CRs derived in the R Coronae Australis and ρ Ophiuchi molecular clouds in which spectral deviations had previously been suggested. These two facts provide evidence to support the hypothesis of uniformity of the shapes of cosmic ray spectra in the local Galaxy environment.

Fragment-Based Phenotypic Lead Discovery: Cell-Based Assay to Target Leishmaniasis.

PubMed

Ayotte, Yann; Bilodeau, François; Descoteaux, Albert; LaPlante, Steven R

2018-05-02

A rapid and practical approach for the discovery of new chemical matter for targeting pathogens and diseases is described. Fragment-based phenotypic lead discovery (FPLD) combines aspects of traditional fragment-based lead discovery (FBLD), which involves the screening of small-molecule fragment libraries to target specific proteins, with phenotypic lead discovery (PLD), which typically involves the screening of drug-like compounds in cell-based assays. To enable FPLD, a diverse library of fragments was first designed, assembled, and curated. This library of soluble, low-molecular-weight compounds was then pooled to expedite screening. Axenic cultures of Leishmania promastigotes were screened, and single hits were then tested for leishmanicidal activity against intracellular amastigote forms in infected murine bone-marrow-derived macrophages without evidence of toxicity toward mammalian cells. These studies demonstrate that FPLD can be a rapid and effective means to discover hits that can serve as leads for further medicinal chemistry purposes or as tool compounds for identifying known or novel targets. © 2018 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

Chemical evolution of giant molecular clouds in simulations of galaxies

NASA Astrophysics Data System (ADS)

Richings, Alexander J.; Schaye, Joop

2016-08-01

We present an analysis of giant molecular clouds (GMCs) within hydrodynamic simulations of isolated, low-mass (M* ˜ 109 M⊙) disc galaxies. We study the evolution of molecular abundances and the implications for CO emission and the XCO conversion factor in individual clouds. We define clouds either as regions above a density threshold n_{H, min} = 10 {cm}^{-3}, or using an observationally motivated CO intensity threshold of 0.25 {K} {km} {s}^{-1}. Our simulations include a non-equilibrium chemical model with 157 species, including 20 molecules. We also investigate the effects of resolution and pressure floors (I.e. Jeans limiters). We find cloud lifetimes up to ≈ 40 Myr, with a median of 13 Myr, in agreement with observations. At one-tenth solar metallicity, young clouds ( ≲ 10-15 Myr) are underabundant in H2 and CO compared to chemical equilibrium, by factors of ≈3 and one to two orders of magnitude, respectively. At solar metallicity, GMCs reach chemical equilibrium faster (within ≈ 1 Myr). We also compute CO emission from individual clouds. The mean CO intensity, ICO, is strongly suppressed at low dust extinction, Av, and possibly saturates towards high Av, in agreement with observations. The ICO-Av relation shifts towards higher Av for higher metallicities and, to a lesser extent, for stronger UV radiation. At one-tenth solar metallicity, CO emission is weaker in young clouds ( ≲ 10-15 Myr), consistent with the underabundance of CO. Consequently, XCO decreases by an order of magnitude from 0 to 15 Myr, albeit with a large scatter.

The Milky Way as a Star Formation Engine

NASA Astrophysics Data System (ADS)

Molinari, S.; Bally, J.; Glover, S.; Moore, T.; Noriega-Crespo, A.; Plume, R.; Testi, L.; Vázquez-Semadeni, E.; Zavagno, A.; Bernard, J.-P.; Martin, P.

The cycling of material from the interstellar medium (ISM) into stars and the return of stellar ejecta into the ISM is the engine that drives the galactic ecology in normal spirals. This ecology is a cornerstone in the formation and evolution of galaxies through cosmic time. There remain major observational and theoretical challenges in determining the processes responsible for converting the low-density, diffuse components of the ISM into dense molecular clouds, forming dense filaments and clumps, fragmenting them into stars, expanding OB associations and bound clusters, and characterizing the feedback that limits the rate and efficiency of star formation. This formidable task can be attacked effectively for the first time thanks to the synergistic combination of new global-scale surveys of the Milky Way from infrared (IR) to radio wavelengths, offering the possibility of bridging the gap between local and extragalactic star-formation studies. The Herschel Space Observatory Galactic Plane Survey (Hi-GAL) survey, with its five-band 70-500-μm full Galactic Plane mapping at 6"-36" resolution, is the keystone of a set of continuum surveys that include the Galactic Legacy Infrared Mid-Plane Survey Extraordinaire (GLIMPSE)(360)+MIPSGAL@Spitzer, Wide-field Infrared Survey Explorer (WISE), Midcourse Space Experiment (MSX), APEX Telescope Large Area Survey of the Galaxy (ATLASGAL)@Atacama Pathfinder EXperiment (APEX), Bolocam Galactic Plane Survey (BGPS)@Caltech Submillimeter Observatory (CSO), and CORNISH@Very Large Array (VLA). This suite enables us to measure the Galactic distribution and physical properties of dust on all scales and in all components of the ISM from diffuse clouds to filamentary complexes and hundreds of thousands of dense clumps. A complementary suite of spectroscopic surveys in various atomic and molecular tracers is providing the chemical fingerprinting of dense clumps and filaments, as well as essential kinematic information to derive distances and thus transform panoramic data into a three-dimensional representation. The latest results emerging from these Galaxy-scale surveys are reviewed. New insights into cloud formation and evolution, filaments and their relationship to channeling gas onto gravitationally-bound clumps, the properties of these clumps, density thresholds for gravitational collapse, and star and cluster formation rates are discussed.

Principal Component Analysis of Microbial Community Data from an Accelerated Decay Cellar Test

Treesearch

Grant T. Kirker; Patricia K. Lebow

2014-01-01

Analysis of microbial communities is a valuable tool for characterization and identification of microbes in a myriad of environments. We are currently using the molecular method terminal restriction fragment length polymorphism (T-RFLP) analysis to characterize changes in bacterial and fungal communities on treated and untreated wood in soil. T-RFLP uses fluorescently...

