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Sample records for decamers dccccciiiii2 dcccbr5cciiiii2and

  1. Spectrophotometric calibration system for DECam

    Science.gov (United States)

    Rheault, J.-P.; DePoy, D. L.; Marshall, J. L.; Prochaska, T.; Allen, R.; Wise, J.; Martin, E.; Williams, P.

    2012-09-01

    We describe a spectrophotometric calibration system that is being implemented as part of the DES DECam project at the Blanco 4 meter at CTIO. Our calibration system uses a 1nm wide tunable source to measure the instrumental response function of the telescope optics and detector from 300nm up to 1100nm. This calibration will be performed regularly to monitor any change in the transmission function of the telescope during the 5 year survey. The system consists of a monochromator based tunable light source that provides illumination on a dome flat that is monitored by calibrated photodiodes that allow us to measure the telescope throughput as a function of wavelength. Our system has a peak output power of 2 mW, equivalent to a flux of approximately 800 photons/s/pixel on DECam.

  2. The DECam Minute Cadence Survey

    Science.gov (United States)

    Belardi, C.; Kilic, M.; Munn, J. A.; Gianninas, A.; Barber, S. D.; Dey, A.; Stetson, P. B.

    2017-03-01

    We present the first results from a minute cadence survey of a 3 deg2 field obtained with the Dark Energy Camera. We imaged part of the Canada- France-Hawaii Telescope Legacy Survey area over eight half-nights. We use the stacked images to identify 111 high proper motion white dwarf candidates with g≤ 24.5 mag and search for eclipse-like events and other sources of variability. We find a new g=20.64 mag pulsating ZZ Ceti star with pulsation periods of 11-13 min. However, we do not find any transiting planetary companions in the habitable zone of our target white dwarfs. Given the probability of eclipses of 1% and our observing window from the ground, the non-detection of such companions in this first field is not surprising. Minute cadence DECam observations of additional fields will provide stringent constraints on the frequency of planets in the white dwarf habitable zone.

  3. Characterization of DECam focal plane detectors

    Energy Technology Data Exchange (ETDEWEB)

    Diehl, H.Thomas; Angstadt, Robert; Campa, Julia; Cease, Herman; Derylo, Greg; Emes, John H.; Estrada, Juan; Kibik, Donna; Flaugher, Brenna L.; Holland, Steve E.; Jonas, Michelle; /Fermilab /Madrid, CIEMAT /LBL, Berkeley /Argonne /Pennsylvania U.

    2008-06-01

    DECam is a 520 Mpix, 3 square-deg FOV imager being built for the Blanco 4m Telescope at CTIO. This facility instrument will be used for the 'Dark Energy Survey' of the southern galactic cap. DECam has chosen 250 ?m thick CCDs, developed at LBNL, with good QE in the near IR for the focal plane. In this work we present the characterization of these detectors done by the DES team, and compare it to the DECam technical requirements. The results demonstrate that the detectors satisfy the needs for instrument.

  4. DECal: A Spectrophotometric Calibration System For DECam.

    Science.gov (United States)

    Rheault, Jean-Philippe; DePoy, D. L.; Marshall, J. L.; Prochaska, T.; Allen, R.; Wise, J.; Martin, E.

    2012-01-01

    We present preliminary results for a spectrophotometric calibration system that is being implemented as part of the DES DECam project at the Blanco 4 meter at CTIO. Our calibration system uses a 2nm wide tunable source to measure the instrumental response function of the telescope from 300nm up to 1100nm. This calibration will be performed regularly to monitor any change in the transmission function. The system consists of a monochromator based tunable light source that provides illumination on a dome flat that is monitored by calibrated photodiodes and allow us to measure the throughput as a function of wavelength. Our system has an output power of 2 mW, equivalent to a flux of approximately 800 photons/s/pixel on DECam. Preliminary results of the measure of the throughput of the telescope will be presented.

  5. Status of the Dark Energy Survey Camera (DECam) Project

    Energy Technology Data Exchange (ETDEWEB)

    Flaugher, Brenna L.; Abbott, Timothy M.C.; Angstadt, Robert; Annis, Jim; Antonik, Michelle, L.; Bailey, Jim; Ballester, Otger.; Bernstein, Joseph P.; Bernstein, Rebbeca; Bonati, Marco; Bremer, Gale; /Fermilab /Cerro-Tololo InterAmerican Obs. /ANL /Texas A-M /Michigan U. /Illinois U., Urbana /Ohio State U. /University Coll. London /LBNL /SLAC /IFAE

    2012-06-29

    The Dark Energy Survey Collaboration has completed construction of the Dark Energy Camera (DECam), a 3 square degree, 570 Megapixel CCD camera which will be mounted on the Blanco 4-meter telescope at CTIO. DECam will be used to perform the 5000 sq. deg. Dark Energy Survey with 30% of the telescope time over a 5 year period. During the remainder of the time, and after the survey, DECam will be available as a community instrument. All components of DECam have been shipped to Chile and post-shipping checkout finished in Jan. 2012. Installation is in progress. A summary of lessons learned and an update of the performance of DECam and the status of the DECam installation and commissioning will be presented.

  6. Status of the Dark Energy Survey Camera (DECam) project

    Energy Technology Data Exchange (ETDEWEB)

    Flaugher, Brenna L.; McLean, Ian S.; Ramsay, Suzanne K.; Abbott, Timothy M. C.; Angstadt, Robert; Takami, Hideki; Annis, Jim; Antonik, Michelle L.; Bailey, Jim; Ballester, Otger; Bernstein, Joseph P.; Bernstein, Rebecca A.; Bonati, Marco; Bremer, Gale; Briones, Jorge; Brooks, David; Buckley-Geer, Elizabeth J.; Campa, Juila; Cardiel-Sas, Laia; Castander, Francisco; Castilla, Javier; Cease, Herman; Chappa, Steve; Chi, Edward C.; da Costa, Luis; DePoy, Darren L.; Derylo, Gregory; de Vincente, Juan; Diehl, H. Thomas; Doel, Peter; Estrada, Juan; Eiting, Jacob; Elliott, Anne E.; Finley, David A.; Flores, Rolando; Frieman, Josh; Gaztanaga, Enrique; Gerdes, David; Gladders, Mike; Guarino, V.; Gutierrez, G.; Grudzinski, Jim; Hanlon, Bill; Hao, Jiangang; Holland, Steve; Honscheid, Klaus; Huffman, Dave; Jackson, Cheryl; Jonas, Michelle; Karliner, Inga; Kau, Daekwang; Kent, Steve; Kozlovsky, Mark; Krempetz, Kurt; Krider, John; Kubik, Donna; Kuehn, Kyler; Kuhlmann, Steve E.; Kuk, Kevin; Lahav, Ofer; Langellier, Nick; Lathrop, Andrew; Lewis, Peter M.; Lin, Huan; Lorenzon, Wolfgang; Martinez, Gustavo; McKay, Timothy; Merritt, Wyatt; Meyer, Mark; Miquel, Ramon; Morgan, Jim; Moore, Peter; Moore, Todd; Neilsen, Eric; Nord, Brian; Ogando, Ricardo; Olson, Jamieson; Patton, Kenneth; Peoples, John; Plazas, Andres; Qian, Tao; Roe, Natalie; Roodman, Aaron; Rossetto, B.; Sanchez, E.; Soares-Santos, Marcelle; Scarpine, Vic; Schalk, Terry; Schindler, Rafe; Schmidt, Ricardo; Schmitt, Richard; Schubnell, Mike; Schultz, Kenneth; Selen, M.; Serrano, Santiago; Shaw, Terri; Simaitis, Vaidas; Slaughter, Jean; Smith, R. Christopher; Spinka, Hal; Stefanik, Andy; Stuermer, Walter; Sypniewski, Adam; Talaga, R.; Tarle, Greg; Thaler, Jon; Tucker, Doug; Walker, Alistair R.; Weaverdyck, Curtis; Wester, William; Woods, Robert J.; Worswick, Sue; Zhao, Allen

    2012-09-24

    The Dark Energy Survey Collaboration has completed construction of the Dark Energy Camera (DECam), a 3 square degree, 570 Megapixel CCD camera which will be mounted on the Blanco 4-meter telescope at CTIO. DECam will be used to perform the 5000 sq. deg. Dark Energy Survey with 30% of the telescope time over a 5 year period. During the remainder of the time, and after the survey, DECam will be available as a community instrument. All components of DECam have been shipped to Chile and post-shipping checkout finished in Jan. 2012. Installation is in progress. A summary of lessons learned and an update of the performance of DECam and the status of the DECam installation and commissioning will be presented.

  7. Optical follow-up of gravitational wave triggers with DECam

    Energy Technology Data Exchange (ETDEWEB)

    Herner, K.; Annis, J.; Berger, E.; Brout, D.; Butler, R.; Chen, H.; Cowperthwaite, P.; Diehl, H.; Doctor, Z.; Drlica-Wagner, A.; Farr, B.; Finley, D.; Frieman, J.; Holz, D.; Kessler, R.; Lin, H.; Marriner, J.; Nielsen, E.; Palmese, A.; Sako, M.; Soares-Santos, M.; Sobreira, F.; Yanny, B.

    2017-10-01

    Gravitational wave (GW) events have several possible progenitors, including black hole mergers, cosmic string cusps, supernovae, neutron star mergers, and black hole{neutron star mergers. A subset of GW events are expected to produce electromagnetic (EM) emission that, once detected, will provide complementary information about their astrophysical context. To that end, the LIGO-Virgo Collaboration has partnered with other teams to send GW candidate alerts so that searches for their EM counterparts can be pursued. One such partner is the Dark Energy Survey (DES) and Dark Energy Camera (DECam) Gravitational Waves Program (DES- GW). Situated on the 4m Blanco Telescope at the Cerro Tololo Inter-American Observatory in Chile, DECam is an ideal instrument for optical followup observations of GW triggers in the southern sky. The DES-GW program performs subtraction of new search images with respect to preexisting overlapping images to select candidate sources. Due to the short decay timescale of the expected EM counterparts and the need to quickly eliminate survey areas with no counterpart candidates, it is critical to complete the initial analysis of each night's images within 24 hours. The computational challenges in achieving this goal include maintaining robust I/O pipelines during the processing, being able to quickly acquire template images of new sky regions outside of the typical DES observing regions, and being able to rapidly provision additional batch computing resources with little advance notice. We will discuss the search area determination, imaging pipeline, general data transfer strategy, and methods to quickly increase the available amount of batch computing. We will present results from the rst season of observations from September 2015 to January 2016 and conclude by presenting improvements planned for the second observing season.

  8. KEGS Discovery of 28 Supernova Candidates in the K2 Campaign 17 Field with DECam

    Science.gov (United States)

    Narayan, G.; Rest, A.; Strampelli, G. M.; Zenteno, A.; James, D. J.; Smith, R. C.; Tucker, B. E.; Garnavich, P.; Margheim, S.; Kasen, D.; Olling, R.; Shaya, E.; Buron, F. Forster; Villar, V. A.

    2018-05-01

    The Kepler Extra-Galactic Survey (KEGS, see http://www.mso.anu.edu.au/kegs/ ) reports the discovery of 28 supernova candidates with the Dark Energy Camera (DECam, NOAO 2017B-0285) on the 4m Blanco Telescope at Cerro Tololo Inter-American Observatory (CTIO).

  9. VizieR Online Data Catalog: White dwarf candidates in DECam first field (Belardi+, 2016)

    Science.gov (United States)

    Belardi, C.; Kilic, M.; Munn, J. A.; Gianninas, A.; Barber, S. D.; Dey, A.; Stetson, P. B.

    2018-02-01

    We used DECam mounted on the Blanco 4m Telescope on UT 2014 Feb 2-9 to obtain g-band exposures of a three square degree field (corresponding to a single DECam pointing) centred at Right Ascension RA=09:03:02 and Declination DE=-04:35:00. Our observations were performed under the NOAO program 2014A-0073. This field was previously observed by the Canada-France-Hawaii Telescope Legacy Survey (CFHTLS1) between 2003 and 2008, and is part of the CFHTLS Wide 2 field, which is a 25 square degree field with MegaCam ugriz photometry available. The earlier MegaCam data provide the first epoch for our proper motion measurements. (4 data files).

  10. VizieR Online Data Catalog: CTIO/DECam photometry of RR Lyrae stars in M5 (Vivas+, 2017)

    Science.gov (United States)

    Vivas, A. K.; Saha, A.; Olsen, K.; Blum, R.; Olszewski, E. W.; Claver, J.; Valdes, F.; Axelrod, T.; Kaleida, C.; Kunder, A.; Narayan, G.; Matheson, T.; Walker, A.

    2017-11-01

    Observations were obtained during 2013 (2013 Jun 7-9, and 2013 Jun 21) and 2014 (2014 Mar 7-9) with the Dark Energy Camera (DECam) imager on the 4m Blanco Telescope at Cerro Tololo Inter-American Observatory (CTIO), Chile. Repeated DECam images of a field centered on M5 (R.A.=15:18:33.2, decl.=+02:04:51.7, J2000.0) were obtained using the u,g,r,i, and z filters. The large field of view (FOV) of DECam (2.2°) easily covers the whole globular cluster with only the central CCDs of the camera. A total of 66 RR Lyrae stars and 1 SX Phe were recognized in the field of M5. The individual measurements for the periodic variable stars are provided in Table2. In Table3, we present the list of periodic variable stars. (3 data files).

  11. Characterization and correction of charge-induced pixel shifts in DECam

    Energy Technology Data Exchange (ETDEWEB)

    Gruen, D.; Bernstein, G. M.; Jarvis, M.; Rowe, B.; Vikram, V.; Plazas, A. A.; Seitz, S.

    2015-05-01

    Interaction of charges in CCDs with the already accumulated charge distribution causes both a flux dependence of the point-spread function (an increase of observed size with flux, also known as the brighter/fatter effect) and pixel-to-pixel correlations of the {Poissonian} noise in flat fields. We describe these effects in the Dark Energy Camera (DECam) with charge dependent shifts of effective pixel borders, i.e. the Antilogus et al. (2014) model, which we fit to measurements of flat-field {Poissonian} noise correlations. The latter fall off approximately as a power-law r(-)(2.5) with pixel separation r, are isotropic except for an asymmetry in the direct neighbors along rows and columns, are stable in time, and are weakly dependent on wavelength. They show variations from chip to chip at the 20% level that correlate with the silicon resistivity. The charge shifts predicted by the model cause biased shape measurements, primarily due to their effect on bright stars, at levels exceeding weak lensing science requirements. We measure the flux dependence of star images and show that the effect can be mitigated by applying the reverse charge shifts at the pixel level during image processing. Differences in stellar size, however, remain significant due to residuals at larger distance from the centroid.

  12. First Discoveries of z > 6 Quasars with the DECam Legacy Survey and UKIRT Hemisphere Survey

    International Nuclear Information System (INIS)

    Wang, Feige; Yang, Jinyi; Wu, Xue-Bing; Yang, Qian; Li, Zefeng; Fan, Xiaohui; McGreer, Ian D.; Ding, Jiani; Green, Richard; Bian, Fuyan; Li, Jiang-Tao; Dey, Arjun; Dye, Simon; Findlay, Joseph R.; Myers, Adam D.; James, David; Jiang, Linhua; Lang, Dustin; Lawrence, Andy; Ross, Nicholas P.

    2017-01-01

    We present the first discoveries from a survey of z ≳ 6 quasars using imaging data from the DECam Legacy Survey (DECaLS) in the optical, the UKIRT Deep Infrared Sky Survey (UKIDSS) and a preliminary version of the UKIRT Hemisphere Survey (UHS) in the near-IR, and ALLWISE in the mid-IR. DECaLS will image 9000 deg 2 of sky down to z AB ∼ 23.0, and UKIDSS and UHS will map the northern sky at 0 < decl. < +60°, reaching J VEGA ∼ 19.6 (5- σ ). The combination of these data sets allows us to discover quasars at redshift z ≳ 7 and to conduct a complete census of the faint quasar population at z ≳ 6. In this paper, we report on the selection method of our search, and on the initial discoveries of two new, faint z ≳ 6 quasars and one new z = 6.63 quasar in our pilot spectroscopic observations. The two new z ∼ 6 quasars are at z = 6.07 and z = 6.17 with absolute magnitudes at rest-frame wavelength 1450 Å being M 1450 = −25.83 and M 1450 = −25.76, respectively. These discoveries suggest that we can find quasars close to or fainter than the break magnitude of the Quasar Luminosity Function (QLF) at z ≳ 6. The new z = 6.63 quasar has an absolute magnitude of M 1450 = −25.95. This demonstrates the potential of using the combined DECaLS and UKIDSS/UHS data sets to find z ≳ 7 quasars. Extrapolating from previous QLF measurements, we predict that these combined data sets will yield ∼200 z ∼ 6 quasars to z AB < 21.5, ∼1000 z ∼ 6 quasars to z AB < 23, and ∼30 quasars at z > 6.5 to J VEGA < 19.5.

  13. First Discoveries of z > 6 Quasars with the DECam Legacy Survey and UKIRT Hemisphere Survey

    Energy Technology Data Exchange (ETDEWEB)

    Wang, Feige; Yang, Jinyi; Wu, Xue-Bing; Yang, Qian; Li, Zefeng [Department of Astronomy, School of Physics, Peking University, Beijing 100871 (China); Fan, Xiaohui; McGreer, Ian D.; Ding, Jiani; Green, Richard [Steward Observatory, University of Arizona, 933 North Cherry Avenue, Tucson, AZ 85721 (United States); Bian, Fuyan [Research School of Astronomy and Astrophysics, Australian National University, Weston Creek, ACT 2611 (Australia); Li, Jiang-Tao [Department of Astronomy, University of Michigan, 311 West Hall, 1085 S. University Avenue, Ann Arbor, MI, 48109 (United States); Dey, Arjun [National Optical Astronomy Observatory, 950 N. Cherry Avenue, Tucson, AZ 85719 (United States); Dye, Simon [School of Physics and Astronomy, Nottingham University, University Park, Nottingham, NG7 2RD (United Kingdom); Findlay, Joseph R.; Myers, Adam D. [Department of Physics and Astronomy, University of Wyoming, Laramie, WY 82071 (United States); James, David [Cerro Tololo Inter-American Observatory, Casilla 603 La Serena (Chile); Jiang, Linhua [Kavli Institute for Astronomy and Astrophysics, Peking University, Beijing 100871 (China); Lang, Dustin [Dunlap Institute for Astronomy and Astrophysics, University of Toronto, 50 St. George Street, Toronto, Ontario, M5S 3H4 (Canada); Lawrence, Andy; Ross, Nicholas P. [Institute for Astronomy, University of Edinburgh, Royal Observatory, Blackford Hill, Edinburgh, EH9 3HJ (United Kingdom); and others

    2017-04-10

    We present the first discoveries from a survey of z ≳ 6 quasars using imaging data from the DECam Legacy Survey (DECaLS) in the optical, the UKIRT Deep Infrared Sky Survey (UKIDSS) and a preliminary version of the UKIRT Hemisphere Survey (UHS) in the near-IR, and ALLWISE in the mid-IR. DECaLS will image 9000 deg{sup 2} of sky down to z {sub AB} ∼ 23.0, and UKIDSS and UHS will map the northern sky at 0 < decl. < +60°, reaching J {sub VEGA} ∼ 19.6 (5- σ ). The combination of these data sets allows us to discover quasars at redshift z ≳ 7 and to conduct a complete census of the faint quasar population at z ≳ 6. In this paper, we report on the selection method of our search, and on the initial discoveries of two new, faint z ≳ 6 quasars and one new z = 6.63 quasar in our pilot spectroscopic observations. The two new z ∼ 6 quasars are at z = 6.07 and z = 6.17 with absolute magnitudes at rest-frame wavelength 1450 Å being M {sub 1450} = −25.83 and M {sub 1450} = −25.76, respectively. These discoveries suggest that we can find quasars close to or fainter than the break magnitude of the Quasar Luminosity Function (QLF) at z ≳ 6. The new z = 6.63 quasar has an absolute magnitude of M {sub 1450} = −25.95. This demonstrates the potential of using the combined DECaLS and UKIDSS/UHS data sets to find z ≳ 7 quasars. Extrapolating from previous QLF measurements, we predict that these combined data sets will yield ∼200 z ∼ 6 quasars to z {sub AB} < 21.5, ∼1000 z ∼ 6 quasars to z {sub AB} < 23, and ∼30 quasars at z > 6.5 to J {sub VEGA} < 19.5.

  14. Incorporation of local structure into kriging models for the prediction of atomistic properties in the water decamer.

    Science.gov (United States)

    Davie, Stuart J; Di Pasquale, Nicodemo; Popelier, Paul L A

    2016-10-15

    Machine learning algorithms have been demonstrated to predict atomistic properties approaching the accuracy of quantum chemical calculations at significantly less computational cost. Difficulties arise, however, when attempting to apply these techniques to large systems, or systems possessing excessive conformational freedom. In this article, the machine learning method kriging is applied to predict both the intra-atomic and interatomic energies, as well as the electrostatic multipole moments, of the atoms of a water molecule at the center of a 10 water molecule (decamer) cluster. Unlike previous work, where the properties of small water clusters were predicted using a molecular local frame, and where training set inputs (features) were based on atomic index, a variety of feature definitions and coordinate frames are considered here to increase prediction accuracy. It is shown that, for a water molecule at the center of a decamer, no single method of defining features or coordinate schemes is optimal for every property. However, explicitly accounting for the structure of the first solvation shell in the definition of the features of the kriging training set, and centring the coordinate frame on the atom-of-interest will, in general, return better predictions than models that apply the standard methods of feature definition, or a molecular coordinate frame. © 2016 The Authors. Journal of Computational Chemistry Published by Wiley Periodicals, Inc. © 2016 The Authors. Journal of Computational Chemistry Published by Wiley Periodicals, Inc.

  15. NMR structural refinement of a tandem G·A mismatched decamer d(CCAAGATTGG)2 via the hybrid matrix procedure

    International Nuclear Information System (INIS)

    Nikonowicz, E.P.; Meadows, R.P.; Fagan, P.; Gorenstein, D.G.

    1991-01-01

    A complete relaxation matrix approach employing a matrix eigenvalue/eigenvector solution to the Bloch equations is used to evaluate the NMR solution structure of a tandemly positioned G·A double mismatch decamer oligodeoxyribonucleotide duplex, d(CCAAGATTGG) 2 . An iterative refinement method using a hybrid relaxation matrix combined with restrained molecular dynamics calculations is shown to provide structures having good agreement with the experimentally derived structures. Distances incorporated into the MD simulations have been calculated from the relaxation rate matrix evaluated from a hybrid NOESY volume matrix whose elements are obtained from the merging of experimental and calculated NOESY intensities. Starting from both A- and B-DNA and mismatch syn and anti models, it is possible to calculate structures that are in good atomic RMS agreement with each other ( 3.6 angstrom). Importantly, the hybrid matrix derived structures are in excellent agreement with the experimental solution conformation as determined by comparison of the 200-ms simulated and experimental NOESY spectra, while the crystallographic data provide spectra that are grossly different

  16. Two-dimensional 1H and 31P NMR spectra of a decamer oligodeoxyribonucleotide duplex and a quinoxaline ([MeCys3, MeCys7]TANDEM) drug duplex complex

    International Nuclear Information System (INIS)

    Powers, R.; Olsen, R.K.; Gorenstein, D.G.

    1989-01-01

    Assignment of the 1H and 31P NMR spectra of a decamer oligodeoxyribonucleotide duplex, d(CCCGATCGGG), and its quinoxaline ([MeCys3, MeCys7]TANDEM) drug duplex complex has been made by two-dimensional 1H-1H and heteronuclear 31P-1H correlated spectroscopy. The 31P chemical shifts of this 10 base pair oligonucleotide follow the general observation that the more internal the phosphate is located within the oligonucleotide sequence, the more upfield the 31P resonance occurs. While the 31P chemical shifts show sequence-specific variations, they also do not generally follow the Calladine rules previously demonstrated. 31P NMR also provides a convenient monitor of the phosphate ester backbone conformational changes upon binding of the drug to the duplex. Although the quinoxaline drug, [MeCys3, MeCys7]TANDEM, is generally expected to bind to duplex DNA by bis-intercalation, only small 31P chemical shift changes are observed upon binding the drug to duplex d(CCCGATCGGG). Additionally, only small perturbations in the 1H NMR and UV spectra are observed upon binding the drug to the decamer, although association of the drug stabilizes the duplex form relative to the other states. These results are consistent with a non-intercalative mode of association of the drug. Modeling and molecular mechanics energy minimization demonstrate that a novel structure in which the two quinoxaline rings of the drug binds in the minor groove of the duplex is possible

  17. Rochester scientist discovers new comet with Dark Energy Camera (DECam) at

    Science.gov (United States)

    Visiting Astronomers Guide Travel Information Questionnaire Vistor Support Questionaire Telescope Schedules time, seem to slowly jump from point to point. While searching our images one day, I was surprised to find a small streak of light with a tail, and like the Kuiper Belt objects it also jumped from point to

  18. DESGW: Optical Follow-up of BBH LIGO-Virgo Events with DECam

    Energy Technology Data Exchange (ETDEWEB)

    Butler, Robert E. [Indiana U.; Soares-Santos, M. [Brandeis U.; Annis, j. [Fermilab; Herner, K. [Fermilab

    2017-12-14

    The DESGW program is a collaboration between members of the Dark Energy Survey, the wider astronomical community, and the LIGO-Virgo Collaboration to search for optical counterparts of gravitational wave events, such as those expected from binary neutron star mergers or neutron star-black hole mergers. While binary black hole (BBH) events are not expected to produce an electromagnetic (EM) signature, emission is certainly not impossible. The DESGW program has performed follow-up observations of four BBH events detected by LIGO in order to search for any possible EM counterpart. Failure to nd such counterparts is still relevant in that it produces limits on optical emission from such events. This is a review of follow-up results from O1 BBH events and a discussion of the status of ongoing uniform re-analysis of all BBH events that DESGW has followed up to date.

  19. Star Formation History of the Magellanic Clouds: a survey program with DECam@4mCTIO

    NARCIS (Netherlands)

    Monteagudo Narvion, L.; Monelli, M.; Galart, C.; Nidever, D.; Olse, K.; Gruendl, R.; Blum, R.; Walker, A.; Saha, A.; Olszewski, E.; Muñoz, R.; Kunder, A.; Kaleida, C.; Conn, B.; Besla, G.; Majewski, S.; Stringfellow, G.; Karitsky, D.; Chu, Y. H.; Van Der Marel, R.; Marcn, N.; Noel, N.; Jin, S.; Kim, H.; Cioni, M. R.; Bell, E.; Monachesi, A.; Vivas, K.; de Boer, T.