Many-body expansion of the Fock matrix in the fragment molecular orbital method

NASA Astrophysics Data System (ADS)

Fedorov, Dmitri G.; Kitaura, Kazuo

2017-09-01

A many-body expansion of the Fock matrix in the fragment molecular orbital method is derived up to three-body terms for restricted Hartree-Fock and density functional theory in the atomic orbital basis and compared to the expansion in the basis of fragment molecular orbitals (MOs). The physical nature of many-body corrections is revealed in terms of charge transfer terms. An improvement of the fragment MO expansion is proposed by adding exchange to the embedding. The accuracy of all developed methods is demonstrated in comparison to unfragmented results for polyalanines, a water cluster, Trp-cage (PDB: 1L2Y) and crambin (PDB: 1CRN) proteins, a zeolite cluster, a Si nano-wire, and a boron nitride ribbon. The physical nature of metallicity is discussed, and it is shown what kinds of metallic systems can be treated by fragment-based methods. The density of states is calculated for a fully closed and a partially open nano-ring of boron nitride with a diameter of 105 nm.

IRAS and the Boston University Arecibo Galactic H I Survey: A catalog of cloud properties

NASA Technical Reports Server (NTRS)

Bania, Thomas M.

1992-01-01

The Infrared Astronomy Satellite (IRAS) Galactic Plane Surface Brightness Images were used to identify infrared emission associated with cool, diffuse H I clouds detected by the Boston University-Arecibo Galactic H I Survey. These clouds are associated with galactic star clusters, H II regions, and molecular clouds. Using emission-absorption experiments toward galactic H II regions, we determined the H I properties of cool H I clouds seen in absorption against the thermal continuum, including their kinematic distances. Correlations were then made between IRAS sources and these H II regions, thus some of the spatial confusion associated with the IRAS fields near the galactic plane was resolved since the distances to these sources was known. Because we can also correlate the BU-Arecibo clouds with existing CO surveys, these results will allow us to determine the intrinsic properties of the gas (neutral and ionized atomic as well as molecular) and dust for interstellar clouds in the inner galaxy. For the IRAS-identified H II region sample, we have established the far infrared (FIR) luminosities and galactic distribution of these sources.

DNA-based species level detection of Glomeromycota: one PCR primer set for all arbuscular mycorrhizal fungi.

PubMed

Krüger, Manuela; Stockinger, Herbert; Krüger, Claudia; Schüssler, Arthur

2009-01-01

* At present, molecular ecological studies of arbuscular mycorrhizal fungi (AMF) are only possible above species level when targeting entire communities. To improve molecular species characterization and to allow species level community analyses in the field, a set of newly designed AMF specific PCR primers was successfully tested. * Nuclear rDNA fragments from diverse phylogenetic AMF lineages were sequenced and analysed to design four primer mixtures, each targeting one binding site in the small subunit (SSU) or large subunit (LSU) rDNA. To allow species resolution, they span a fragment covering the partial SSU, whole internal transcribed spacer (ITS) rDNA region and partial LSU. * The new primers are suitable for specifically amplifying AMF rDNA from material that may be contaminated by other organisms (e.g., samples from pot cultures or the field), characterizing the diversity of AMF species from field samples, and amplifying a SSU-ITS-LSU fragment that allows phylogenetic analyses with species level resolution. * The PCR primers can be used to monitor entire AMF field communities, based on a single rDNA marker region. Their application will improve the base for deep sequencing approaches; moreover, they can be efficiently used as DNA barcoding primers.

Clustering the Orion B giant molecular cloud based on its molecular emission

PubMed Central

Bron, Emeric; Daudon, Chloé; Pety, Jérôme; Levrier, François; Gerin, Maryvonne; Gratier, Pierre; Orkisz, Jan H.; Guzman, Viviana; Bardeau, Sébastien; Goicoechea, Javier R.; Liszt, Harvey; Öberg, Karin; Peretto, Nicolas; Sievers, Albrecht; Tremblin, Pascal

2017-01-01

Context Previous attempts at segmenting molecular line maps of molecular clouds have focused on using position-position-velocity data cubes of a single molecular line to separate the spatial components of the cloud. In contrast, wide field spectral imaging over a large spectral bandwidth in the (sub)mm domain now allows one to combine multiple molecular tracers to understand the different physical and chemical phases that constitute giant molecular clouds (GMCs). Aims We aim at using multiple tracers (sensitive to different physical processes and conditions) to segment a molecular cloud into physically/chemically similar regions (rather than spatially connected components), thus disentangling the different physical/chemical phases present in the cloud. Methods We use a machine learning clustering method, namely the Meanshift algorithm, to cluster pixels with similar molecular emission, ignoring spatial information. Clusters are defined around each maximum of the multidimensional Probability Density Function (PDF) of the line integrated intensities. Simple radiative transfer models were used to interpret the astrophysical information uncovered by the clustering analysis. Results A clustering analysis based only on the J = 1 – 0 lines of three isotopologues of CO proves suffcient to reveal distinct density/column density regimes (nH ~ 100 cm−3, ~ 500 cm−3, and > 1000 cm−3), closely related to the usual definitions of diffuse, translucent and high-column-density regions. Adding two UV-sensitive tracers, the J = 1 − 0 line of HCO+ and the N = 1 − 0 line of CN, allows us to distinguish two clearly distinct chemical regimes, characteristic of UV-illuminated and UV-shielded gas. The UV-illuminated regime shows overbright HCO+ and CN emission, which we relate to a photochemical enrichment effect. We also find a tail of high CN/HCO+ intensity ratio in UV-illuminated regions. Finer distinctions in density classes (nH ~ 7 × 103 cm−3 ~ 4 × 104 cm−3) for the densest regions are also identified, likely related to the higher critical density of the CN and HCO+ (1 – 0) lines. These distinctions are only possible because the high-density regions are spatially resolved. Conclusions Molecules are versatile tracers of GMCs because their line intensities bear the signature of the physics and chemistry at play in the gas. The association of simultaneous multi-line, wide-field mapping and powerful machine learning methods such as the Meanshift clustering algorithm reveals how to decode the complex information available in these molecular tracers. PMID:29456256

The shapes of column density PDFs. The importance of the last closed contour

NASA Astrophysics Data System (ADS)

Alves, João; Lombardi, Marco; Lada, Charles J.

2017-10-01

The probability distribution function of column density (PDF) has become the tool of choice for cloud structure analysis and star formation studies. Its simplicity is attractive, and the PDF could offer access to cloud physical parameters otherwise difficult to measure, but there has been some confusion in the literature on the definition of its completeness limit and shape at the low column density end. In this letter we use the natural definition of the completeness limit of a column density PDF, the last closed column density contour inside a surveyed region, and apply it to a set of large-scale maps of nearby molecular clouds. We conclude that there is no observational evidence for log-normal PDFs in these objects. We find that all studied molecular clouds have PDFs well described by power laws, including the diffuse cloud Polaris. Our results call for a new physical interpretation of the shape of the column density PDFs. We find that the slope of a cloud PDF is invariant to distance but not to the spatial arrangement of cloud material, and as such it is still a useful tool for investigating cloud structure.

Molecular gas in high-mass filament WB673

NASA Astrophysics Data System (ADS)

Kirsanova, Maria S.; Salii, Svetlana V.; Sobolev, Andrej M.; Olofsson, Anders Olof Henrik; Ladeyschikov, Dmitry A.; Thomasson, Magnus

2017-12-01

We studied the distribution of dense gas in a filamentary molecular cloud containing several dense clumps. The center of the filament is given by the dense clump WB673. The clumps are high-mass and intermediate-mass starforming regions. We observed CS (2-1), 13CO (1-0), C18O(1-0), and methanol lines at 96 GHz toward WB673 with the Onsala Space Observatory 20-m telescope. We found CS (2-1) emission in the inter-clump medium so the clumps are physically connected and the whole cloud is indeed a filament. Its total mass is 104 M⊙ and mass-to-length ratio is 360M⊙ pc-1 from 13CO (1-0) data. Mass-to-length ratio for the dense gas is 3.4 - 34M⊙ pc-1 from CS (2-1) data. The PV-diagram of the filament is V-shaped. We estimated physical conditions in the molecular gas using methanol lines. Location of the filament on the sky between extended shells suggests that it could be a good example to test theoretical models of formation of the filaments via multiple compression of interstellar gas by supersonic waves.

Modeling the tetraphenylalanine-PEG hybrid amphiphile: from DFT calculations on the peptide to molecular dynamics simulations on the conjugate.

PubMed

Zanuy, David; Hamley, Ian W; Alemán, Carlos

2011-07-21

The conformational properties of the hybrid amphiphile formed by the conjugation of a hydrophobic peptide with four phenylalanine (Phe) residues and hydrophilic poly(ethylene glycol), have been investigated using quantum mechanical calculations and atomistic molecular dynamics simulations. The intrinsic conformational preferences of the peptide were examined using the building-up search procedure combined with B3LYP/6-31G(d) geometry optimizations, which led to the identification of 78, 78, and 92 minimum energy structures for the peptides containing one, two, and four Phe residues. These peptides tend to adopt regular organizations involving turn-like motifs that define ribbon or helical-like arrangements. Furthermore, calculations indicate that backbone···side chain interactions involving the N-H of the amide groups and the π clouds of the aromatic rings play a crucial role in Phe-containing peptides. On the other hand, MD simulations on the complete amphiphile in aqueous solution showed that the polymer fragment rapidly unfolds maximizing the contacts with the polar solvent, even though the hydrophobic peptide reduce the number of waters of hydration with respect to an individual polymer chain of equivalent molecular weight. In spite of the small effect of the peptide in the hydrodynamic properties of the polymer, we conclude that the two counterparts of the amphiphile tend to organize as independent modules.

GIANT MOLECULAR CLOUD FORMATION IN DISK GALAXIES: CHARACTERIZING SIMULATED VERSUS OBSERVED CLOUD CATALOGS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Benincasa, Samantha M.; Pudritz, Ralph E.; Wadsley, James

We present the results of a study of simulated giant molecular clouds (GMCs) formed in a Milky Way-type galactic disk with a flat rotation curve. This simulation, which does not include star formation or feedback, produces clouds with masses ranging between 10{sup 4} M{sub ☉} and 10{sup 7} M{sub ☉}. We compare our simulated cloud population to two observational surveys: the Boston University-Five College Radio Astronomy Observatory Galactic Ring Survey and the BIMA All-Disk Survey of M33. An analysis of the global cloud properties as well as a comparison of Larson's scaling relations is carried out. We find that simulatedmore » cloud properties agree well with the observed cloud properties, with the closest agreement occurring between the clouds at comparable resolution in M33. Our clouds are highly filamentary—a property that derives both from their formation due to gravitational instability in the sheared galactic environment, as well as to cloud-cloud gravitational encounters. We also find that the rate at which potentially star-forming gas accumulates within dense regions—wherein n{sub thresh} ≥ 10{sup 4} cm{sup –3}—is 3% per 10 Myr, in clouds of roughly 10{sup 6} M{sub ☉}. This suggests that star formation rates in observed clouds are related to the rates at which gas can be accumulated into dense subregions within GMCs via filamentary flows. The most internally well-resolved clouds are chosen for listing in a catalog of simulated GMCs—the first of its kind. The cataloged clouds are available as an extracted data set from the global simulation.« less

An evaluation of atmospheric corrections to advanced very high resolution radiometer data

USGS Publications Warehouse

Meyer, David; Hood, Joy J.

1993-01-01

A data set compiled to analyze vegetation indices is used to evaluate the effect of atmospheric correction to AVHRR measurement in the solar spectrum. Such corrections include cloud screening and "clear sky" corrections. We used the "clouds from AVHRR" (CLAVR) method for cloud detection and evaluated its performance over vegetated targets. Clear sky corrections, designed to reduce the effects of molecular scattering and absorption due to ozone, water vapor, carbon dioxide, and molecular oxygen, were applied to data values determine to be cloud free. Generally, it was found that the screening and correction of the AVHRR data did not affect the maximum NDVI compositing process adversely, while at the same time improving estimates of the land-surface radiances over a compositing period.