    Various recent discoveries have drastically altered our view of the Magellanic Clouds (MCs), the nearest interacting galaxy system formed by a low mass spiral and a dwarf irregular galaxy. The best evidence is now that they are on frst infall into the Milky Way, that their stellar populations extend

  20. Mapping the Tidal Destruction of the Hercules Dwarf: A Wide-field DECam Imaging Search for RR Lyrae Stars

    Science.gov (United States)

    Garling, Christopher; Willman, Beth; Sand, David J.; Hargis, Jonathan; Crnojević, Denija; Bechtol, Keith; Carlin, Jeffrey L.; Strader, Jay; Zou, Hu; Zhou, Xu; Nie, Jundan; Zhang, Tianmeng; Zhou, Zhimin; Peng, Xiyan

    2018-01-01

    We investigate the hypothesized tidal disruption of the Hercules ultra-faint dwarf galaxy (UFD). Previous tidal disruption studies of the Hercules UFD have been hindered by the high degree of foreground contamination in the direction of the dwarf. We bypass this issue by using RR Lyrae stars, which are standard candles with a very low field-volume density at the distance of Hercules. We use wide-field imaging from the Dark Energy Camera on CTIO to identify candidate RR Lyrae stars, supplemented with observations taken in coordination with the Beijing–Arizona Sky Survey on the Bok Telescope. Combining color, magnitude, and light-curve information, we identify three new RR Lyrae stars associated with Hercules. All three of these new RR Lyrae stars lie outside its published tidal radius. When considered with the nine RR Lyrae stars already known within the tidal radius, these results suggest that a substantial fraction of Hercules’ stellar content has been stripped. With this degree of tidal disruption, Hercules is an interesting case between a visibly disrupted dwarf (such as the Sagittarius dwarf spheroidal galaxy) and one in dynamic equilibrium. The degree of disruption also shows that we must be more careful with the ways we determine object membership when estimating dwarf masses in the future. One of the three discovered RR Lyrae stars sits along the minor axis of Hercules, but over two tidal radii away. This type of debris is consistent with recent models that suggest Hercules’ orbit is aligned with its minor axis.

  1. Quantitative structure of a complex between a minor-groove-specific drug and a bent DNA decamer duplex: Use of 2D NMR data and NOESY constrained energy minimization

    International Nuclear Information System (INIS)

    Sarma, M.H.; Gupta, G.; Garcia, A.E.; Umemoto, K.; Sarma, R.H.

    1990-01-01

    Two-dimensional nuclear magnetic resonance (2D NMR) studies on d(GA4T4C)2 and d(GT4A4C)2 showed that A.T pairs are propeller twisted. As a result, A/T tracts form a straight rigid structural block with an array of bifurcated inter base pair H bonds in the major groove. It was demonstrated (previous paper) that replacement of methyl group by hydrogen (changing from T to U) in the major groove does not disrupt the array of bifurcated H bonds in the major groove. In this article, we summarize results of 2D NMR and molecular mechanic studies on the effect of a minor-groove-binding A.T-specific drug on the structure d(GA4T4C)2. A distamycin analogue (Dst2) was used for this study. It is shown that Dst2 binds to the minor groove of d(GA4T4C)2 mainly driven by van der Waals interaction between A.T pairs and the drug; as a consequence, an array of bifurcated H bonds can be formed in the minor groove between amide/amino protons of Dst2 and A.T pairs of DNA. NOESY data suggest that Dst2 predominantly binds at the central 5 A.T pairs. NOESY data also reveal that, upon drug binding, d(GA4T4C)2 does not undergo any significant change in conformation from the free state; i.e., propeller-twisted A.T pairs are still present in DNA and hence the array of bifurcated H bonds must be preserved in the major groove. NOESY data for the A5-T6 sequence also indicate that there is little change in junction stereochemistry upon drug binding

  2. Native human serum amyloid P component is a single pentamer

    DEFF Research Database (Denmark)

    Sørensen, Inge Juul; Andersen, Ove; Nielsen, EH

    1995-01-01

    Serum amyloid P component (SAP) and C-reactive protein (CRP) are members of the pentraxin protein family. SAP is the precursor protein to amyloid P component present in all forms of amyloidosis. The prevailing notion is that SAP in circulation has the form of a double pentameric molecule (decamer...... by rocket immunoelectrophoresis and electron microscopy. Thus, electron micrographs of purified SAP showed a predominance of decamers. However, the decamer form of SAP reversed to single pentamers when purified SAP was incorporated into SAP-depleted serum....

  3. Crystallographic study of one turn of G/C-rich B-DNA.

    Science.gov (United States)

    Heinemann, U; Alings, C

    1989-11-20

    The DNA decamer d(CCAGGCCTGG) has been studied by X-ray crystallography. At a nominal resolution of 1.6 A, the structure was refined to R = 16.9% using stereochemical restraints. The oligodeoxyribonucleotide forms a straight B-DNA double helix with crystallographic dyad symmetry and ten base-pairs per turn. In the crystal lattice, DNA fragments stack end-to-end along the c-axis to form continuous double helices. The overall helical structure and, notably, the groove dimensions of the decamer are more similar to standard, fiber diffraction-determined B-DNA than A-tract DNA. A unique stacking geometry is observed at the CA/TG base-pair step, where an increased rotation about the helix axis and a sliding motion of the base-pairs along their long axes leads to a superposition of the base rings with neighboring carbonyl and amino functions. Three-center (bifurcated) hydrogen bonds are possible at the CC/GG base-pair steps of the decamer. In their common sequence elements, d(CCAGGCCTGG) and the related G.A mismatch decamer d(CCAAGATTGG) show very similar three-dimensional structures, except that d(CCAGGCCTGG) appears to have a less regularly hydrated minor groove. The paucity of minor groove hydration in the center of the decamer may be a general feature of G/C-rich DNA and explain its relative instability in the B-form of DNA.

  4. System Architecture of the Dark Energy Survey Camera Readout Electronics

    Energy Technology Data Exchange (ETDEWEB)

    Shaw, Theresa; /FERMILAB; Ballester, Otger; Cardiel-Sas, Laia; Castilla, Javier; /Barcelona, IFAE; Chappa, Steve; /Fermilab; de Vicente, Juan; /Madrid, CIEMAT; Holm, Scott; Huffman, Dave; Kozlovsky, Mark; /Fermilab; Martinez, Gustavo; /Madrid, CIEMAT; Moore, Todd; /Madrid, CIEMAT /Fermilab /Illinois U., Urbana /Fermilab

    2010-05-27

    The Dark Energy Survey makes use of a new camera, the Dark Energy Camera (DECam). DECam will be installed in the Blanco 4M telescope at Cerro Tololo Inter-American Observatory (CTIO). DECam is presently under construction and is expected to be ready for observations in the fall of 2011. The focal plane will make use of 62 2Kx4K and 12 2kx2k fully depleted Charge-Coupled Devices (CCDs) for guiding, alignment and focus. This paper will describe design considerations of the system; including, the entire signal path used to read out the CCDs, the development of a custom crate and backplane, the overall grounding scheme and early results of system tests.

  5. A RAMP marker linked to the tobacco black shank resistant gene ...

    African Journals Online (AJOL)

    Bulk segregant analysis (BSA) and randomly amplified microsatellite polymorphism (RAMP) were employed to analyze F2 individuals of the Yunyan 317×Hubei 517 to screen and characterize molecular markers linked to black shank resistant gene. A total of 800 arbitrary decamer oligonucleotide primerpairs were used for ...

  6. Screening and characterization a RAPD marker of tobacco brown ...

    African Journals Online (AJOL)

    RAPD) methods were used to analyze F2 individuals of 82-3041 × Yunyan 84 to screen and characterize the molecular marker linked to brown-spot resistant gene. A total of 800 arbitrary decamer oligonucleotide primers were used for RAPD ...

  7. Genetic characterization of fin fish species from the Warri River at ...

    African Journals Online (AJOL)

    A study to evaluate the genetic similarities and differences among 11 specimens of cichlids and four specimens of mudcatfishes obtained from Warri River was carried out through DNA fingerprinting analysis using random amplified polymorphic DNA (RAPD)-PCR amplification with seven decamer primers and dendrograms ...

  8. Molecular analysis of genetic diversity in elite II synthetic hexaploid ...

    African Journals Online (AJOL)

    The present study was conducted to assess the genetic diversity of Elite-II synthetic hexaploid (SH) wheat by genome DNA fingerprinting as revealed by random amplified polymorphic DNA (RAPD) analysis. Ten decamer RAPD primers (OPG-1, OPG-2, OPG-3, OPG-4, OPG-5, OPA-3, OPA-4, OPA-5, OPA-8, and OPA-15) ...

  9. Assessment of genetic diversity in different clones of Dalbergia ...

    African Journals Online (AJOL)

    Genetic diversity of forty (40) clones of Dalbergia sissoo Roxb was analyzed using randomly amplified polymorphic DNA (RAPD) markers by selecting 30 decamer primers, which were later reduced to 10 based on the preliminary PCR amplification. A total of 129 distinct DNA fragments (bands) were amplified, of which 104 ...

  10. Haliotis tuberculata hemocyanin (HtH): analysis of oligomeric stability of HtH1 and HtH2, and comparison with keyhole limpet hemocyanin KLH1 and KLH2.

    Science.gov (United States)

    Harris, J R; Scheffler, D; Gebauer, W; Lehnert, R; Markl, J

    2000-12-01

    The multimeric/higher oligomeric states of the two isoforms of Haliotis tuberculata hemocyanin (HtH1 and HtH2) have been assessed by transmission electron microscopy (TEM) of negatively stained specimens, for comparison with previously published structural data from keyhole limpet hemocyanin (KLH1 and KLH2) [see Harris, J.R., Gebauer, W., Guderian, F.U., Markl, J., 1997a. Keyhole limpet hemocyanin (KLH), I: Reassociation from Immucothel followed by separation of KLH1 and KLH2. Micron, 28, 31-41; Harris, J.R., Gebauer, W., Söhngen, S.M., Nermut, M.V., Markl, J., 1997b. Keyhole limpet hemocyanin (KLH). II: Characteristic reassociation properties of purified KLH1 and KLH2. Micron, 28, 43-56; Harris, J.R., Gebauer, W., Adrian, M., Markl, J., 1998. Keyhole limpet hemocyanin (KLH): Slow in vitro reassociation of KLH1 and KLH2 from Immucothel. Micron, 29, 329-339]. In purified samples of both HtH isoforms, the hollow cylindrical ca 8MDa didecamer predominates together with a small number of decamers, but tri- and longer multidecamers are detectable only in the HtH2. The stability of the two HtH isoforms under varying ionic conditions have been monitored, thereby enabling conditions for the production of stable decamers to be established. The ability of these decamers to reform multimers in the presence of 10 and 100mM concentrations of calcium and magnesium ions in Tris-HCl buffer (pH 7.4), and also of individual HtH1 and HtH2 subunits (produced by pH 9.6 dissociation in glycine-NaOH buffer), to reassociate in the presence of calcium and magnesium ions, has been assessed. For the HtH1 decamers, the predominant multimeric product is the didecamer at 10 and 100mM calcium and magnesium concentrations, whereas for the HtH2 decamers, large numbers of multidecamers are produced, with the reaction proceeding more completely at the higher calcium and magnesium concentration. With the HtH1 subunit, reassociation in the presence of 10 and 100mM calcium and magnesium ions yielded

  11. Short peptides allowing preferential detection of Candida albicans hyphae.

    Science.gov (United States)

    Kaba, Hani E J; Pölderl, Antonia; Bilitewski, Ursula

    2015-09-01

    Whereas the detection of pathogens via recognition of surface structures by specific antibodies and various types of antibody mimics is frequently described, the applicability of short linear peptides as sensor molecules or diagnostic tools is less well-known. We selected peptides which were previously reported to bind to recombinant S. cerevisiae cells, expressing members of the C. albicans Agglutinin-Like-Sequence (ALS) cell wall protein family. We slightly modified amino acid sequences to evaluate peptide sequence properties influencing binding to C. albicans cells. Among the selected peptides, decamer peptides with an "AP"-N-terminus were superior to shorter peptides. The new decamer peptide FBP4 stained viable C. albicans cells more efficiently in their mature hyphal form than in their yeast form. Moreover, it allowed distinction of C. albicans from other related Candida spp. and could thus be the basis for the development of a useful tool for the diagnosis of invasive candidiasis.

  12. Dark Energy Camera for Blanco

    Energy Technology Data Exchange (ETDEWEB)

    Binder, Gary A.; /Caltech /SLAC

    2010-08-25

    In order to make accurate measurements of dark energy, a system is needed to monitor the focus and alignment of the Dark Energy Camera (DECam) to be located on the Blanco 4m Telescope for the upcoming Dark Energy Survey. One new approach under development is to fit out-of-focus star images to a point spread function from which information about the focus and tilt of the camera can be obtained. As a first test of a new algorithm using this idea, simulated star images produced from a model of DECam in the optics software Zemax were fitted. Then, real images from the Mosaic II imager currently installed on the Blanco telescope were used to investigate the algorithm's capabilities. A number of problems with the algorithm were found, and more work is needed to understand its limitations and improve its capabilities so it can reliably predict camera alignment and focus.

  13. Photometric Characterization of the Dark Energy Camera

    Science.gov (United States)

    Bernstein, G. M.; Abbott, T. M. C.; Armstrong, R.; Burke, D. L.; Diehl, H. T.; Gruendl, R. A.; Johnson, M. D.; Li, T. S.; Rykoff, E. S.; Walker, A. R.; Wester, W.; Yanny, B.

    2018-05-01

    We characterize the variation in photometric response of the Dark Energy Camera (DECam) across its 520 Mpix science array during 4 years of operation. These variations are measured using high signal-to-noise aperture photometry of >107 stellar images in thousands of exposures of a few selected fields, with the telescope dithered to move the sources around the array. A calibration procedure based on these results brings the rms variation in aperture magnitudes of bright stars on cloudless nights down to 2–3 mmag, with color corrections; and the use of an aperture-correction proxy. The DECam response pattern across the 2° field drifts over months by up to ±9 mmag, in a nearly wavelength-independent low-order pattern. We find no fundamental barriers to pushing global photometric calibrations toward mmag accuracy.

  14. Mass and galaxy distributions of four massive galaxy clusters from Dark Energy Survey Science Verification data

    Energy Technology Data Exchange (ETDEWEB)

    Melchior, P.; Suchyta, E.; Huff, E.; Hirsch, M.; Kacprzak, T.; Rykoff, E.; Gruen, D.; Armstrong, R.; Bacon, D.; Bechtol, K.; Bernstein, G. M.; Bridle, S.; Clampitt, J.; Honscheid, K.; Jain, B.; Jouvel, S.; Krause, E.; Lin, H.; MacCrann, N.; Patton, K.; Plazas, A.; Rowe, B.; Vikram, V.; Wilcox, H.; Young, J.; Zuntz, J.; Abbott, T.; Abdalla, F. B.; Allam, S. S.; Banerji, M.; Bernstein, J. P.; Bernstein, R. A.; Bertin, E.; Buckley-Geer, E.; Burke, D. L.; Castander, F. J.; da Costa, L. N.; Cunha, C. E.; Depoy, D. L.; Desai, S.; Diehl, H. T.; Doel, P.; Estrada, J.; Evrard, A. E.; Neto, A. F.; Fernandez, E.; Finley, D. A.; Flaugher, B.; Frieman, J. A.; Gaztanaga, E.; Gerdes, D.; Gruendl, R. A.; Gutierrez, G. R.; Jarvis, M.; Karliner, I.; Kent, S.; Kuehn, K.; Kuropatkin, N.; Lahav, O.; Maia, M. A. G.; Makler, M.; Marriner, J.; Marshall, J. L.; Merritt, K. W.; Miller, C. J.; Miquel, R.; Mohr, J.; Neilsen, E.; Nichol, R. C.; Nord, B. D.; Reil, K.; Roe, N. A.; Roodman, A.; Sako, M.; Sanchez, E.; Santiago, B. X.; Schindler, R.; Schubnell, M.; Sevilla-Noarbe, I.; Sheldon, E.; Smith, C.; Soares-Santos, M.; Swanson, M. E. C.; Sypniewski, A. J.; Tarle, G.; Thaler, J.; Thomas, D.; Tucker, D. L.; Walker, A.; Wechsler, R.; Weller, J.; Wester, W.

    2015-03-31

    We measure the weak-lensing masses and galaxy distributions of four massive galaxy clusters observed during the Science Verification phase of the Dark Energy Survey. This pathfinder study is meant to 1) validate the DECam imager for the task of measuring weak-lensing shapes, and 2) utilize DECam's large field of view to map out the clusters and their environments over 90 arcmin. We conduct a series of rigorous tests on astrometry, photometry, image quality, PSF modeling, and shear measurement accuracy to single out flaws in the data and also to identify the optimal data processing steps and parameters. We find Science Verification data from DECam to be suitable for the lensing analysis described in this paper. The PSF is generally well-behaved, but the modeling is rendered difficult by a flux-dependent PSF width and ellipticity. We employ photometric redshifts to distinguish between foreground and background galaxies, and a red-sequence cluster finder to provide cluster richness estimates and cluster-galaxy distributions. By fitting NFW profiles to the clusters in this study, we determine weak-lensing masses that are in agreement with previous work. For Abell 3261, we provide the first estimates of redshift, weak-lensing mass, and richness. In addition, the cluster-galaxy distributions indicate the presence of filamentary structures attached to 1E 0657-56 and RXC J2248.7-4431, stretching out as far as 1 degree (approximately 20 Mpc), showcasing the potential of DECam and DES for detailed studies of degree-scale features on the sky.

  15. Identification and DNA fingerprinting of Legionella strains by randomly amplified polymorphic DNA analysis.

    OpenAIRE

    Bansal, N S; McDonell, F

    1997-01-01

    The randomly amplified polymorphic DNA (RAPD) technique was used in the development of a fingerprinting (typing) and identification protocol for Legionella strains. Twenty decamer random oligonucleotide primers were screened for their discriminatory abilities. Two candidate primers were selected. By using a combination of these primers, RAPD analysis allowed for the differentiation between all different species, between the serogroups, and further differentiation between subtypes of the same ...

  16. The Dark Energy Survey instrument design

    International Nuclear Information System (INIS)

    Flaugher, B.; Fermilab

    2006-01-01

    We describe a new project, the Dark Energy Survey (DES), aimed at measuring the dark energy equation of state parameter, w, to a statistical precision of ∼5%, with four complementary techniques. The survey will use a new 3 sq. deg. mosaic camera (DECam) mounted at the prime focus of the Blanco 4m telescope at the Cerro-Tololo International Observatory (CTIO). DECam includes a large mosaic camera, a five element optical corrector, four filters (g,r,i,z), and the associated infrastructure for operation in the prime focus cage. The focal plane consists of 62 2K x 4K CCD modules (0.27''/pixel) arranged in a hexagon inscribed within the 2.2 deg. diameter field of view. We plan to use the 250 micron thick fully-depleted CCDs that have been developed at the Lawrence Berkeley National Laboratory (LBNL). At Fermilab, we will establish a packaging factory to produce four-side buttable modules for the LBNL devices, as well as to test and grade the CCDs. R and D is underway and delivery of DECam to CTIO is scheduled for 2009

  17. Decamp Clock Board Firmware

    International Nuclear Information System (INIS)

    Vicente, J. de; Castilla, J.; Martinez, G.

    2007-01-01

    Decamp (Dark Energy Survey Camera) is a new instrument designed to explore the universe aiming to reveal the nature of Dark Energy. The camera consists of 72 CCDs and 520 Mpixels. The readout electronics of DECam is based on the Monsoon system. Monsoon is a new image acquisition system developed by the NOAO (National Optical Astronomical Observatory) for the new generation of astronomical cameras. The Monsoon system uses three types of boards inserted in a Eurocard format based crate: master control board, acquisition board and clock board. The direct use of the Monsoon system for DECam readout electronics requires nine crates mainly due to the high number of clock boards needed. Unfortunately, the available space for DECam electronics is constrained to four crates at maximum. The major drawback to achieve such desired compaction degree resides in the clock board signal density. This document describes the changes performed at CIEMAT on the programmable logic of the Monsoon clock board aiming to meet such restricted space constraints. (Author) 5 refs

  18. Electrochemistry of end-capped oligothienyls. New insights into the polymerization mechanism and the charge storage, conduction and capacitive properties of polythiophene

    Energy Technology Data Exchange (ETDEWEB)

    Zotti, G. (Ist. di Polarografia ed Elettrochimica Preparativa, Consiglio Nazionale delle Ricerche, Padua (Italy)); Schiavon, G. (Ist. di Polarografia ed Elettrochimica Preparativa, Consiglio Nazionale delle Ricerche, Padua (Italy)); Berlin, A. (Dipt. di Chimica Organica e Industriale dell' Univ. e Centro CNR, Speciali Sistemi Organici, Milan (Italy)); Pagani, G. (Dipt. di Chimica Organica e Industriale dell' Univ. e Centro CNR, Speciali Sistemi Organici, Milan (Italy))

    1993-11-23

    The kinetics of anodic coupling to dimers of thiophene oligomers (n=3-5), methyl protected at one [alpha]-terminal position, is second order in oligomer concentration and evidences high activation enthalpies and negative activation entropies. Activation free energies are linearly related to the inverse of the oligomer length n (the dimerization rate decreases as n is increased). Thin films of methyl end-capped thiophene oligomers (n=4, 6, 8 and 10) display reversible oxidations from a single one-electron step (tetramer) to a single two-electron step (octamer and decamer) through two separate one-electron steps (hexamer). ESR indicates strong magnetic dimerization for the one-electron-oxidized hexamer. The close resemblance of the electrochemical and ESR behaviour of the hexamer with that of polythiophene suggests that oxidation of the latter occurs via hexameric spin-dimerized polarons. The conductive and capacitive properties of the end-capped oligomers (n=6, 8 and 10) were investigated by in situ conductivity and chronopotentiometry. While conductivity of octamer and decamer is displayed at the two-electron (bipolaron) state, the hexamer, insulating at this state, is conducting at the mixed-valence polaron-bipolaron state; capacitive responses are evidenced at the bipolaron state for the octamer and decamer only. The difference of conductive and capacitive behaviour between the hexamer and the higher oligomers is explained by charge localization in hexameric segments. (orig.)

  19. A Dark Energy Camera Search for an Optical Counterpart to the First Advanced LIGO Gravitational Wave Event GW150914

    Science.gov (United States)

    Soares-Santos, M.; Kessler, R.; Burger, E.; Annis, J.; Brout, D.; Buckley-Geer, E.; Chen, H.; Cowperthwaite, P. S.; Diehl, H.T.; Doctor, Z.; hide

    2016-01-01

    We report the results of a deep search for an optical counterpart to the gravitational wave (GW) event GW150914, the first trigger from the Advanced LIGO GW detectors. We used the Dark Energy Camera (DECam) to image a 102 deg(exp 2) area, corresponding to 38% of the initial trigger high-probability sky region and to 11% of the revised high-probability region. We observed in the i and z bands at 4-5, 7, and 24 days after the trigger. The median 5(sigma) point-source limiting magnitudes of our search images are i = 22.5 and z = 21.8 mag. We processed the images through a difference-imaging pipeline using templates from pre-existing Dark Energy Survey data and publicly available DECam data. Due to missing template observations and other losses, our effective search area subtends 40 deg(exp 2), corresponding to a 12% total probability in the initial map and 3% in the final map. In this area, we search for objects that decline significantly between days 4-5 and day 7, and are undetectable by day 24, finding none to typical magnitude limits of i = 21.5, 21.1, 20.1 for object colors (i-z)= 1, 0, -1, respectively. Our search demonstrates the feasibility of a dedicated search program with DECam and bodes well for future research in this emerging field.

  20. Decamp Clock Board Firmware

    Energy Technology Data Exchange (ETDEWEB)

    Vicente, J. de; Castilla, J.; Martinez, G.

    2007-09-27

    Decamp (Dark Energy Survey Camera) is a new instrument designed to explore the universe aiming to reveal the nature of Dark Energy. The camera consists of 72 CCDs and 520 Mpixels. The readout electronics of DECam is based on the Monsoon system. Monsoon is a new image acquisition system developed by the NOAO (National Optical Astronomical Observatory) for the new generation of astronomical cameras. The Monsoon system uses three types of boards inserted in a Eurocard format based crate: master control board, acquisition board and clock board. The direct use of the Monsoon system for DECam readout electronics requires nine crates mainly due to the high number of clock boards needed. Unfortunately, the available space for DECam electronics is constrained to four crates at maximum. The major drawback to achieve such desired compaction degree resides in the clock board signal density. This document describes the changes performed at CIEMAT on the programmable logic of the Monsoon clock board aiming to meet such restricted space constraints. (Author) 5 refs.

  1. Embrace the Dark Side: Advancing the Dark Energy Survey

    Science.gov (United States)

    Suchyta, Eric

    The Dark Energy Survey (DES) is an ongoing cosmological survey intended to study the properties of the accelerated expansion of the Universe. In this dissertation, I present work of mine that has advanced the progress of DES. First is an introduction, which explores the physics of the cosmos, as well as how DES intends to probe it. Attention is given to developing the theoretical framework cosmologists use to describe the Universe, and to explaining observational evidence which has furnished our current conception of the cosmos. Emphasis is placed on the dark sector - dark matter and dark energy - the content of the Universe not explained by the Standard Model of particle physics. As its name suggests, the Dark Energy Survey has been specially designed to measure the properties of dark energy. DES will use a combination of galaxy cluster, weak gravitational lensing, angular clustering, and supernovae measurements to derive its state of the art constraints, each of which is discussed in the text. The work described in this dissertation includes science measurements directly related to the first three of these probes. The dissertation presents my contributions to the readout and control system of the Dark Energy Camera (DECam); the name of this software is SISPI. SISPI uses client-server and publish-subscribe communication patterns to coordinate and command actions among the many hardware components of DECam - the survey instrument for DES, a 570 megapixel CCD camera, mounted at prime focus of the Blanco 4-m Telescope. The SISPI work I discuss includes coding applications for DECam's filter changer mechanism and hexapod, as well as developing the Scripts Editor, a GUI application for DECam users to edit and export observing sequence SISPI can load and execute. Next, the dissertation describes the processing of early DES data, which I contributed. This furnished the data products used in the first-completed DES science analysis, and contributed to improving the

  2. SAFARI: Searching Asteroids For Activity Revealing Indicators

    Science.gov (United States)

    Curtis, Anthony; Chandler, Colin Orion; Mommert, Michael; Sheppard, Scott; Trujillo, Chadwick A.

    2018-06-01

    We present results on one of the deepest and widest systematic searches for active asteroids, objects in the main-belt which behave dynamically like asteroids but display comet-like comae. This activity comes from a variety of sources, such as the sublimation of ices or rotational breakup, the former of which offers an opportunity to study a family of protoplanetary ices different than those seen in comets and Kuiper Belt objects. Indications of activity may be detected through visual or spectroscopic evidence of gas or dust emissions. However, these objects are still poorly understood, with only about 25 identified to date. We looked for activity indicators with a pipeline that examined ~35,000 deep images taken with the Dark Energy Camera (DECam) mounted on the 4-meter Blanco telescope at the Cerro Tololo Inter-American Observatory in Chile. Our pipeline was configured to perform astrometry on DECam images and produce thumbnail images of known asteroids in the field to be examined by eye for signs of activity. We detected three previously identified active asteroids, one of which has shown repeated signs of activity in these data. Our proof of concept demonstrates 1) our novel informatics approach can locate active asteroids 2) DECam data are well suited to search for active asteroids. We will discuss the design structure of our pipeline, adjustments that had to be made for the specific dataset to improve performance, and the the significance of detecting activity in the main-belt. The authors acknowledge funding for this project through NSF grant number AST-1461200.