Giant molecular cloud collisions as triggers of star formation. VI. Collision-induced turbulence

NASA Astrophysics Data System (ADS)

Wu, Benjamin; Tan, Jonathan C.; Nakamura, Fumitaka; Christie, Duncan; Li, Qi

2018-05-01

We investigate collisions between giant molecular clouds (GMCs) as potential generators of their internal turbulence. Using magnetohydrodynamic (MHD) simulations of self-gravitating, magnetized, turbulent GMCs, we compare kinematic and dynamic properties of dense gas structures formed when such clouds collide compared to those that form in non-colliding clouds as self-gravity overwhelms decaying turbulence. We explore the nature of turbulence in these structures via distribution functions of density, velocity dispersions, virial parameters, and momentum injection. We find that the dense clumps formed from GMC collisions have higher effective Mach number, greater overall velocity dispersions, sustain near-virial equilibrium states for longer times, and are the conduit for the injection of turbulent momentum into high density gas at high rates.

Giant molecular cloud collisions as triggers of star formation. VI. Collision-induced turbulence

NASA Astrophysics Data System (ADS)

Wu, Benjamin; Tan, Jonathan C.; Nakamura, Fumitaka; Christie, Duncan; Li, Qi

2018-01-01

We investigate collisions between giant molecular clouds (GMCs) as potential generators of their internal turbulence. Using magnetohydrodynamic (MHD) simulations of self-gravitating, magnetized, turbulent GMCs, we compare kinematic and dynamic properties of dense gas structures formed when such clouds collide compared to those that form in non-colliding clouds as self-gravity overwhelms decaying turbulence. We explore the nature of turbulence in these structures via distribution functions of density, velocity dispersions, virial parameters, and momentum injection. We find that the dense clumps formed from GMC collisions have higher effective Mach number, greater overall velocity dispersions, sustain near-virial equilibrium states for longer times, and are the conduit for the injection of turbulent momentum into high density gas at high rates.

VizieR Online Data Catalog: Molecular clouds with GLIMPSE/MIPSGAL data (Retes-Romero+, 2017)

NASA Astrophysics Data System (ADS)

Retes-Romero, R.; Mayya, Y. D.; Luna, A.; Carrasco, L.

2017-11-01

All of the 12 selected molecular clouds have GLIMPSE and MIPSGAL public data available. Typical Spitzer RGB images (3.6um, 8.0um, and 24um) of the resulting sample of clouds are shown in Figure 1, where the position of the IRAS source is identified. In order to define the parent molecular cloud that harbors the high-mass star-forming regions, we used 13CO(J=1-0) emission data from the Galactic Ring Survey (GRS) database (Jackson+ 2006ApJS..163..145J). The survey data have a velocity resolution of 0.21km/s, a typical (1σ) rms sensitivity of ~0.13K, a main beam efficiency of {eta}mb=0.48, and a beam of 46". The 13CO emission spectra for the line of sight (LOS) to the selected IRAS sources are shown in Figure 2, where the observed velocity of the CS(J=2-1) emission line (Bronfman+ 1996, J/A+AS/115/81) is also marked. (3 data files).

Characterising the Structure of Molecular Clouds

NASA Astrophysics Data System (ADS)

Wong, Graeme Francis

The Interstellar Medium contains the building blocks of matter in our Galaxy and plays a vital role in the evolution of low mass star formation. The poorly studied molecular clouds of Lupus and Chamaeleon contain ongoing low mass star formation, and are in close proximity to our Solar System. While on the other hand the Carina molecular cloud, poorly observed in radio wavelength, is an active region of star formation and host some of the brightest stars known within our Galaxy. Using tracers like carbon monoxide, atomic neutral carbon, and ammonia, we are able to measure the temperature and density of the gas cloud. This information allows us to understand the initial conditions of the formation of low mass stars. Observations conducted with the 22-m Mopra radio telescope (located at the edge of the Warrumbungle Mountains near Coonabarabran), in the Carbon monoxide (CO) isotopologues 12 CO, 13 CO, C17O, and C18O (1-0) transitions, have mapped the Chamaeleon II cloud, an intermediate mass cloud within the Chamaeleon. Through the sub-arcminute maps, comparisons have been made to previous low resolution (2.5') maps which have been to resolve some of the dense clumps previously identified. Optical depth, column density, and excitation temperature derived from the CO maps, are consistent with previous results. A detailed comparison between identified C18O clumps have shown the different conditions occurring within the clumps, some of which contain or are located near a population of young stellar objects. The Northern region of the Carina Nebular Complex, was observed with NANTEN2, a 4-m radio telescope (located in the Chilean Atacama desert), in the 12CO (4-3) and [C I] 3P1-3P0 emission lines. Previous observations towards this region has either been at poor resolution or had limited coverage. The presented observations, strike a balance between the two; observing in sub-arcmin resolution (0.6') and with an area of 0.9° X 0.5° mapped. Excitation temperature of the 12CO (4-3) and column density of [C I] 3P1-3P0 have been derived. Discussions have been made of the complex morphology of the Northern Carina Nebular Complex region, compared to optical features, and supported the assertion of the HII region (Car I) expanding into the molecular cloud. The selected areas within the Lupus molecular clouds (regions I, III and IV) were observed with the DSS43 (also known as Tid-70m), the largest steerable single dish radio telescope (70-m) in the Southern Hemisphere located at Canberra Deep Space Communication Complex (CDSCC) near Canberra, in the ammonia transitions (1,1) and (2,2). Due to the observation modes and limited amount of time available for the Astronomical community, the targeted areas were mapped in a series of position-switching strips. Column density, kinetic and rotation temperatures were derived, which were compared and analysed to low-resolution maps towards the dense clumps. As Tid-70m had limited observing capabilities, this project has been able to improve the observation capabilities by implementing on-the-fly (OTF) mapping. With its size and unique capabilities, implementing OTF mapping will increase the efficiency of observations. Test observations were carried out towards the well known sources of Orion A, and Sagittarius A through the newly implemented OTF observing mode. Analysis and comparison of Orion A and Sagittarius A, shows consistency with the new maps produced.

Synthesis and testing of ZnO nanoparticles for photo-initiation: experimental observation of two different non-migration initiators for bulk polymerization.

PubMed

Schmitt, M

2015-06-07

The migration and transport of polymerization initiators are problematic for commercially used polymerization procedures. For example, UV printing of packaging generates products with potentially harmful components that come in contact with food. Enlarging the size of the initiator is the only way to prevent contamination, e.g., by gas phase transport. In this manuscript, the synthesis and advanced and full analyses of novel nanoparticle-based types of non-migration, fragmenting and non-fragmenting photo-initiators will be presented in detail. This study introduces non-fragmenting/"Norrish type II" and fragmenting/"Norrish type I" ZnO nanoparticle-based initiators and compares them with two commercial products, a "Norrish type I" initiator and a "Norrish type II" initiator. Therefore, inter alia, the recently developed analysis involves examining the solidification by UV-vis and the double bond content by Raman. Irradiation is performed using absolute and spectrally calibrated xenon flash lights. A novel procedure for absolute and spectral calibration of such light sources is also presented. The non-optimized "Norrish type II" particle-based initiator is already many times faster than benzophenone, which is a molecular initiator of the same non-fragmenting type. This experimentally observed difference in reactive particle-based systems without co-initiators is unexpected. Co-initiators are normally an additional molecular species, which leads to migration problems. The discovery of significant initiation potential resulting in a very well-dispersed organic-inorganic hybrid material suggests a new field of research opportunities at the interface of physical chemistry, polymer chemistry and engineering science, with enormous value for human health.

TRACING THE MAGNETIC FIELD MORPHOLOGY OF THE LUPUS I MOLECULAR CLOUD

DOE Office of Scientific and Technical Information (OSTI.GOV)

Franco, G. A. P.; Alves, F. O., E-mail: franco@fisica.ufmg.br, E-mail: falves@mpe.mpg.de

2015-07-01

Deep R-band CCD linear polarimetry collected for fields with lines of sight toward the Lupus I molecular cloud is used to investigate the properties of the magnetic field within this molecular cloud. The observed sample contains about 7000 stars, almost 2000 of them with a polarization signal-to-noise ratio larger than 5. These data cover almost the entire main molecular cloud and also sample two diffuse infrared patches in the neighborhood of Lupus I. The large-scale pattern of the plane-of-sky projection of the magnetic field is perpendicular to the main axis of Lupus I, but parallel to the two diffuse infraredmore » patches. A detailed analysis of our polarization data combined with the Herschel/SPIRE 350 μm dust emission map shows that the principal filament of Lupus I is constituted by three main clumps that are acted on by magnetic fields that have different large-scale structural properties. These differences may be the reason for the observed distribution of pre- and protostellar objects along the molecular cloud and the cloud’s apparent evolutionary stage. On the other hand, assuming that the magnetic field is composed of large-scale and turbulent components, we find that the latter is rather similar in all three clumps. The estimated plane-of-sky component of the large-scale magnetic field ranges from about 70 to 200 μG in these clumps. The intensity increases toward the Galactic plane. The mass-to-magnetic flux ratio is much smaller than unity, implying that Lupus I is magnetically supported on large scales.« less

Very low-molecular-mass fragments of albumin in the plasma of patients with focal segmental glomerulosclerosis.

PubMed

Hellin, Joan Lopez; Bech-Serra, Joan J; Moctezuma, Enrique Lara; Chocron, Sara; Santin, Sheila; Madrid, Alvaro; Vilalta, Ramon; Canals, Francesc; Torra, Roser; Meseguer, Anna; Nieto, Jose L

2009-11-01

Primary focal segmental glomerulosclerosis (FSGS) is a glomerular disease that frequently does not respond to treatment and progresses to kidney failure. FSGS can be of either genetic origin, caused by mutations in slit diaphragm proteins, such as podocin, or idiopathic origin of unknown cause. Case series. Children with FSGS (aged 3-18 years); 15 with idiopathic and 11 with genetic forms of FSGS. Genetic versus idiopathic forms. Differentially expressed proteins in the plasma proteome, detected using 2-dimensional electrophoresis and identified using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry, Western blot, and liquid chromatography electron spray ionization tandem mass spectrometry for fragmentation and identification of the peptides. We found 3 very low-molecular-mass (9.2, 6.9, and 4.7 kDa; isoelectric point, 5.7) spots that were present in pooled samples from patients with genetic FSGS, but missing in patients with idiopathic FSGS and healthy individuals. Spots were identified using mass spectrometry as fragments of albumin, 2 of them apparently containing peptides from both C- and N-terminal parts of the whole protein. Proteomic analyses were carried out on all genetic patients individually; of these, 10 of 11 patients had > or =1 albumin fragment detected in the pool. We did not find an evident relationship between type of mutation or clinical status of patients and albumin fragments observed. Very low-molecular-weight albumin fragments also can be produced by other diseases. We describe for the first time the presence of very low-molecular-mass albumin fragments in plasma of patients with FSGS with podocyte protein mutations that are absent in patients with idiopathic FSGS or healthy individuals. Additional studies are necessary to determine whether these fragments could be potential biomarkers to distinguish between genetic and idiopathic forms of FSGS.

Boundary Conditions for the Paleoenvironment: Chemical and Physical Processes in the Pre-Solar Nebula

NASA Technical Reports Server (NTRS)

Irvine, William M.; Schloerb, F. Peter

1997-01-01

The basic theme of this program is the study of molecular complexity and evolution in interstellar clouds and in primitive solar system objects. Research has included the detection and study of a number of new interstellar molecules and investigation of reaction pathways for astrochemistry from a comparison of theory and observed molecular abundances. The latter includes studies of cold, dark clouds in which ion-molecule chemistry should predominate, searches for the effects of interchange of material between the gas and solid phases in interstellar clouds, unbiased spectral surveys of particular sources, and systematic investigation of the interlinked chemistry and physics of dense interstellar clouds. In addition, the study of comets has allowed a comparison between the chemistry of such minimally thermally processed objects and that of interstellar clouds, shedding light on the evolution of the biogenic elements during the process of solar system formation.

Recovering Intrinsic Fragmental Vibrations Using the Generalized Subsystem Vibrational Analysis.

PubMed

Tao, Yunwen; Tian, Chuan; Verma, Niraj; Zou, Wenli; Wang, Chao; Cremer, Dieter; Kraka, Elfi

2018-05-08

Normal vibrational modes are generally delocalized over the molecular system, which makes it difficult to assign certain vibrations to specific fragments or functional groups. We introduce a new approach, the Generalized Subsystem Vibrational Analysis (GSVA), to extract the intrinsic fragmental vibrations of any fragment/subsystem from the whole system via the evaluation of the corresponding effective Hessian matrix. The retention of the curvature information with regard to the potential energy surface for the effective Hessian matrix endows our approach with a concrete physical basis and enables the normal vibrational modes of different molecular systems to be legitimately comparable. Furthermore, the intrinsic fragmental vibrations act as a new link between the Konkoli-Cremer local vibrational modes and the normal vibrational modes.