  3. Two-dimensional 1H and 31P NMR spectra and restrained molecular dynamics structure of an oligodeoxyribonucleotide duplex refined via a hybrid relaxation matrix procedure

    International Nuclear Information System (INIS)

    Powers, R.; Jones, C.R.; Gorenstein, D.G.

    1990-01-01

    Assignment of the 1H and 31P resonances of a decamer DNA duplex, d(CGCTTAAGCG)2 was determined by two-dimensional COSY, NOESY and 1H-31P Pure Absorption phase Constant time (PAC) heteronuclear correlation spectroscopy. The solution structure of the decamer was calculated by an iterative hybrid relaxation matrix method combined with NOESY-distance restrained molecular dynamics. The distances from the 2D NOESY spectra were calculated from the relaxation rate matrix which were evaluated from a hybrid NOESY volume matrix comprising elements from the experiment and those calculated from an initial structure. The hybrid matrix-derived distances were then used in a restrained molecular dynamics procedure to obtain a new structure that better approximates the NOESY spectra. The resulting partially refined structure was then used to calculate an improved theoretical NOESY volume matrix which is once again merged with the experimental matrix until refinement is complete. JH3'-P coupling constants for each of the phosphates of the decamer were obtained from 1H-31P J-resolved selective proton flip 2D spectra. By using a modified Karplus relationship the C4'-C3'-O3'-P torsional angles were obtained. Comparison of the 31P chemical shifts and JH3'-P coupling constants of this sequence has allowed a greater insight into the various factors responsible for 31P chemical shift variations in oligonucleotides. It also provides an important probe of the sequence-dependent structural variation of the deoxyribose phosphate backbone of DNA in solution. These correlations are consistent with the hypothesis that changes in local helical structure perturb the deoxyribose phosphate backbone. The variation of the 31P chemical shift, and the degree of this variation from one base step to the next is proposed as a potential probe of local helical conformation within the DNA double helix

  4. Lattice model for amyloid peptides: OPEP force field parametrization and applications to the nucleus size of Alzheimer’s peptides

    Energy Technology Data Exchange (ETDEWEB)

    Tran, Thanh Thuy; Nguyen, Phuong H., E-mail: phuong.nguyen@ibpc.fr; Derreumaux, Philippe, E-mail: philippe.derreumaux@ibpc.fr [Laboratoire de Biochimie Théorique, UPR 9080, CNRS, Université Denis Diderot, Sorbonne Paris Cité IBPC, 13 rue Pierre et Marie Curie, 75005 Paris (France)

    2016-05-28

    Coarse-grained protein lattice models approximate atomistic details and keep the essential interactions. They are, therefore, suitable for capturing generic features of protein folding and amyloid formation at low computational cost. As our aim is to study the critical nucleus sizes of two experimentally well-characterized peptide fragments Aβ{sub 16−22} and Aβ{sub 37−42} of the full length Aβ{sub 1−42} Alzheimer’s peptide, it is important that simulations with the lattice model reproduce all-atom simulations. In this study, we present a comprehensive force field parameterization based on the OPEP (Optimized Potential for Efficient protein structure Prediction) force field for an on-lattice protein model, which incorporates explicitly the formation of hydrogen bonds and directions of side-chains. Our bottom-up approach starts with the determination of the best lattice force parameters for the Aβ{sub 16−22} dimer by fitting its equilibrium parallel and anti-parallel β-sheet populations to all-atom simulation results. Surprisingly, the calibrated force field is transferable to the trimer of Aβ{sub 16−22} and the dimer and trimer of Aβ{sub 37−42}. Encouraged by this finding, we characterized the free energy landscapes of the two decamers. The dominant structure of the Aβ{sub 16−22} decamer matches the microcrystal structure. Pushing the simulations for aggregates between 4-mer and 12-mer suggests a nucleus size for fibril formation of 10 chains. In contrast, the Aβ{sub 37−42} decamer is largely disordered with mixed by parallel and antiparallel chains, suggesting that the nucleus size is >10 peptides. Our refined force field coupled to this on-lattice model should provide useful insights into the critical nucleation number associated with neurodegenerative diseases.

  5. Curcumin profiing and genetic diversity of different accessions of Curcuma longa L.

    Directory of Open Access Journals (Sweden)

    Neelam Arya

    2016-01-01

    Full Text Available Objective: To investigate the genetic diversity and variation in active compound of turmeric rhizomes collected from different niches of Uttarakhand. Methods: Genetic diversity and relationship of Curcuma longa accessions was evaluated by random amplification polymorphism DNA analysis and curcumin profiling was evaluated by high performance liquid chromatography method. Results: The curcumin contents in 20 accessions of turmeric rhizomes were found to be in the range of 0.90% to 3.26%. All accessions were separated into six groups (92% genetic similarity by using 10 decamer oligonucleotide primers for the amplification of genomic DNA. Conclusions: The results indicated the possibility of selecting high quality clones for large scale production.

  6. Grid-Based Projector Augmented Wave (GPAW) Implementation of Quantum Mechanics/Molecular Mechanics (QM/MM) Electrostatic Embedding and Application to a Solvated Diplatinum Complex

    DEFF Research Database (Denmark)

    Dohn, A. O.; Jónsson, E. Ö.; Levi, Gianluca

    2017-01-01

    A multiscale density functional theory-quantum mechanics/molecular mechanics (DFT-QM/MM) scheme is presented, based on an efficient electrostatic coupling between the electronic density obtained from a grid-based projector augmented wave (GPAW) implementation of density functional theory...... and a classical potential energy function. The scheme is implemented in a general fashion and can be used with various choices for the descriptions of the QM or MM regions. Tests on H2O clusters, ranging from dimer to decamer show that no systematic energy errors are introduced by the coupling that exceeds...

  7. El amor de lejos de Jaufré Rudel y sus transformaciones medievales: mito, vida, cuento y narración novelesca

    OpenAIRE

    Carmona Fernández, Fernando

    2013-01-01

    La vida de Jaufré Rudel originada en su poesía dará lugar a distintas modalidades narrativas. Sus manifestaciones literarias medievales en interrelación particularmente con la leyenda de Tristán y también con relatos como Guillaume de Dole y Lai de l’ombre de Jean Renart, Chastelaine de Vergi, Roman du Castelain de Coucy y cuentos 44 y 77 del Decamerón, entre otros textos, hace que el tema del amor de lejos constituya con todos ellos, a fnales del siglo XIII, la mod...

  8. Genetic diversity in three populations of Avicennia marina along the eastcoast of India by RAPD markers.

    Science.gov (United States)

    Hazarika, Dimendra; Thangaraj, M; Sahu, Sunil Kumar; Kathiresan, K

    2013-05-01

    Genetic diversity was analysed in three populations of the mangrove species, Avicennia marina by using random amplified polymorphic DNA-polymerase chain reaction (RAPD-PCR). Ten random decamer primers were used to score the diversity from three locations of eastcoast of India: Parangipettai (Tamil Nadu), Kakkinada (Andhra Pradesh) and Sundarbans (West Bengal). These primers produced 388 scorable DNA fragments, of which 252 (64.98%) were polymorphic, 182 (46.90%) were monomorphic, and 14 (3.61%) were unique. RAPD banding patterns displayed variations between and within the populations, while, there was no morphological variation.

  9. DNA oligonucleotide duplexes containing intramolecular platinated cross-links: energetics, hydration, sequence, and ionic effects.

    Science.gov (United States)

    Kankia, Besik I; Soto, Ana Maria; Burns, Nicole; Shikiya, Ronald; Tung, Chang-Shung; Marky, Luis A

    2002-11-05

    The anticancer activity of cisplatin arises from its ability to bind covalently to DNA, forming primarily intrastrand cross-links to adjacent purine residues; the most common adducts involve d(GpG) (65%) and d(ApG) (25%) intrastrand cross-links. The incorporation of these platinum adducts in a B-DNA helix induces local distortions, causing bending and unwinding of the DNA. In this work, we used temperature-dependent UV spectroscopy to investigate the unfolding thermodynamics, and associated ionic effects, of two sets of DNA decamer duplexes containing either cis-[Pt(NH(3))(2)[d(GpG

  10. Theoretical study on the cage-like nanostructures formed by amino acids and their potential applications as drug carriers

    Science.gov (United States)

    Weng, Pei Pei; Fan, Jian Fen; Lin, Hui Fang; Zhao, Xin; Si, Xia Lan

    2017-12-01

    The cage-like octamer, decamer and dodecamer constructed from aspartic acid monomers have been studied to explore their potential applications as drug carriers using the density functional theory. The calculation results indicate that these stable cage-like oligomers are mainly connected by the -C=O…HOOC- and -HN…HOOC- H-bonds and still keep stability and good drum-shaped topologies after the incorporation of 5-fluorouracil, paraldehyde and C24, respectively. The self-assembled cage-like oligomers may be applied to the preparation of new biological materials and the design of drug delivery systems.

  11. The Dark Energy Survey Data Processing and Calibration System

    Energy Technology Data Exchange (ETDEWEB)

    Mohr, Joseph J. [Munich U.; Armstrong, Robert [Penn State U.; Bertin, Emmanuel [Paris, Inst. Astrophys.; Daues, Gregory E. [NCSA, Urbana; Desai, Shantanu [Munich U.; Gower, Michelle [NCSA, Urbana; Gruendl, Robert [Illinois U., Urbana (main); Hanlon, William [Illinois U., Urbana (main); Kuropatkin, Nikolay [Fermilab; Lin, Huan [Fermilab; Marriner, John [Fermilab; Petravick, Don; Sevilla, Ignacio [Madrid, CIEMAT; Swanson, Molly [Harvard-Smithsonian Ctr. Astrophys.; Tomashek, Todd [NCSA, Urbana; Tucker, Douglas [Fermilab; Yanny, Brian [Fermilab

    2012-09-24

    The Dark Energy Survey (DES) is a 5000 deg2 grizY survey reaching characteristic photometric depths of 24th magnitude (10 sigma) and enabling accurate photometry and morphology of objects ten times fainter than in SDSS. Preparations for DES have included building a dedicated 3 deg2 CCD camera (DECam), upgrading the existing CTIO Blanco 4m telescope and developing a new high performance computing (HPC) enabled data management system (DESDM). The DESDM system will be used for processing, calibrating and serving the DES data. The total data volumes are high (~2PB), and so considerable effort has gone into designing an automated processing and quality control system. Special purpose image detrending and photometric calibration codes have been developed to meet the data quality requirements, while survey astrometric calibration, coaddition and cataloging rely on new extensions of the AstrOmatic codes which now include tools for PSF modeling, PSF homogenization, PSF corrected model fitting cataloging and joint model fitting across multiple input images. The DESDM system has been deployed on dedicated development clusters and HPC systems in the US and Germany. An extensive program of testing with small rapid turn-around and larger campaign simulated datasets has been carried out. The system has also been tested on large real datasets, including Blanco Cosmology Survey data from the Mosaic2 camera. In Fall 2012 the DESDM system will be used for DECam commissioning, and, thereafter, the system will go into full science operations.

  12. Astrometric Calibration and Performance of the Dark Energy Camera

    Energy Technology Data Exchange (ETDEWEB)

    Bernstein, G. M.; Armstrong, R.; Plazas, A. A.; Walker, A. R.; Abbott, T. M. C.; Allam, S.; Bechtol, K.; Benoit-Lévy, A.; Brooks, D.; Burke, D. L.; Rosell, A. Carnero; Kind, M. Carrasco; Carretero, J.; Cunha, C. E.; Costa, L. N. da; DePoy, D. L.; Desai, S.; Diehl, H. T.; Eifler, T. F.; Fernandez, E.; Fosalba, P.; Frieman, J.; García-Bellido, J.; Gerdes, D. W.; Gruen, D.; Gruendl, R. A.; Gschwend, J.; Gutierrez, G.; Honscheid, K.; James, D. J.; Kent, S.; Krause, E.; Kuehn, K.; Kuropatkin, N.; Li, T. S.; Maia, M. A. G.; March, M.; Marshall, J. L.; Menanteau, F.; Miquel, R.; Ogando, R. L. C.; Reil, K.; Roodman, A.; Rykoff, E. S.; Sanchez, E.; Scarpine, V.; Schindler, R.; Schubnell, M.; Sevilla-Noarbe, I.; Smith, M.; Smith, R. C.; Soares-Santos, M.; Sobreira, F.; Suchyta, E.; Swanson, M. E. C.; Tarle, G.

    2017-05-30

    We characterize the variation in photometric response of the Dark Energy Camera (DECam) across its 520~Mpix science array during 4 years of operation. These variations are measured using high signal-to-noise aperture photometry of $>10^7$ stellar images in thousands of exposures of a few selected fields, with the telescope dithered to move the sources around the array. A calibration procedure based on these results brings the RMS variation in aperture magnitudes of bright stars on cloudless nights down to 2--3 mmag, with <1 mmag of correlated photometric errors for stars separated by $\\ge20$". On cloudless nights, any departures of the exposure zeropoints from a secant airmass law exceeding >1 mmag are plausibly attributable to spatial/temporal variations in aperture corrections. These variations can be inferred and corrected by measuring the fraction of stellar light in an annulus between 6" and 8" diameter. Key elements of this calibration include: correction of amplifier nonlinearities; distinguishing pixel-area variations and stray light from quantum-efficiency variations in the flat fields; field-dependent color corrections; and the use of an aperture-correction proxy. The DECam response pattern across the 2-degree field drifts over months by up to $\\pm7$ mmag, in a nearly-wavelength-independent low-order pattern. We find no fundamental barriers to pushing global photometric calibrations toward mmag accuracy.

  13. Transverse electric fields' effects in the Dark Energy Camera CCDs

    International Nuclear Information System (INIS)

    Plazas, A A; Sheldon, E S; Bernstein, G M

    2014-01-01

    Spurious electric fields transverse to the surface of thick CCDs displace the photo-generated charges, effectively modifying the pixel area and producing noticeable signals in astrometric and photometric measurements. We use data from the science verification period of the Dark Energy Survey (DES) to characterize these effects in the Dark Energy Camera (DECam) CCDs, where the transverse fields manifest as concentric rings (impurity gradients or ''tree rings'') and bright stripes near the boundaries of the detectors (''edge distortions'') with relative amplitudes of about 1% and 10%, respectively. Using flat-field images, we derive templates in the five DES photometric bands (grizY) for the tree rings and the edge distortions as a function of their position on each DECam detector. Comparison of the astrometric and photometric residuals confirms their nature as pixel-size variations. The templates are directly incorporated into the derivation of photometric and astrometric residuals. The results presented in these proceedings are a partial report of analysis performed before the workshop ''Precision Astronomy with Fully depleted CDDs'' at Brookhaven National Laboratory. Additional work is underway, and the final results and analysis will be published elsewhere (Plazas, Bernstein and Sheldon 2014, in prep.)

  14. The hemocyanin of the ramshorn snail, Marisa cornuarietis (Linné).

    Science.gov (United States)

    Herskovits, T T; Otero, R M; Hamilton, M G

    1990-01-01

    1. The hemocyanin of the freshwater snail, Marisa cornuarietis exists predominantly as a di-decamer with the approximate mol. wt of 8.5 x 10(6) and a sedimentation coefficient of 100 S. Sedimentation and scanning transmission electron microscopy experiments indicate that about 15-20% of the hemocyanin forms tri-decameric and possibly higher aggregates with mol. wts of 12.5 x 10(6) and 130 S. 2. The fully dissociated subunits in 8.0 M urea and 6.0 M GdmCl have mol. wts of 4.1 to 4.7 x 10(5) which is close to one-twentieth of the major di-decameric component of the native hemocyanin. 3. Subunit dissociation by the urea series and the Hofmeister salt series of reagents suggests hydrophobic stabilization of the decamers or half-molecules of the parent hemocyanin. As with the other molluscan hemocyanins the order of effectiveness of the ureas as dissociating agents shows increased efficacy with increasing hydrophobicity or chain-length of the urea substituents. 4. Denaturation of the hemocyanin subunits by the ureas and Hofmeister salt series, investigated by circular dichroism measurements, essentially follow the same trend in effectiveness as observed by changes in subunit dissociation followed by light-scattering mol. wt measurements. 5. The observed denaturation transitions are shifted to much higher ranges of reagent concentration than the concentrations required for the dissociation of the hemocyanin subunits.

  15. Coding and decoding libraries of sequence-defined functional copolymers synthesized via photoligation.

    Science.gov (United States)

    Zydziak, Nicolas; Konrad, Waldemar; Feist, Florian; Afonin, Sergii; Weidner, Steffen; Barner-Kowollik, Christopher

    2016-11-30

    Designing artificial macromolecules with absolute sequence order represents a considerable challenge. Here we report an advanced light-induced avenue to monodisperse sequence-defined functional linear macromolecules up to decamers via a unique photochemical approach. The versatility of the synthetic strategy-combining sequential and modular concepts-enables the synthesis of perfect macromolecules varying in chemical constitution and topology. Specific functions are placed at arbitrary positions along the chain via the successive addition of monomer units and blocks, leading to a library of functional homopolymers, alternating copolymers and block copolymers. The in-depth characterization of each sequence-defined chain confirms the precision nature of the macromolecules. Decoding of the functional information contained in the molecular structure is achieved via tandem mass spectrometry without recourse to their synthetic history, showing that the sequence information can be read. We submit that the presented photochemical strategy is a viable and advanced concept for coding individual monomer units along a macromolecular chain.

  16. PreCam

    Energy Technology Data Exchange (ETDEWEB)

    Allam, Sahar S. [Fermilab; Tucker, Douglas L. [Fermilab

    2015-01-01

    The Dark Energy Survey (DES) will be taking the next step in probing the properties of Dark Energy and in understanding the physics of cosmic acceleration. A step towards the photometric calibration of DES is to have a quick, bright survey in the DES footprint (PreCam), using a pre-production set of the Dark Energy Camera (DECam) CCDs and a set of 100 mm×100 mm DES filters. The objective of the PreCam Survey is to create a network of calibrated DES grizY standard stars that will be used for DES nightly calibrations and to improve the DES global relative calibrations. Here, we describe the first year of PreCam observation, results, and photometric calibrations.

  17. Characterization of primary standards for use in the HPLC analysis of the procyanidin content of cocoa and chocolate containing products.

    Science.gov (United States)

    Hurst, William J; Stanley, Bruce; Glinski, Jan A; Davey, Matthew; Payne, Mark J; Stuart, David A

    2009-10-15

    This report describes the characterization of a series of commercially available procyanidin standards ranging from dimers DP = 2 to decamers DP = 10 for the determination of procyanidins from cocoa and chocolate. Using a combination of HPLC with fluorescence detection and MALDI-TOF mass spectrometry, the purity of each standard was determined and these data were used to determine relative response factors. These response factors were compared with other response factors obtained from published methods. Data comparing the procyanidin analysis of a commercially available US dark chocolate calculated using each of the calibration methods indicates divergent results and demonstrate that previous methods may significantly underreport the procyanidins in cocoa-containing products. These results have far reaching implications because the previous calibration methods have been used to develop data for a variety of scientific reports, including food databases and clinical studies.

  18. The use of RAPD fingerprinting to detect genetic variation of a selected signal grass mutant

    International Nuclear Information System (INIS)

    Affrida Abu Hassan; Ghazali HAzhar Mohamad; Abdul Rahim Harun

    2002-01-01

    Signal grass (Brachiaria decumbens) has been used for many years as grazing pasture for ruminants but it may know to be toxic to small ruminants. Mutagenesis provides an alternative approach to create phenotypic variability in the grass that might be free from toxicity and allow greater selection potential for desired characteristics. The mutant of Brachiara decumbens, which was obtained through induced mutation by gamma irradiation at dose 900 Gh showed phenotypic changes in term of tiller number, leaf to stem ratio and internode length. The variations caused by irradiation were detected by Random Amplified Polymorphic DNA (RAPD) analysis. Decamer oligonucleotide primers were used to generate DNA profiles. 575 bp polymorphic DNA band was observed between control and the mutant. RAPD has been proven to be useful to detect polymorphism between mutants and the control. (Author)

  19. Binding energies of cluster ions

    International Nuclear Information System (INIS)

    Parajuli, R.; Matt, S.; Scheier, P.; Echt, O.; Stamatovic, A.; Maerk, T.D.

    2002-01-01

    The binding energy of charged clusters may be measured by analyzing the kinetic energy released in the metastable decay of mass selected parent ions. Using finite heat bath theory to determine the binding energies of argon, neon, krypton, oxygen and nitrogen from their respective average kinetic energy released were carried out. A high-resolution double focussing two-sector mass spectrometer of reversed Nier-Johnson type geometry was used. MIKE ( mass-analysed ion kinetic energy) were measured to investigate decay reactions of mass-selected ions. For the inert gases neon (Ne n + ), argon (Ar n + ) and krypton (Kr n + ), it is found that the binding energies initially decrease with increasing size n and then level off at a value above the enthalpy of vaporization of the condensed phase. Oxygen cluster ions shown a characteristic dependence on cluster size (U-shape) indicating a change in the metastable fragmentation mechanism when going from the dimer to the decamer ion. (nevyjel)

  20. Random amplified polymorphic DNA (RAPD analysis of Lutzomyia longipalpis laboratory populations

    Directory of Open Access Journals (Sweden)

    DiaS Edelberto S.

    1998-01-01

    Full Text Available The phlebotomine sand fly Lutzomyia longipalpis has been incriminated as a vector of American visceral leishmaniasis, caused by Leishmania chagasi. However, some evidence has been accumulated suggesting that it may exist in nature not as a single but as a species complex. Our goal was to compare four laboratory reference populations of L. longipalpis from distinct geographic regions at the molecular level by RAPD-PCR. We screened genomic DNA for polymorphic sites by PCR amplification with decamer single primers of arbitrary nucleotide sequences. One primer distinguished one population (Marajó Island, Pará State, Brazil from the other three (Lapinha Cave, Minas Gerais State, Brazil; Melgar, Tolima Department, Colombia and Liberia, Guanacaste Province, Costa Rica. The population-specific and the conserved RAPD-PCR amplified fragments were cloned and shown to differ only in number of internal repeats.

  1. Genetic diversity within and between broodstocks of the white shrimp Litopenaeus vannamei (Boone, 1931 (Decapoda, Penaeidae and its implication for the gene pool conservation

    Directory of Open Access Journals (Sweden)

    PD. Freitas

    Full Text Available Genetic variation within and between fifteen closed broodstock lines of the Pacific white shrimp Litopenaeus vannamei, reared at different hatcheries in the Brazilian coast, was assessed by RAPD analysis. Fifty two polymorphic loci were identified when a set of five decamer primers was used in PCR. The genetic diversity analysis within lines evidenced genetic variation loss probably related to bottleneck effects and inbreeding. In addition, the genetic divergence values between the different samples appear to reflect the initial founder composition of such stocks, in some cases, sharing a common origin, suggesting a putative importance of interbreeding for the establishment of genetic improvement programs for these broodstocks. The genetic variation monitoring appears to be helpful to the gene pool conservation of this aquaculture species, mainly if considered its exotic status in Brazil and the current impossibility of new introduction of wild individuals.

  2. Genomic relations among 31 species of Mammillaria haworth (Cactaceae) using random amplified polymorphic DNA.

    Science.gov (United States)

    Mattagajasingh, Ilwola; Mukherjee, Arup Kumar; Das, Premananda

    2006-01-01

    Thirty-one species of Mammillaria were selected to study the molecular phylogeny using random amplified polymorphic DNA (RAPD) markers. High amount of mucilage (gelling polysaccharides) present in Mammillaria was a major obstacle in isolating good quality genomic DNA. The CTAB (cetyl trimethyl ammonium bromide) method was modified to obtain good quality genomic DNA. Twenty-two random decamer primers resulted in 621 bands, all of which were polymorphic. The similarity matrix value varied from 0.109 to 0.622 indicating wide variability among the studied species. The dendrogram obtained from the unweighted pair group method using arithmetic averages (UPGMA) analysis revealed that some of the species did not follow the conventional classification. The present work shows the usefulness of RAPD markers for genetic characterization to establish phylogenetic relations among Mammillaria species.

  3. First Results from the Lyman Alpha Galaxies in the Epoch of Reionization (LAGER) Survey: Cosmological Reionization at z ∼ 7

    Energy Technology Data Exchange (ETDEWEB)

    Zheng, Zhen-Ya; Jiang, Chunyan [CAS Key Laboratory for Research in Galaxies and Cosmology, Shanghai Astronomical Observatory, Shanghai 200030 (China); Wang, Junxian; Hu, Weida; Kong, Xu [CAS Key Laboratory for Research in Galaxies and Cosmology, Department of Astronomy, University of Science and Technology of China, Hefei, Anhui 230026 (China); Rhoads, James; Malhotra, Sangeeta; Gonzalez, Alicia [School of Earth and Space Exploration, Arizona State University, Tempe, AZ 85287 (United States); Infante, Leopoldo; Galaz, Gaspar; Barrientos, L. Felipe [Institute of Astrophysics and Center for Astroengineering, Pontificia Universidad Catolica de Chile, Santiago 7820436 (Chile); Walker, Alistair R. [Cerro Tololo Inter-American Observatory, Casilla 603, La Serena (Chile); Jiang, Linhua [The Kavli Institute for Astronomy and Astrophysics, Peking University, Beijing 100871 (China); Hibon, Pascale [European Southern Observatory, Alonso de Cordova 3107, Casilla 19001, Santiago (Chile); Zheng, XianZhong, E-mail: zhengzy@shao.ac.cn, E-mail: linfante@astro.puc.cl, E-mail: jxw@ustc.edu.cn, E-mail: Sangeeta.Malhotra@asu.edu, E-mail: James.Rhoads@asu.edu [Purple Mountain Observatory, Chinese Academy of Sciences, Nanjing 210008 (China)

    2017-06-20

    We present the first results from the ongoing Lyman Alpha Galaxies in the Epoch of Reionization (LAGER) project, which is the largest narrowband survey for z ∼ 7 galaxies to date. Using a specially built narrowband filter NB964 for the superb large-area Dark Energy Camera (DECam) on the NOAO/CTIO 4 m Blanco telescope, LAGER has collected 34 hr NB964 narrowband imaging data in the 3 deg{sup 2} COSMOS field. We have identified 23 Ly α Emitter candidates at z = 6.9 in the central 2-deg{sup 2} region, where DECam and public COSMOS multi-band images exist. The resulting luminosity function (LF) can be described as a Schechter function modified by a significant excess at the bright end (four galaxies with L {sub Lyα∼} 10{sup 43.4±0.2} erg s{sup −1}). The number density at L {sub Ly} {sub α} ∼ 10{sup 43.4±0.2} erg s{sup −1} is little changed from z = 6.6, while at fainter L {sub Lyα} it is substantially reduced. Overall, we see a fourfold reduction in Ly α luminosity density from z = 5.7 to z = 6.9. Combined with a more modest evolution of the continuum UV luminosity density, this suggests a factor of ∼3 suppression of Ly α by radiative transfer through the z ∼ 7 intergalactic medium (IGM). It indicates an IGM neutral fraction of x {sub Hi} ∼ 0.4–0.6 (assuming Ly α velocity offsets of 100–200 km s{sup −1}). The changing shape of the Ly α LF between z ≲ 6.6 and z = 6.9 supports the hypothesis of ionized bubbles in a patchy reionization at z ∼ 7.