TYCHO SN 1572: A NAKED Ia SUPERNOVA REMNANT WITHOUT AN ASSOCIATED AMBIENT MOLECULAR CLOUD

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tian, W. W.; Leahy, D. A., E-mail: tww@bao.ac.cn

The historical supernova remnant (SNR) Tycho SN 1572 originates from the explosion of a normal Type Ia supernova that is believed to have originated from a carbon-oxygen white dwarf in a binary system. We analyze the 21 cm continuum, H I, and {sup 12}CO-line data from the Canadian Galactic Plane Survey in the direction of SN 1572 and the surrounding region. We construct H I absorption spectra to SN 1572 and three nearby compact sources. We conclude that SN 1572 has no molecular cloud interaction, which argues against previous claims that a molecular cloud is interacting with the SNR. Thismore » new result does not support a recent claim that dust, newly detected by AKARI, originates from such an SNR-cloud interaction. We suggest that the SNR has a kinematic distance of 2.5-3.0 kpc based on a nonlinear rotational curve model. Very high energy {gamma}-ray emission from the remnant has been detected by the VERITAS telescope, so our result shows that its origin should not be an SNR-cloud interaction. Both radio and X-ray observations support that SN 1572 is an isolated Type Ia SNR.« less

The Košice meteorite fall: Atmospheric trajectory, fragmentation, and orbit

NASA Astrophysics Data System (ADS)

BorovičKa, Jiří; Tóth, Juraj; Igaz, Antal; Spurný, Pavel; Kalenda, Pavel; Haloda, Jakub; Svoreå, Ján; Kornoš, Leonard; Silber, Elizabeth; Brown, Peter; HusáRik, Marek

2013-10-01

The Košice meteorite fall occurred in eastern Slovakia on February 28, 2010, 22:25 UT. The very bright bolide was imaged by three security video cameras from Hungary. Detailed bolide light curves were obtained through clouds by radiometers on seven cameras of the European Fireball Network. Records of sonic waves were found on six seismic and four infrasonic stations. An atmospheric dust cloud was observed the next morning before sunrise. After careful calibration, the video records were used to compute the bolide trajectory and velocity. The meteoroid, of estimated mass of 3500 kg, entered the atmosphere with a velocity of 15 km s-1 on a trajectory with a slope of 60° to the horizontal. The largest fragment ceased to be visible at a height of 17 km, where it was decelerated to 4.5 km s-1. A maximum brightness of absolute stellar magnitude about -18 was reached at a height of 36 km. We developed a detailed model of meteoroid atmospheric fragmentation to fit the observed light curve and deceleration. We found that Košice was a weak meteoroid, which started to fragment under the dynamic pressure of only 0.1 MPa and fragmented heavily under 1 MPa. In total, 78 meteorites were recovered in the predicted fall area during official searches. Other meteorites were found by private collectors. Known meteorite masses ranged from 0.56 g to 2.37 kg. The meteorites were classified as ordinary chondrites of type H5 and shock stage S3. The heliocentric orbit had a relatively large semimajor axis of 2.7 AU and aphelion distance of 4.5 ± 0.5 AU. Backward numerical integration of the preimpact orbit indicates possible large variations of the orbital elements in the past due to resonances with Jupiter.

Fragment-based quantitative structure-activity relationship (FB-QSAR) for fragment-based drug design.

PubMed

Du, Qi-Shi; Huang, Ri-Bo; Wei, Yu-Tuo; Pang, Zong-Wen; Du, Li-Qin; Chou, Kuo-Chen

2009-01-30

In cooperation with the fragment-based design a new drug design method, the so-called "fragment-based quantitative structure-activity relationship" (FB-QSAR) is proposed. The essence of the new method is that the molecular framework in a family of drug candidates are divided into several fragments according to their substitutes being investigated. The bioactivities of molecules are correlated with the physicochemical properties of the molecular fragments through two sets of coefficients in the linear free energy equations. One coefficient set is for the physicochemical properties and the other for the weight factors of the molecular fragments. Meanwhile, an iterative double least square (IDLS) technique is developed to solve the two sets of coefficients in a training data set alternately and iteratively. The IDLS technique is a feedback procedure with machine learning ability. The standard Two-dimensional quantitative structure-activity relationship (2D-QSAR) is a special case, in the FB-QSAR, when the whole molecule is treated as one entity. The FB-QSAR approach can remarkably enhance the predictive power and provide more structural insights into rational drug design. As an example, the FB-QSAR is applied to build a predictive model of neuraminidase inhibitors for drug development against H5N1 influenza virus. (c) 2008 Wiley Periodicals, Inc.

A new in silico classification model for ready biodegradability, based on molecular fragments.

PubMed

Lombardo, Anna; Pizzo, Fabiola; Benfenati, Emilio; Manganaro, Alberto; Ferrari, Thomas; Gini, Giuseppina

2014-08-01

Regulations such as the European REACH (Registration, Evaluation, Authorization and restriction of Chemicals) often require chemicals to be evaluated for ready biodegradability, to assess the potential risk for environmental and human health. Because not all chemicals can be tested, there is an increasing demand for tools for quick and inexpensive biodegradability screening, such as computer-based (in silico) theoretical models. We developed an in silico model starting from a dataset of 728 chemicals with ready biodegradability data (MITI-test Ministry of International Trade and Industry). We used the novel software SARpy to automatically extract, through a structural fragmentation process, a set of substructures statistically related to ready biodegradability. Then, we analysed these substructures in order to build some general rules. The model consists of a rule-set made up of the combination of the statistically relevant fragments and of the expert-based rules. The model gives good statistical performance with 92%, 82% and 76% accuracy on the training, test and external set respectively. These results are comparable with other in silico models like BIOWIN developed by the United States Environmental Protection Agency (EPA); moreover this new model includes an easily understandable explanation. Copyright © 2014 Elsevier Ltd. All rights reserved.