  4. Genetic relatedness of artichoke (Cynara scolymus L.) hybrids using random amplified polymorphic DNA (RAPD) fingerprinting.

    Science.gov (United States)

    Sharaf-Eldin, M A; Al-Tamimi, A; Alam, P; Elkholy, S F; Jordan, J R

    2015-12-28

    The artichoke (Cynara scolymus L.) is an important food and medicinal crop that is cultivated in Mediterranean countries. Morphological characteristics, such as head shape and diameter, leaf shape, and bract shape, are mainly affected by environmental conditions. A molecular marker approach was used to analyze the degree of polymorphism between artichoke hybrid lines. The degree of genetic difference among three artichoke hybrids was evaluated using random amplified polymorphic DNA-PCR (RAPD-PCR). In this study, the DNA fingerprints of three artichoke lines (A13-010, A11-018, and A12-179) were generated, and a total of 10 decamer primers were applied for RAPD-PCR analyses. Polymorphism  (16.66 to 62.50%) was identified using eight arbitrary decamers and total genomic DNA extracted from the hybrids. Of the 59 loci detected, there were 25 polymorphic and 34 monomorphic loci. Jaccard's similarity index (JSI) ranged between 1.0 and 0.84. Based on the unweighted pair group method with arithmetic mean (UPGMA) similarity matrix and dendrogram, the results indicated that two hybrids (A13-010 and A11-018) were closely related to each other, and the A12-179 line showed more divergence. When identifying correct accessions, consideration of the genetic variation and genetic relationships among the genotypes are required. The RAPD-PCR fingerprinting of artichoke lines clearly showed that it is possible to analyze the RAPD patterns for correlation between genetic means and differences or resemblance between close accessions (A13-010 and A11- 018) at the genomic level.

  5. A HERO'S LITTLE HORSE: DISCOVERY OF A DISSOLVING STAR CLUSTER IN PEGASUS

    Energy Technology Data Exchange (ETDEWEB)

    Kim, Dongwon; Jerjen, Helmut, E-mail: dongwon.kim@anu.edu.au, E-mail: helmut.jerjen@anu.edu.au [Research School of Astronomy and Astrophysics, The Australian National University, Mt Stromlo Observatory, via Cotter Road, Weston, ACT 2611 (Australia)

    2015-01-20

    We report the discovery of an ultra-faint stellar system in the constellation of Pegasus. This concentration of stars was detected by applying our overdensity detection algorithm to the Sloan Digital Sky Survey Data Release 10 and confirmed with deeper photometry from the Dark Energy Camera (DECam) at the 4 m Blanco telescope. The best-fitting model isochrone indicates that this stellar system, Kim 1, features an old (12 Gyr) and metal-poor ([Fe/H] ∼ -1.7) stellar population at a heliocentric distance of 19.8 ± 0.9 kpc. We measure a half-light radius of 6.9 ± 0.6 pc using a Plummer profile. The small physical size and the extremely low luminosity are comparable to the faintest known star clusters Segue 3, Koposov 1 and 2, and Muñoz 1. However, Kim 1 exhibits a lower star concentration and is lacking a well-defined center. It also has an unusually high ellipticity and irregular outer isophotes, which suggests that we are seeing an intermediate mass star cluster being stripped by the Galactic tidal field. An extended search for evidence of an associated stellar stream within the 3 deg{sup 2} DECam field remains inconclusive. The finding of Kim 1 is consistent with current overdensity detection limits and supports the hypothesis that there are still a substantial number of extreme low-luminosity star clusters undetected in the wider Milky Way halo.

  6. Cocoa procyanidins and human cytokine transcription and secretion.

    Science.gov (United States)

    Mao, T; Van De Water, J; Keen, C L; Schmitz, H H; Gershwin, M E

    2000-08-01

    We examined whether cocoa, in its isolated procyanidin fractions (monomer through decamer), would modulate cytokine production at the levels of transcription and protein secretion in both resting and phytohemagglutinin (PHA)-stimulated peripheral blood mononuclear cells (PBMC). In resting cells, interleukin (IL)-1beta and IL-4 gene expression from cocoa-treated cells varied markedly among the subjects tested. However, at the protein level, the larger fractions (pentamer through decamer) stimulated a dramatic increase in IL-1beta concentration (up to ninefold) with increasing degree of polymerization. Similarly, these larger fractions augmented IL-4 concentration by as much as 2 pg/ml, whereas the control displayed levels nearly undetectable. In the presence of PHA, gene expression also seemed to be most affected by the larger procyanidin fractions. The pentameric through decameric fractions increased IL-1 beta expression by 7-19% compared with PHA control, whereas the hexameric through decameric fractions significantly inhibited PHA-induced IL-4 transcription in the range of 71-86%. This observation at the transcription level for IL-1 beta was reflected at the protein level in PHA-stimulated PBMC. Significant reductions in mitogen-induced IL-4 production were also seen at the protein level with the hexamer, heptamer and octamer. Individual oligomeric cocoa fractions were unstimulatory for IL-2 in resting PBMC. However, when induced with PHA, the pentamer, hexamer and heptamer fractions caused a 61-73% inhibition in IL-2 gene expression. This study offers additional data for the consideration of the health benefits of dietary polyphenols from a wide variety of foods, including those benefits associated specifically with cocoa and chocolate consumption.

  7. SMASH: Survey of the MAgellanic Stellar History

    Science.gov (United States)

    Nidever, David L.; Olsen, Knut; Walker, Alistair R.; Vivas, A. Katherina; Blum, Robert D.; Kaleida, Catherine; Choi, Yumi; Conn, Blair C.; Gruendl, Robert A.; Bell, Eric F.; Besla, Gurtina; Muñoz, Ricardo R.; Gallart, Carme; Martin, Nicolas F.; Olszewski, Edward W.; Saha, Abhijit; Monachesi, Antonela; Monelli, Matteo; de Boer, Thomas J. L.; Johnson, L. Clifton; Zaritsky, Dennis; Stringfellow, Guy S.; van der Marel, Roeland P.; Cioni, Maria-Rosa L.; Jin, Shoko; Majewski, Steven R.; Martinez-Delgado, David; Monteagudo, Lara; Noël, Noelia E. D.; Bernard, Edouard J.; Kunder, Andrea; Chu, You-Hua; Bell, Cameron P. M.; Santana, Felipe; Frechem, Joshua; Medina, Gustavo E.; Parkash, Vaishali; Serón Navarrete, J. C.; Hayes, Christian

    2017-11-01

    The Large and Small Magellanic Clouds are unique local laboratories for studying the formation and evolution of small galaxies in exquisite detail. The Survey of the MAgellanic Stellar History (SMASH) is an NOAO community Dark Energy Camera (DECam) survey of the Clouds mapping 480 deg2 (distributed over ˜2400 square degrees at ˜20% filling factor) to ˜24th mag in ugriz. The primary goals of SMASH are to identify low surface brightness stellar populations associated with the stellar halos and tidal debris of the Clouds, and to derive spatially resolved star formation histories. Here, we present a summary of the survey, its data reduction, and a description of the first public Data Release (DR1). The SMASH DECam data have been reduced with a combination of the NOAO Community Pipeline, the PHOTRED automated point-spread-function photometry pipeline, and custom calibration software. The astrometric precision is ˜15 mas and the accuracy is ˜2 mas with respect to the Gaia reference frame. The photometric precision is ˜0.5%-0.7% in griz and ˜1% in u with a calibration accuracy of ˜1.3% in all bands. The median 5σ point source depths in ugriz are 23.9, 24.8, 24.5, 24.2, and 23.5 mag. The SMASH data have already been used to discover the Hydra II Milky Way satellite, the SMASH 1 old globular cluster likely associated with the LMC, and extended stellar populations around the LMC out to R ˜ 18.4 kpc. SMASH DR1 contains measurements of ˜100 million objects distributed in 61 fields. A prototype version of the NOAO Data Lab provides data access and exploration tools.

  8. SMASH: Survey of the MAgellanic Stellar History

    Energy Technology Data Exchange (ETDEWEB)

    Nidever, David L.; Olsen, Knut; Blum, Robert D.; Saha, Abhijit [National Optical Astronomy Observatory, 950 North Cherry Avenue, Tucson, AZ 85719 (United States); Walker, Alistair R.; Vivas, A. Katherina [Cerro Tololo Inter-American Observatory, National Optical Astronomy Observatory, Casilla 603, La Serena (Chile); Kaleida, Catherine [Space Telescope Science Institute, 3700 San Martin Drive, Baltimore, MD 21218 (United States); Choi, Yumi; Besla, Gurtina; Olszewski, Edward W. [Steward Observatory, University of Arizona, 933 North Cherry Avenue, Tucson AZ, 85721 (United States); Conn, Blair C. [Research School of Astronomy and Astrophysics, Australian National University, Canberra, ACT 2611 (Australia); Gruendl, Robert A. [National Center for Supercomputing Applications, 1205 West Clark Street, Urbana, IL 61801 (United States); Bell, Eric F. [Department of Astronomy, University of Michigan, 1085 S. University Avenue, Ann Arbor, MI 48109-1107 (United States); Muñoz, Ricardo R. [Departamento de Astronomía, Universidad de Chile, Camino del Observatorio 1515, Las Condes, Santiago (Chile); Gallart, Carme; Monelli, Matteo [Instituto de Astrofísica de Canarias, La Laguna, Tenerife (Spain); Martin, Nicolas F. [Université de Strasbourg, CNRS, Observatoire astronomique de Strasbourg, UMR 7550, F-67000 Strasbourg (France); Monachesi, Antonela [Max-Planck-Institut für Astrophysik, Karl-Schwarzschild-Str. 1, D-85748 Garching (Germany); De Boer, Thomas J. L. [Institute of Astronomy, University of Cambridge, Madingley Road, Cambridge CB3 0HA (United Kingdom); Johnson, L. Clifton, E-mail: dnidever@noao.edu [Center for Astrophysics and Space Sciences, UC San Diego, 9500 Gilman Drive, La Jolla, CA, 92093-0424 (United States); and others

    2017-11-01

    The Large and Small Magellanic Clouds are unique local laboratories for studying the formation and evolution of small galaxies in exquisite detail. The Survey of the MAgellanic Stellar History (SMASH) is an NOAO community Dark Energy Camera (DECam) survey of the Clouds mapping 480 deg{sup 2} (distributed over ∼2400 square degrees at ∼20% filling factor) to ∼24th mag in ugriz . The primary goals of SMASH are to identify low surface brightness stellar populations associated with the stellar halos and tidal debris of the Clouds, and to derive spatially resolved star formation histories. Here, we present a summary of the survey, its data reduction, and a description of the first public Data Release (DR1). The SMASH DECam data have been reduced with a combination of the NOAO Community Pipeline, the PHOTRED automated point-spread-function photometry pipeline, and custom calibration software. The astrometric precision is ∼15 mas and the accuracy is ∼2 mas with respect to the Gaia reference frame. The photometric precision is ∼0.5%–0.7% in griz and ∼1% in u with a calibration accuracy of ∼1.3% in all bands. The median 5 σ point source depths in ugriz are 23.9, 24.8, 24.5, 24.2, and 23.5 mag. The SMASH data have already been used to discover the Hydra II Milky Way satellite, the SMASH 1 old globular cluster likely associated with the LMC, and extended stellar populations around the LMC out to R  ∼ 18.4 kpc. SMASH DR1 contains measurements of ∼100 million objects distributed in 61 fields. A prototype version of the NOAO Data Lab provides data access and exploration tools.

  9. Il diavolo in corpo: una lettura del Decameron di Giovanni Boccaccio The devil in the flesh: a reading of Boccaccio's Decameron

    Directory of Open Access Journals (Sweden)

    Andrea Lombardi

    2012-12-01

    Full Text Available Considerare il Decameron esclusivamente un "classico" non rende giustiza alla sua struttura narrativa geometrica e complessa. Poiché ognuno dei suoi aspetti rivela il potenziale sovversivo della sua macchina narrativa. Le cento novelle con la loro cornice, che descrive l'epidemia della peste nera del 1348, ne fanno il primo libro organico della narrativa occidentale: un testo con una architettura peculiare. Una lettura attenta, però, può individuare una nuova novella, quella di numero 101 (nell'Introduzione alla quarta giornata: ciò che rivela la crisi finale della struttura chiusa, dell'architettura pianificata. Ciappelletto, protagonista della prima novella, diviene Santo da "peggiore uomo del mondo" che era; mentre Griselda, eroina dell'ultima delle cento novelle, mostra che la sua iperbolica virtù si trasforma in cinismo crudele. Così il Decameron crea il proprio futuro, rappresentando una mimesi ampia della sua epoca e, allo stesso tempo, avviando una rottura radicale ironica, o meglio elusiva: modello della commedia rinascimentale e dell'ermeneutica, nell'uso radicale dell'ironia. Possiamo forse considerare il Decameron una risposta istigante alla domanda attuale sulla natura di ciò che è contemporaneo.Considerar o Decamerão apenas como um "clássico" não faz justiça à sua estrutura narrativa geométrica e complexa. Pois cada um de seus aspectos revela o potencial subversivo de sua narrativa. As cem novelas junto com sua moldura, que descreve a epidemia da Peste Negra em 1348, fazem dele o primeiro livro orgânico da narrativa ocidental, um texto com sua arquitetura peculiar. Porém, uma leitura cuidadosa pode revelar a existência de uma nova novela, a de número 101 (na Introdução à Quarta Jornada: o que representa a crise final da estrutura fechada, de uma arquitetura planejada. Ciappelletto, protagonista da primeira novela, torna-se Santo, de "pior homem do mundo" que era; enquanto Griselda, heroína da última das cem

  10. Measuring the Flatness of Focal Plane for Very Large Mosaic CCD Camera

    Energy Technology Data Exchange (ETDEWEB)

    Hao, Jiangang; Estrada, Juan; Cease, Herman; Diehl, H.Thomas; Flaugher, Brenna L.; Kubik, Donna; Kuk, Keivin; Kuropatkine, Nickolai; Lin, Huan; Montes, Jorge; Scarpine, Vic; /Fermilab

    2010-06-08

    Large mosaic multiCCD camera is the key instrument for modern digital sky survey. DECam is an extremely red sensitive 520 Megapixel camera designed for the incoming Dark Energy Survey (DES). It is consist of sixty two 4k x 2k and twelve 2k x 2k 250-micron thick fully-depleted CCDs, with a focal plane of 44 cm in diameter and a field of view of 2.2 square degree. It will be attached to the Blanco 4-meter telescope at CTIO. The DES will cover 5000 square-degrees of the southern galactic cap in 5 color bands (g, r, i, z, Y) in 5 years starting from 2011. To achieve the science goal of constraining the Dark Energy evolution, stringent requirements are laid down for the design of DECam. Among them, the flatness of the focal plane needs to be controlled within a 60-micron envelope in order to achieve the specified PSF variation limit. It is very challenging to measure the flatness of the focal plane to such precision when it is placed in a high vacuum dewar at 173 K. We developed two image based techniques to measure the flatness of the focal plane. By imaging a regular grid of dots on the focal plane, the CCD offset along the optical axis is converted to the variation the grid spacings at different positions on the focal plane. After extracting the patterns and comparing the change in spacings, we can measure the flatness to high precision. In method 1, the regular dots are kept in high sub micron precision and cover the whole focal plane. In method 2, no high precision for the grid is required. Instead, we use a precise XY stage moves the pattern across the whole focal plane and comparing the variations of the spacing when it is imaged by different CCDs. Simulation and real measurements show that the two methods work very well for our purpose, and are in good agreement with the direct optical measurements.

  11. The Large Synoptic Survey Telescope as a Near-Earth Object discovery machine

    Science.gov (United States)

    Jones, R. Lynne; Slater, Colin T.; Moeyens, Joachim; Allen, Lori; Axelrod, Tim; Cook, Kem; Ivezić, Željko; Jurić, Mario; Myers, Jonathan; Petry, Catherine E.

    2018-03-01

    Using the most recent prototypes, design, and as-built system information, we test and quantify the capability of the Large Synoptic Survey Telescope (LSST) to discover Potentially Hazardous Asteroids (PHAs) and Near-Earth Objects (NEOs). We empirically estimate an expected upper limit to the false detection rate in LSST image differencing, using measurements on DECam data and prototype LSST software and find it to be about 450 deg-2. We show that this rate is already tractable with current prototype of the LSST Moving Object Processing System (MOPS) by processing a 30-day simulation consistent with measured false detection rates. We proceed to evaluate the performance of the LSST baseline survey strategy for PHAs and NEOs using a high-fidelity simulated survey pointing history. We find that LSST alone, using its baseline survey strategy, will detect 66% of the PHA and 61% of the NEO population objects brighter than H = 22 , with the uncertainty in the estimate of ± 5 percentage points. By generating and examining variations on the baseline survey strategy, we show it is possible to further improve the discovery yields. In particular, we find that extending the LSST survey by two additional years and doubling the MOPS search window increases the completeness for PHAs to 86% (including those discovered by contemporaneous surveys) without jeopardizing other LSST science goals (77% for NEOs). This equates to reducing the undiscovered population of PHAs by additional 26% (15% for NEOs), relative to the baseline survey.

  12. Charge Diffusion Variations in Pan-STARRS1 CCDs

    Science.gov (United States)

    Magnier, Eugene A.; Tonry, J. L.; Finkbeiner, D.; Schlafly, E.; Burgett, W. S.; Chambers, K. C.; Flewelling, H. A.; Hodapp, K. W.; Kaiser, N.; Kudritzki, R.-P.; Metcalfe, N.; Wainscoat, R. J.; Waters, C. Z.

    2018-06-01

    Thick back-illuminated deep-depletion CCDs have superior quantum efficiency over previous generations of thinned and traditional thick CCDs. As a result, they are being used for wide-field imaging cameras in several major projects. We use observations from the Pan-STARRS 3π survey to characterize the behavior of the deep-depletion devices used in the Pan-STARRS 1 Gigapixel Camera. We have identified systematic spatial variations in the photometric measurements and stellar profiles that are similar in pattern to the so-called “tree rings” identified in devices used by other wide-field cameras (e.g., DECam and Hypersuprime Camera). The tree-ring features identified in these other cameras result from lateral electric fields that displace the electrons as they are transported in the silicon to the pixel location. In contrast, we show that the photometric and morphological modifications observed in the GPC1 detectors are caused by variations in the vertical charge transportation rate and resulting charge diffusion variations.

  13. Grid-Based Projector Augmented Wave (GPAW) Implementation of Quantum Mechanics/Molecular Mechanics (QM/MM) Electrostatic Embedding and Application to a Solvated Diplatinum Complex.

    Science.gov (United States)

    Dohn, A O; Jónsson, E Ö; Levi, G; Mortensen, J J; Lopez-Acevedo, O; Thygesen, K S; Jacobsen, K W; Ulstrup, J; Henriksen, N E; Møller, K B; Jónsson, H

    2017-12-12

    A multiscale density functional theory-quantum mechanics/molecular mechanics (DFT-QM/MM) scheme is presented, based on an efficient electrostatic coupling between the electronic density obtained from a grid-based projector augmented wave (GPAW) implementation of density functional theory and a classical potential energy function. The scheme is implemented in a general fashion and can be used with various choices for the descriptions of the QM or MM regions. Tests on H 2 O clusters, ranging from dimer to decamer show that no systematic energy errors are introduced by the coupling that exceeds the differences in the QM and MM descriptions. Over 1 ns of liquid water, Born-Oppenheimer QM/MM molecular dynamics (MD) are sampled combining 10 parallel simulations, showing consistent liquid water structure over the QM/MM border. The method is applied in extensive parallel MD simulations of an aqueous solution of the diplatinum [Pt 2 (P 2 O 5 H 2 ) 4 ] 4- complex (PtPOP), spanning a total time period of roughly half a nanosecond. An average Pt-Pt distance deviating only 0.01 Å from experimental results, and a ground-state Pt-Pt oscillation frequency deviating by <2% from experimental results were obtained. The simulations highlight a remarkable harmonicity of the Pt-Pt oscillation, while also showing clear signs of Pt-H hydrogen bonding and directional coordination of water molecules along the Pt-Pt axis of the complex.

  14. The First Data Release of the All-sky NOAO Source Catalog

    Science.gov (United States)

    Nidever, David L.; NOAO Data Lab

    2018-06-01

    Roughly three quarters of the sky has been imaged with NOAO's telescopes from both hemispheres. While the large majority of these data were obtained for PI-led projects and surveys only a fraction have been released to the community via well-calibrated and easily accessible catalogs. We have remedied this by creating a catalog of sources from most of the public data taken on CTIO-4m+DECam as well as KPNO 4m+Mosaic3. The first data release (DR1) of this catalog, called the NOAO Source Catalog (NSC), contains 2.9 billion unique objects, 34 billion individual measurements, covers ~30,000 square degrees, has depths of ~23rd magnitude in most broadband filters with ~1-2% photometric accuracy and astrometric accuracy of ~2 mas. The NSC will be useful for exploring stellar streams, dwarf satellite galaxies, distant galaxies as well as variable stars and other transients. DR1 is now available through the NOAO Data Lab (datalab.noao.edu).

  15. Genetic diversity in mesoamerican populations of mahogany (Swietenia macrophylla), assessed using RAPDs.

    Science.gov (United States)

    Gillies, A C; Navarro, C; Lowe, A J; Newton, A C; Hernández, M; Wilson, J; Cornelius, J P

    1999-12-01

    Swietenia macrophylla King, a timber species native to tropical America, is threatened by selective logging and deforestation. To quantify genetic diversity within the species and monitor the impact of selective logging, populations were sampled across Mesoamerica, from Mexico to Panama, and analysed for RAPD DNA variation. Ten decamer primers generated 102 polymorphic RAPD bands and pairwise distances were calculated between populations according to Nei, then used to construct a radial neighbour-joining dendrogram and examine intra- and interpopulation variance coefficients, by analysis of molecular variation (AMOVA). Populations from Mexico clustered closely together in the dendrogram and were distinct from the rest of the populations. Those from Belize also clustered closely together. Populations from Panama, Guatemala, Costa Rica, Nicaragua and Honduras, however, did not cluster closely by country but were more widely scattered throughout the dendrogram. This result was also reflected by an autocorrelation analysis of genetic and geographical distance. Genetic diversity estimates indicated that 80% of detected variation was maintained within populations and regression analysis demonstrated that logging significantly decreased population diversity (P = 0.034). This study represents one of the most wide-ranging surveys of molecular variation within a tropical tree species to date. It offers practical information for the future conservation of mahogany and highlights some factors that may have influenced the partitioning of genetic diversity in this species across Mesoamerica.

  16. The Origin of Faint Tidal Features around Galaxies in the RESOLVE Survey

    Science.gov (United States)

    Hood, Callie E.; Kannappan, Sheila J.; Stark, David V.; Dell’Antonio, Ian P.; Moffett, Amanda J.; Eckert, Kathleen D.; Norris, Mark A.; Hendel, David

    2018-04-01

    We study tidal features around galaxies in the REsolved Spectroscopy Of a Local VolumE (RESOLVE) survey. Our sample consists of 1048 RESOLVE galaxies that overlap with the DECam Legacy Survey, which reaches an r-band 3σ depth of ∼27.9 mag arcsec‑2 for a 100 arcsec2 feature. Images were masked, smoothed, and inspected for tidal features such as streams, shells, or tails/arms. We find tidal features in 17±2% of our galaxies, setting a lower limit on the true frequency. The frequency of tidal features in the gas-poor (gas-to-stellar mass ratio arms from resonant interactions. Similar to tidal features in gas-poor galaxies, tidal features in gas-rich galaxies imply 1.7× closer nearest neighbors in the same group; however, they are associated with diskier morphologies, higher star formation rates, and higher gas content. In addition to interactions with known neighbors, we suggest that tidal features in gas-rich galaxies may arise from accretion of cosmic gas and/or gas-rich satellites below the survey limit.

  17. Alpha Elements' Effects on Planet Formation and the Hunt for Extragalactic Planets

    Science.gov (United States)

    Penny, Matthew; Rodriguez, Joseph E.; Beatty, Thomas; Zhou, George

    2018-01-01

    A star's likelihood of hosting a giant planet is well known to be strongly dependent on metallicity. However, little is known about what elements cause this correlation (e.g. bulk metals, iron, or alpha elements such as silicon and oxygen). This is likely because most planet searches target stars in the Galactic disk, and due to Galactic chemical evolution, alpha element abundances are themselves correlated with metallicity within a population. We investigate the feasibility of simultaneous transiting planet search towards the alpha-poor Sagittarius dwarf galaxy and alpha-rich Galactic bulge in a single field of view of DECam, that would enable a comparative study of planet frequency over an [alpha/Fe] baseline of ~0.4 dex. We show that a modestly sized survey could detect planet candidates in both populations, but that false positive rejection in Sgr Dwarf may be prohibitively expensive. Conversely, two-filter survey observations alone would be sufficient to rule out a large fraction of bulge false positives, enabling statistical validation of candidates with a modest follow-up investment. Although over a shorter [alpha/Fe] baseline, this survey would provide a test of whether it is alpha or iron that causes the planet metallicity correlation.

  18. Análise da variabilidade genética de Alphitobius diaperinus utilizando marcadores moleculares de DNA - doi: 10.5102/ucs.v8i2.1141

    Directory of Open Access Journals (Sweden)

    Paulo Roberto Queiroz Silva

    2011-04-01

    Full Text Available Alphitobius diaperinus (Panzer, 1797 é uma espécie cosmopolita originária do continente africano encontrada em grande quantidade em cama de frango causando problemas sanitários e econômicos, afetando a saúde e o crescimento das aves e atuando também como transmissor de doenças. Indivíduos A. diaperinus originários de três localidades da região sul do Brasil foram analisados molecularmente por meio da técnica de RAPD. Para isso foi adaptada uma metodologia para extração de DNA e testados os iniciadores decaméricos OPA-03, OPA-04, OPA-10, OPA-11 e OPA-13. O protocolo de extração de DNA que foi adaptado produziu fragmentos de DNA para a análise das populações de cascudinho originárias da região sul do Brasil por RAPD. Foi encontrada alta variabilidade genética entre as populações de cascudinho. Além disso, sugere-se que indivíduos de A. diaperinus ocorrendo no Paraná possam ter se deslocado para os estados de Santa Catarina e Rio Grande do Sul.