Plant genotoxicity: a molecular cytogenetic approach in plant bioassays.

PubMed

Maluszynska, Jolanta; Juchimiuk, Jolanta

2005-06-01

It is important for the prevention of DNA changes caused by environment to understand the biological consequences of DNA damages and their molecular modes of action that lead to repair or alterations of the genetic material. Numerous genotoxicity assay systems have been developed to identify DNA reactive compounds. The available data show that plant bioassays are important tests in the detection of genotoxic contamination in the environment and the establishment of controlling systems. Plant system can detect a wide range of genetic damage, including gene mutations and chromosome aberrations. Recently introduced molecular cytogenetic methods allow analysis of genotoxicity, both at the chromosomal and DNA level. FISH gives a new possibility of the detection and analysis of chromosomal rearrangements in a great detail. DNA fragmentation can be estimated using the TUNEL test and the single cell gel electrophoresis (Comet assay).

A comparison of capture antibody fragments in cardiac troponin I immunoassay.

PubMed

Hyytiä, Heidi; Järvenpää, Marja-Leena; Ristiniemi, Noora; Lövgren, Timo; Pettersson, Kim

2013-08-01

To compare cardiac troponin I (cTnI) values measured from 32 normal plasma specimens with a two-site cTnI research assay exploiting different molecular forms of a capture antibody. The current research assay consists of two capture antibodies immobilized on streptavidin-well surface and one detection antibody attached to highly fluorescent europium(III)-chelate-doped nanoparticles. Four different molecular forms of one of the capture antibodies (intact monoclonal (Mab), F(ab')2 fragment, Fab fragment and chimeric Fab fragment (cFab)) were tested. The developed immunoassays were evaluated in terms of their analytical sensitivities and assay kinetics. Furthermore, cTnI concentrations were measured from 32 heparin plasma samples from apparently healthy donors (mean age 32; range 24-60 years). The differences in the measured cTnI concentrations (corrected for the buffer-based zero calibrator) between the Mab and the three fragmented forms were highly significant (P<0.0001). Replacing the intact Mab with the antibody fragments also reduced the required antibody amount from 100 ng to 66 ng (F(ab')2) and 16.5 ng (Fab and cFab). Furthermore, the limit of detection was improved when Fab fragments were employed (Mab: 0.90 ng/L, Fab: 0.69 ng/L and cFab: 0.41 ng/L). The apparent normal range median (minimum/maximum) of the 32 healthy subjects was reduced from 7.28 ng/L (2.64/116 ng/L) with Mab to 1.80 ng/L (0.746/10.6 ng/L) for the cFab. Eliminating the Fc-part from one of the two capture antibodies in an immunofluorometric cTnI assay substantially reduced the measured cTnI concentrations, simultaneously improving the assay sensitivity and reducing the reagent consumption. Copyright © 2013 The Canadian Society of Clinical Chemists. Published by Elsevier Inc. All rights reserved.

Extending 3D Near-Cloud Corrections from Shorter to Longer Wavelengths

NASA Technical Reports Server (NTRS)

Marshak, Alexander; Evans, K. Frank; Varnai, Tamas; Guoyong, Wen

2014-01-01

Satellite observations have shown a positive correlation between cloud amount and aerosol optical thickness (AOT) that can be explained by the humidification of aerosols near clouds, and/or by cloud contamination by sub-pixel size clouds and the cloud adjacency effect. The last effect may substantially increase reflected radiation in cloud-free columns, leading to overestimates in the retrieved AOT. For clear-sky areas near boundary layer clouds the main contribution to the enhancement of clear sky reflectance at shorter wavelengths comes from the radiation scattered into clear areas by clouds and then scattered to the sensor by air molecules. Because of the wavelength dependence of air molecule scattering, this process leads to a larger reflectance increase at shorter wavelengths, and can be corrected using a simple two-layer model. However, correcting only for molecular scattering skews spectral properties of the retrieved AOT. Kassianov and Ovtchinnikov proposed a technique that uses spectral reflectance ratios to retrieve AOT in the vicinity of clouds; they assumed that the cloud adjacency effect influences the spectral ratio between reflectances at two wavelengths less than it influences the reflectances themselves. This paper combines the two approaches: It assumes that the 3D correction for the shortest wavelength is known with some uncertainties, and then it estimates the 3D correction for longer wavelengths using a modified ratio method. The new approach is tested with 3D radiances simulated for 26 cumulus fields from Large-Eddy Simulations, supplemented with 40 aerosol profiles. The results showed that (i) for a variety of cumulus cloud scenes and aerosol profiles over ocean the 3D correction due to cloud adjacency effect can be extended from shorter to longer wavelengths and (ii) the 3D corrections for longer wavelengths are not very sensitive to unbiased random uncertainties in the 3D corrections at shorter wavelengths.

Shocking Changes to Molecular Clouds

NASA Astrophysics Data System (ADS)

Melnick, Gary J.

1998-05-01

Supersonic motions are commonly observed in molecular clouds as evidenced by larger-than-thermal line widths measured in most species. The shocks that ensue can profoundly effect these clouds, not only dynamically, but chemically. Because shocks compress and heat the gas, chemical reactions that are extremely slow at typical molecular cloud temperatures (T ~ 10-30 K) can proceed rapidly in the wake of a shock. In many cases, compositional changes brought on by a passing shock can endure long after the gas has cooled and returned to its pre-shock state. We have used a coupled time-dependent chemical and dynamical model to investigate the lifetime of such chemical relics in the wake of non-dissociative shocks. Using a Monte Carlo cloud simulation, we explore the effects of stochastic shock activity on molecular gas over a cloud lifetime. Particular attention is paid to the chemistry of H_2O and O_2, two molecules which are predicted to have abundances that are significantly affected by shock-heated gas. Both pure gas-phase and gas-grain chemistry are considered. In agreement with previous studies, we find that shocks with velocities in excess of 10 km s(-1) can chemically process all oxygen not locked in CO into H_2O on timescales of a shock passage time ( ~ \\:few hundred years). For pure gas-phase models, the high water abundance lingers for ~ (4-7) x 10(5) yr, independent of the gas density. A density dependence for the lifetime of H_2O is found in gas-grain models as the water molecules deplete onto grains at the depletion timescale. We demonstrate that the time-averaged abundance of H_2O and O_2 (as well as other tracers, such as SiO and CH_3OH) is a sensitive function of the frequency of shocks. As such, the abundance of H_2O, and to a lesser extent O_2, can be used to trace the shock history in molecular clouds. Equally important, we find that depletion of shock-produced water onto grains can be quite large and is comparable to that observed in molecular clouds. This offers an alternative method to create water-ice mantles without resorting to grain surface chemistry. Observationally, a combination of space-based (for H_2O and O_2) and ground-based (for SiO, CH_3OH, and others) telescopes will be needed to investigate these predictions.