  19. Replacing Nitrogen by Sulfur: From Structurally Disordered Eumelanins to Regioregular Thiomelanin Polymers

    Directory of Open Access Journals (Sweden)

    Mariagrazia Iacomino

    2017-10-01

    Full Text Available The oxidative polymerization of 5,6-dihydroxybenzothiophene (DHBT, the sulfur analog of the key eumelanin building block 5,6-dihydroxyindole (DHI, was investigated to probe the role of nitrogen in eumelanin build-up and properties. Unlike DHI, which gives a typical black insoluble eumelanin polymer on oxidation, DHBT is converted to a grayish amorphous solid (referred to as thiomelanin with visible absorption and electron paramagnetic resonance properties different from those of DHI melanin. Mass spectrometry experiments revealed gradational mixtures of oligomers up to the decamer level. Quite unexpectedly, nuclear magnetic resonance (NMR analysis of the early oligomer fractions indicated linear, 4-, and 7-linked structures in marked contrast with DHI, which gives highly complex mixtures of partially degraded oligomers. Density functional theory (DFT calculations supported the tendency of DHBT to couple via the 4- and 7-positions. These results uncover the role of nitrogen as a major determinant of the structural diversity generated by the polymerization of DHI, and point to replacement by sulfur as a viable entry to regioregular eumelanin-type materials for potential applications for surface functionalization by dip coating.

  20. Assessment of genetic variability in rice (oryza sativa l.) germplasm from Pakistan using rapd markers

    International Nuclear Information System (INIS)

    Pervaiz, Z.H.; Rabbani, M.A.; Shinwar, Z.K.; Masood, M.S.; Malik, S.A.

    2010-01-01

    Information on genetic diversity and relationships among rice genotypes from Pakistan is currently very limited. Molecular marker analysis can truly be beneficial in analyzing the diversity of rice germplasm providing useful information to broaden the genetic base of modern rice cultivars. The objective of this study was to evaluate the genetic polymorphism of 75 rice accessions and improved cultivars using random amplified polymorphic DNA (RAPD) technique. Twenty-eight decamer-primers generated a total of 145 RAPD fragments, of which 116 (80%) were polymorphic. The number of amplification products produced by each primer varied from 3 to 9 with an average of 5.2 alleles primer-1. The size of amplified fragments ranged from 250 to 4000bp. A dendrogram was generated from minimal variance algorithm using Ward method. All the 75 genotypes were grouped into two main groups corresponding to aromatic and non-aromatic types of indica rice. Clustering of accessions did not show any significant pattern of association between the RAPD fingerprints and collection sites. This type of analysis grouping different rice accessions in relation to fragrance, a major rice quality determinant, and varietal group is extremely useful to develop a core collection and gene bank management. Further more, the information revealed by the RAPDs regarding genetic variation is helpful to the plant breeder in selecting diverse parents and for future orientation of rice breeding program. (author)

  1. Cocoa and Grape Seed Byproducts as a Source of Antioxidant and Anti-Inflammatory Proanthocyanidins.

    Science.gov (United States)

    Cádiz-Gurrea, María De La Luz; Borrás-Linares, Isabel; Lozano-Sánchez, Jesús; Joven, Jorge; Fernández-Arroyo, Salvador; Segura-Carretero, Antonio

    2017-02-10

    Phenolic compounds, which are secondary plant metabolites, are considered an integral part of the human diet. Physiological properties of dietary polyphenols have come to the attention in recent years. Especially, proanthocyanidins (ranging from dimers to decamers) have demonstrated potential interactions with biological systems, such as antiviral, antibacterial, molluscicidal, enzyme-inhibiting, antioxidant, and radical-scavenging properties. Agroindustry produces a considerable amount of phenolic-rich sources, and the ability of polyphenolic structures to interacts with other molecules in living organisms confers their beneficial properties. Cocoa wastes and grape seeds and skin byproducts are a source of several phenolic compounds, particularly mono-, oligo-, and polymeric proanthocyanidins. The aim of this work is to compare the phenolic composition of Theobroma cacao and Vitis vinifera grape seed extracts by high pressure liquid chromatography coupled to a quadrupole time-of-flight mass spectrometer and equipped with an electrospray ionization interface (HPLC-ESI-QTOF-MS) and its phenolic quantitation in order to evaluate the proanthocyanidin profile. The antioxidant capacity was measured by different methods, including electron transfer and hydrogen atom transfer-based mechanisms, and total phenolic and flavan-3-ol contents were carried out by Folin-Ciocalteu and Vanillin assays. In addition, to assess the anti-inflammatory capacity, the expression of MCP-1 in human umbilical vein endothelial cells was measured.

  2. Calcium and magnesium ions modulate the oligomeric state and function of mitochondrial 2-Cys peroxiredoxins in Leishmania parasites.

    Science.gov (United States)

    Morais, Mariana A B; Giuseppe, Priscila O; Souza, Tatiana A C B; Castro, Helena; Honorato, Rodrigo V; Oliveira, Paulo S L; Netto, Luis E S; Tomas, Ana M; Murakami, Mario T

    2017-04-28

    Leishmania parasites have evolved a number of strategies to cope with the harsh environmental changes during mammalian infection. One of these mechanisms involves the functional gain that allows mitochondrial 2-Cys peroxiredoxins to act as molecular chaperones when forming decamers. This function is critical for parasite infectivity in mammals, and its activation has been considered to be controlled exclusively by the enzyme redox state under physiological conditions. Herein, we have revealed that magnesium and calcium ions play a major role in modulating the ability of these enzymes to act as molecular chaperones, surpassing the redox effect. These ions are directly involved in mitochondrial metabolism and participate in a novel mechanism to stabilize the decameric form of 2-Cys peroxiredoxins in Leishmania mitochondria. Moreover, we have demonstrated that a constitutively dimeric Prx1m mutant impairs the survival of Leishmania under heat stress, supporting the central role of the chaperone function of Prx1m for Leishmania parasites during the transition from insect to mammalian hosts. © 2017 by The American Society for Biochemistry and Molecular Biology, Inc.

  3. Genetic Diversity Analysis of Iranian Jujube Ecotypes (Ziziphus spp. Using RAPD Molecular Marker

    Directory of Open Access Journals (Sweden)

    S Abbasi

    2012-12-01

    Full Text Available Jujube (Ziziphus jujuba Mill. is a valuable medicinal plant which is important in Iranian traditional medicines. Although the regional plants such as jujube play an important role in our economy, but they are forgotten in research and technology. Considering the economic and medicinal importance of jujube, the first step in breeding programs is determination of the genetic diversity among the individuals. 34 ecotypes of jujube, which have been collected from eight provinces of Iran, were used in this study. The genetic relationships of Iranian jujube ecotypes were analyzed using Random Amplified Polymorphic DNA (RAPD marker. Six out of 15 random decamer primers applied for RAPD analysis, showed an informative polymorphism. According to clustering analysis using UPGMA's methods, the ecotypes were classified into two major groups at the 0.81 level of genetic similarity. The highest value of similarity coefficient (0.92 was detected between Mazandaran and Golestan ecotypes and the most genetic diversity was observed in ecotypes of Khorasan-Jonoubi. The affinity of Khorasan-Jonoubi and Esfahan ecotypes indicated a possible common origin for the variation in these areas. Results indicated that RAPD analysis could be successfully used for the estimation of genetic diversity among Ziziphus ecotypes and it can be useful for further investigations.

  4. Allele specific hybridization using oligonucleotide probes of very high specific activity: Discrimination of the human β/sup A/ and β/sup S/-globin genes

    International Nuclear Information System (INIS)

    Studencki, A.B.; Wallace, R.B.

    1984-01-01

    The repair activity of E. coli DNA polymerase I (Klenow fragment) was used to prepare nonadecanucleotide hybridization probes which were complementary either to the normal human β-globin (β/sup A/) or to the sickle cell human β-globin (β/sup S/) gene. Template directed polymerization of highly radiolabeled α-/sup 32/P-deoxyribonucleoside triphosphates (3200, 5000 and/or 7800 Ci/mmol) onto nonamer and decamer primers produced probes with specific activities ranging from 1.0 - 2.0 x 10/sup 10/ dpm/μg. The extremely high specific activities of these probes made it possible to detect the β/sup A/ and β/sup S/ single copy gene sequences in as little as 1 μg of total human genomic DNA as well as to discriminate between the homozygous and heterozygous states. This means that it was possible to detect 0.5 - 1.0 x 10/sup -18/ moles of a given single copy sequence

  5. Impact of processing on the bioavailability and vascular effects of blueberry (poly)phenols.

    Science.gov (United States)

    Rodriguez-Mateos, Ana; Del Pino-García, Raquel; George, Trevor W; Vidal-Diez, Alberto; Heiss, Christian; Spencer, Jeremy P E

    2014-10-01

    Blueberries are a rich source of flavonoids and phenolic acids. Currently, little information is available regarding the impact of processing on the bioavailability and the bioactivity of blueberry (poly)phenols. In a randomized, controlled crossover trial, ten healthy volunteers consumed (a) blueberry-containing baked products, (b) an unprocessed blueberry drink containing the same amount of freeze-dried blueberry powder as used in the baked products, and (c) matched control baked products. Endothelial function was measured as flow-mediated dilation (FMD) and plasma samples taken at baseline and at 1, 2, 4, and 6 h postconsumption. Although processing did not significantly change the total (poly)phenolic amount, the processed products contained significantly less anthocyanins (-42%), more chlorogenic acid (23%), no flavanol nonamers or decamers, and significantly more flavanol dimers and trimers (36% and 28%, respectively). FMD increased after 1, 2, and 6 h consumption of the baked products to a similar degree as the unprocessed blueberries, despite significant differences in the levels of individual plasma metabolites. No changes were observed after the consumption of the control product. Careful processing can preserve important biological activities of blueberries despite changing the blueberry (poly)phenol composition and plasma metabolite profile. © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  6. "Divide-and-conquer" semiclassical molecular dynamics: An application to water clusters

    Science.gov (United States)

    Di Liberto, Giovanni; Conte, Riccardo; Ceotto, Michele

    2018-03-01

    We present an investigation of vibrational features in water clusters performed by means of our recently established divide-and-conquer semiclassical approach [M. Ceotto, G. Di Liberto, and R. Conte, Phys. Rev. Lett. 119, 010401 (2017)]. This technique allows us to simulate quantum vibrational spectra of high-dimensional systems starting from full-dimensional classical trajectories and projection of the semiclassical propagator onto a set of lower dimensional subspaces. The potential energy surface employed is a many-body representation up to three-body terms, in which monomers and two-body interactions are described by the high level Wang-Huang-Braams-Bowman (WHBB) water potential, while, for three-body interactions, calculations adopt a fast permutationally invariant ab initio surface at the same level of theory of the WHBB 3-body potential. Applications range from the water dimer up to the water decamer, a system made of 84 vibrational degrees of freedom. Results are generally in agreement with previous variational estimates in the literature. This is particularly true for the bending and the high-frequency stretching motions, while estimates of modes strongly influenced by hydrogen bonding are red shifted, in a few instances even substantially, as a consequence of the dynamical and global picture provided by the semiclassical approach.

  7. Analysis of isolates within species of anuran trypanosomes using random amplified polymorphic DNA.

    Science.gov (United States)

    Lun, Z R; Desser, S S

    1996-01-01

    A total of 20 decamer primers were used to generate random applied polymorphic DNA (RAPD) markers from 5 isolates of Trypanosoma fallisi, 3 isolates of T. ranarum, 2 isolates of T. rotatorium, and 2 isolates of T. rotatorium-like trypanosomes in addition to 2 species from the American Type Culture Collection, T. chattoni (ATCC 50294) and Trypanosoma sp. (ATCC 50295). A slight polymorphism was observed among the four isolates of T. fallisi obtained form American toads, Bufo americanus, collected in Algonquin Park, Ontario, Canada, and an isolate obtained from the same species of host collected in Marquette, Michigan, United States, and produced similarity coefficients ranging from 80.7% to 96.9%. Pronounced polymorphism was recorded among the three isolates of T. ranarum from bullfrogs, Rana catesbeiana, collected in Ontario, Canada, and in Maryland, United States, and from a Northern leopard frog, R. pipiens, collected in Minnesota (USA). The similarity coefficients ranged from 54.7% to 59.5%, suggesting that alleles of these isolates were conserved over a wide geographic range. The high degree of polymorphism observed in two isolates of T. rotatorium from a bullfrog collected in Ontario and two isolates of a T. rotatorium-like parasite from the green frog R. clamitans, collected in Louisiana (USA) suggests that they are different species. These results reflect the high similarity among isolates from the same geographic location and the pronounced polymorphism apparent among isolates from distant geographic locations.

  8. Genetic variation of wild and hatchery populations of the catla Indian major carp (Catla catla Hamilton 1822: Cypriniformes, Cyprinidae revealed by RAPD markers

    Directory of Open Access Journals (Sweden)

    S.M. Zakiur Rahman

    2009-01-01

    Full Text Available Genetic variation is a key component for improving a stock through selective breeding programs. Randomly amplified polymorphic DNA (RAPD markers were used to assess genetic variation in three wild population of the catla carp (Catla catla Hamilton 1822 in the Halda, Jamuna and Padma rivers and one hatchery population in Bangladesh. Five decamer random primers were used to amplify RAPD markers from 30 fish from each population. Thirty of the 55 scorable bands were polymorphic, indicating some degree of genetic variation in all the populations. The proportion of polymorphic loci and gene diversity values reflected a relatively higher level of genetic variation in the Halda population. Sixteen of the 30 polymorphic loci showed a significant (p < 0.05, p < 0.01, p < 0.001 departure from homogeneity and the F ST values in the different populations indicated some degree of genetic differentiation in the population pairs. Estimated genetic distances between populations were directly correlated with geographical distances. The unweighted pair group method with averages (UPGMA dendrogram showed two clusters, the Halda population forming one cluster and the other populations the second cluster. Genetic variation of C. catla is a useful trait for developing a good management strategy for maintaining genetic quality of the species.

  9. Raps markers for genetic diversity analysis in rice (Oryza sativa L)

    Energy Technology Data Exchange (ETDEWEB)

    Alvarez, A; Fuentes, Jorge L [Centro de Estudios Aplicados al Desarrollo Nuclear, La Habana (Cuba); Deus, Juan E [Instituto de Investigaciones del Arroz, Habana (Cuba); Duque, Maria C [Centro Internacional de la Agricultura Tropical. Proyecto de Arroz , Cali (Colombia)

    1999-07-01

    The establishment of relationships between genotypes existing in gene banks that may be used in new crosses, and about genetic diversity in available germplasm, is very useful for plant breeders. In this work, a genetic diversity analysis among 20 varieties of the Cuban rice germplasm bank was performed by using RAPD markers. Twenty four decamer primers were screened which produced 61 polymorphic bands out of 105 consistent and reproducible amplified fragments (58.1 %). The proportion of polymorphic bands varied for each primer, with an average of 3 polymorphic bands per primer, these results agreed with previous reports on RAPD polymorphism in rice germplasm. Depending on the primer, 1 to 7 distinct patterns were obtained among the screened genotypes. Pair-wise genetic distances between genotypes were computed based on Dice's coefficient. Three major, statistically robust groups were obtained in the UPGMA dendrogram (A, B and C) which clearly corresponded to different genetic pools. Additionally, more insight could be gained according to the sub-grouping pattern within group A, which included the principal semi-dwarf commercial varieties. The present study allowed to prove the efficiency of RAPD markers for genetic diversity analysis in closely related germplasm, particularly for the semi-dwarf Cuban commercial rice cultivars. Also, the existence of a narrow genetic base among these varieties has been confirmed, pointing at the urgent necessity of widen it.

  10. Raps markers for genetic diversity analysis in rice (Oryza sativa L)

    International Nuclear Information System (INIS)

    Alvarez, A.; Fuentes, Jorge L.; Deus, Juan E.; Duque, Maria C.

    1999-01-01

    The establishment of relationships between genotypes existing in gene banks that may be used in new crosses, and about genetic diversity in available germplasm, is very useful for plant breeders. In this work, a genetic diversity analysis among 20 varieties of the Cuban rice germplasm bank was performed by using RAPD markers. Twenty four decamer primers were screened which produced 61 polymorphic bands out of 105 consistent and reproducible amplified fragments (58.1 %). The proportion of polymorphic bands varied for each primer, with an average of 3 polymorphic bands per primer, these results agreed with previous reports on RAPD polymorphism in rice germplasm. Depending on the primer, 1 to 7 distinct patterns were obtained among the screened genotypes. Pair-wise genetic distances between genotypes were computed based on Dice's coefficient. Three major, statistically robust groups were obtained in the UPGMA dendrogram (A, B and C) which clearly corresponded to different genetic pools. Additionally, more insight could be gained according to the sub-grouping pattern within group A, which included the principal semi-dwarf commercial varieties. The present study allowed to prove the efficiency of RAPD markers for genetic diversity analysis in closely related germplasm, particularly for the semi-dwarf Cuban commercial rice cultivars. Also, the existence of a narrow genetic base among these varieties has been confirmed, pointing at the urgent necessity of widen it

  11. Impact of gamma rays on the Phaffia rhodozyma genome revealed by RAPD-PCR.

    Science.gov (United States)

    Najafi, N; Hosseini, Ramin; Ahmadi, Ar

    2011-12-01

    Phaffia rhodozyma is a red yeast which produces astaxanthin as the major carotenoid pigment. Astaxanthin is thought to reduce the incidence of cancer and degenerative diseases in man. It also enhances the immune response and acts as a free-radical quencher, a precursor of vitamin A, or a pigment involved in the visual attraction of animals as mating partners. The impact of gamma irradiation was studied on the Phaffia rhodozyma genome. Ten mutant strains, designated Gam1-Gam10, were obtained using gamma irradiation. Ten decamer random amplified polymorphic DNA (RAPD) primers were employed to assess genetic changes. Nine primers revealed scorable polymorphisms and a total of 95 band positions were scored; amongst which 38 bands (37.5%) were polymorphic. Primer F with 3 bands and primer J20 with 13 bands produced the lowest and the highest number of bands, respectively. Primer A16 produced the highest number of polymorphic bands (70% polymorphism) and primer F showed the lowest number of polymorphic bands (0% polymorphism). Genetic distances were calculated using Jaccard's coefficient and the UPGMA method. A dendrogram was created using SPSS (version 11.5) and the strains were clustered into four groups. RAPD markers could distinguish between the parental and the mutant strains of P. rhodozyma. RAPD technique showed that some changes had occurred in the genome of the mutated strains. This technique demonstrated the capability to differentiate between the parental and the mutant strains.

  12. Molecular differentiation of sheep and cattle isolates of Fasciola hepatica using RAPD-PCR

    Directory of Open Access Journals (Sweden)

    Khakpour, M.

    2012-11-01

    Full Text Available Understanding genetic structure and status of genetic variation of Fasciola hepatica isolates from different hosts, has important implications on epidemiology and effective control of fasciolosis. Random amplified polymorphic DNA (RAPD-PCR was used to study the genetic variation of F. hepatica in sheep and cattle. DNA was extracted from adult helminthes removed from livers of each infected animal in slaughterhouse at East-Azerbaijan province, North-West of Iran. DNA template amplified by the polymerase chain reaction, using three oligonucleotide decamers with arbitrary DNA sequences as primers. RAPD patterns showed the specific but different pattern DNA patterns for each primer. The intraspecific similarity coefficient within two isolates of F. hepatica was ranged between 69 to 100%. Present findings showed that the interspecific genetic distance was higher than intraspecific genetic distances (19-47% compares to 0-19%. Pair wise similarity matrices generated from each isolates-primer combination were totaled and the similarity coefficient between strains were calculated both manually (Nei and Li method and software analysis (Free-Tree-Freeware program. The inferred phylogenetic tree on the fingerprinting of these isolates clearly demonstrated the existence of population genetic diversity sub structuring within F. hepatica of sheep and cattle of Iran, raising interesting questions on the host specificity, epidemiology (e.g., zoonotic transmission and ecology of this fluke. RAPD-PCR is useful for both individual identification and epidemiological investigations in endemic regions.

  13. Crystallization and X-ray diffraction analysis of the Trp/amber editing site of hepatitis delta virus (+)RNA: a case of rational design

    International Nuclear Information System (INIS)

    MacElrevey, Celeste; Wedekind, Joseph E.

    2005-01-01

    Well diffracting decamer crystals of the hepatitis delta virus RNA-editing site were prepared, but exhibited merohedral twinning and base averaging owing to duplex symmetry. A longer asymmetric construct that includes additional flanking RNA sequences has been crystallized that does not appear to exhibit these defects. RNA editing by mammalian ADAR1 (Adenosine Deaminase Acting on RNA) is required for the life cycle of the hepatitis delta virus (HDV). Editing extends the single viral open reading frame to yield two protein products of alternate length. ADARs are believed to recognize double-stranded RNA substrates via a ‘structure-based’ readout mechanism. Crystals of 10-mer duplexes representing the HDV RNA-editing site diffracted to 1.35 Å resolution, but suffered from merohedral twinning and averaging of the base registry. Expansion of the construct to include two flanking 3 × 1 internal loops yielded crystals in the primitive tetragonal space group P4 1 2 1 2 or P4 3 2 1 2. X-ray diffraction data were collected to 2.8 Å resolution, revealing a unit cell with parameters a = 62.5, c = 63.5 Å. The crystallization and X-ray analysis of multiple forms of the HDV RNA-editing substrate, encounters with common RNA crystal-growth defects and a strategy to overcome these problems are reported

  14. Low-resolution structure of Drosophila translin

    Science.gov (United States)

    Kumar, Vinay; Gupta, Gagan D.

    2012-01-01

    Crystals of native Drosophila melanogaster translin diffracted to 7 Å resolution. Reductive methylation of the protein improved crystal quality. The native and methylated proteins showed similar profiles in size-exclusion chromatography analyses but the methylated protein displayed reduced DNA-binding activity. Crystals of the methylated protein diffracted to 4.2 Å resolution at BM14 of the ESRF synchrotron. Crystals with 49% solvent content belonged to monoclinic space group P21 with eight protomers in the asymmetric unit. Only 2% of low-resolution structures with similar low percentage solvent content were found in the PDB. The crystal structure, solved by molecular replacement method, refined to Rwork (Rfree) of 0.24 (0.29) with excellent stereochemistry. The crystal structure clearly shows that drosophila protein exists as an octamer, and not as a decamer as expected from gel-filtration elution profiles. The similar octameric quaternary fold in translin orthologs and in translin–TRAX complexes suggests an up-down dimer as the basic structural subunit of translin-like proteins. The drosophila oligomer displays asymmetric assembly and increased radius of gyration that accounts for the observed differences between the elution profiles of human and drosophila proteins on gel-filtration columns. This study demonstrates clearly that low-resolution X-ray structure can be useful in understanding complex biological oligomers. PMID:23650579

  15. Cyclic trimer of human cystatin C, an amyloidogenic protein - molecular dynamics and experimental studies

    Science.gov (United States)

    Chrabåszczewska, Magdalena; Maszota-Zieleniak, Martyna; Pietralik, Zuzanna; Taube, Michał; Rodziewicz-Motowidło, Sylwia; Szymańska, Aneta; Szutkowski, Kosma; Clemens, Daniel; Grubb, Anders; Kozak, Maciej

    2018-05-01

    Human cystatin C (HCC) is a cysteine protease inhibitor that takes a series of oligomeric forms in solution (e.g., dimers, trimers, tetramers, decamers, dodecamers, and other higher oligomers). The best-known form of cystatin C is the dimer, which arises as a result of a domain swapping mechanism. The formation of the HCC oligomeric forms, which is most likely due to this domain swapping mechanism, is associated with the aggregation of HCC into amyloid fibrils and deposits. To investigate the structure of a specific HCC oligomer, we developed a covalently stabilized trimer of HCC. An atomic model of this HCC trimer was proposed on the basis of molecular docking and molecular dynamics simulations. The most stable model of the HCC trimer obtained from the molecular dynamics simulations is characterized by a well-preserved secondary structure. The molecular size and structural parameters of the HCC trimer in solution were also confirmed by Small Angle Neutron Scattering and Nuclear Magnetic Resonance Diffusometry.

  16. The Extended Baryonic Halo of NGC 3923

    Directory of Open Access Journals (Sweden)

    Bryan W. Miller

    2017-07-01

    Full Text Available Galaxy halos and their globular cluster systems build up over time by the accretion of small satellites. We can learn about this process in detail by observing systems with ongoing accretion events and comparing the data with simulations. Elliptical shell galaxies are systems that are thought to be due to ongoing or recent minor mergers. We present preliminary results of an investigation of the baryonic halo—light profile, globular clusters, and shells/streams—of the shell galaxy NGC 3923 from deep Dark Energy Camera (DECam g and i-band imaging. We present the 2D and radial distributions of the globular cluster candidates out to a projected radius of about 185 kpc, or ∼ 37 R e , making this one of the most extended cluster systems studied. The total number of clusters implies a halo mass of M h ∼ 3 × 10 13 M ⊙ . Previous studies had identified between 22 and 42 shells, making NGC 3923 the system with the largest number of shells. We identify 23 strong shells and 11 that are uncertain. Future work will measure the halo mass and mass profile from the radial distributions of the shell, N-body models, and line-of-sight velocity distribution (LOSVD measurements of the shells using the Multi Unit Spectroscopic Explorer (MUSE.

  17. Exploring the influence of EGCG on the β-sheet-rich oligomers of human islet amyloid polypeptide (hIAPP1-37 and identifying its possible binding sites from molecular dynamics simulation.

    Directory of Open Access Journals (Sweden)

    Qianqian Wang

    Full Text Available EGCG possesses the ability of disaggregating the existing amyloid fibrils which were associated with many age-related degenerative diseases. However, the molecular mechanism of EGCG to disaggregate these fibrils is poorly known. In this work, to study the influence of EGCG on the full-length human islet amyloid polypeptide 1-37 (hIAPP1-37 oligomers, molecular dynamics simulations of hIAPP1-37 pentamer and decamer with EGCG were performed, respectively. The obtained results indicate that EGCG indeed destabilized the hIAPP1-37 oligomers. The nematic order parameter and secondary structure calculations coupled with the free-energy landscape indicate that EGCG broke the initial ordered pattern of two polymers, greatly reduced their β-sheet content and enlarged their conformational space. On this basis, three possible target sites were identified with the binding capacity order of S1>S2>S3. After a deeper analysis of each site, we found that S1 was the most possible site on which residues B-Ile26/Ala25, A-Phe23, B/C-Leu27 and E-Tyr37 played an important role for their binding. The proposal of this molecular mechanism can not only provide a prospective interaction figure between EGCG and β-sheet-rich fibrils of hIAPP1-37, but also is useful for further discovering other potential inhibitors.

  18. Genetic signatures from amplification profiles characterize DNA mutation in somatic and radiation-induced sports of chrysanthemum

    International Nuclear Information System (INIS)

    Trigiano, R.N.; Scott, M.C.; Caetano-Anolles, G.