The Infrared Reflection Nebula Around the Protostellar System in S140

NASA Technical Reports Server (NTRS)

Harker, D.; Bregman, J.; Tielens, A. G. G. M.; Temi, P.; Rank, D.; Morrison, David (Technical Monitor)

1994-01-01

We have studied the protostellar system in S140 at 2.2, 3.1 and 3.45 microns using a 128x128 InSb array at the Lick Observatory 3m telescope. Besides the protostellar sources, the data reveal a bright infrared reflection nebula. We have developed a simple model of this region and derived the physical conditions. IRSI is surrounded by a dense dusty disk viewed almost edge-on. Photons leaking out through the poles illuminate almost directly north and south the inner edge of a surrounding shell of molecular gas, Analysis of the observed colors and intensities of the NIR light, using Mie scattering theory, reveal that the dust grains in the molecular cloud are somewhat larger than in the general diffuse interstellar medium. Moreover, the incident light has a "cool" color temperature, approximately equals 800K, and likely originates from a dust photosphere close to the protostar. Finally, we find little H2O ice associated with the dusty disk around IRSI. Most of the 3.1 micron ice extinction arises instead from cool intervening molecular cloud material. We have compared our infrared dust observations with millimeter and radio observations of molecular gas associated with this region. The large scale structure observable in the molecular gas is indicative of the interaction between the protostellar wind and the surrounding molecular cloud rather than the geometry of the protostellar disk. We conclude that S140 is a young blister formed by this outflow on the side of a molecular cloud and viewed edge-on.

[Comparison of efficacy of tests for differentiation of typical and atypical strains of Yersinia pestis and Yersinia pseudotuberculosis].

PubMed

Arsen'eva, T E; Lebedeva, S A; Trukhachev, A L; Vasil'eva, E A; Ivanova, V S; Bozhko, N V

2010-01-01

To characterize species specificity of officially recommended tests for differentiation of Yersiniapestis and Yersinia pseudotuberculosis and propose additional tests allowing for more accurate identification. Natural, laboratory and typical strains oftwo Yersinia species were studied using microbiological, molecular and biochemical methods. For PCR species-specific primers complementary to certain fragments of chromosomal DNA of each species as well as to several plasmid genes of Y. pestis were used. It was shown that such attributes of Y. pestis as form of colonies, fermentation ofrhamnose, melibiose and urea, susceptibility to diagnostic phages, nutritional requirements could be lost in pestis bacterial species or detected in pseudotuberculosis species. Such attribute as mobility as well as positive result of CoA-reaction on fraction V antigen are more reliable. Guaranteed differentiation of typical and changed according to differential tests strains is provided only by PCR-analysis with primers vlml2for/ISrev216 and JS respectively, which are homologous to certain chromosome fragments of one of two Yersinia species.

Shocked molecular gas and the origin of cosmic rays

NASA Astrophysics Data System (ADS)

Reach, William; Gusdorf, Antoine; Richter, Matthew

2018-06-01

When massive stars reach the end of their ability to remain stable with core nuclear fusion, they explode in supernovae that drive powerful shocks into their surroundings. Because massive stars form in and remain close to molecular clouds they often drive shocks into dense gas, which is now believed to be the origin of a significant fraction of galactic cosmic rays. The nature of the supernova-molecular cloud interaction is not well understood, though observations are gradually elucidating their nature. The range of interstellar densities, and the inclusion of circumstellar matter from the late-phase mass-loss of the stars before their explosions, leads to a wide range of possible appearances and outcomes. In particular, it is not even clear what speed or physical type of shocks are present: are they dense, magnetically-mediated shocks where H2 is not dissociated, or are they faster shocks that dissociate molecules and destroy some of the grains? SOFIA is observing some of the most significant (in terms of cosmic ray production potential and infrared energy output) supernova-molecular cloud interactions for measurement of the line widths of key molecular shocks tracers: H2, [OI], and CO. The presence of gas at speeds 100 km/s or greater would indicate dissociative shocks, while speeds 30 km/s and slower retain most molecules. The shock velocity is a key ingredient in modeling the interaction between supernovae and molecular clouds including the potential for formation of cosmic rays.

CO excitation in four IR luminous galaxies

NASA Technical Reports Server (NTRS)

Radford, Simon J. E.; Solomon, P. M.; Downes, Dennis

1990-01-01

The correlation between the CO and far infrared luminosities of spiral galaxies is well established. The luminosity ration, L sub FIR/L sub CO in IR luminous active galaxies is, however, systematically five to ten times higher than in ordinary spirals and molecular clouds in our Galaxy. Furthermore, the masses of molecular hydrogen in luminous galaxies are large, M (H2) approx. equals 10(exp 10) solar magnitude, which indicates the observed luminosity ratios are due to an excess of infrared output, rather than a deficiency of molecular gas. These large amounts of molecular gas may fuel luminous galaxies through either star formation or nuclear activity. This interpretation rests on applying the M (H2)/L sub CO ratio calibrated in our Galaxy to galaxies with strikingly different luminosity ratios. But are the physical conditions of the molecular gas different in galaxies with different luminosity ratios. And, if so, does the proportionality between CO and H2 also vary among galaxies. To investigate these questions researchers observed CO (2 to 1) and (1 to 0) emission from four luminous galaxies with the Institute for Radio Astronomy in the Millimeter range (IRAM) 30 m telescope. Researchers conclude that most of the CO emission from these Arp 193, Arp 220, and Mrk 231 arises in regions with moderate ambient densities similar to the clouds in the Milky Way molecular ring. The emission is neither from dense hot cloud cores nor from the cold low density gas characteristic of the envelopes of dark clouds.