    1998-01-01

    The chrysanthemum (Dendranthema grandiflora Tzvelev.) cultivars 'Dark Charm', 'Salmon Charm', 'Coral Charm' and 'Dark Bronze Charm' are either radiation-induced mutants or spontaneous sports of 'Charm' and constitute a family or series of plants that primarily differ in flower color. These cultivars, which were difficult to differentiate genetically by DNA amplification fingerprinting (DAF), were easily identified by using arbitrary signatures from amplification profiles (ASAP). Genomic DNA was first amplified with three standard octamer arbitrary primers, all of which produced monomorphic profiles. Products from each of these DNA fingerprints were subsequently reamplified using four minihairpin decamer primers. The 12 primer combinations produced signatures containing approximately 37% polymorphic character loci, which were used to estimate genetic relationships between cultivars. Forty-six (32%) unique amplification products were associated with individual cultivars. The number of ASAP polymorphisms detected provided an estimate of the mutation rate in the mutant cultivars, ranging from 0.03% to 1.6% of nucleotide changes within an average of 18 kb of arbitrary amplified DAF sequence. The ASAP technique permits the clear genetic identification of somatic mutants and radiation-induced sports that are genetically highly homogeneous and should facilitate marker assisted breeding and protection of plant breeders rights of varieties or cultivars

  19. Comparative gene expression in sexual and apomictic ovaries of Pennisetum ciliare (L.) Link.

    Science.gov (United States)

    Vielle-Calzada, J P; Nuccio, M L; Budiman, M A; Thomas, T L; Burson, B L; Hussey, M A; Wing, R A

    1996-12-01

    Limited emphasis has been given to the molecular study of apomixis, an asexual method of reproduction where seeds are produced without fertilization. Most buffelgrass (Pennisetum ciliare (L.) Link syn = Cenchrus ciliaris L.) genotypes reproduce by obligate apomixis (apospory); however, rare sexual plants have been recovered. A modified differential display procedure was used to compare gene expression in unpollinated ovaries containing ovules with either sexual or apomictic female gametophytes. The modification incorporated end-labeled poly(A)+ anchored primers as the only isotopic source, and was a reliable and consistent approach for detecting differentially displayed transcripts. Using 20 different decamers and two anchor primers, 2268 cDNA fragments between 200 and 600 bp were displayed. From these, eight reproducible differentially displayed cDNAs were identified and cloned. Based on northern analysis, one cDNA was detected in only the sexual ovaries, two cDNAs in only apomictic ovaries and one cDNA was present in both types of ovaries. Three fragments could not be detected and one fragment was detected in ovaries, stems, and leaves. Comparison of gene expression during sexual and apomictic development in buffelgrass represents a new model system and a strategy for investigating female reproductive development in the angiosperms.

  20. Assessment of genetic diversity in lettuce (Lactuca sativa L.) germplasm using RAPD markers.

    Science.gov (United States)

    Sharma, Shubhangi; Kumar, Pankaj; Gambhir, Geetika; Kumar, Ramesh; Srivastava, D K

    2018-01-01

    The importance of germplasm characterization is an important link between the conservation and utilization of plant genetic resources in various breeding programmes. In the present study, genetic variability and relationships among 25 Lactuca sativa L. genotypes were tested using random amplified polymorphic DNA (RAPD) molecular markers. A total of 45 random decamer oligonucleotide primers were examined to generate RAPD profiles, out of these reproducible patterns were obtained with 22 primers. A total of 87 amplicon were obtained, out of which all were polymorphic and 7 were unique bands. The level of polymorphism across genotypes was 100% as revealed by RAPD. Genetic similarity matrix, based on Jaccard's coefficients ranged from 13.7 to 84.10% indicating a wide genetic base. Dendrogram was constructed by unweighted pair group method with arithmetic averages method. RAPD technology could be useful for identification of different accessions as well as assessing the genetic similarity among different genotypes of lettuce. The study reveals the limited genetic base and the needs to diversify using new sources from the germplasm.

  1. RAPD analysis of genetic variation in the Australian fan flower, Scaevola.

    Science.gov (United States)

    Swoboda, I; Bhalla, P L

    1997-10-01

    The use of randomly amplified polymorphic DNA (RAPD) to study genetic variability in Scaevola (family Goodeniaceae), a native Australian species used in ornamental horticulture, is demonstrated. Plants of the genus Scaevola are commonly known as "fan flowers," due to the fan-like shape of the flowers. Nineteen accessions of Scaevola (12 cultivated and 7 wild) were studied using 20 random decamer arbitrary primers. Eight primers gave a distinct reproducible amplification profile of 90 scorable polymorphic fragments, enabling the differentiation of the Scaevola accessions. RAPD amplification of genomic DNA revealed a high genetic variability among the different species of Scaevola studied. Molecular markers were used to calculate the similarity coefficients, which were then used for determining genetic distances between each of the accessions. Based on genetic distances, a dendrogram was constructed. Though the dendrogram is in general agreement with the taxonomy, it also highlights discrepancies in the classification. The RAPD data showed that Scaevola aemula (series Pogogynae) is closer to Scaevola glandulifera of series Globuliferae than to the rest of members of series Pogogynae. In addition, the RAPD banding pattern of white flower S. aemula, one of the commercial cultivars, was identical to that of Scaevola albida, indicating their genetic similarity. Our study showed that there is a large genetic distance between commercial cultivars of Scaevola (Purple Fanfare, Pink Perfection, and Mauve Cluster), indicating considerable genetic variation among them. The use of RAPDs in intra- and inter-specific breeding of Scaevola is also explored.

  2. The Dark Energy Survey and Operations: Years 1 to 3

    Energy Technology Data Exchange (ETDEWEB)

    Diehl, H. T. [Fermilab

    2016-01-01

    The Dark Energy Survey (DES) is an operating optical survey aimed at understanding the accelerating expansion of the universe using four complementary methods: weak gravitational lensing, galaxy cluster counts, baryon acoustic oscillations, and Type Ia supernovae. To perform the 5000 sq-degree wide field and 30 sq-degree supernova surveys, the DES Collaboration built the Dark Energy Camera (DECam), a 3 square-degree, 570-Megapixel CCD camera that was installed at the prime focus of the Blanco 4-meter telescope at the Cerro Tololo Inter-American Observatory (CTIO). DES has completed its third observing season out of a nominal five. This paper describes DES “Year 1” (Y1) to “Year 3” (Y3), the strategy, an outline of the survey operations procedures, the efficiency of operations and the causes of lost observing time. It provides details about the quality of the first three season's data, and describes how we are adjusting the survey strategy in the face of the El Niño Southern Oscillation

  3. Cloning and characterization of GDP-perosamine synthetase (Per) from Escherichia coli O157:H7 and synthesis of GDP-perosamine in vitro

    International Nuclear Information System (INIS)

    Zhao Guohui; Liu Jun; Liu Xiang; Chen Min; Zhang Houcheng; Wang, Peng George

    2007-01-01

    GDP-perosamine synthetase (Per, E.C. not yet classified) is important to the synthesis of Escherichia coli O157:H7 O-antigen. The mutant in per gene can disrupt the synthesis of O157 O-antigen. In this study, GDP-perosamine synthetase was cloned from E. coli O157:H7 and over-expressed in E. coli BL21 (DE3). The recombinant His-tagged Per fusion protein was a decamer with molecular weight of 431 kDa. The optimal pH value of this recombinant protein was 7.5. The divalent ions had no significant effect on Per-catalyzed reaction. The K m and K cat /K m for GDP-4-keto-6-deoxy-D-mannose were 0.09 mM and 2.1 x 10 5 M -1 S -1 , and those for L-glutamate were 2 mM and 0.52 x 10 5 M -1 S -1 , respectively. Per was used to synthesize GDP-perosamine from GDP-mannose together with recombinant GDP-mannose dehydratase (GMD, E.C. 4.2.1.47). The purified GDP-perosamine was identified by MS and NMR. In summary, this work provided a feasible approach for the synthesis of GDP-perosamine which can lead to the study of LPS biosynthesis of pathogenic E. coli O157:H7

  4. Real-time Automatic Search for Multi-wavelength Counterparts of DWF Transients

    Science.gov (United States)

    Murphy, Christopher; Cucchiara, Antonino; Andreoni, Igor; Cooke, Jeff; Hegarty, Sarah

    2018-01-01

    The Deeper Wider Faster (DWF) survey aims to find and classify the fastest transients in the Universe. DWF utilizes the Dark Energy Camera (DECam), collecting a continuous sequence of 20s images over a 3 square degree field of view.Once an interesting transient is detected during DWF observations, the DWF collaboration has access to several facilities for rapid follow-up in multiple wavelengths (from gamma to radio).An online web tool has been designed to help with real-time visual classification of possible astrophysical transients in data collected by the DWF observing program. The goal of this project is to create a python-based code to improve the classification process by querying several existing archive databases. Given the DWF transient location and search radius, the developed code will extract a list of possible counterparts and all available information (e.g. magnitude, radio fluxes, distance separation).Thanks to this tool, the human classifier can make a quicker decision in order to trigger the collaboration rapid-response resources.

  5. Análise da recuperação do genitor recorrente em maracujazeiro-azedo por meio de marcadores RAPD Recovery analysis of recurrent genitor in sour passion fruit through RAPD markers

    Directory of Open Access Journals (Sweden)

    Kenia Gracielle da Fonseca

    2009-03-01

    Laboratory of Genetics and Molecular Biology. DNA samples of each genetic material (17 RC4 plants, 16 RC5 plants, Passiflora edulis and Passiflora setacea were amplified to obtain RAPD markers. There were used 12 decamer primers for plants RC4 and 14 decamer primers for plants RC5. The RAPD markers generated were converted into a matrix of binary data. There were a high percentage of polymorphic markers as a result of interspecific base crossing. The smallest genetic similarity was observed between species P. edulis and P. setacea, highlighting the large genetic distance of these commercial and wild varieties, respectively.

  6. RAPD and Internal Transcribed Spacer Sequence Analyses Reveal Zea nicaraguensis as a Section Luxuriantes Species Close to Zea luxurians

    Science.gov (United States)

    Wang, Pei; Lu, Yanli; Zheng, Mingmin; Rong, Tingzhao; Tang, Qilin

    2011-01-01

    Genetic relationship of a newly discovered teosinte from Nicaragua, Zea nicaraguensis with waterlogging tolerance, was determined based on randomly amplified polymorphic DNA (RAPD) markers and the internal transcribed spacer (ITS) sequences of nuclear ribosomal DNA using 14 accessions from Zea species. RAPD analysis showed that a total of 5,303 fragments were produced by 136 random decamer primers, of which 84.86% bands were polymorphic. RAPD-based UPGMA analysis demonstrated that the genus Zea can be divided into section Luxuriantes including Zea diploperennis, Zea luxurians, Zea perennis and Zea nicaraguensis, and section Zea including Zea mays ssp. mexicana, Zea mays ssp. parviglumis, Zea mays ssp. huehuetenangensis and Zea mays ssp. mays. ITS sequence analysis showed the lengths of the entire ITS region of the 14 taxa in Zea varied from 597 to 605 bp. The average GC content was 67.8%. In addition to the insertion/deletions, 78 variable sites were recorded in the total ITS region with 47 in ITS1, 5 in 5.8S, and 26 in ITS2. Sequences of these taxa were analyzed with neighbor-joining (NJ) and maximum parsimony (MP) methods to construct the phylogenetic trees, selecting Tripsacum dactyloides L. as the outgroup. The phylogenetic relationships of Zea species inferred from the ITS sequences are highly concordant with the RAPD evidence that resolved two major subgenus clades. Both RAPD and ITS sequence analyses indicate that Zea nicaraguensis is more closely related to Zea luxurians than the other teosintes and cultivated maize, which should be regarded as a section Luxuriantes species. PMID:21525982

  7. The Dark Energy Survey: more than dark energy – an overview

    Energy Technology Data Exchange (ETDEWEB)

    Vikram, Vinu; Abbott, T; Abdalla, F. B.; Allam, S.; Aleksic, J.; Amara, A.; Bacon, D.; Balbinot, E.; Banerji, M.; Bechtol, K.; Benoit-Levy, A.

    2016-03-21

    This overview paper describes the legacy prospect and discovery potential of the Dark Energy Survey (DES) beyond cosmological studies, illustrating it with examples from the DES early data. DES is using a wide-field camera (DECam) on the 4 m Blanco Telescope in Chile to image 5000 sq deg of the sky in five filters (grizY). By its completion, the survey is expected to have generated a catalogue of 300 million galaxies with photometric redshifts and 100 million stars. In addition, a time-domain survey search over 27 sq deg is expected to yield a sample of thousands of Type Ia supernovae and other transients. The main goals of DES are to characterize dark energy and dark matter, and to test alternative models of gravity; these goals will be pursued by studying large-scale structure, cluster counts, weak gravitational lensing and Type Ia supernovae. However, DES also provides a rich data set which allows us to study many other aspects of astrophysics. In this paper, we focus on additional science with DES, emphasizing areas where the survey makes a difference with respect to other current surveys. The paper illustrates, using early data (from ‘Science Verification’, and from the first, second and third seasons of observations), what DES can tell us about the Solar system, the Milky Way, galaxy evolution, quasars and other topics. In addition, we show that if the cosmological model is assumed to be Λ+cold dark matter, then important astrophysics can be deduced from the primary DES probes. Highlights from DES early data include the discovery of 34 trans-Neptunian objects, 17 dwarf satellites of the Milky Way, one published z > 6 quasar (and more confirmed) and two published superluminous supernovae (and more confirmed).

  8. A DARK ENERGY CAMERA SEARCH FOR MISSING SUPERGIANTS IN THE LMC AFTER THE ADVANCED LIGO GRAVITATIONAL-WAVE EVENT GW150914

    Energy Technology Data Exchange (ETDEWEB)

    Annis, J.; Soares-Santos, M.; Diehl, H. T.; Drlica-Wagner, A.; Finley, D. A.; Flaugher, B.; Frieman, J.; Herner, K. [Fermi National Accelerator Laboratory, P.O. Box 500, Batavia, IL 60510 (United States); Berger, E.; Cowperthwaite, P. S.; Drout, M. R. [Harvard-Smithsonian Center for Astrophysics, 60 Garden Street, Cambridge, MA 02138 (United States); Brout, D. [Department of Physics and Astronomy, University of Pennsylvania, Philadelphia, PA 19104 (United States); Chen, H.; Doctor, Z.; Farr, B.; Holz, D.; Kessler, R. [Kavli Institute for Cosmological Physics, University of Chicago, Chicago, IL 60637 (United States); Chornock, R. [Astrophysical Institute, Department of Physics and Astronomy, Ohio University, 251B Clippinger Lab, Athens, OH 45701 (United States); Foley, R. J.; Gruendl, R. A. [Department of Astronomy, University of Illinois, 1002 W. Green Street, Urbana, IL 61801 (United States); Collaboration: DES Collaboration; and others

    2016-06-01

    The collapse of a stellar core is expected to produce gravitational waves (GWs), neutrinos, and in most cases a luminous supernova. Sometimes, however, the optical event could be significantly less luminous than a supernova and a direct collapse to a black hole, where the star just disappears, is possible. The GW event GW150914 was detected by the LIGO Virgo Collaboration via a burst analysis that gave localization contours enclosing the Large Magellanic Cloud (LMC). Shortly thereafter, we used DECam to observe 102 deg{sup 2} of the localization area, including 38 deg{sup 2} on the LMC for a missing supergiant search. We construct a complete catalog of LMC luminous red supergiants, the best candidates to undergo invisible core collapse, and collected catalogs of other candidates: less luminous red supergiants, yellow supergiants, blue supergiants, luminous blue variable stars, and Wolf–Rayet stars. Of the objects in the imaging region, all are recovered in the images. The timescale for stellar disappearance is set by the free-fall time, which is a function of the stellar radius. Our observations at 4 and 13 days after the event result in a search sensitive to objects of up to about 200 solar radii. We conclude that it is unlikely that GW150914 was caused by the core collapse of a relatively compact supergiant in the LMC, consistent with the LIGO Collaboration analyses of the gravitational waveform as best interpreted as a high mass binary black hole merger. We discuss how to generalize this search for future very nearby core-collapse candidates.

  9. Evaluating and validating the protocol for gamma radiation induced mutations in floral distinct rosa spp

    International Nuclear Information System (INIS)

    Qadeer, M.; Hafiz, I. A.; Abbasi, N. A.; Ahmad, T.

    2015-01-01

    Among the highly fragrant Rosa species, Rosa gruss an teplitz and Rosa centifolia have high value in terms of commercial importance and economical trade. However, the absence of floral diversification and diversity in color patterns in these species acts as limiting factors in floriculture trade of these species. In the present study, we aimed to induce mutations using gamma radiations up to 120 Gy to observe the rate and the correlated effects on the several plant traits in micropropagated shoot tips of Rosa gruss an teplitz and Rosa centifolia. Irradiated shoot tips were micropropagated for one culture cycle and were acclimatized in a green house after in vitro rooting. Plants of irradiated population at 60 and 30 Gy showed 78.12 and 38.50 percentage less culture rooting percentage age as well as 23.82 and 7 percentage less flower size as compared to non irradiated population of Rosa gruss an teplitz and Rosa centifolia respectively. Moreover, flower color component a* (+ redness - green, 36.16 and 27.16) and chroma (37.77 and 27.5) depicted minimum while L* (Lightness, 45.12 and 76.64), b* (+ yellow - blue, 10.69 and -4.14) and hue angle (17.1 and -8.58) maximum value. Apart from these variations, mutants of Rosa gruss an teplitz also produced variegated, pink color and different shape flowers. Genetic variations observed among the putative mutants of Rosa gruss an teplitz and Rosa centifolia were evaluated using twelve decamer RAPD primers. Phylogenetic inferences showed large genetic diversity in putative mutants as compared to mother plant. (author)

  10. Micropropagation and assessment of genetic fidelity of Dendrocalamus strictus (Roxb.) nees using RAPD and ISSR markers.

    Science.gov (United States)

    Goyal, Arvind Kumar; Pradhan, Sushen; Basistha, Bharat Chandra; Sen, Arnab

    2015-08-01

    Dendrocalamus strictus popularly known as 'Male bamboo' is a multipurpose bamboo which is extensively utilized in pharmaceutical, paper, agricultural and other industrial implements. In this study, in vitro regeneration of D. strictus through nodal culture has been attempted. Murashige and Skoog's medium supplemented with 4 mg/l BAP was found to be most effective in shoot regeneration with 3.68 ± 0.37 shoots per explant. The effect of Kn was found to be moderate. These hormones also had considerable effect on the shoot length. The highest shoot length after 6 weeks (3.11 ± 0.41 cm) was noted with 5 mg/l BAP followed by 3.07 ± 0.28 cm with 5 mg/l Kn, while decrease in the shoot length was noted with other treatments. The effect of IBA and NAA individually or in combination at different concentrations on rooting was evaluated. The highest number of root (1.36 ± 0.04) was regenerated on full-strength MS medium supplemented with 3 mg/l NAA, while maximum length of 1.64 ± 0.03 cm of roots was recorded with combination of 1 mg/l IBA and 3 mg/l NAA. Tissue-cultured plants thus obtained were successfully transferred to the soil. The clonal fidelity among the in vitro-regenerated plantlets was assessed by RAPD and ISSR markers. The ten RAPD decamers produced 58 amplicons, while nine ISSR primers generated a total of 66 bands. All the bands generated were monomorphic. These results confirmed the clonal fidelity of the tissue culture-raised D. strictus plantlets and corroborated the fact that nodal culture is perhaps the safest mode for multiplication of true to type plants.

  11. Active site CP-loop dynamics modulate substrate binding, catalysis, oligomerization, stability, over-oxidation and recycling of 2-Cys Peroxiredoxins.

    Science.gov (United States)

    Kamariah, Neelagandan; Eisenhaber, Birgit; Eisenhaber, Frank; Grüber, Gerhard

    2018-04-01

    Peroxiredoxins (Prxs) catalyse the rapid reduction of hydrogen peroxide, organic hydroperoxide and peroxynitrite, using a fully conserved peroxidatic cysteine (C P ) located in a conserved sequence Pxxx(T/S)xxC P motif known as C P -loop. In addition, Prxs are involved in cellular signaling pathways and regulate several redox-dependent process related disease. The effective catalysis of Prxs is associated with alterations in the C P -loop between reduced, Fully Folded (FF), and oxidized, Locally Unfolded (LU) conformations, which are linked to dramatic changes in the oligomeric structure. Despite many studies, little is known about the precise structural and dynamic roles of the C P -loop on Prxs functions. Herein, the comprehensive biochemical and biophysical studies on Escherichia coli alkyl hydroperoxide reductase subunit C (EcAhpC) and the C P -loop mutants, EcAhpC-F45A and EcAhpC-F45P reveal that the reduced form of the C P -loop adopts conformational dynamics, which is essential for effective peroxide reduction. Furthermore, the point mutants alter the structure and dynamics of the reduced form of the C P -loop and, thereby, affect substrate binding, catalysis, oligomerization, stability and overoxidiation. In the oxidized form, due to restricted C P -loop dynamics, the EcAhpC-F45P mutant favours a decamer formation, which enhances the effective recycling by physiological reductases compared to wild-type EcAhpC. In addition, the study reveals that residue F45 increases the specificity of Prxs-reductase interactions. Based on these studies, we propose an evolution of the C P -loop with confined sequence conservation within Prxs subfamilies that might optimize the functional adaptation of Prxs into various physiological roles. Copyright © 2018 Elsevier Inc. All rights reserved.

  12. Overlapping CD8+ and CD4+ T-cell epitopes identification for the progression of epitope-based peptide vaccine from nucleocapsid and glycoprotein of emerging Rift Valley fever virus using immunoinformatics approach.

    Science.gov (United States)

    Adhikari, Utpal Kumar; Rahman, M Mizanur

    2017-12-01

    Rift Valley fever virus (RVFV) is an emergent arthropod-borne zoonotic infectious viral pathogen which causes fatal diseases in the humans and ruminants. Currently, no effective and licensed vaccine is available for the prevention of RVFV infection in endemic as well as in non-endemic regions. So, an immunoinformatics-driven genome-wide screening approach was performed for the identification of overlapping CD8+ and CD4+ T-cell epitopes and also linear B-cell epitopes from the conserved sequences of the nucleocapsid (N) and glycoprotein (G) of RVFV. We identified overlapping 99.39% conserved 1 CD8+ T-cell epitope (MMHPSFAGM) from N protein and 100% conserved 7 epitopes (AVFALAPVV, LAVFALAPV, FALAPVVFA, VFALAPVVF, IAMTVLPAL, FFDWFSGLM, and FLLIYLGRT) from G protein and also identified IL-4 and IFN-γ induced (99.39% conserved) 1 N protein CD4+ T-cell epitope (HMMHPSFAGMVDPSL) and 100% conserved 5 G protein CD4+ T-cell epitopes (LPALAVFALAPVVFA, PALAVFALAPVVFAE, GIAMTVLPALAVFAL, GSWNFFDWFSGLMSW, and FFLLIYLGRTGLSKM). The overlapping CD8+ and CD4+ T-cell epitopes were bound with most conserved HLA-C*12:03 and HLA-DRB1*01:01, respectively with the high binding affinity (kcal/mol). The combined population coverage analysis revealed that the allele frequencies of these epitopes are high in endemic and non-endemic regions. Besides, we found 100% conserved and non-allergenic 2 decamer B-cell epitopes, GVCEVGVQAL and RVFNCIDWVH of G protein had the sequence similarity with the nonamer CD8+ T-cell epitopes, VCEVGVQAL and RVFNCIDWV, respectively. Consequently, these epitopes may be used for the development of epitope-based peptide vaccine against emerging RVFV. However, in vivo and in vitro experiments are required for their efficient use as a vaccine. Copyright © 2017 Elsevier B.V. All rights reserved.

  13. Aβ(39–42) Modulates Aβ Oligomerization but Not Fibril Formation

    Science.gov (United States)

    Gessel, Megan Murray; Wu, Chun; Li, Huiyuan; Bitan, Gal; Shea, Joan-Emma; Bowers, Michael T.

    2012-01-01

    Recently, certain C-terminal fragments (CTFs) of Aβ42 have been shown to be effective inhibitors of Aβ42 toxicity. Here, we examine the interactions between the shortest CTF in the original series, Aβ(39–42) and full-length Aβ. Mass spectrometry results indicate that Aβ(39–42) binds directly to Aβ monomers and to the n=2,4, and 6 oligomers. The Aβ42:Aβ(39–42) complex is further probed using in molecular dynamics simulations. Although the CTF was expected to bind to the hydrophobic C-terminus of Aβ42, the simulations show that Aβ(39–42) binds at several locations on Aβ42, including the C-terminus, other hydrophobic regions, and preferentially in the N-terminus. Ion mobility-mass spectrometry (IM-MS) and electron microscopy experiments indicate that Aβ(39–42) disrupts the early assembly of full-length Aβ. Specifically, the ion-mobility results show that Aβ(39–42) prevents the formation of large decamer/dodecamer Aβ42 species and, moreover, can remove these structures from solution. At the same time, thioflavin T fluorescence and electron microscopy results show that the CTF does not inhibit fibril formation, lending strong support to the hypothesis that oligomers and not amyloid fibrils are the Aβ form responsible for toxicity. The results emphasize the role of small, soluble assemblies in Aβ-induced toxicity and suggest that Aβ(39–42) inhibits Aβ-induced toxicity by a unique mechanism, modulating early assembly into non-toxic heterooligomers, without preventing fibril formation. PMID:22129303

  14. Exploration of unique relation among industrial fungi by statistical analysis

    Directory of Open Access Journals (Sweden)

    Asma Siddique

    2012-12-01

    Full Text Available This work was carried out to explore the relation among thermophilic cellulolytic fungi, which are of industrialimportance. There was no report found about the genetic relationship of fungi, which are used to produce industrial enzymes.So the aim of the study was to observe the similarity among different cellulolytic fungi on genetic level, which will providethe background to understand the correlation among cellulase producing systems of these fungi. Eleven (11 fungi werestudied for genetic diversity using the Random Amplified Polymorphic DNA (RAPD a PCR based molecular marker system.In this regard twenty universal decamers used for RAPD resulted in 1527 numbers of bands observed during comparison ofall wild strains. Maximum polymorphism was generated with GLA-07. Average numbers of bands per 20 primers were 65-72.An Interesting feature of the study was the similarity of Humicola insolens with Torula thermophile, more than with theother members of the Humicola family. This genetic pattern affects the physical structure of the fungi. Spores of Torulathermophila are more related to Humicola insolens than to its own family. Similarity between the two was found to be 57.8%,whereas between Humicola lanuginosa (Thermomysis lanuginosus and Humicola grisea it was 57.3%. Apart from this,similarity between Talaromyces dupontii and Rhizomucor pusillus was 51.5%. Least similarity was found in Rhizomucorpusillus and Humicola grisea, which was 18.7% and Chaetomium thermophile and Sporotrichum thermophile, which was18.3%. Genetic similarity matrix was constructed on the basis of Nei and Li’s index.

  15. Risk assessment of cadmium-contaminated soil on plant DNA damage using RAPD and physiological indices

    International Nuclear Information System (INIS)

    Liu Wan; Yang, Y.S.; Li, P.J.; Zhou, Q.X.; Xie, L.J.; Han, Y.P.

    2009-01-01

    Impact assessment of contaminants in soil is an important issue in environmental quality study and remediation of contaminated land. A random amplified polymorphic DNA (RAPD) 'fingerprinting' technique was exhibited to detect genotoxin-induced DNA damage of plants from heavy metal contaminated soil. This study compared the effects occurring at molecular and population levels in barley seedlings exposed to cadmium (Cd) contamination in soil. Results indicate that reduction of root growth and increase of total soluble protein level in the root tips of barley seedlings occurred with the ascending Cd concentrations. For the RAPD analyses, nine 10-base pair (bp) random RAPD primers (decamers) with 60-70% GC content were found to produce unique polymorphic band patterns and subsequently were used to produce a total of 129 RAPD fragments of 144-2639 base pair in molecular size in the root tips of control seedlings. Results produced from nine primers indicate that the changes occurring in RAPD profiles of the root tips following Cd treatment included alterations in band intensity as well as gain or loss of bands compared with the control seedlings. New amplified fragments at molecular size from approximately 154 to 2245 bp appeared almost for 10, 20 and 40 mg L -1 Cd with 9 primers (one-four new polymerase chain reaction, (PCR) products), and the number of missing bands enhanced with the increasing Cd concentration for nine primers. These results suggest that genomic template stability reflecting changes in RAPD profiles were significantly affected and it compared favourably with the traditional indices such as growth and soluble protein level at the above Cd concentrations. The DNA polymorphisms detected by RAPD can be applied as a suitable biomarker assay for detection of the genotoxic effects of Cd stress in soil on plants. As a tool in risk assessment the RAPD assay can be used in characterisation of Cd hazard in soil

  16. FULL-DEPTH COADDS OF THE WISE AND FIRST-YEAR NEOWISE-REACTIVATION IMAGES

    Energy Technology Data Exchange (ETDEWEB)

    Meisner, Aaron M. [Berkeley Center for Cosmological Physics, Berkeley, CA 94720 (United States); Lang, Dustin [Department of Astronomy and Astrophysics and Dunlap Institute, University of Toronto, Toronto, ON M5S 3H4 (Canada); Schlegel, David J. [Lawrence Berkeley National Laboratory, Berkeley, CA, 94720 (United States)

    2017-01-01

    The Near Earth Object Wide-field Infrared Survey Explorer (NEOWISE) Reactivation mission released data from its first full year of observations in 2015. This data set includes ∼2.5 million exposures in each of W1 and W2, effectively doubling the amount of WISE imaging available at 3.4 μ m and 4.6 μ m relative to the AllWISE release. We have created the first ever full-sky set of coadds combining all publicly available W1 and W2 exposures from both the AllWISE and NEOWISE-Reactivation (NEOWISER) mission phases. We employ an adaptation of the unWISE image coaddition framework, which preserves the native WISE angular resolution and is optimized for forced photometry. By incorporating two additional scans of the entire sky, we not only improve the W1/W2 depths, but also largely eliminate time-dependent artifacts such as off-axis scattered moonlight. We anticipate that our new coadds will have a broad range of applications, including target selection for upcoming spectroscopic cosmology surveys, identification of distant/massive galaxy clusters, and discovery of high-redshift quasars. In particular, our full-depth AllWISE+NEOWISER coadds will be an important input for the Dark Energy Spectroscopic Instrument selection of luminous red galaxy and quasar targets. Our full-depth W1/W2 coadds are already in use within the DECam Legacy Survey (DECaLS) and Mayall z-band Legacy Survey (MzLS) reduction pipelines. Much more work still remains in order to fully leverage NEOWISER imaging for astrophysical applications beyond the solar system.

  17. Thermodynamically stable amyloid-β monomers have much lower membrane affinity than the small oligomers

    Directory of Open Access Journals (Sweden)

    Bidyut eSarkar

    2013-04-01

    Full Text Available Amyloid beta (Aβ is an extracellular 39-43 residue long peptide present in the mammalian cerebrospinal fluid, whose aggregation is associated with Alzheimer’s disease. Small oligomers of Aβ are currently thought to be the key to toxicity. However, it is not clear why the monomers of Aβ are non-toxic, and at what stage of aggregation toxicity emerges. Interactions of Aβ with cell membranes is thought to be the initiator of toxicity, but membrane-binding studies with different preparations of monomers and oligomers have not settled this issue. We have earlier found that thermodynamically stable Aβ monomers emerge spontaneously from oligomeric mixtures upon long term incubation in physiological solutions (Nag et al, JBC, 2011. Here we show that the membrane-affinity of these stable Aβ monomers is much lower than that of a mixture of small oligomers (containing dimers to decamers, providing a clue to the emergence of toxicity. Fluorescently labeled Aβ40 monomers show negligible binding to cell membranes of a neuronal cell line (RN46A at physiological concentrations (250 nM, while oligomers at the same concentrations show strong binding within 30 minutes of incubation. The increased affinity most likely does not require any specific neuronal receptor, since this difference in membrane-affinity was also observed in a somatic cell-line (HEK 293T. Similar results are also obtained for Aβ42 monomers and oligomers. Minimal amount of cell death is observed at these concentrations even after 36 hours of incubation. It is likely that membrane binding precedes subsequent slower toxic events induced by Aβ. Our results a provide an explanation for the non-toxic nature of Aβ monomers, b suggest that Aβ toxicity emerges at the initial oligomeric phase, and c provide a quick assay for monitoring the benign-to-toxic transformation of Aβ.

  18. Characterization and genetic relatedness among 37 yardlong bean and cowpea accessions based on morphological characters and RAPD analysis

    Directory of Open Access Journals (Sweden)

    Vinich Saereeprasert

    2007-05-01

    Full Text Available Twenty four yardlong bean and 13 cowpea accessions were planted in the field to characterize their morphology and genetic relatedness. A randomized complete block design (RCBD with two replicationswas used. Growth habit, days to flowering, pod color, pod length, number of pods/plant, yield/plant and consumption quality were recorded. The results showed that pod length, number of pods/plant and podyield/plant among 37 accessions were highly significant differerence. Mean pod yield and pod length of 24 yardlong bean accessions were 212.1 g/plant and 48.7 cm, respectively, while mean pod yield and pod lengthof 13 cowpea accessions were 117.4 g/plant and 21.3 cm, respectively. Twenty two yardlong bean accessions exhibited indeterminate growth habit while 10 of 13 cowpea had determinate growth habit and the restsexhibited semi-determinate growth. Genetic variation and relationships among accessions were investigated based on RAPD technique. Total DNA was extracted from young leaf samples of all accessions using CTAB buffer. One hundred and twenty decamer oligonucleotide primers were screened and 5 primers (OPC-06,OPR-12, OPZ-03, OPZ-08, OPZ-13 were chosen for further evaluation. A dendrogram of genetic similarity was constructed based on 23 polymorphic bands obtained from 5 primers using UPGMA in SPSS program,which revealed separate groups between yardlong bean and cowpea. The similarity coefficient among yardlong bean and cowpea accessions ranged from 0.515 to 1.000 and 0.548 to 1.000, respectively.

  19. Terbinafine susceptibility and genotypic heterogeneity in clinical isolates of Trichophyton mentagrophytes by random amplified polymorphic DNA (RAPD).

    Science.gov (United States)

    Alipour, M; Mozafari, N A

    2015-03-01

    The four RAPD systems tested in the present study have aimed at investigating DNA fingerprinting of Trichophyton mentagrophytes strains and the correlation between genotyping and antifungal susceptibility to terbinafine. Twenty-nine clinical isolates of T. mentagrophytes were recovered from patients suspected of having active dermatophytosis who were referred to the laboratory of medical mycology department in Tehran university. Then, they were subjected to conventional examination by performing direct microscopic examination, culture on primary media, physiological tests. The in vitro antifungal susceptibility of twenty-nine T. mentagrophytes isolates against terbinafine was evaluated by modified agar dilution method to determine the minimum inhibitory concentration (MIC). Twenty-one sensitive and eight resistant to terbinafine, were submitted to RAPD using 4 decamer primers (A, B, C, D) with the purpose of encountering a genetic marker to terbinafine sensibility and resistance. The UPGMA-Jaccard's correlation coefficient was used to build up dendogram that could represent clusters of similarity. According to their correlation coefficient, the samples were classified as much related (100%), moderately related (80%) and unrelated (terbinafine. All susceptible samples were properly grouped, but a few numbers of resistant isolates were also included. Nevertheless, further biochemical and molecular biological studies will be required to fully elucidate the point that resistance might be the result of a mutation in the gene encoding squalene epoxidase in T. mentagrophytes. This study proved efficacy of applying RAPD molecular technique to complement traditional mycological culture and drug susceptibility tests for accurate and appropriate management of recurrent dermatophytosis and highlights the need for newer antifungals that can combat the emergence of terbinafine-resistant T. mentagrophytes strains. Copyright © 2015. Published by Elsevier Masson SAS.

  20. A Dark Energy Camera Search for Missing Supergiants in the LMC After the Advanced LIGO Gravitational-Wave Event GW150914

    Science.gov (United States)

    Annis, J.; Soares-Santos, M.; Berger, E.; Brout, D.; Chen, H.; Chornock, R.; Cowperthwaite, P. S.; Diehl, H. T.; Doctor, Z.; Cenko, S. B.

    2016-01-01

    The collapse of a stellar core is expected to produce gravitational waves (GWs), neutrinos, and in most cases a luminous supernova. Sometimes, however, the optical event could be significantly less luminous than a supernova and a direct collapse to a black hole, where the star just disappears, is possible. The GW event GW150914 was detected by the LIGO Virgo Collaboration via a burst analysis that gave localization contours enclosing the Large Magellanic Cloud (LMC). Shortly thereafter, we used DECam to observe 102 deg(exp.2) of the localization area,including 38 deg(exp. 2) on the LMC for a missing supergiant search. We construct a complete catalog of LMC luminous red supergiants, the best candidates to undergo invisible core collapse, and collected catalogs of other candidates:less luminous red supergiants, yellow supergiants, blue supergiants, luminous blue variable stars, and Wolf-Rayet stars. Of the objects in the imaging region, all are recovered in the images. The timescale for stellar disappearance is set by the free-fall time, which is a function of the stellar radius. Our observations at 4 and 13 days after the event result in a search sensitive to objects of up to about 200 solar radii. We conclude that it is unlikely that GW150914 was caused by the core collapse of a relatively compact supergiant in the LMC, consistent with the LIGO Collaboration analyses of the gravitational waveform as best interpreted as a high mass binary black hole merger. We discuss how to generalize this search for future very nearby core-collapse candidates.

  1. Big Data in the SHELA Field: Investigating Galaxy Quenching at High Redshifts

    Science.gov (United States)

    Stevans, Matthew L.; Finkelstein, Steven L.; Wold, Isak; Kawinwanichakij, Lalitwadee; Sherman, Sydney; Gebhardt, Karl; Jogee, Shardha; Papovich, Casey J.; Ciardullo, Robin; Gronwall, Caryl; Gawiser, Eric J.; Acquaviva, Viviana; Casey, Caitlin; Florez, Jonathan; HETDEX Team

    2017-06-01

    We present a measurement of the z ~ 4 Lyman break galaxy (LBG) rest-frame UV luminosity function to investigate the onset of quenching in the early universe. The bright-end of the galaxy luminosity function typically shows an exponential decline far steeper than that of the underlying halo mass function. This is typically attributed to negative feedback from past active galactic nuclei (AGN) activity as well as dust attenuation. Constraining the abundance of bright galaxies at early times (z > 3) can provide a key insight into the mechanisms regulating star formation in galaxies. However, existing studies suffer from low number statistics and/or the inability to robustly remove stellar and AGN contaminants. In this study we take advantage of the unprecedentedly large (24 deg^2) Spitzer/HETDEX Exploratory Large Area (SHELA) field and its deep multi-wavelength photometry, which includes DECam ugriz, NEWFIRM K-band, Spitzer/IRAC, Herschel/SPIRE, and X-ray from XMM-Newton and Chandra. With SHELA’s deep imaging over a large area we are uniquely positioned to study statistically significant samples of massive galaxies at high redshifts (z > 3) when the first massive galaxies began quenching. We select our sample using photometric redshifts from the EAZY software package (Brammer et al. 2008) based on the optical and far-infrared imaging. We directly identify and remove stellar contaminants and AGN with IRAC colors and X-ray detections, respectively. By pinning down the exact shape of the bright-end of the z ~ 4 LBG luminosity function, we provide the deepest probe yet into the baryonic physics dominating star formation and quenching in the early universe.

  2. Assessment of genetic stability in micropropagules of Jatropha curcas genotypes by RAPD and AFLP analysis

    KAUST Repository

    Sharma, Sweta K.

    2011-07-01

    Jatropha curcas (Euphorbiaceae), a drought resistant non edible oil yielding plant, has acquired significant importance as an alternative renewable energy source. Low and inconsistent yields found in field plantations prompted for identification of high yielding clones and their large scale multiplication by vegetative propagation to obtain true to type plants. In the current investigation plantlets of J. curcas generated by axillary bud proliferation (micropropagation) using nodal segments obtained from selected high yielding genotypes were assessed for their genetic stability using Randomly Amplified Polymorphic DNA (RAPD) and Amplified Fragment Length Polymorphism (AFLP) analyses. For RAPD analysis, 21 out of 52 arbitrary decamer primers screened gave clear reproducible bands. In the micropropagated plantlets obtained from the 2nd sub-culture, 4 out of a total of 177 bands scored were polymorphic, but in the 8th and 16th sub-cultures (culture cycle) no polymorphisms were detected. AFLP analysis revealed 0.63%, 0% and 0% polymorphism in the 2nd, 8th and 16th generations, respectively. When different genotypes, viz. IC 56557 16, IC 56557 34 and IC 56557 13, were assessed by AFLP, 0%, 0.31% and 0.47% polymorphisms were found, respectively, indicating a difference in genetic stability among the different genotypes. To the best of our knowledge this is the first report on assessment of genetic stability of micropropagated plantlets in J. curcas and suggests that axillary shoot proliferation can safely be used as an efficient micropropagation method for mass propagation of J. curcas. © 2011 Elsevier B.V.

  3. A New 3D Map of Milky Way Dust

    Science.gov (United States)

    Green, Gregory Maurice; Schlafly, Edward; Finkbeiner, Douglas

    2018-01-01

    Interstellar dust is an important foreground for observations across a wide range of wavelengths. Dust grains scatter and absorb UV, optical and near-infrared light. These processes heat dust grains, causing them to radiate in the far-infrared. As a tracer of mass in the interstellar medium, dust correlates strongly with diffuse gamma-ray emission generated by cosmic-ray pion production. Thus, while dust makes up just 1% of the mass of the interstellar medium, it plays an outsize role in our efforts to address questions as diverse as the chemical evolution of the Milky Way galaxy and the existence of primordial B-mode polarizations in the CMB.We present a new 3D map of Milky Way dust, covering three-quarters of the sky (δ > -30°). The map is based on high-quality photometry of more than 800 million stars observed by Pan-STARRS 1, with matched photometry from 2MASS for approximately 200 million stars. We infer the distribution of dust vs. distance along sightlines with a typical angular scale of 6'. Out of the midplane of the Galaxy, our map agrees well with 2D maps based on far-infrared dust emission. After accounting for a 15% difference in scale, we find a mean scatter of approximately 10% between our map and the Planck 2D dust map, out to a depth of 0.8 mag in E(r-z). Our map can be downloaded at http://argonaut.skymaps.info.In order to extend our map, we have surveyed the southern Galactic plane with DECam, which is mounted on the 4m Blanco telescope on Cerro Tololo. The resulting survey, the Dark Energy Camera Plane Survey (DECaPS), is now publicly available. See Edward Schlafly's poster for more information on DECaPS.

  4. Hemocyanin of the molluscan Concholepas concholepas exhibits an unusual heterodecameric array of subunits.

    Science.gov (United States)

    De Ioannes, Pablo; Moltedo, Bruno; Oliva, Harold; Pacheco, Rodrigo; Faunes, Fernando; De Ioannes, Alfredo E; Becker, María Inés

    2004-06-18

    We describe here the structure of the hemocyanin from the Chilean gastropod Concholepas concholepas (CCH), emphasizing some attributes that make it interesting among molluscan hemocyanins. CCH exhibits a predominant didecameric structure as revealed by electron microscopy and a size of 8 MDa by gel filtration, and, in contrast with other mollusc hemocyanins, its stabilization does not require additional Ca(2+) and/or Mg(2+) in the medium. Polyacrylamide gel electrophoresis studies, analyses by a MonoQ FPLC column, and Western blots with specific monoclonal antibodies showed that CCH is made by two subunits noncovalently linked, named CCH-A and CCH-B, with molecular masses of 405 and 350 kDa, respectively. Interestingly, one of the subunits undergoes changes within the macromolecule; we demonstrated that CCH-A has an autocleavage site that under reducing conditions is cleaved to yield two polypeptides, CCH-A1 (300 kDa) and CCH-A2 (108 kDa), whereas CCH-B remains unchanged. The CCH-A nick occurs at 4 degrees C, increases at 37 degrees C, and is not inhibited by the addition of protease inhibitors and/or divalent cations. Since the CCH structure is a heterodimer, we investigated whether subunits would be either intermingled, forming heterodecamers, or assembled as two homogeneous decamers. Light scattering and electron microscope studies of the in vitro reassociation of purified CCH subunits demonstrated that the sole addition of Mg(2+) is needed for its reassembly into the native decameric molecule; no homodecamer reorganization was found with either CCH-A or CCH-B subunits alone. Our evidence showed that C. concholepas hemocyanin is an unusual example of heterodecameric organization.

  5. Genetic variation of common walnut (Juglans regia in Piedmont, Northwestern Italy

    Directory of Open Access Journals (Sweden)

    Ferrazzini D

    2007-12-01

    Full Text Available The European or common walnut is a large tree prized as a multipurpose species: it provides valuable timber and produces a high-quality edible nut. The diffusion of the species in Italy has been largely influenced by the human activity, mainly through germplasm movement, selection of genotypes most suited for wood or fruit production and adaptation induced on fruit crop reproductive materials. As a consequence, genetic variability has been reduced, so that programs aimed at its preservation appear of the utmost importance. 104 walnut plants growing in Piedmont, northwestern Italy, were investigated through genetic variation scored at RAPD loci, yielded by PCR amplification of 10 decamer primers. Among the 101 studied loci, only 53 were polymorphic, showing a low level of genetic variation within the studied material. Genetic differentiation was estimated both at individual and geographical area level. Only in few cases trees growing in the same area showed to be genetically similar, while the differentiation between areas accounted for about 10% of the total variation, according to AMOVA. No significant correlation was found between genetic and geographic distances. The results of the study showed that also in Piedmont (such as it was already demonstrated in other parts of Italy the distribution of common walnut is a direct consequence of the human activity. The selection of individual trees, to be used as basic materials for seed supply, should therefore be based mainly on phenotypic traits, rather than ecological features of the location: in species characterized by artificial diffusion, the adoption of Region of Provenance has a scarce significance and prominence should be given to the phenotype selection.

  6. Tracing the stellar component of low surface brightness Milky Way dwarf galaxies to their outskirts. I. Sextans

    Science.gov (United States)

    Cicuéndez, L.; Battaglia, G.; Irwin, M.; Bermejo-Climent, J. R.; McMonigal, B.; Bate, N. F.; Lewis, G. F.; Conn, A. R.; de Boer, T. J. L.; Gallart, C.; Guglielmo, M.; Ibata, R.; McConnachie, A.; Tolstoy, E.; Fernando, N.

    2018-01-01

    Aims: We present results from deep and very spatially extended CTIO/DECam g and r photometry (reaching out to 2 mag below the oldest main-sequence turn-off and covering 20 deg2) around the Sextans dwarf spheroidal galaxy. We aim to use this dataset to study the structural properties of Sextans overall stellar population and its member stars in different evolutionary phases, as well as to search for possible signs of tidal disturbance from the Milky Way, which would indicate departure from dynamical equilibrium. Methods: We performed the most accurate and quantitative structural analysis to-date of Sextans' stellar components by applying Bayesian Monte Carlo Markov chain methods to the individual stars' positions. Surface density maps are built by statistically decontaminating the sample through a matched filter analysis of the colour-magnitude diagram, and then analysed for departures from axisymmetry. Results: Sextans is found to be significantly less spatially extended and more centrally concentrated than early studies suggested. No statistically significant distortions or signs of tidal disturbances were found down to a surface brightness limit of 31.8 mag/arcsec2 in V-band. We identify an overdensity in the central regions that may correspond to previously reported kinematic substructure(s). In agreement with previous findings, old and metal-poor stars such as Blue Horizontal Branch stars cover a much larger area than stars in other evolutionary phases, and bright Blue Stragglers (BSs) are less spatially extended than faint ones. However, the different spatial distribution of bright and faint BSs appears consistent with the general age and metallicity gradients found in Sextans' stellar component. This is compatible with Sextans BSs having formed by evolution of binaries and not necessarily due to the presence of a central disrupted globular cluster, as suggested in the literature. We provide structural parameters for the various populations analysed and make

  7. The Electromagnetic Counterpart of the Binary Neutron Star Merger LIGO/Virgo GW170817. II. UV, Optical, and Near-infrared Light Curves and Comparison to Kilonova Models

    Energy Technology Data Exchange (ETDEWEB)

    Cowperthwaite, P. S.; Berger, E.; Villar, V. A.; Metzger, B. D.; Nicholl, M.; Chornock, R.; Blanchard, P. K.; Fong, W.; Margutti, R.; Soares-Santos, M.; Alexander, K. D.; Allam, S.; Annis, J.; Brout, D.; Brown, D. A.; Butler, R. E.; Chen, H. -Y.; Diehl, H. T.; Doctor, Z.; Drout, M. R.; Eftekhari, T.; Farr, B.; Finley, D. A.; Foley, R. J.; Frieman, J. A.; Fryer, C. L.; García-Bellido, J.; Gill, M. S. S.; Guillochon, J.; Herner, K.; Holz, D. E.; Kasen, D.; Kessler, R.; Marriner, J.; Matheson, T.; Neilsen, E. H.; Quataert, E.; Palmese, A.; Rest, A.; Sako, M.; Scolnic, D. M.; Smith, N.; Tucker, D. L.; Williams, P. K. G.; Balbinot, E.; Carlin, J. L.; Cook, E. R.; Durret, F.; Li, T. S.; Lopes, P. A. A.; Lourenço, A. C. C.; Marshall, J. L.; Medina, G. E.; Muir, J.; Muñoz, R. R.; Sauseda, M.; Schlegel, D. J.; Secco, L. F.; Vivas, A. K.; Wester, W.; Zenteno, A.; Zhang, Y.; Abbott, T. M. C.; Banerji, M.; Bechtol, K.; Benoit-Lévy, A.; Bertin, E.; Buckley-Geer, E.; Burke, D. L.; Capozzi, D.; Carnero Rosell, A.; Carrasco Kind, M.; Castander, F. J.; Crocce, M.; Cunha, C. E.; D’Andrea, C. B.; Costa, L. N. da; Davis, C.; DePoy, D. L.; Desai, S.; Dietrich, J. P.; Drlica-Wagner, A.; Eifler, T. F.; Evrard, A. E.; Fernandez, E.; Flaugher, B.; Fosalba, P.; Gaztanaga, E.; Gerdes, D. W.; Giannantonio, T.; Goldstein, D. A.; Gruen, D.; Gruendl, R. A.; Gutierrez, G.; Honscheid, K.; Jain, B.; James, D. J.; Jeltema, T.; Johnson, M. W. G.; Johnson, M. D.; Kent, S.; Krause, E.; Kron, R.; Kuehn, K.; Nuropatkin, N.; Lahav, O.; Lima, M.; Lin, H.; Maia, M. A. G.; March, M.; Martini, P.; McMahon, R. G.; Menanteau, F.; Miller, C. J.; Miquel, R.; Mohr, J. J.; Neilsen, E.; Nichol, R. C.; Ogando, R. L. C.; Plazas, A. A.; Roe, N.; Romer, A. K.; Roodman, A.; Rykoff, E. S.; Sanchez, E.; Scarpine, V.; Schindler, R.; Schubnell, M.; Sevilla-Noarbe, I.; Smith, M.; Smith, R. C.; Sobreira, F.; Suchyta, E.; Swanson, M. E. C.; Tarle, G.; Thomas, D.; Thomas, R. C.; Troxel, M. A.; Vikram, V.; Walker, A. R.; Wechsler, R. H.; Weller, J.; Yanny, B.; Zuntz, J.

    2017-10-16

    We present UV, optical, and NIR photometry of the first electromagnetic counterpart to a gravitational wave source from Advanced LIGO/Virgo, the binary neutron star merger GW170817. Our data set extends from the discovery of the optical counterpart at $0.47$ days to $18.5$ days post-merger, and includes observations with the Dark Energy Camera (DECam), Gemini-South/FLAMINGOS-2 (GS/F2), and the {\\it Hubble Space Telescope} ({\\it HST}). The spectral energy distribution (SED) inferred from this photometry at $0.6$ days is well described by a blackbody model with $T\\approx 8300$ K, a radius of $R\\approx 4.5\\times 10^{14}$ cm (corresponding to an expansion velocity of $v\\approx 0.3c$), and a bolometric luminosity of $L_{\\rm bol}\\approx 5\\times10^{41}$ erg s$^{-1}$. At $1.5$ days we find a multi-component SED across the optical and NIR, and subsequently we observe rapid fading in the UV and blue optical bands and significant reddening of the optical/NIR colors. Modeling the entire data set we find that models with heating from radioactive decay of $^{56}$Ni, or those with only a single component of opacity from $r$-process elements, fail to capture the rapid optical decline and red optical/NIR colors. Instead, models with two components consistent with lanthanide-poor and lanthanide-rich ejecta provide a good fit to the data, the resulting "blue" component has $M_\\mathrm{ej}^\\mathrm{blue}\\approx 0.01$ M$_\\odot$ and $v_\\mathrm{ej}^\\mathrm{blue}\\approx 0.3$c, and the "red" component has $M_\\mathrm{ej}^\\mathrm{red}\\approx 0.04$ M$_\\odot$ and $v_\\mathrm{ej}^\\mathrm{red}\\approx 0.1$c. These ejecta masses are broadly consistent with the estimated $r$-process production rate required to explain the Milky Way $r$-process abundances, providing the first evidence that BNS mergers can be a dominant site of $r$-process enrichment.

  8. Peptide dynamics by molecular dynamics simulation and diffusion theory method with improved basis sets

    Energy Technology Data Exchange (ETDEWEB)

    Hsu, Po Jen; Lai, S. K., E-mail: sklai@coll.phy.ncu.edu.tw [Complex Liquids Laboratory, Department of Physics, National Central University, Chungli 320, Taiwan and Molecular Science and Technology Program, Taiwan International Graduate Program, Academia Sinica, Taipei 115, Taiwan (China); Rapallo, Arnaldo [Istituto per lo Studio delle Macromolecole (ISMAC) Consiglio Nazionale delle Ricerche (CNR), via E. Bassini 15, C.A.P 20133 Milano (Italy)

    2014-03-14

    Improved basis sets for the study of polymer dynamics by means of the diffusion theory, and tests on a melt of cis-1,4-polyisoprene decamers, and a toluene solution of a 71-mer syndiotactic trans-1,2-polypentadiene were presented recently [R. Gaspari and A. Rapallo, J. Chem. Phys. 128, 244109 (2008)]. The proposed hybrid basis approach (HBA) combined two techniques, the long time sorting procedure and the maximum correlation approximation. The HBA takes advantage of the strength of these two techniques, and its basis sets proved to be very effective and computationally convenient in describing both local and global dynamics in cases of flexible synthetic polymers where the repeating unit is a unique type of monomer. The question then arises if the same efficacy continues when the HBA is applied to polymers of different monomers, variable local stiffness along the chain and with longer persistence length, which have different local and global dynamical properties against the above-mentioned systems. Important examples of this kind of molecular chains are the proteins, so that a fragment of the protein transthyretin is chosen as the system of the present study. This peptide corresponds to a sequence that is structured in β-sheets of the protein and is located on the surface of the channel with thyroxin. The protein transthyretin forms amyloid fibrils in vivo, whereas the peptide fragment has been shown [C. P. Jaroniec, C. E. MacPhee, N. S. Astrof, C. M. Dobson, and R. G. Griffin, Proc. Natl. Acad. Sci. U.S.A. 99, 16748 (2002)] to form amyloid fibrils in vitro in extended β-sheet conformations. For these reasons the latter is given considerable attention in the literature and studied also as an isolated fragment in water solution where both experimental and theoretical efforts have indicated the propensity of the system to form β turns or α helices, but is otherwise predominantly unstructured. Differing from previous computational studies that employed implicit

  9. Peptide dynamics by molecular dynamics simulation and diffusion theory method with improved basis sets

    International Nuclear Information System (INIS)

    Hsu, Po Jen; Lai, S. K.; Rapallo, Arnaldo

    2014-01-01

    Improved basis sets for the study of polymer dynamics by means of the diffusion theory, and tests on a melt of cis-1,4-polyisoprene decamers, and a toluene solution of a 71-mer syndiotactic trans-1,2-polypentadiene were presented recently [R. Gaspari and A. Rapallo, J. Chem. Phys. 128, 244109 (2008)]. The proposed hybrid basis approach (HBA) combined two techniques, the long time sorting procedure and the maximum correlation approximation. The HBA takes advantage of the strength of these two techniques, and its basis sets proved to be very effective and computationally convenient in describing both local and global dynamics in cases of flexible synthetic polymers where the repeating unit is a unique type of monomer. The question then arises if the same efficacy continues when the HBA is applied to polymers of different monomers, variable local stiffness along the chain and with longer persistence length, which have different local and global dynamical properties against the above-mentioned systems. Important examples of this kind of molecular chains are the proteins, so that a fragment of the protein transthyretin is chosen as the system of the present study. This peptide corresponds to a sequence that is structured in β-sheets of the protein and is located on the surface of the channel with thyroxin. The protein transthyretin forms amyloid fibrils in vivo, whereas the peptide fragment has been shown [C. P. Jaroniec, C. E. MacPhee, N. S. Astrof, C. M. Dobson, and R. G. Griffin, Proc. Natl. Acad. Sci. U.S.A. 99, 16748 (2002)] to form amyloid fibrils in vitro in extended β-sheet conformations. For these reasons the latter is given considerable attention in the literature and studied also as an isolated fragment in water solution where both experimental and theoretical efforts have indicated the propensity of the system to form β turns or α helices, but is otherwise predominantly unstructured. Differing from previous computational studies that employed implicit

  10. Oligomeric stability of Rapana venosa hemocyanin (RvH) and its structural subunits.

    Science.gov (United States)

    Dolashka-Angelova, Pavlina; Schwarz, Heinz; Dolashki, Aleksandar; Stevanovic, Stefan; Fecker, Miriam; Saeed, Muhammad; Voelter, Wolfgang

    2003-03-21

    The two structural subunits RvH1 and RvH2 were separated after overnight dialysis of Rapana venosa Hc against 130 mM Gly/NaOH buffer, pH 9.6, on an ion exchange column Hiload 26/10 Sepharose Q using a fast performance liquid chromatography (FPLC) system. The reassociation characteristics of these two RvH isoforms and the native molecule were studied in buffers with different pH values and concentrations of Ca(2+) and Mg(2+). Reassociation of mixed RvH subunits was performed over a period of several days using a stabilizing buffer (SB) of pH 7.0 containing different concentrations of Ca(2+) and Mg(2+) ions. After 2 days of dialysis, an RvH subunit mixture of didecamers and multidecamers was observed in the presence of 100 mM CaCl(2) and MgCl(2), though RvH1 and RvH2 are biochemically and immunologically different and have also different dissociation properties. The reassociation, performed at pH 9.6 with 2 mM CaCl(2) and MgCl(2) at 4 degrees C over a period of one to several weeks, led to the formation of decameric oligomers, while didecamers formed predominantly in the SB at pH 7.0. Higher concentrations of calcium and magnesium ions led to a more rapid reassociation of RvH1 resulting in long stable multidecamers and helical tubules, which were stable and slowly dissociated into shorter multidecamers and decamers at higher pH values. The reassociation of the RvH2 structural subunit in the same buffers processed slowly and yielded didecamers, shorter tubule polymers and long multidecamers which are less stable at higher pH values. The stability of RvH isoforms under varying ionic conditions is compared with the stability of keyhole limpet (KLH, Megathura crenulata) hemocyanin (KLH) and Haliotis tuberculata hemocyanin (HtH) isoforms. The process of dissociation and reassociation is connected with changes of the fluorescence intensity at 600 nm, which can be explained by differences in opalescence of the solutions of these two isoforms. The solutions of longer tubule

  11. Transaldolase of Methanocaldococcus jannaschii

    Directory of Open Access Journals (Sweden)

    Tim Soderberg

    2004-01-01

    Full Text Available The Methanocaldococcus jannaschii genome contains putative genes for all four nonoxidative pentose phosphate pathway enzymes. Open reading frame (ORF MJ0960 is a member of the mipB/talC family of ‘transaldolase-like’ genes, so named because of their similarity to the well-characterized transaldolase B gene family. However, recently, it has been reported that both the mipB and the talC genes from Escherichia coli encode novel enzymes with fructose-6-phosphate aldolase activity, not transaldolase activity (Schürmann and Sprenger 2001. The same study reports that other members of the mipB/talC family appear to encode transaldolases. To confirm the function of MJ0960 and to clarify the presence of a nonoxidative pentose phosphate pathway in M. jannaschii, we have cloned ORF MJ0960 from M. jannaschii genomic DNA and purified the recombinant protein. MJ0960 encodes a transaldolase and displays no fructose-6-phosphate aldolase activity. It retained full activity for 4 h at 80 °C, and for 3 weeks at 25 °C. Methanocaldococcus jannaschii transaldolase has a maximal velocity (Vmax of 1.0 ± 0.2 µmol min–1 mg–1 at 25 °C, whereas Vmax = 12.0 ± 0.5 µmol min–1 mg–1 at 50 °C. Apparent Michaelis constants at 50 °C were Km = 0.65 ± 0.09 mM for fructose-6-phosphate and Km = 27.8 ± 4.3 µM for erythrose-4-phosphate. When ribose-5-phosphate replaced erythrose-4-phosphate as an aldose acceptor, Vmax decreased twofold, whereas the Km was 150-fold higher. The molecular mass of the active enzyme is 271 ± 27 kDa as estimated by gel filtration, whereas the predicted monomer size is 23.96 kDa, suggesting that the native form of the protein is probably a decamer. A readily available source of thermophilic pentose phosphate pathway enzymes including transaldolase may have direct application in enzymatic biohydrogen production.

  12. Caracterização molecular de butiazeiro por marcadores RAPD Molecular characterization of Pindo palm by RAPD markers

    Directory of Open Access Journals (Sweden)

    Adrise Medeiros Nunes

    2008-09-01

    Full Text Available O grupo botânico Arecaceae é de extremo interesse por compreender plantas em extinção e por apresentar um grande potencial de exploração econômica. O butiazeiro (Butia capitata (Mart. Becc. ocorre naturalmente no Sul do Brasil. Sua caracterização molecular é de extremo interesse para futuros trabalhos de melhoramento genético. Assim sendo, verificou-se a variabilidade genética existente entre vinte e dois genótipos de butiazeiro da espécie (Butia capitata, pertencentes ao BAG (Banco Ativo de Germoplasma de frutíferas nativas do Centro Agropecuário da Palma - UFPel. Esses genótipos foram analisados usando marcadores do tipo RAPD (Random Amplified Polymorphic DNA. Um total de 136 fragmentos foram obtidos, sendo 77 polimórficos. O primer OPA11 apresentou maior polimorfismo, produzindo 9 perfis diferentes. A análise de agrupamento, realizada pelo método UPGMA, produziu um dendrograma que permitiu a clara separação dos genótipos em dois grupos principais. Verificou-se que, com a técnica de marcadores de RAPD, foi possível obter um perfil molecular único e uma estimativa da variabilidade existente entre os genótipos de butiazeiro avaliados.The study of the botanical group Arecaceae is of extreme interest for evolving several endangered species of plants and for presenting a great potential of economical exploration. The Pindo palm (or wine palm, jelly palm (Butia capitata (Mart. Becc. is natural from the south of Brazil. Its molecular characterization is of extreme interest for future researches of genetic improvement. Since little is known about the variability of the species, the existent genetic variability was verified among twenty-two genotypes of Pindo palm (or wine palm, jelly palm, from BAG (Germoplasm Assets Bank of fruit trees native from the Agricultural Center of the Palma - UFPEL, which were analyzed using markers RAPD (Random Amplified Polymorphic DNA with Operon Technologies' decamers primers. With 21 primers

  13. Formulation of improved basis sets for the study of polymer dynamics through diffusion theory methods.

    Science.gov (United States)

    Gaspari, Roberto; Rapallo, Arnaldo

    2008-06-28

    In this work a new method is proposed for the choice of basis functions in diffusion theory (DT) calculations. This method, named hybrid basis approach (HBA), combines the two previously adopted long time sorting procedure (LTSP) and maximum correlation approximation (MCA) techniques; the first emphasizing contributions from the long time dynamics, the latter being based on the local correlations along the chain. In order to fulfill this task, the HBA procedure employs a first order basis set corresponding to a high order MCA one and generates upper order approximations according to LTSP. A test of the method is made first on a melt of cis-1,4-polyisoprene decamers where HBA and LTSP are compared in terms of efficiency. Both convergence properties and numerical stability are improved by the use of the HBA basis set whose performance is evaluated on local dynamics, by computing the correlation times of selected bond vectors along the chain, and on global ones, through the eigenvalues of the diffusion operator L. Further use of the DT with a HBA basis set has been made on a 71-mer of syndiotactic trans-1,2-polypentadiene in toluene solution, whose dynamical properties have been computed with a high order calculation and compared to the "numerical experiment" provided by the molecular dynamics (MD) simulation in explicit solvent. The necessary equilibrium averages have been obtained by a vacuum trajectory of the chain where solvent effects on conformational properties have been reproduced with a proper screening of the nonbonded interactions, corresponding to a definite value of the mean radius of gyration of the polymer in vacuum. Results show a very good agreement between DT calculations and the MD numerical experiment. This suggests a further use of DT methods with the necessary input quantities obtained by the only knowledge of some experimental values, i.e., the mean radius of gyration of the chain and the viscosity of the solution, and by a suitable vacuum

  14. MARCADORES RAPD PARA MAPEAMENTO GENÉTICO E SELEÇÃO DE HÍBRIDOS DE CITROS RAPD MARKERS TO GENETIC MAPPING AND SELECTION OF CITRUS HYBRIDS

    Directory of Open Access Journals (Sweden)

    ROBERTO PEDROSO DE OLIVEIRA

    2001-12-01

    thermocyclers programmed for 36 cycles of 1 min at 92ºC, 1 min at 36ºC, 2 min at 72ºC and 10 min of extension at 72ºC. It were evaluated random decamer primers of the kits A, AB, AT, AV, B, C, D, E, G, H, M, N, P, Q, R e U from Operon. One hundred thirteen primers were selected as polymorphics, with number of markers varying from 1 to 6 per primer. These primers amplified 201 (23,13% polymorphic fragments, with application in genetic mapping and selection of hybrids. The frequency of primers with 1, 2, 3, 4, 5 and 6 polymorphic fragments was 49,5%, 33,6%, 9,7%, 4,4%, 1,8% e 1,0%, respectively.

  15. Variabilidade genética de acessos de maracujá-suspiro com base em marcadores moleculares Genetic variability of wild passion fruit determined by molecular markers

    Directory of Open Access Journals (Sweden)

    Keize Pereira Junqueira

    2007-01-01

    Full Text Available Passiflora nitida é uma espécie silvestre amplamente distribuída pelo território brasileiro, constituindo-se em fonte de resistência a doenças foliares e de raízes. O objetivo deste trabalho foi avaliar a variabilidade genética entre acessos de P. nitida procedentes de diferentes tipos fitofisionômicos de Cerrado e estados brasileiros (Goiás, Distrito Federal, Tocantins, Mato Grosso e Amazonas, usando marcadores moleculares RAPD. O DNA genômico de cada acesso foi extraído, e doze iniciadores decâmeros foram utilizados para a obtenção de marcadores moleculares RAPD, que foram convertidos em matriz de dados binários, a partir da qual foram estimadas as distâncias genéticas entre os acessos e realizadas análises de agrupamento e de dispersão gráfica. Foram obtidos 196 marcadores para P. nitida, dos quais 63,81% foram polimórficos. As distâncias genéticas entre os acessos de maracujá variaram de 0,031 a 0,614 e, considerando apenas P. nitida, de 0,031 a 0,417. Os marcadores moleculares demonstraram alta variabilidade genética dos acessos de P. nitida. Menores distâncias genéticas foram verificadas entre os acessos originados do mesmo estado. Considerando-se os acessos de um mesmo estado, menores distâncias genéticas foram verificadas entre os acessos provenientes de tipos fitofisionômicos próximos. O acesso "Manaus 2" apresentou o maior distanciamento genético em relação aos demais acessos.Passiflora nitida is a wild species widely distributed in Brazilian territory. It is a source of resistance to foliar and soil borne diseases. The objective of this work was to evaluate the genetic variability among accessions of P. nitida proceeding from different types of Cerrado (Brazilian savannah vegetation and brazilian states (Goiás, Distrito Federal, Tocantins, Mato Grosso and Amazonas using RAPD molecular markers. The genomic DNA of each origin was extracted and amplified using 12 decamer primers to obtain RAPD

  16. Variabilidade genética de acessos silvestres e comerciais de Passiflora edulis Sims. com base em marcadores RAPD Genetic variability of wild and commercial passion fruit (Passiflora edulis Sims. accessions using RAPD markers

    Directory of Open Access Journals (Sweden)

    Graciele Bellon

    2007-04-01

    Full Text Available No Cerrado brasileiro, há uma grande diversidade de cores, tamanhos e aromas de frutos em acessos silvestres de P. edulis. Estes acessos também são importantes fontes de resistência a doenças, podendo ser incorporados em programas de melhoramento genético do maracujazeiro azedo. Neste trabalho, objetivou-se estimar a variabilidade genética existente em acessos silvestres e comerciais de P. edulis utilizando-se de marcadores RAPD. O DNA genômico de cada acesso foi extraído e amplificado com treze iniciadores decâmeros (OPD-04, OPD-07, OPD-08, OPD-16, OPE-18, OPE-20, OPF-01, OPF-14, OPG-05, OPG-08, OPH-04, OPH-12 e OPH-16 para a obtenção dos marcadores RAPD. Os marcadores obtidos foram convertidos em uma matriz de dados binários, a partir da qual foram estimadas as distâncias genéticas entre os acessos e realizadas análises de agrupamento e de dispersão gráfica. Um total de 187 marcadores foi gerado, sendo que apenas 28 (14,97% deles foram monomórficos. As distâncias genéticas entre os 15 acessos de maracujazeiro variaram de 0,091 a 0,496. Os marcadores moleculares demonstraram a alta variabilidade genética dos acessos de P. edulis, sendo que os acessos de frutos amarelos apresentaram maior distanciamento em relação aos de frutos roxos. Menores distâncias genéticas foram verificadas entre os acessos de mesma origem geográfica.There are a great diversity of colors, sizes and aromas of fruits in wild accessions of P. edulis in Brazilian Savannah. These accessions are also important resistance sources against illness which can be incorpored in passionfruit breeding programs. In this work, the objetive was to evaluate the genetic variability in wild and commercial P. edulis accessions using RAPD markers. The genomic DNA of each accession was extracted and amplified using thirteen decamer primers (OPD-04, OPD-07, OPD-08, OPD-16, OPE-18, OPE-20, OPF-01, OPF-14, OPG-05, OPG-08, OPH-04, OPH-12 and OPH-16 to obtain RAPD markers

  17. ENFERMEDADES INFECCIOSAS EMERGENTES: EL TURNO DEL VIRUS DEL ZIKA

    Directory of Open Access Journals (Sweden)

    Carlos Arturo Álvarez Moreno

    2016-04-01

    Full Text Available

    Las enfermedades causadas por microorganismos han amenazado la salud del hombre por siglos y dependiendo de su forma de transmisión, pueden diseminarse algunas de una forma más rápida que otras. En general aquellas que se transmiten de personas y solo por contacto o por el aire son más difíciles de controlar. A continuación, me limito a describir solo algunos ejemplos de epidemias que han ocurrido a través de la historia humana y que probablemente por su impacto sobre la humanidad son más conocidas.

    La plaga, muerte negra o peste bubónica, la enfermedad causada por una bacteria, la Y. pestis, conocida desde la época de los griegos y romanos, se hizo famosa por la pandemia al final de la edad medieval (siglos XIV pero posteriormente se presentaron otras nueve pandemias, registrándose la última en 1720. Estas pandemias causaron la muerte de al menos 25 millones de personas (20- 25% de la población europea de ese entonces y contrario a lo que se piensa, todavía se siguen presentado casos en muchas partes del mundo. Esta pandemia no solo tuvo gran impacto en el sistema de salud, sino que cambió los comportamientos humanos, incluyendo los destierros, la aplicación de las cuarentenas e incluso fue un tema repetido de pintores y escritores relacionándola con la muerte, o dedicados a San Roque, protector contra la peste; cuadros como el del pintor flamenco Pieter Breughel, El triunfo de la muerte, o publicaciones como El Decamerón, El flautista de Hamelin y más recientemente la epidemia en Argel de 1965, que inspiró a Albert Camus para su novela La peste.

    Otras epidemias famosas han sido causadas por el cólera o cólera nostras o bisuchika mordexim, causada por una bacteria llamada Vibrio cholerae de la cual se tiene noticias de una epidemia en 1503 que afectó a la población asiática. En el siglo XIX se extendió por toda Europa y fue una causa recurrente de mortalidad. Sin embargo, esta enfermedad no desapareci

  18. Characterization and effect of clarified araçá (Psidium guineenses Sw. juice on postprandial glycemia in healthy subjects Caracterização e efeito do suco de araçá (Psidium guineenses Sw. clarificado na glicemia pós-prandial em indivíduos saudáveis

    Directory of Open Access Journals (Sweden)

    Diully Mata Balisteiro

    2013-02-01

    Full Text Available Brazilian native fruits are excellent sources of bioactive compounds of phenolic nature. Some of these compounds are able to inhibit carbohydrate- metabolizing enzymes (in vitro, α-amylase and α-glucosidase, delaying carbohydrate digestion. This study aimed to evaluate the effect of clarified araçá (Psidium guineenses Sw. juice on postprandial glycemia in humans after consumption of 25 g of available carbohydrates (approximately 50 g of white bread and characterize the phenolic compounds and in vitro antioxidant capacity of araçá juice and pulp. The results showed that the clarified juice had a positive effect on postprandial glycemia reducing the total amount of glucose absorbed, lengthening the time to reach maximum blood glucose concentration, reducing glucose incremental velocity, and decreasing glucose incremental percentage. Both frozen pulp and clarified juice had high amounts of phenolic compounds, antioxidant capacity, and proanthocyanidins, among which oligomers (monomers to tetramers, pentamers, hexamers, heptamers, octamers, nonamers, decamers, and polymers were detected, and they are probably associated with in vivo effects.Frutas nativas brasileiras são excelentes fontes de compostos bioativos de natureza fenólica. Alguns destes compostos são capazes de inibir in vitro as enzimas do metabolismo de carboidratos, α-amilase e α-glicosidase, o que retarda o tempo de digestão de carboidratos. Neste trabalho, objetivou-se avaliar o efeito do suco de araçá (Psidium guineenses Sw. clarificado sobre a glicemia pós-prandial em humanos, após consumo de 25 g de carboidratos disponíveis provenientes de pão branco (aproximadamente 50 g de pão francês, e caracterizar o suco e a polpa de araçá quanto aos compostos fenólicos e capacidade antioxidante in vitro. Os resultados mostraram que o suco clarificado apresenta efeito positivo sobre a glicemia pós-prandial, causando redução da quantidade total de glicose absorvida

  19. Caracterização da diversidade genética entre acessos crioulos de feijão (Phaseolus vulgaris L. coletados em Santa Catarina por marcadores RAPD Characterization of the genetic diversity of landraces of common bean (Phaseolus vulgaris L. collected in Santa Catarina State by RAPD markers

    Directory of Open Access Journals (Sweden)

    Márcio Fonseca de Carvalho

    2008-09-01

    , and of three cultivars ('Pérola', 'SCS 202-Guará' e 'BRS Valente', using RAPD markers. 21 decamer-primers that allowed the visualization of 96 bands were used, and 41 (42.7% presented polymorphism among the studied accesses, resulting in a band range of 650 to 2000pb. The dissimilarity was calculated using the Sorensen-Dice coefficient and the grouping analyses were derived from UPGMA. The accesses were separated in two main groups, with wide dissimilarity when compared with the divergence inside each group. These two groups indicate the possible center of domestication, Middle-American or Andean, of the accesses in this study. The dissimilarity among the cultivars evaluated ('SCS 202-Guará', 'BRS Valente' e 'Pérola' was small (0.15, if compared with the divergence among the accesses of the germplasm bank (0.65. The smaller dissimilarity among the studied accesses (BAF63 and BAF04 was 0.02. The results reinforce the need of new collection expeditions, which will increase the representation of the genetic variability of the remaining bean landraces in Santa Catarina State.

  20. Variabilidade genética de acessos obtidos de populações cultivadas e silvestres de maracujazeiro-doce com base em marcadores rapd Genetic diversity obtained from cultivated population and native accesses of seewt passion fruit based on rapd markers

    Directory of Open Access Journals (Sweden)

    Graciele Bellon

    2009-03-01

    genetic variability of 17 sweet passion fruit accesses, using RAPD molecular markers. One access of P. quadrangularis and another of P. edulis were used as outgroups. Genomic DNA samples of each one of them were extracted and 11 decamers primers (OPD 04, 07, 08 e16; OPE 18 and 20; OPF 01 and 14; OPG 08; OPH 12 and 16 were used to obtain the markers. The markers have been converted into a matrix of binary data, used as base to estimate genetic distances between accesses and to perform grouping and graphic dispersion analysis. From the total amount of markers, considering only P. alata accesses, it was observed 87 (62.12% polymorphic bands, showing great intraspecific variability. Grouping analysis based on genetic distances allowed to subdivide 17 P. alata accesses in, at least, five groups of genetic similarity. The wild accesses contributed the most to the genetic basis expansion of the studied materials, opening good prospects for their use in breeding programs.

  1. Variabilidade genética de acessos de pitaya com diferentes níveis de produção por meio de marcadores RAPD Pitaya accesses genetic variability with different pruduction levels through RAPD markers

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    Keize Pereira Junqueira

    2010-09-01

    ética entre plantas com produções diferentes, ressaltando a importância das técnicas moleculares para subsidiar e auxiliar nos trabalhos de seleção, em programas de melhoramento genético.The most cultivated pitaya species nowadays is Hylocereus undatus, red pitaya with white pulp. Colombia and Mexico are the major world producers and, due to its rusticity, pitaya is considered a potentially viable alternative to make good use of gravel, sandy and compact rocky soils. Although the great demand, there is not yet a variety released on the market that attends production climatic needs and brazilian consumer exigencies. The present work is a part of Embrapa Cerrados pitaya CPAC PY-01 selection and improvement program. We have had the objective to realize genetic variability study of 16 pitaya accesses maintained at Embrapa Cerrados germoplasm collection, showing different phenotypic characteristics with special relation to production, through molecular markers RAPD (Random Amplified Polymorphic DNA. Each access genomic DNA was extracted and eleven decamer primers indicators were used to obtain molecular markers RAPD, that were converted in a binarium data matrix, from where it was estimated genetic distances between accesses and realized grouping analysis and graphic dispersion. One hundred and eleven RAPD markers were obtained, making a 10,1 markers medium per primer, in witch 45 (40,54% were polymorphic. Genetic distances between 16 accesses varied within 0,006 and 0,148. The biggest genetic distances were obtained between accesses "52" and "61"; in 2007, the first one produced more than 25 fruits and the second one, none. The smallest genetic distances were verified between accesses "63" and "55" and between 19" and "59". Both groups showed close production values. RAPD molecular markers showed that, even inside the same species, there is genetic variability between plants with different productions, standing out molecular techniques importance as auxiliary instruments

  2. Diversidade genética de pitayas nativas do cerrado com base em marcadores RAPD Genetic diversity of native pitaya native from brazilian savannas with basis on RAPD markers

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    Keize Pereira Junqueira

    2010-09-01

    naturally vegetate on solid rocky sandstone or quartzite, tree trunks and on rocky fields sand soils at Minas Gerais, Goiás, Distrito Federal, Tocantins, Rio de Janeiro and Bahia, with strong evidences that Brazil central region is the biggest pitayas dispersion center, because of wide phenotypic diversity observed in collected accesses. We had the objective to realize genetic diversity study of 13 pitaya accesses maintained at Embrapa Cerrados germoplasm collection through RAPD (Random Amplified Polymorphic DNA molecular markers. Each access genomic DNA were extracted and fourteen decamer initiators were used to obtain RAPD molecular markers, that were converted in a binary data matrix, from where we estimate genetic distances between accesses and realize grouping and graphic dispersion analysis. 162 RAPD markers were obtained, making 11,57 markers medium per primer. From markers total, 154 (95,06% were polymorphic. Genetic distances varied within 0,088 and 0,848, biggest values observed refer to distance between Unaí, MG access and Seleção Embrapa Cerrados access. The most different access was "Unaí, MG", that showed 0,675 of genetic distance avarege in relation to others accessions. The high genetic distance verified is due to the fact that the referred accesses do not belong to the same species. Pitaya accesses groups had little relation to their geographic origin. The genetic diversity found at brazilian savannas allow to include this biome at pitaya species diversity center, showing good perspectives to studies about this fruit potential.